Add files via upload #8
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| name: R-CMD-check | |
| on: | |
| push: | |
| branches: [ main, master ] | |
| pull_request: | |
| branches: [ main, master ] | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| config: | |
| - { r: 'release' } | |
| - { r: 'devel' } | |
| name: R ${{ matrix.config.r }} | |
| steps: | |
| - name: Checkout repository | |
| uses: actions/checkout@v4 | |
| - name: Set up R | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| - name: Set up Pandoc | |
| uses: r-lib/actions/setup-pandoc@v2 | |
| - name: Install system dependencies | |
| uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: | | |
| any::rcmdcheck | |
| any::devtools | |
| needs: check | |
| - name: Install Bioconductor dependencies | |
| run: | | |
| Rscript -e "if (!requireNamespace('BiocManager', quietly = TRUE)) install.packages('BiocManager')" \ | |
| -e "BiocManager::install(c('DESeq2','edgeR','limma','clusterProfiler','enrichplot','org.Hs.eg.db','org.Mm.eg.db'), ask = FALSE, update = FALSE)" | |
| - name: Install package | |
| run: | | |
| R CMD build . | |
| PKG_TAR=$(ls -1t *.tar.gz | head -n 1) | |
| R CMD INSTALL "$PKG_TAR" | |
| - name: Run R CMD check | |
| env: | |
| _R_CHECK_CRAN_INCOMING_REMOTE_: false | |
| run: | | |
| R CMD check --as-cran *.tar.gz | |
| - name: Show testthat output | |
| if: always() | |
| run: | | |
| find . -name 'testthat.Rout*' -print -exec cat '{}' \; || true | |
| - name: Upload check results | |
| if: failure() | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: R-CMD-check-results | |
| path: '*.Rcheck/' |