r-cmd-check.yml

# Workflow derived from https://github.com/r-lib/actions/tree/master/examples
# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
on:
  push:
    branches:
      - '*'
  pull_request:
    branches: [master]
  workflow_dispatch:
    branches:
      - '*'

name: R-CMD-check

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

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

    strategy:
      fail-fast: false
      matrix:
        config:
          - {os: ubuntu-latest,  r: 'devel', http-user-agent: 'release'}
          - {os: ubuntu-latest,  r: 'release'}
          - {os: ubuntu-20.04,   r: '4.1.0'}
          - {os: macOS-latest,   r: 'release'}
          - {os: windows-latest, r: 'release'}

    env:
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
      R_KEEP_PKG_SOURCE: yes
      _R_CHECK_DEPENDS_ONLY_: false
      _R_CHECK_ALL_NON_ISO_C_: true
      _R_CHECK_CODE_ASSIGN_TO_GLOBALENV_: true
      _R_CHECK_CODE_ATTACH_: true
      _R_CHECK_CODE_DATA_INTO_GLOBALENV_: true
      _R_CHECK_CODE_USAGE_VIA_NAMESPACES_: true
      _R_CHECK_DEPRECATED_DEFUNCT_: true
      _R_CHECK_EXECUTABLES_EXCLUSIONS_: false
      _R_CHECK_INSTALL_DEPENDS_: true
      _R_CHECK_NO_RECOMMENDED_: true
      _R_CHECK_OVERWRITE_REGISTERED_S3_METHODS_: true
      _R_CHECK_REPLACING_IMPORTS_: true
      _R_CHECK_S3_METHODS_NOT_REGISTERED_: true
      _R_CHECK_SCREEN_DEVICE_: stop
      _R_CHECK_SRC_MINUS_W_IMPLICIT_: true
      _R_CHECK_SRC_MINUS_W_UNUSED_: true
      _R_CHECK_SUGGESTS_ONLY_: true
      _R_CHECK_TOPLEVEL_FILES_: true
      _R_CHECK_VC_DIRS_: true
      _R_CHECK_WALL_FORTRAN_: true
      _R_CHECK_USE_CODETOOLS_: true
      _R_CHECK_CODETOOLS_PROFILE_: "suppressLocalUnused=FALSE,suppressPartialMatchArgs=FALSE,suppressParamUnused=TRUE,suppressUndefined=FALSE"

    steps:
      - uses: actions/checkout@v4

      - uses: r-lib/actions/setup-r@v2
        with:
          r-version: ${{ matrix.config.r }}
          http-user-agent: ${{ matrix.config.http-user-agent }}
          use-public-rspm: true

      - uses: r-lib/actions/setup-r-dependencies@v2
        with:
          extra-packages: |
            any::rcmdcheck
            any::tidyr
            any::ggplot2
            any::dplyr
            any::knitr
            any::subplex
            any::nloptr
            kingaa/pomp

      - uses: r-lib/actions/check-r-package@v2

      - uses: actions/upload-artifact@v4
        with:
          name: ${{ matrix.config.os }}-${{ matrix.config.r }}-results
          path: check