deploy_bookdown.yml

on:
  push:
     branches:
       - master

  

name: render-protocol-book

jobs:
  bookdown:
    name: Render presenter and developer protocol with bookdown
    runs-on: ubuntu-latest
    steps:
      - name: Checkout repository
        uses: actions/checkout@v3

      - name: Setup R  
        uses: r-lib/actions/setup-r@v2
      
      - name: Install pandoc and pandoc citeproc
        uses: r-lib/actions/setup-pandoc@v2
        
      - name: Install R dependencies
        run: Rscript -e 'install.packages(c("rmarkdown", "bookdown", "formatR"))'
        
      - name: Render the book using bookdown
        run: Rscript -e 'bookdown::render_book("index.Rmd")'
        
      - uses: actions/upload-artifact@v3
        with:
          name: _book
          path: _book/
  
# Need to first create an empty gh-pages branch
# see https://pkgdown.r-lib.org/reference/deploy_site_github.html
# and also add secrets for a GH_PAT and EMAIL to the repository
# gh-action from Cecilapp/GitHub-Pages-deploy

  checkout-and-deploy:
   runs-on: ubuntu-latest
   needs: bookdown
   steps:
     - name: Checkout repository
       uses: actions/checkout@v3
       
     - name: Download artifact
       uses: actions/download-artifact@v3
       with:
         # Artifact name
         name: _book # optional
         # Destination path
         path: _book # optional

     - name: Deploy to GitHub Pages
       uses: Cecilapp/GitHub-Pages-deploy@v3
       env:
         GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
       with:
         email: ${{ secrets.EMAIL }}
         build_dir: _book       # "_site/" by default