diff --git a/.github/workflows/build_conda_recipes.yaml b/.github/workflows/build_conda_recipes.yaml index a2e77277..515a42d5 100644 --- a/.github/workflows/build_conda_recipes.yaml +++ b/.github/workflows/build_conda_recipes.yaml @@ -5,7 +5,7 @@ on: branches: - master - bundle_update_2023 - - conda_deps + - conda_deps2 env: atoken: ${{ secrets.ANACONDA_UPLOAD_TOKEN }} recipe_path: conda/recipe @@ -30,7 +30,7 @@ jobs: environment-file: ${{ env.env_yml_path }}/condabuild.yml - name: 🐍 Conda pkg build and upload run: | - conda mambabuild ${recipe_path}/pcgrr -c umccr -c conda-forge -c bioconda --token ${atoken} + conda mambabuild ${recipe_path}/pcgrr -c conda-forge -c bioconda --token ${atoken} build_pcgr_conda_pkg: # When merging to one of the branches above and the commit message matches if: "startsWith(github.event.head_commit.message, 'Bump version:')" diff --git a/conda/recipe/pcgrr/build.sh b/conda/recipe/pcgrr/build.sh index 52dc9bee..52c76bdc 100644 --- a/conda/recipe/pcgrr/build.sh +++ b/conda/recipe/pcgrr/build.sh @@ -1,7 +1,7 @@ #!/bin/bash export DISABLE_AUTOBREW=1 -${R} -e "install.packages('devtools', repos = 'https://cloud.r-project.org/', lib = '${PREFIX}/lib/R/library')" +${R} -e "install.packages('remotes', repos = 'https://cloud.r-project.org/', lib = '${PREFIX}/lib/R/library')" ${R} -e "install.packages('openxlsx2', repos = 'https://cloud.r-project.org/', lib = '${PREFIX}/lib/R/library')" -${R} -e "devtools::install_github(repo = 'caravagnalab/CNAqc', ref = '274cde9', lib = '${PREFIX}/lib/R/library')" +${R} -e "remotes::install_github(repo = 'caravagnalab/CNAqc', ref = '274cde9', lib = '${PREFIX}/lib/R/library')" ${R} CMD INSTALL --build . ${R_ARGS} diff --git a/conda/recipe/pcgrr/meta.yaml b/conda/recipe/pcgrr/meta.yaml index b8afe1c4..59780d58 100644 --- a/conda/recipe/pcgrr/meta.yaml +++ b/conda/recipe/pcgrr/meta.yaml @@ -16,7 +16,7 @@ requirements: build: - git host: - - r-base ==4.2.3 + - r-base ==4.3.3 - r-assertable - r-assertthat - bioconductor-biostrings @@ -48,7 +48,7 @@ requirements: - r-yaml run: - - r-base ==4.2.3 + - r-base ==4.3.3 - r-assertable - r-assertthat - bioconductor-biostrings