bug fix: add cbioportal to recipe #4
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| name: GAMBLR.helpers build check | |
| on: | |
| push: | |
| branches: [kdreval-helpers-setup] | |
| pull_request: | |
| branches: [master] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-latest | |
| defaults: | |
| run: | |
| shell: bash -el {0} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: yes | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v3 | |
| - name: Setup Conda | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: 3.11 | |
| - name: Create conda environment | |
| uses: conda-incubator/setup-miniconda@v2 | |
| with: | |
| activate-environment: r | |
| channels: anaconda,conda-forge,defaults | |
| python-version: 3.11 | |
| auto-activate-base: false | |
| environment-file: envs/r.yaml | |
| - name: Build package | |
| run: | |
| Rscript -e "devtools::install(repos = BiocManager::repositories())" | |
| - name: Check package | |
| run: | |
| Rscript -e "devtools::check(vignettes = FALSE, args = '--no-examples')" | |
| - name: Upload check results | |
| if: failure() | |
| uses: actions/upload-artifact@main | |
| with: | |
| name: ${{ runner.os }}-r${{ matrix.config.r }}-results | |
| path: check |