include README.Rmd #15
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| name: Release R CMD check and build site | |
| on: | |
| push: | |
| branches: | |
| - RELEASE_3_18 | |
| jobs: | |
| checkRelease: | |
| runs-on: ubuntu-22.04 | |
| container: bioconductor/bioconductor_docker:RELEASE_3_18 | |
| env: | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| CRAN: https://packagemanager.posit.co/cran/__linux__/jammy/latest | |
| version-name: RELEASE_3_18 | |
| steps: | |
| - name: Checkout Repository | |
| uses: actions/checkout@v3 | |
| with: | |
| ref: RELEASE_3_18 | |
| - name: Query dependencies | |
| run: | | |
| BiocManager::install("remotes") | |
| saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) | |
| shell: Rscript {0} | |
| - name: Cache R packages | |
| if: runner.os != 'Windows' | |
| uses: actions/cache@v3 | |
| with: | |
| path: /usr/local/lib/R/site-library | |
| key: ${{ runner.os }}-r-${{ env.version-name }}-${{ hashFiles('.github/depends.Rds') }} | |
| restore-keys: ${{ runner.os }}-r-${{ env.version-name }}- | |
| - name: Install Dependencies | |
| run: | | |
| remotes::install_deps(dependencies = TRUE, repos = BiocManager::repositories()) | |
| BiocManager::install(c("rcmdcheck", "pkgdown", "covr"), ask = FALSE, update = TRUE) | |
| shell: Rscript {0} | |
| - name: System dependencies | |
| run: | | |
| pip install ghp-import | |
| - name: Check Package | |
| id: rcmdcheck | |
| env: | |
| _R_CHECK_CRAN_INCOMING_REMOTE_: false | |
| run: rcmdcheck::rcmdcheck(args = c("--no-manual"), error_on = "error", check_dir = "check") | |
| shell: Rscript {0} | |
| - name: Codecov | |
| uses: codecov/[email protected] | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| - name: Build pkgdown | |
| run: | | |
| PATH=$PATH:$HOME/bin/ Rscript -e 'pkgdown::build_site()' | |
| - name: Install deploy dependencies | |
| run: | | |
| apt-get update | |
| apt-get -y install rsync | |
| - name: Deploy 🚀 | |
| uses: JamesIves/github-pages-deploy-action@v4 | |
| with: | |
| TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| BRANCH: gh-pages # The branch the action should deploy to. | |
| FOLDER: docs # The folder the action should deploy. |