build-and-check.yml

# 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:
      - main
      - fix/*
  pull_request:
    branches:
      - main
      - fix/*
  schedule:
    - cron: '0 2 * * *'

concurrency:
  group: ${{ github.workflow }}-${{ github.ref }}-${{ github.head_ref || github.sha }}-${{ github.base_ref || '' }}
  cancel-in-progress: true

name: R-CMD-check

jobs:
  build_src_package:
    runs-on: ubuntu-22.04

    name: Build source R package

    env:
      RSPM: https://packagemanager.rstudio.com/cran/__linux__/jammy/latest
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}

    steps:
      - uses: actions/checkout@v4
        with:
          fetch-depth: 0

      - name: Setup R
        uses: r-lib/actions/setup-r@v2

      - name: apt update
        run: |
          sudo apt-get update
          sudo apt-get install -y libarpack2-dev
        shell: bash

      - name: Cache Python virtualenv
        uses: actions/cache@v2
        with:
          path: .venv
          key: Python-venv-jammy-${{ runner.os }}-${{ hashFiles('tools/build-requirements.txt') }}

      - name: Install R dependencies
        uses: r-lib/actions/setup-r-dependencies@v2
        with:
          needs: build
          pak-version: devel

      - name: Create R source package
        run: |
          make igraph
        shell: bash

      - name: Commit changes
        if: ${{ env.GITHUB_ACTOR == env.GITHUB_REPOSITORY_OWNER }}
        run: |
          if [ -n "$(git status --porcelain)" ]; then
            git config --local user.name "$GITHUB_ACTOR"
            git config --local user.email "$GITHUB_ACTOR@users.noreply.github.com"
            git fetch
            if [ -n "${GITHUB_HEAD_REF}" ]; then
              git add .
              git stash save
              git switch ${GITHUB_HEAD_REF}
              git stash pop
            fi
            git add .
            git commit -m "Automated changes"
            git push
          fi
        shell: bash

      - name: Package validation
        if: ${{ env.GITHUB_ACTOR != env.GITHUB_REPOSITORY_OWNER }}
        run: |
          git status --porcelain
          if [ -n "$(git status --porcelain)" ]; then
            git add .
            git diff --cached
            /bin/false
          fi
        shell: bash

      - name: Smoke test
        run: |
          make test
        shell: bash

      - name: Upload R source package
        uses: actions/upload-artifact@main
        with:
          name: rigraph
          path: igraph_*.tar.gz
          retention-days: 5

  R-CMD-check:
    runs-on: ${{ matrix.config.os }}

    needs: build_src_package

    name: Check ${{ matrix.config.os }} (${{ matrix.config.r }})

    strategy:
      fail-fast: false
      matrix:
        config:
          - {os: windows-latest, r: 'release'}
          # - {os: macOS-latest,   r: 'release'}
          - {os: ubuntu-20.04,   r: 'release',  rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
          # - {os: ubuntu-20.04,   r: 'devel',    rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
          - {os: ubuntu-20.04,   r: 'oldrel-1', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
          - {os: ubuntu-20.04,   r: 'oldrel-2', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
          - {os: ubuntu-20.04,   r: 'oldrel-3', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
          - {os: ubuntu-20.04,   r: 'oldrel-4', rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest"}
    env:
      RSPM: ${{ matrix.config.rspm }}
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
      RGL_USE_NULL: true  # Ensure that rgl functions correctly on macOS
      MAKEFLAGS: -j2
      _R_CHECK_PKG_SIZES_: FALSE

    steps:
      - uses: actions/checkout@v2
        with:
          fetch-depth: 0

      - name: Install ccache
        uses: hendrikmuhs/ccache-action@v1.2.10
        with:
          max-size: 10G
          verbose: 1
          save: false
          restore: false

      - name: apt update
        if: runner.os == 'Linux'
        run: |
          sudo apt-get update
          sudo apt-get install -y libarpack2-dev
        shell: bash

      - name: apt update
        if: runner.os == 'macOS'
        run: |
          brew install glpk
        shell: bash

      - name: Setup R
        uses: r-lib/actions/setup-r@v2
        with:
          r-version: ${{ matrix.config.r }}

      - name: Setup Pandoc
        uses: r-lib/actions/setup-pandoc@v2

      - name: Install R dependencies
        uses: r-lib/actions/setup-r-dependencies@v2
        with:
          extra-packages: any::rcmdcheck
          needs: check

      - name: Check R package
        uses: r-lib/actions/check-r-package@v2
        with:
          error-on: '"note"'

  coverage:
    runs-on: ubuntu-20.04

    needs: build_src_package

    name: Coverage

    env:
      RSPM: https://packagemanager.rstudio.com/cran/__linux__/focal/latest
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
      MAKEFLAGS: -j2

    steps:
      - uses: actions/checkout@v2
        with:
          fetch-depth: 0

      - name: apt update
        run: |
          sudo apt-get update
          sudo apt-get install -y libarpack2-dev
        shell: bash

      - name: Setup R
        uses: r-lib/actions/setup-r@v2

      - name: Setup Pandoc
        uses: r-lib/actions/setup-pandoc@v2

      - name: Install R dependencies
        uses: r-lib/actions/setup-r-dependencies@v2
        with:
          needs: coverage
          pak-version: devel

      - name: Run coverage
        run: |
          line_exclusions <- fs::dir_ls(c("src/vendor"), type = "file", recurse = TRUE)
          cov <- covr::package_coverage(
            type = c("tests", "examples"),
            line_exclusions = as.list(names(line_exclusions)),
            quiet = FALSE,
            install_path = file.path(normalizePath(Sys.getenv("RUNNER_TEMP"), winslash = "/"), "package")
           )
          covr::to_cobertura(cov)
        shell: Rscript {0}

      - uses: codecov/codecov-action@v4
        with:
          fail_ci_if_error: ${{ github.event_name != 'pull_request' && true || false }}
          file: ./cobertura.xml
          plugin: noop
          disable_search: true
          token: ${{ secrets.CODECOV_TOKEN }}

  sanitizer:
    runs-on: ubuntu-22.04

    needs: build_src_package

    name: Sanitizer

    steps:
      - uses: actions/checkout@v2
        with:
          fetch-depth: 0

      - name: apt update
        run: |
          sudo apt-get update
          sudo apt-get install -y libarpack2-dev
        shell: bash

      - name: run sanitizer
        uses: addnab/docker-run-action@v3
        with:
          image: ghcr.io/krlmlr/rigraph-san:main
          options: --rm --platform linux/amd64 -v ${{ github.workspace }}:/rigraph
          run: |
            set -e
            printenv
            cd rigraph
            RDcsan CMD INSTALL . --no-byte-compile
            TESTTHAT_PARALLEL=false CI=true RDcsan -q -e 'testthat::test_local(reporter = c("location", "summary"), load_package = "installed")'