Version 2.1.2-9001, see NEWS.md. #717
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| on: | ||
| push: | ||
| branches: | ||
| - master | ||
| - testing | ||
| - develop | ||
| pull_request: | ||
| branches: | ||
| - master | ||
| - testing | ||
| - develop | ||
| name: R-CMD-check | ||
| jobs: | ||
| R-CMD-check: | ||
| # 0. Define the systems to run on: | ||
| runs-on: ${{ matrix.config.os }} | ||
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | ||
| strategy: | ||
| fail-fast: false | ||
| matrix: | ||
| config: | ||
| # Latest macOS will use the big-sur-arm64 folder when deploying to the drat repo: | ||
| - {os: macOS-latest, r: 'release', pkgext: '.tgz'} | ||
| - {os: macOS-latest, r: 'oldrel', pkgext: '.tgz'} | ||
| # macOS-13 will use the big-sur-x86_64 folder when deploying to the drat repo: | ||
| - {os: macOS-13, r: 'release', pkgext: '.tgz'} | ||
| - {os: macOS-13, r: 'oldrel', pkgext: '.tgz'} | ||
| - {os: windows-latest, r: 'release', pkgext: '.zip'} | ||
| - {os: windows-latest, r: 'oldrel', pkgext: '.zip'} | ||
| # ubuntu-latest is 24 as of 2024-10-31. Should we use it? | ||
| - {os: ubuntu-22.04, r: 'release', pkgext: '.tar.gz', rspm: "https://cloud.r-project.org"} | ||
| - {os: ubuntu-22.04, r: 'oldrel', pkgext: '.tar.gz', rspm: "https://cloud.r-project.org"} | ||
| - {os: ubuntu-22.04, r: 'oldrel-1', pkgext: '.tar.gz', rspm: "https://cloud.r-project.org"} | ||
| env: | ||
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | ||
| RSPM: ${{ matrix.config.rspm }} | ||
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | ||
| steps: | ||
| ################### | ||
| #### 1. Setup: #### | ||
| ################### | ||
| - uses: actions/checkout@v4 | ||
| - name: Prepare for deployment at push | ||
| if: github.event_name == 'push' | ||
| run: | | ||
| curl "https://raw.githubusercontent.com/StoXProject/unstableRepo/main/scripts/checktag-actions.sh" --output unstableRepo_checktag.sh | ||
| curl "https://raw.githubusercontent.com/StoXProject/unstableRepo/main/scripts/deploy-actions.sh" --output unstableRepo_deploy.sh | ||
| chmod +x ./unstableRepo_checktag.sh ./unstableRepo_deploy.sh | ||
| . unstableRepo_checktag.sh | ||
| curl "https://raw.githubusercontent.com/StoXProject/testingRepo/main/scripts/checktag-actions.sh" --output testingRepo_checktag.sh | ||
| curl "https://raw.githubusercontent.com/StoXProject/testingRepo/main/scripts/deploy-actions.sh" --output testingRepo_deploy.sh | ||
| chmod +x ./testingRepo_checktag.sh ./testingRepo_deploy.sh | ||
| . testingRepo_checktag.sh | ||
| curl "https://raw.githubusercontent.com/StoXProject/repo/master/scripts/checktag-actions.sh" --output repo_checktag.sh | ||
| curl "https://raw.githubusercontent.com/StoXProject/repo/master/scripts/deploy-actions.sh" --output repo_deploy.sh | ||
| chmod +x ./repo_checktag.sh ./repo_deploy.sh | ||
| . repo_checktag.sh | ||
| echo "PRERELEASE=${PRERELEASE}" >> $GITHUB_ENV | ||
| echo "FINAL_TAG=${FINAL_TAG}" >> $GITHUB_ENV | ||
| echo "PKG_FILE_PREFIX=${PKG_FILE_PREFIX}" >> $GITHUB_ENV | ||
| echo "PKG_FILE=${PKG_FILE_PREFIX}${{ matrix.config.pkgext }}" >> $GITHUB_ENV | ||
| echo "PKG_FREL=${PKG_FILE_PREFIX}-R.${{ matrix.config.r }}-${{ runner.os }}${{ matrix.config.pkgext }}" >> $GITHUB_ENV | ||
| echo "PKG_REPO=${GITHUB_WORKSPACE}" >> $GITHUB_ENV | ||
| shell: bash | ||
| - uses: r-lib/actions/setup-r@v2 | ||
| with: | ||
| r-version: ${{ matrix.config.r }} | ||
| - uses: r-lib/actions/setup-pandoc@v2 | ||
| ############################################################################# | ||
| #### 2. R package installation (with system and R package dependencies): #### | ||
