R-CMD-check-ubuntu.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: 
  schedule:
    - cron: 0 0 * * 1 # schedule to run at midnight on Monday each week
  push: # trigger on push
    branches:
      - main
      - master
  pull_request: # trigger on PR
    branches:
      - main
      - master
      - dev

name: Ubuntu

jobs:
  R-CMD-check:
    runs-on: ${{ matrix.config.os }}
    
    name: ${{ matrix.config.os }} (${{ matrix.config.r }})

    strategy:
      fail-fast: false
      matrix:
        config:
          - {os: ubuntu-20.04, r: '4.1.2'}
    
    env:
      _R_REMOTES_NO_ERRORS_FROM_WARNINGS_: true
      _R_CHECK_FORCE_SUGGESTS_: false
      _R_CHECK_TIMINGS_: 10
      _R_CHECK_CRAN_INCOMING_REMOTE_: false
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
      CI: true

    steps:
      - uses: actions/checkout@v3

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

      - uses: r-lib/actions/setup-pandoc@v2

      - name: Install system dependencies
        run: |
          sudo apt-get -y install libcurl4-openssl-dev coinor-libsymphony-dev coinor-libcbc-dev coinor-libclp-dev libudunits2-dev libgdal-dev libgeos-dev libproj-dev libharfbuzz-dev libfribidi-dev

      - name: Install dependencies
        run: |
          options(install.packages.compile.from.source = "never")
          install.packages(c("renv", "remotes"))
          renv::restore()
          remotes::install_cran("rcmdcheck")
          remotes::install_cran("covr")
          remotes::install_bioc("lpsymphony")
        shell: Rscript {0}

      - name: Session information
        run: |
          options(width = 100)
          pkgs <- installed.packages()[, "Package"]
          sessioninfo::session_info(pkgs, include_base = TRUE)
        shell: Rscript {0}
        
      - name: Check
        run: |
          rcmdcheck::rcmdcheck(args = c("--no-manual", "--as-cran", "--no-build-vignettes"), 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

      - name: Show testthat output
        if: always()
        run: find check -name 'testthat.Rout*' -exec cat '{}' \; || true
        shell: bash

      - name: Test coverage
        run: covr::codecov()
        shell: Rscript {0}