build_deploy.yaml

name: pkgdown

on:
  push:
    branches:
    - jomain

# on:
#   repository_dispatch:
#     types: [trigger-workflow-2]

jobs:
  build-and-deploy:
    runs-on: ubuntu-latest
    container: rformassspectrometry/metabonaut:latest
    env:
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}

    steps:
      - uses: actions/checkout@v4

      - name: Verify Quarto Installation
        run: quarto --version

      - name: Install rcmdcheck
        run: |
          install.packages('rcmdcheck')
        shell: Rscript {0}

      - name: Check
        env:
          _R_CHECK_CRAN_INCOMING_REMOTE_: false
        run: |
          Rscript -e "rcmdcheck::rcmdcheck(args = c('--no-manual'), error_on = 'error', check_dir = 'check')"
        shell: bash {0}

      - name: Install deploy dependencies
        run: |
          apt-get update
          apt-get -y install rsync

      - name: Install pkgdown
        if: github.ref == 'refs/heads/main'
        run: |
          install.packages('pkgdown')
        shell: Rscript {0}

      - name: Install package
        if: github.ref == 'refs/heads/main'
        run: R CMD INSTALL .

      - name: Build site
        run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)
        shell: Rscript {0}

      - name: Deploy to GitHub pages 🚀
        if: github.event_name != 'pull_request'
        uses: JamesIves/github-pages-deploy-action@v4.5.0
        with:
          clean: false
          branch: gh-pages
          folder: docs
        ## Note that you need to run pkgdown::deploy_to_branch(new_process = FALSE)
        ## at least one locally before this will work. This creates the gh-pages
        ## branch (erasing anything you haven't version controlled!) and
        ## makes the git history recognizable by pkgdown.