| ############################################################################# | ||
| ## 2a. Cache R packages: | ||
| #- name: Query R package dependencies | ||
| # run: | | ||
| # install.packages('remotes') | ||
| # saveRDS(remotes::dev_package_deps(dependencies = TRUE), "depends.Rds", version = 2) | ||
| # writeLines(sprintf("R-%i.%i", getRversion()$major, getRversion()$minor), ".github/R-version") | ||
| # shell: Rscript {0} | ||
| #- name: Cache R packages | ||
| # if: runner.os != 'Windows' | ||
| # uses: actions/cache@v3 | ||
| # with: | ||
| # path: ${{ env.R_LIBS_USER }} | ||
| # key: ${{ env.cache-version }}-${{ runner.os }}-r-${{ matrix.config.r }}-${{ hashFiles('depends.Rds') }} | ||
| # restore-keys: ${{ env.cache-version }}-${{ runner.os }}-r-${{ matrix.config.r }}- | ||
| ## 2b. System dependencies: | ||
| - name: Install system dependencies on macOS | ||
| if: runner.os == 'macOS' | ||
| run: | | ||
| # gfortran may not exist in a period after a new R minor release: | ||
| gfortranFile='/usr/local/bin/gfortran' | ||
| if [ -f "$gfortranFile" ] ; then | ||
| rm "$gfortranFile" | ||
| fi | ||
| rm '/usr/local/bin/2to3' | ||
| rm '/usr/local/bin/2to3-3.11' | ||
| rm '/usr/local/bin/idle3.11' | ||
| rm '/usr/local/bin/idle3' | ||
| rm '/usr/local/bin/pydoc3' | ||
| rm '/usr/local/bin/python3' | ||
| rm '/usr/local/bin/python3-config' | ||
| rm '/usr/local/bin/pydoc3.11' | ||
| rm '/usr/local/bin/python3.11' | ||
| rm '/usr/local/bin/python3.11-config' | ||
| export HOMEBREW_NO_INSTALLED_DEPENDENTS_CHECK=false # This prevents Homebrew from re-installing R, which will lead to .Platform$pkgType = "source". | ||
| brew install gdal udunits | ||
| shell: bash | ||
| - name: Prepare for CRANdependencies on Linux | ||
| if: runner.os == 'Linux' | ||
| run: | | ||
| sudo apt-get install -y libcurl4-openssl-dev | ||
| sudo apt-get install -y libudunits2-dev | ||
| shell: bash | ||
| ## 2c. R packages needed for this yaml script (not related to the Rstox package itself): | ||
| - name: Install CRANdependencies | ||
| run: | | ||
| install.packages(c("rcmdcheck", "git2r", "sessioninfo", "knitr", "remotes", "drat")) | ||
| shell: Rscript {0} | ||
| ## 2d. Install dependencies: | ||
| - name: Install R package dependencies | ||
| run: | | ||
| remotes::install_deps(dependencies = TRUE, repos = "https://cloud.r-project.org/") | ||
| shell: Rscript {0} | ||
| ## 2e. Session info: | ||
| - name: Session info | ||
| run: | | ||
| options(width = 100) | ||
| pkgs <- installed.packages()[, "Package"] | ||
| sessioninfo::session_info(pkgs, include_base = TRUE) | ||
| shell: Rscript {0} | ||
| ##################################### | ||
| #### 3. Check the Rstox package: #### | ||
| ##################################### | ||
| - name: Check | ||
| env: | ||
| _R_CHECK_CRAN_INCOMING_: false | ||
| run: rcmdcheck::rcmdcheck(args = c("--no-manual", "--as-cran"), error_on = "warning", check_dir = "check") | ||
| shell: Rscript {0} | ||
| - name: Upload check results | ||
| if: failure() | ||
| uses: actions/upload-artifact@main | ||
| with: | ||
| name: ${{ runner.os }}-r${{ matrix.config.r }}-results | ||
| path: check | ||
| ####################################################### | ||
| #### 4. Build the package source and binary files: #### | ||
| ####################################################### | ||
| - name: Build package source archive from branches develop, testing and master (on Linux for some reason) | ||
| if: runner.os == 'Linux' && matrix.config.r == 'release' && github.event_name == 'push' && (github.ref_name == 'master' || github.ref_name == 'testing' || github.ref_name == 'develop') | ||
