Refactoring of statistical inference code #1531
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| name: checks | |
| on: | |
| pull_request: | |
| types: [opened, synchronize] | |
| branches: [ master, dev ] | |
| merge_group: | |
| types: [checks_requested] | |
| branches: [ master ] | |
| jobs: | |
| linux-clang-build: | |
| runs-on: ubuntu-latest | |
| env: | |
| CFLAGS: -Werror | |
| QT_SELECT: qt5 | |
| SCCACHE_GHA_ENABLED: "true" | |
| SCCACHE_CACHE_SIZE: "2G" | |
| CXX_COMPILER_LAUNCHER: sccache | |
| steps: | |
| - uses: actions/checkout@v1 | |
| - name: install dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install clang libqt5opengl5-dev libqt5svg5-dev libglvnd-dev libeigen3-dev zlib1g-dev libfftw3-dev python3-numpy | |
| - name: Run sccache-cache | |
| uses: mozilla-actions/[email protected] | |
| - name: configure | |
| run: ./configure -assert || { cat configure.log; false; } | |
| - name: build | |
| run: ./build -nowarnings -persistent -nopaginate || { cat build.log; false; } | |
| - name: unit tests | |
| run: ./run_tests units || { cat testing_units.log; false; } | |
| - name: binary tests | |
| run: ./run_tests binaries || { cat testing_binaries.log; false; } | |
| linux-gcc-build: | |
| runs-on: ubuntu-latest | |
| env: | |
| CXX: g++-9 | |
| CFLAGS: -Werror | |
| QT_SELECT: qt5 | |
| SCCACHE_GHA_ENABLED: "true" | |
| SCCACHE_CACHE_SIZE: "2G" | |
| CXX_COMPILER_LAUNCHER: sccache | |
| steps: | |
| - uses: actions/checkout@v1 | |
| - name: install dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install g++-9 libqt5opengl5-dev libqt5svg5-dev libglvnd-dev libeigen3-dev zlib1g-dev libfftw3-dev | |
| - name: Run sccache-cache | |
| uses: mozilla-actions/[email protected] | |
| - name: configure | |
| run: ./configure -nooptim || { cat configure.log; false; } | |
| - name: build | |
| run: ./build -nowarnings -persistent -nopaginate || { cat build.log; false; } | |
| macos-build: | |
| runs-on: macos-latest | |
| env: | |
| CFLAGS: -Werror | |
| PACKAGES: "qt5 eigen pkg-config fftw libpng" | |
| SCCACHE_GHA_ENABLED: "true" | |
| SCCACHE_CACHE_SIZE: "2G" | |
| CXX_COMPILER_LAUNCHER: sccache | |
| steps: | |
| - uses: actions/checkout@v1 | |
| - name: install dependencies | |
| run: | | |
| brew update || brew update # https://github.com/Homebrew/brew/issues/2491#issuecomment-294207661 | |
| brew install $PACKAGES || brew install $PACKAGES | |
| /usr/bin/python3 -m ensurepip && /usr/bin/pip3 install numpy | |
| brew link --force qt5 | |
| - name: Run sccache-cache | |
| uses: mozilla-actions/[email protected] | |
| - name: configure | |
| run: ./configure -assert || { cat configure.log; false; } | |
| - name: build | |
| run: ./build -nowarnings -persistent -nopaginate || { cat build.log; false; } | |
| - name: unit tests | |
| run: ./run_tests units || { cat testing_units.log; false; } | |
| - name: binary tests | |
| run: ./run_tests binaries || { cat testing_binaries.log; false; } | |
| - name: check command documentation | |
| run: ./docs/generate_user_docs.sh && git diff --exit-code docs/ | |
| windows-build: | |
| runs-on: windows-latest | |
| defaults: | |
| run: | |
| shell: msys2 {0} | |
| env: | |
| # CFLAGS: -Werror | |
| CHERE_INVOKING: enabled_from_arguments | |
| MINGW_PACKAGE_PREFIX: mingw-w64-ucrt-x86_64 | |
| SCCACHE_GHA_ENABLED: "true" | |
| SCCACHE_CACHE_SIZE: "2G" | |
| SCCACHE_DIR: ${{ github.workspace }}/.sccache | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: msys2/setup-msys2@v2 | |
| with: | |
| msystem: UCRT64 | |
| release: false | |
| install: | | |
| git | |
| python | |
| ${{env.MINGW_PACKAGE_PREFIX}}-bc | |
| ${{env.MINGW_PACKAGE_PREFIX}}-diffutils | |
| ${{env.MINGW_PACKAGE_PREFIX}}-eigen3 | |
| ${{env.MINGW_PACKAGE_PREFIX}}-fftw | |
| ${{env.MINGW_PACKAGE_PREFIX}}-gcc | |
| ${{env.MINGW_PACKAGE_PREFIX}}-libtiff | |
| ${{env.MINGW_PACKAGE_PREFIX}}-pkg-config | |
| ${{env.MINGW_PACKAGE_PREFIX}}-qt5-base | |
| ${{env.MINGW_PACKAGE_PREFIX}}-qt5-svg | |
| ${{env.MINGW_PACKAGE_PREFIX}}-zlib | |
| - name: Run sccache-cache | |
| uses: mozilla-actions/[email protected] | |
| - name: export sccache to msys2 shell | |
| run: | | |
| export SCCACHE_UNIX_PATH=$(cygpath -u "$SCCACHE_PATH") | |
| echo "SCCACHE_UNIX_PATH=$SCCACHE_UNIX_PATH" >> $GITHUB_ENV | |
| - name: configure | |
| run: | | |
| export CXX_COMPILER_LAUNCHER=${{env.SCCACHE_UNIX_PATH}} | |
| ./configure -assert || { cat configure.log; false; } | |
| - name: build | |
| run: ./build -nowarnings -persistent -nopaginate || { cat build.log; false; } | |
| - name: unit tests | |
| run: ./run_tests units || { cat testing_units.log; false; } | |
| - name: binary tests | |
| run: ./run_tests binaries || { cat testing_binaries.log; false; } | |
| secondary-checks: | |
| runs-on: ubuntu-latest | |
| env: | |
| QT_SELECT: qt5 | |
| steps: | |
| - uses: actions/checkout@v1 | |
| - name: install dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install pylint python3-sphinx sphinx-rtd-theme-common python3-recommonmark python3-sphinx-rtd-theme python3-pip python3-sphinx-notfound-page | |
| - name: check syntax | |
| run: ./check_syntax || { cat syntax.log; false; } | |
| - name: pylint | |
| run: | | |
| echo "__version__ = 'pylint testing' #pylint: disable=unused-variable" > ./lib/mrtrix3/_version.py | |
| ./run_pylint || { cat pylint.log; false; } | |
| - name: check copyright headers | |
| run: ./update_copyright && git diff --exit-code | |
| - name: check building of documentation | |
| run: python3 -m sphinx -n -N -W -w sphinx.log docs/ tmp/ |