R-CMD-check.yaml

# For help debugging build failures open an issue on the RStudio community with the 'github-actions' tag.
# https://community.rstudio.com/new-topic?category=Package%20development&tags=github-actions
on:
  push:
    branches-ignore: [gh-pages]
  pull_request:
    branches-ignore:  [gh-pages]

name: R-CMD-check

concurrency:
  group: ${{ github.event.pull_request.number || github.run_id }}
  cancel-in-progress: true
  
env:
  R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
  _R_CHECK_FORCE_SUGGESTS_: false
  _R_CHECK_CRAN_INCOMING_REMOTE_: false
  LATEX_PACKAGES: "oberdiek grfext environ trimspaces etoolbox upquote babel-english pgf xcolor algorithms relsize tocbibind appendix tocloft enumitem listings tcolorbox collection-fontsrecommended framed inconsolata microtype underscore"
  R_KEEP_PKG_SOURCE: yes

jobs:
  R-CMD-check:
    if: "! contains(github.event.head_commit.message, '[skip ci]')"
    runs-on: ${{ matrix.os }}
    name: Check ${{ matrix.os }} (${{ matrix.r }})
    timeout-minutes: 30

    strategy:
      fail-fast: false
      matrix:
        os: [ ubuntu-22.04, windows-latest, macos-13, macos-14 ]
        r: [ release ]
        include:
          # Use 4.0 to check with rtools40's older compiler
          - { os: windows-latest, r: '4.0' }
          # Minimum supported version.
          - {os: ubuntu-20.04,   r: '4.0'}
          # Use latest ubuntu to make it easier to install dependencies
          - { os: ubuntu-24.04, r: 'devel', http-user-agent: 'release' }

    env:
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}

    steps:
      - uses: actions/checkout@v4

      - name: "[macOS] Install openmpi"
        if: runner.os == 'macOS'
        run: |
          brew install --cask xquartz

      - name: "[Linux] Install openmpi"
        if: runner.os == 'Linux'
        run: sudo apt-get update -y && sudo apt install -y libopenmpi-dev
      
      - uses: r-lib/actions/setup-r@v2
        with:
          r-version: ${{ matrix.r }}
          http-user-agent: ${{ matrix.http-user-agent }}
          use-public-rspm: true

      # special branch required for TeX Live 2023 fix
      - uses: r-lib/actions/setup-tinytex@v2-branch
      - run: tlmgr --version

      - name: Install additional LaTeX packages
        run: tlmgr install ${{ env.LATEX_PACKAGES }}

      - uses: r-lib/actions/setup-r-dependencies@v2
        if: runner.os != 'macOS'
        with:
          extra-packages: |
            any::rcmdcheck
            mlr=?ignore-before-r=4.0.0
            Rmpi=?ignore-unavailable
          needs: check
          cache-version: 1
          install-pandoc: true
          
      - uses: r-lib/actions/setup-r-dependencies@v2
        if: runner.os == 'macOS'
        with:
          extra-packages: |
            any::rcmdcheck
            mlr=?ignore-before-r=4.0.0
            Rmpi=?ignore
          needs: check
          cache-version: 1
          install-pandoc: true
          
      - name: Check (as CRAN)
        env:
          NOT_CRAN: false
        uses: r-lib/actions/check-r-package@v2
        with:
          args: 'c("--no-manual", "--as-cran")'
          build_args: 'c("--compact-vignettes=gs+qpdf")'

      - name: list
        run: |
          ls -l check/
          find . -name '*.zip' -name '*.tar.gz' -name '*.tgz'
        shell: bash
          
      # - name: Upload binaries as artifacts
      #   if: runner.os != 'Linux'
      #   uses: actions/upload-artifact@v4
      #   with:
      #     name: ${{ matrix.binary_name }}
      #     path: check/${{ matrix.binary_file }}
          