| run: | | ||
| pkgbuild::build(".", dest_path = ".", binary = FALSE) | ||
| system(paste0("PKG_FREL=", Sys.getenv("PKG_FILE"), " >> ", Sys.getenv("GITHUB_ENV"))) | ||
| shell: Rscript {0} | ||
| - name: Build package binary archive from branches develop, testing and master for Windows and macOS | ||
| if: (runner.os == 'Windows' || runner.os == 'macOS') && github.event_name == 'push' && (github.ref_name == 'master' || github.ref_name == 'testing' || github.ref_name == 'develop') | ||
| run: | | ||
| pkgbuild::build(".", dest_path = ".", binary = TRUE) | ||
| print("PKG_FILE") | ||
| print(Sys.getenv("PKG_FILE")) | ||
| print("PKG_FREL") | ||
| print(Sys.getenv("PKG_FREL")) | ||
| file.copy(Sys.getenv("PKG_FILE"), Sys.getenv("PKG_FREL")) | ||
| shell: Rscript {0} | ||
| ###################################### | ||
| #### 5. Deploy to the drat repos: #### | ||
| ###################################### | ||
| ## 5a. Upload to the official (DRAT) repo, but only from the master branch: | ||
| - name: Upload to the official (DRAT) repo | ||
| if: ( (runner.os == 'Windows') || (runner.os == 'macOS') || (runner.os == 'Linux' && matrix.config.r == 'release') ) && github.event_name == 'push' && github.ref_name == 'master' | ||
| env: | ||
| BUILD_NUMBER: ${{ github.sha }} | ||
| DRAT_DEPLOY_TOKEN: ${{ secrets.DRAT_DEPLOY_TOKEN }} | ||
| run: . repo_deploy.sh | ||
| shell: bash | ||
| ## 5b. Upload to the (DRAT) testingRepo, but only from the testing branch: | ||
| - name: Upload to the testing (DRAT) repo | ||
| if: ( (runner.os == 'Windows') || (runner.os == 'macOS') || (runner.os == 'Linux' && matrix.config.r == 'release') ) && github.event_name == 'push' && github.ref_name == 'testing' | ||
| env: | ||
| BUILD_NUMBER: ${{ github.sha }} | ||
| DRAT_DEPLOY_TOKEN: ${{ secrets.DRAT_DEPLOY_TOKEN }} | ||
| run: . testingRepo_deploy.sh | ||
| shell: bash | ||
| ## 5c. Upload to the (DRAT) unstableRepo, but only from the develop branch: | ||
| - name: Upload to the unstable (DRAT) repo | ||
| if: ( (runner.os == 'Windows') || (runner.os == 'macOS') || (runner.os == 'Linux' && matrix.config.r == 'release') ) && github.event_name == 'push' && github.ref_name == 'develop' | ||
| env: | ||
| BUILD_NUMBER: ${{ github.sha }} | ||
| DRAT_DEPLOY_TOKEN: ${{ secrets.DRAT_DEPLOY_TOKEN }} | ||
| run: . unstableRepo_deploy.sh | ||
| shell: bash | ||
| ############################### | ||
| #### 6. Release on GitHub: #### | ||
| ############################### | ||
| - name: Create release on GitHub and upload files for testing branch | ||
| if: ( (runner.os == 'Windows') || (runner.os == 'macOS') || (runner.os == 'Linux' && matrix.config.r == 'release') ) && github.event_name == 'push' && github.ref_name == 'testing' | ||
| uses: ncipollo/release-action@v1 | ||
| with: | ||
| allowUpdates: true | ||
| commit: testing | ||
| tag: ${{ env.FINAL_TAG }} | ||
| name: ${{ env.FINAL_TAG }} | ||
| artifacts: ${{ env.PKG_REPO }}/${{ env.PKG_FREL }} | ||
| token: ${{ secrets.GITHUB_TOKEN }} | ||
| - name: Create release on GitHub and upload files for master branch | ||
| if: ( (runner.os == 'Windows') || (runner.os == 'macOS') || (runner.os == 'Linux' && matrix.config.r == 'release') ) && github.event_name == 'push' && github.ref_name == 'master' | ||
| uses: ncipollo/release-action@v1 | ||
| with: | ||
| allowUpdates: true | ||
| commit: master | ||
| tag: ${{ env.FINAL_TAG }} | ||
| name: ${{ env.FINAL_TAG }} | ||
| artifacts: ${{ env.PKG_REPO }}/${{ env.PKG_FREL }} | ||
| token: ${{ secrets.GITHUB_TOKEN }} | ||
