CI: don't install SeuratData during setup-r-dependencies #47
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| # Workflow derived from https://github.com/r-lib/actions/tree/master/examples | |
| # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | |
| on: | |
| push: | |
| branches: [main, master] | |
| pull_request: | |
| branches: [main, master] | |
| name: R-CMD-check | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ${{ matrix.os }} | |
| name: ${{ matrix.os }} (${{ matrix.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: ['macOS-latest', 'windows-latest', 'ubuntu-latest'] | |
| r: ['release', 'devel'] | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_KEEP_PKG_SOURCE: yes | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.r }} | |
| use-public-rspm: true | |
| - name: Install system dependencies | |
| if: runner.os == 'macOS' | |
| run: brew install hdf5 | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: any::rcmdcheck, SeuratData=?ignore | |
| - name: Install SeuratData | |
| if: always() | |
| run: Rscript -e "install.packages('remotes', repos = 'http://cran.us.r-project.org'); remotes:::install_github('satijalab/seurat-data')" | |
| shell: bash | |
| - uses: r-lib/actions/check-r-package@v2 | |
| - name: Show testthat output | |
| if: always() | |
| run: find check -name 'testthat.Rout*' -exec cat '{}' \; || true | |
| shell: bash | |
| - name: Upload check results | |
| if: failure() | |
| uses: actions/upload-artifact@main | |
| with: | |
| name: ${{ runner.os }}-r${{ matrix.r }}-results | |
| path: check |