quarto-book-ubuntu.yaml

on:
  push:
    branches: main
  pull_request:
    branches: main

name: Book-Ubuntu

jobs:
  build-deploy:
    runs-on: ubuntu-22.04
    env:
      GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
      CMDSTAN_VERSION: "2.34.0"
      RETICULATE_PYTHON_ENV: /opt/.virtualenvs/r-tensorflow
    steps:
      - uses: actions/checkout@v4

      - name: Install Quarto
        uses: quarto-dev/quarto-actions/setup@v2
        with:
          version: 1.4.545

      - uses: r-lib/actions/setup-r@v2
        with:
          use-public-rspm: true
          r-version: '4.3.2'
          extra-repositories: 'https://mc-stan.org/r-packages https://inla.r-inla-download.org/R/stable https://grantmcdermott.r-universe.dev'

      - uses: r-lib/actions/setup-r-dependencies@v2

      - name: Install TinyTeX
        uses: r-lib/actions/setup-tinytex@v2
        env:
          # install full prebuilt version
          TINYTEX_INSTALLER: TinyTeX
          
      - name: Setup Python
        run: |
          pip3 install virtualenv
          mkdir -p /opt/.virtualenvs/r-tensorflow
          virtualenv -p /usr/bin/python3 $RETICULATE_PYTHON_ENV
          source $RETICULATE_PYTHON_ENV/bin/activate
          pip3 install -r docker/requirements.txt
          python -m spacy download en_core_web_sm
          python -m spacy download zh_core_web_sm
          deactivate

      - name: Setup CmdStan
        run: |
          curl -fLo cmdstan-${CMDSTAN_VERSION}.tar.gz https://github.com/stan-dev/cmdstan/releases/download/v${CMDSTAN_VERSION}/cmdstan-${CMDSTAN_VERSION}.tar.gz
          mkdir -p /opt/cmdstan/
          tar -xzf cmdstan-${CMDSTAN_VERSION}.tar.gz -C /opt/cmdstan/
          make build -C /opt/cmdstan/cmdstan-${CMDSTAN_VERSION}
          rm cmdstan-${CMDSTAN_VERSION}.tar.gz

      - name: Install Fonts From System
        run: |
          sudo apt-get install -y ghostscript graphviz optipng
          sudo apt-get install -y fonts-noto-core fonts-noto-cjk
          fc-list | grep 'noto' | sort
          fc-list | sort

      - name: Install LaTeX packages
        run: |
          if(!require('tinytex')) install.packages('tinytex')
          tinytex::tlmgr_install(readLines("docker/texlive.txt"))
          tinytex::tl_pkgs()
          tikzDevice::tikzTest("m", engine = "xetex")
          tikzDevice::tikzTest("$\\sin(x^2/2 - y^2/4 + 3) \\cos(2 x + 1 - \\exp(y))$")
        shell: Rscript {0}
        
      - name: Reinstall R packages from source
        run: |
          install.packages(c("Matrix", "MatrixModels", "rjags", "lme4", "TMB", "glmmTMB"), repos = "https://cran.r-project.org/", type = "source")
          if(!require('remotes')) install.packages('remotes')
          remotes::install_github("tidyverse/ggplot2", ref = remotes::github_pull("5592"))
        shell: Rscript {0}
        
      - name: Setup magick
        run: |
          sudo sed -i_bak \
             's/name="disk" value="1GiB"/name="disk" value="8GiB"/' \
             /etc/ImageMagick-6/policy.xml

      - name: Render Book
        run: |
          source $RETICULATE_PYTHON_ENV/bin/activate
          quarto check
          quarto render --to html
        shell: bash
        env:
          RETICULATE_PYTHON_ENV: /opt/.virtualenvs/r-tensorflow
          RETICULATE_PYTHON: /opt/.virtualenvs/r-tensorflow/bin/python
          CMDSTAN: /opt/cmdstan/cmdstan-${{ env.CMDSTAN_VERSION }}

      - name: Deploy to Github Pages
        uses: JamesIves/github-pages-deploy-action@v4
        with:
          git-config-name: GitHub Actions
          git-config-email: actions@github.com
          repository-name: XiangyunHuang/tidyverse
          token: ${{ secrets.GH_DA_TOKEN }}
          branch: gh-pages
          folder: _book
          clean: true

      - name: Upload book folder for debug
        if: failure()
        uses: actions/upload-artifact@v3
        with:
          name: Upload Book
          path: _book