      - name: Check
        env:
          NOT_CRAN: true
        uses: r-lib/actions/check-r-package@v2
        with:
          args: 'c("--no-manual", "--run-donttest", "--timings")'
          
      - name: Show testthat output
        if: failure()
        run: find check -name 'testthat.Rout*' -exec cat '{}' \; || true
        shell: bash

  coverage:
    needs: R-CMD-check
    name: Coverage
    runs-on: ubuntu-latest
    continue-on-error: true
    timeout-minutes: 30
    env:
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
      CODECOV_TOKEN: ${{secrets.CODECOV_TOKEN}}
    steps:
      - uses: actions/checkout@v4

      - uses: r-lib/actions/setup-r@v2
        with:
          use-public-rspm: true

      - uses: r-lib/actions/setup-tinytex@v2-branch
        
      - name: Install additional LaTeX packages
        run: tlmgr install ${{ env.LATEX_PACKAGES }}

      - uses: r-lib/actions/setup-r-dependencies@v2
        with:
          extra-packages: any::covr, mlr=?ignore, local::. 
          needs: coverage
          install-pandoc: true

      - name: Test coverage
        env:
          NOT_CRAN: true
          COVR_COVERAGE: true
        run: |
          options(covr.fix_parallel_mcexit = TRUE)
          coverage <- covr::package_coverage(type = "all",
                                             quiet = FALSE, clean = FALSE,
                                             install_path = file.path(Sys.getenv("RUNNER_TEMP"), "package"),
                                             commentDonttest = FALSE)
          print(coverage)
          covr::codecov(coverage = coverage)
        shell: Rscript {0}

        
      - name: Show testthat output
        if: always()
        run: |
          ## --------------------------------------------------------------------
          find ${{ runner.temp }}/package -name 'testthat.Rout*' -exec cat '{}' \; || true
        shell: bash
        
      - name: Show failures
        if: failure()
        run: |
          ## --------------------------------------------------------------------
          find ${{ runner.temp }}/package -type d | xargs -I 'X' find 'X' -name 'testthat.Rout*' -exec cat '{}' \; || true
        shell: bash

      - name: Upload test results
        if: failure()
        uses: actions/upload-artifact@main
        with:
          name: coverage-test-failures
          path: ${{ runner.temp }}/package

  pkgdown:
    needs: R-CMD-check
    if: contains('
        refs/heads/master
        refs/heads/main
      ', github.ref) && github.event_name == 'push'
    runs-on: ubuntu-latest
    # Only restrict concurrency for non-PR jobs
    concurrency:
      group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }}
    timeout-minutes: 30
    env:
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
    permissions:
      contents: write
    steps:
      - uses: actions/checkout@v4

      - uses: r-lib/actions/setup-r@v2
        with:
          use-public-rspm: true
          
      - uses: r-lib/actions/setup-tinytex@v2-branch

      - name: Install additional LaTeX packages
        run: tlmgr install ${{ env.LATEX_PACKAGES }}

      - uses: r-lib/actions/setup-r-dependencies@v2
        with:
          extra-packages: any::pkgdown, mlr=?ignore
          needs: website
          install-pandoc: true
          
      - name: Install package with vignettes
        run: |
          remotes::install_local(".", build = TRUE, upgrade = "never", force = TRUE, build_opts = c("--no-resave-data"), build_manual = TRUE, build_vignettes = TRUE)
          dir.create("./pkgdown/assets/")
          file.copy(system.file("doc/irace-package.pdf",package="irace", mustWork=TRUE), "./pkgdown/assets/", overwrite=TRUE)
        shell: Rscript {0}

      - name: Build site
        run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)
        shell: Rscript {0}

      - name: Deploy to GitHub pages 🚀
        if: success() && github.event_name != 'pull_request'
        uses: JamesIves/github-pages-deploy-action@v4.5.0
        with:
          clean: true
          single-commit: true
          branch: gh-pages
          folder: docs