mac_r.yml

# This workflow uses actions that are not certified by GitHub.
# They are provided by a third-party and are governed by
# separate terms of service, privacy policy, and support
# documentation.
#
# See https://github.com/r-lib/actions/tree/master/examples#readme for
# additional example workflows available for the R community.
name: R Package CI for macOS

on:
  push:
    branches: ["master"]
  pull_request:
    branches: ["master"]

permissions:
  contents: read

jobs:
  build:
    runs-on: macos-latest
    strategy:
      matrix:
        os: [macos-latest]
        r-version: ['4.1.1']

    steps:
      - uses: actions/checkout@v4

      - name: Install system dependencies on macOS
        run: |
          brew install jags
          brew install --cask mactex-no-gui
          brew install gcc
        shell: bash

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

      - name: Install remotes package
        run: Rscript -e 'install.packages("remotes")'
        shell: /bin/bash -e {0}

      - name: Install package dependencies
        run: Rscript -e 'install.packages(c("smacof", "ellipse", "plyr", "vegan"))'
        shell: /bin/bash -e {0}

      - name: Install basicspace from GitHub
        env:
          GITHUB_PAT: ${{ secrets.MY_GITHUB_PAT }}
        run: Rscript -e 'remotes::install_github("cran/basicspace", force = TRUE)'
        shell: /bin/bash -e {0}

      - name: Set CRAN mirror and install other R package dependencies
        env:
          GITHUB_PAT: ${{ secrets.MY_GITHUB_PAT }}
        run: Rscript -e 'options(repos = c(CRAN = "https://cloud.r-project.org/")); install.packages(c("rjags", "ggplot2", "knitr"))'
        shell: /bin/bash -e {0}

      - name: Install rcmdcheck package
        run: Rscript -e 'install.packages("rcmdcheck")'
        shell: /bin/bash -e {0}

      - name: Run R CMD check
        env:
          PATH: /opt/homebrew/opt/gcc/bin:/opt/homebrew/bin:$PATH
        run: Rscript -e 'rcmdcheck::rcmdcheck(args = "--no-manual", error_on = "error")'
        shell: /bin/bash -e {0}

      - name: Test (optional)
        run: Rscript -e 'devtools::test()'
        shell: /bin/bash -e {0}

    env:
      TZ: UTC
      _R_CHECK_SYSTEM_CLOCK_: false
      NOT_CRAN: true