pkgdown.yaml

# Workflow derived from https://github.com/r-lib/actions/tree/v2/examples
# Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help
on:
  push:
    branches: [jomain, main]
  pull_request:
    branches: [main]
  release:
    types: [published]
  workflow_dispatch:

name: pure pkgdown.yaml

permissions: read-all

jobs:
  pkgdown:
    runs-on: ubuntu-latest
    container: bioconductor/bioconductor_docker:devel
    # Only restrict concurrency for non-PR jobs
    concurrency:
      group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }}
    env:
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
    permissions:
      contents: write
    steps:
      ## Set the R library to the directory matching the
      ## R packages cache step further below when running on Docker (Linux).
      - name: Set R Library home on Linux
        if: runner.os == 'Linux'
        run: |
          mkdir /__w/_temp/Library
          mkdir /__w/Rtmp
          echo ".libPaths('/__w/_temp/Library')" > ~/.Rprofile

      - name: Checkout package
        uses: actions/checkout@v4

      # - name: Repository metadata
      #   uses: varunsridharan/action-repository-meta@main
      #   with:
      #     REPOSITORY: ${{github.repository}}
      #   env:
      #     GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
      # - continue-on-error: true
      #   run: |
      #     git config --global --add safe.directory "$GITHUB_WORKSPACE"

      # - name: Setup pandoc from r-lib
      #   if: runner.os != 'Linux'
      #   uses: r-lib/actions/setup-pandoc@v2

      # - name: Setup R from r-lib
      #   if: runner.os != 'Linux'
      #   uses: r-lib/actions/setup-r@v2
      #   with:
      #     use-public-rspm: true

      - uses: r-lib/actions/setup-r-dependencies@v2
        with:
          extra-packages: any::pkgdown, local::.
          needs: website

      - name: Setup tinytex from r-lib
        if: runner.os != 'Linux'
        uses: r-lib/actions/setup-tinytex@v2

      # - name: Build articles
      #   run: |
      #     install.packages("unixtools", repos = "http://www.rforge.net/")
      #     unixtools::set.tempdir("/__w/Rtmp")
      #     pkgdown::build_articles(quiet = FALSE)
      #   shell: Rscript {0}

      - name: Build site
        run: |
          install.packages("unixtools", repos = "http://www.rforge.net/")
          unixtools::set.tempdir("/__w/Rtmp")
          pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE)
        shell: Rscript {0}

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

      - 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