Windows #344
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| name: R | |
| on: [push, pull_request] | |
| permissions: | |
| contents: read | |
| pages: write | |
| id-token: write | |
| jobs: | |
| pre_deploy: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| matrix: | |
| # macos-13 is an intel runner, macos-14 is apple silicon | |
| os: [ubuntu-latest, windows-latest, macos-13, macos-14] | |
| env: | |
| cache-version: 5 | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up libraries for Ubuntu | |
| if: runner.os == 'Linux' | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install -y libsodium-dev libharfbuzz-dev libfribidi-dev libcurl4-openssl-dev texlive-latex-base texlive-fonts-extra pandoc libmagick++-dev libhdf5-dev | |
| - name: Set up libraries for MacOS | |
| if: runner.os == 'macOS' | |
| run: | | |
| brew install libsodium harfbuzz fribidi curl texlive pandoc imagemagick hdf5 basictex | |
| - name: Set up libraries for Windows | |
| if: runner.os == 'Windows' | |
| run: | | |
| choco install rtools | |
| choco install pandoc | |
| choco install miktex | |
| choco install imagemagick | |
| choco install hdf5 | |
| - name: Set up R 4.0 | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: 4.0 | |
| - name: Set CRAN mirror | |
| run: | | |
| cat("\noptions(repos=structure(c(CRAN=\"https://cran.rstudio.com\")))\n", file = "~/.Rprofile", append = TRUE) | |
| shell: Rscript {0} | |
| - name: Get R and OS version | |
| id: get-version | |
| run: | | |
| cat("::set-output name=os-version::", sessionInfo()$running, "\n", sep = "") | |
| cat("::set-output name=r-version::", R.Version()$version.string, "\n", sep = "") | |
| cat("::endgroup::\n") | |
| shell: Rscript {0} | |
| - name: Cache dependencies | |
| id: cache-deps | |
| uses: actions/cache@v2 | |
| with: | |
| path: ${{ env.R_LIBS_USER }}/* | |
| key: ${{ hashFiles('DESCRIPTION') }}-${{ steps.get-version.outputs.os-version }}-${{ steps.get-version.outputs.r-version }}-${{ env.cache-version }}-deps | |
| - name: Install dependencies | |
| if: steps.cache-deps.outputs.cache-hit != 'true' | |
| run: | | |
| install.packages(c("devtools", "remotes", "rcmdcheck", "BiocManager", "covr")) | |
| BiocManager::install("Rarr") | |
| remotes::install_deps(dependencies = TRUE) | |
| shell: Rscript {0} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| - name: rcmdcheck | |
| run: | | |
| rcmdcheck::rcmdcheck( | |
| error_on = "error", | |
| check_dir = "check" | |
| ) | |
| shell: Rscript {0} | |
| env: | |
| _R_CHECK_FORCE_SUGGESTS_: false | |
| - name: rcmdcheck as CRAN | |
| run: | | |
| rcmdcheck::rcmdcheck( | |
| args = "--as-cran", | |
| error_on = "warning", | |
| check_dir = "cran_check" | |
| ) | |
| shell: Rscript {0} | |
| - name: Run coverage report | |
| run: | | |
| covr::package_coverage() | |
| shell: Rscript {0} | |
| - name: Downgrade pkgdown | |
| # Reference: https://github.com/r-lib/pkgdown/issues/2205#issuecomment-1377793532 | |
| run: | | |
| remotes::install_version("pkgdown", "2.0.3") | |
| shell: Rscript {0} | |
| - name: Build docs | |
| run: | | |
| Rscript -e 'devtools::document(); pkgdown::build_site(new_process = FALSE)' | |
| touch docs/.nojekyll | |
| - uses: actions/upload-pages-artifact@v1 | |
| if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }} | |
| with: | |
| path: ./docs | |
| deploy: | |
| runs-on: ubuntu-latest | |
| needs: pre_deploy | |
| environment: | |
| name: github-pages | |
| url: ${{ steps.deployment.outputs.page_url }} | |
| steps: | |
| - name: Deploy to GitHub Pages | |
| id: deployment | |
| if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }} | |
| uses: actions/deploy-pages@v1 |