UPDATE #53
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| # This workflow uses actions that are not certified by GitHub. | |
| # They are provided by a third-party and are governed by | |
| # separate terms of service, privacy policy, and support | |
| # documentation. | |
| # | |
| # See https://github.com/r-lib/actions/tree/master/examples#readme for | |
| # additional example workflows available for the R community. | |
| name: R Package CI for macOS | |
| on: | |
| push: | |
| branches: [ "master" ] | |
| pull_request: | |
| branches: [ "master" ] | |
| permissions: | |
| contents: read | |
| jobs: | |
| build: | |
| runs-on: macos-latest | |
| strategy: | |
| matrix: | |
| os: [macos-latest] | |
| r-version: ['4.1.1'] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Install system dependencies on macOS | |
| run: | | |
| brew install jags | |
| brew install --cask mactex-no-gui | |
| brew install gfortran | |
| shell: bash | |
| - name: Create symbolic link for gfortran | |
| run: | | |
| sudo mkdir -p /opt/R/arm64/bin | |
| sudo ln -s $(which gfortran) /opt/R/arm64/bin/gfortran | |
| shell: bash | |
| - name: Set up R ${{ matrix.r-version }} | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.r-version }} | |
| - name: Install remotes package | |
| run: | | |
| Rscript -e "install.packages('remotes')" | |
| shell: Rscript {0} | |
| - name: Install package dependencies | |
| run: | | |
| Rscript -e "install.packages(c('smacof', 'ellipse', 'plyr', 'vegan'))" | |
| shell: Rscript {0} | |
| - name: Install basicspace from GitHub | |
| env: | |
| GITHUB_PAT: ${{ secrets.MY_GITHUB_PAT }} | |
| run: | | |
| Rscript -e "remotes::install_github('cran/basicspace', force = TRUE)" | |
| shell: Rscript {0} | |
| - name: Set CRAN mirror and install other R package dependencies | |
| env: | |
| GITHUB_PAT: ${{ secrets.MY_GITHUB_PAT }} | |
| run: | | |
| Rscript -e "options(repos = c(CRAN = 'https://cloud.r-project.org/')); install.packages(c('rjags', 'ggplot2', 'knitr'));" | |
| shell: Rscript {0} | |
| - name: Install rcmdcheck package | |
| run: | | |
| Rscript -e "install.packages('rcmdcheck')" | |
| shell: Rscript {0} | |
| - name: Run R CMD check | |
| env: | |
| PATH: /opt/homebrew/opt/gcc/bin:/opt/homebrew/bin:$PATH | |
| run: | | |
| Rscript -e "rcmdcheck::rcmdcheck(args = '--no-manual', error_on = 'error')" | |
| shell: Rscript {0} | |
| - name: Test (optional) | |
| run: | | |
| Rscript -e "devtools::test()" | |
| shell: Rscript {0} | |
| env: | |
| TZ: UTC | |
| _R_CHECK_SYSTEM_CLOCK_: false | |
| NOT_CRAN: true | |
| build-windows: | |
| runs-on: windows-latest | |
| strategy: | |
| matrix: | |
| os: [windows-latest] | |
| r-version: ['4.1.1'] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Download and install JAGS | |
| run: | | |
| Invoke-WebRequest -Uri "https://sourceforge.net/projects/mcmc-jags/files/JAGS/4.x/Windows/JAGS-4.3.0.exe/download" -OutFile "JAGS-4.3.0.exe" | |
| if (Test-Path -Path ".\JAGS-4.3.0.exe") { | |
| Start-Process -FilePath ".\JAGS-4.3.0.exe" -ArgumentList '/S' -NoNewWindow -Wait | |
| } else { | |
| Write-Error "Failed to download JAGS installer." | |
| } | |
| shell: powershell | |
| - name: Add JAGS to PATH | |
| run: | | |
| echo "C:\Program Files\JAGS\JAGS-4.3.0\bin" >> $GITHUB_PATH | |
| shell: cmd | |
| - name: Verify JAGS installation | |
| run: jags --version | |
| shell: cmd | |
| - name: Set up R ${{ matrix.r-version }} | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.r-version }} | |
| - name: Install remotes package | |
| run: Rscript -e 'install.packages("remotes")' | |
| shell: /bin/bash -e {0} | |
| - name: Install CRAN packages including rjags | |
| run: | | |
| Rscript -e "options(repos = 'https://cloud.r-project.org/')" | |
| Rscript -e "install.packages('rjags')" | |
| Rscript -e "install.packages(c('smacof', 'ellipse', 'plyr', 'vegan'), dependencies=TRUE)" | |
| shell: cmd | |
| - name: Install basicspace from GitHub | |
| env: | |
| GITHUB_PAT: ${{ secrets.MY_GITHUB_PAT }} | |
| run: | | |
| Rscript -e "remotes::install_github('cran/basicspace', force = TRUE)" | |
| shell: cmd | |
| - name: Set CRAN mirror and install other R package dependencies | |
| env: | |
| GITHUB_PAT: ${{ secrets.MY_GITHUB_PAT }} | |
| run: | | |
| Rscript -e "options(repos = c(CRAN = 'https://cloud.r-project.org/')); install.packages(c('ggplot2', 'knitr'));" | |
| shell: cmd | |
| - name: Install rcmdcheck package | |
| run: | | |
| Rscript -e "install.packages('rcmdcheck')" | |
| shell: cmd | |
| - name: Check | |
| run: | | |
| Rscript -e "rcmdcheck::rcmdcheck(args = '--no-manual', error_on = 'error')" | |
| shell: cmd | |
| - name: Test (optional) | |
| run: | | |
| Rscript -e "devtools::test()" | |
| shell: cmd | |
| env: | |
| TZ: UTC | |
| _R_CHECK_SYSTEM_CLOCK_: false | |
| NOT_CRAN: true | |