zircon-R/.github/workflows/r-cmd-check.yaml at master · ArtifactDB/zircon-R · GitHub

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on: [push, pull_request]

name: R CMD check

jobs:
  check:
    name: R CMD check
    runs-on: ubuntu-latest
    container: bioconductor/bioconductor_docker:devel
    steps:
    - uses: actions/checkout@v3

    - name: Set directories
      run: |
        echo "R_PKG_DIR=${R_HOME}/site-library" >> $GITHUB_ENV

    - name: Restore the package directory
      uses: actions/cache@v3
      with:
        path: ${{ env.R_PKG_DIR }}
        key: installed-packages-${{ hashFiles('**/DESCRIPTION') }}

    - name: Install dependencies
      shell: Rscript {0}
      run: |
        deps <- remotes::local_package_deps(pkgdir = ".", dependencies=TRUE)
        BiocManager::install(deps)

    - name: Build the package
      run: R CMD build .

    - name: Test the package
      run: |
        tarball=$(ls *.tar.gz)
        R CMD check --no-manual $tarball
      env:
        GITHUB_TOKEN: ${{ secrets.GH_BOT_TOKEN }}

    # The remaining steps we only run on the master branch.
    - name: Install system dependencies
      if: github.ref == 'refs/heads/master'
      run: |
        sudo apt-get update
        sudo apt-get install -y rsync

    - name: Install ourselves
      if: github.ref == 'refs/heads/master'
      run: R CMD INSTALL .

    - name: Run pkgdown
      if: github.ref == 'refs/heads/master'
      shell: Rscript {0}
      run: |
        BiocManager::install("pkgdown")
        pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)

    - name: Deploy to GitHub pages 🚀
      if: github.ref == 'refs/heads/master'
      uses: JamesIves/github-pages-deploy-action@v4.4.0
      with:
        clean: false
        branch: gh-pages
        folder: docs