R-CMD-check.yaml

# 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: [main, master]
  pull_request:
    branches: [main, master]

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: macOS-latest,   r: 'release', rtools: ''}
          - {os: windows-latest, r: 'release', rtools: '42'}
          - {os: ubuntu-latest,   r: 'devel', http-user-agent: 'release', rtools: ''}
          - {os: ubuntu-latest,   r: 'release', rtools: ''}
          - {os: ubuntu-latest,   r: 'oldrel-1', rtools: ''}

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

    steps:
      - uses: actions/checkout@v2
      - uses: n1hility/cancel-previous-runs@v2
        with:
          token: ${{ secrets.GITHUB_TOKEN }}

      - uses: r-lib/actions/setup-pandoc@v2
      - uses: r-lib/actions/setup-r@v2.2.6
        with:
          r-version: ${{ matrix.config.r }}
          rtools-version: ${{ matrix.config.rtools }}
          http-user-agent: ${{ matrix.config.http-user-agent }}
          use-public-rspm: true

      # As cmdstanr is not yet on CRAN, configure the action to only install the
      # 'Depends' packages by default and then manually specify the 'Suggests'
      # packages that are needed for R CMD CHECK
      - uses: r-lib/actions/setup-r-dependencies@v2
        with:
          dependencies: NA
          extra-packages: |
            R.rsp
            knitr
            rcmdcheck
            rmarkdown
            lme4
            mice
            BH
            MCMCglmm
            ape
            stan-dev/cmdstanr
            RcppEigen
            testthat
            emmeans
            projpred
            RWiener
            rtdists
            extraDistr
            spdep
            mnormt
            splines2
            arm
            statmod
            diffobj

      - name: Build Cmdstan
        run: |
          cmdstanr::check_cmdstan_toolchain(fix = TRUE)
          cmdstanr::install_cmdstan(cores = parallel::detectCores())
        shell: Rscript {0}

      - uses: r-lib/actions/check-r-package@v2
        with:
          build_args: 'c("--no-manual", "--no-build-vignettes")'
          args: 'c("--no-manual", "--as-cran", "--ignore-vignettes")'