render_book_on_pr.yml

name: Render Book on PR to Main

on:
  pull_request_target:
    types: [closed]
    branches:
      - main

jobs:
  check-merged:
    if: github.event.pull_request.merged == true && startsWith(github.event.pull_request.head.ref, 'handbook_update')
    runs-on: ubuntu-latest
    steps:
      - name: Checkout repository
        uses: actions/checkout@v3
        with:
          ref: ${{ github.event.pull_request.head.ref }}

  build-and-render:
    if: github.event.pull_request.merged == true && startsWith(github.event.pull_request.head.ref, 'handbook_update')
    runs-on: ubuntu-latest
    needs: [check-merged]  # Ensure this runs only after the check-merged job completes
    runs-on: ubuntu-latest
    steps:
      - name: Check out repository
        uses: actions/checkout@v4

      - name: Set up Quarto
        uses: quarto-dev/quarto-actions/setup@v2
        with:
          tinytex: false
          # uncomment and specify version if needed
          # version: SPECIFIC-QUARTO-VERSION-HERE

      - name: Setup R
        uses: r-lib/actions/setup-r@v2

      - name: Restore R package from renv
        run: |
          install.packages("renv")
          renv::restore()
#          Rscript -e '
#          if (!requireNamespace("pacman", quietly = TRUE)) install.packages("pacman")
#          pacman::p_load(
#            "tidyverse", "googlesheets4", "learnr", "swirl", "here", "rio", "openxlsx",
#            "pacman", "renv", "remotes", "linelist", "naniar", "janitor", "gtsummary",
#            "rstatix", "broom", "lmtest", "easystats", "epicontacts", "EpiNow2",
#            "EpiEstim", "projections", "incidence2", "i2extras", "epitrix", "distcrete",
#            "cowplot", "RColorBrewer", "ggnewscale", "DiagrammeR", "gghighlight", "ggrepel",
#            "plotly", "gganimate", "sf", "tmap", "OpenStreetMap", "spdep", "rmarkdown",
#            "reportfactory", "officer", "flexdashboard", "shiny", "knitr", "flextable",
#            "ggtree", "ape", "treeio", "babelquarto", "babeldown")'
        

      - name: Render Book
        run: Rscript -e 'source("quarto_runfile.R")'

      - name: Publish to Netlify (and render)
        uses: quarto-dev/quarto-actions/publish@v2
        with:
          target: netlify
          NETLIFY_AUTH_TOKEN: ${{ secrets.NETLIFY_AUTH_TOKEN }}