build.yml

name: Build and deploy

on:
    push:
        branches:
        - master

    schedule:
        - cron: '0 5 1,15 * *'


jobs:
  Build_deploy:
    runs-on: ubuntu-latest
    steps:
      - uses: actions/checkout@master
      - uses: r-lib/actions/setup-pandoc@v1
        with:
          pandoc-version: '2.7.3'
      - uses: r-lib/actions/setup-r@v1
        with:
            r-version: '3.6.0'

      - name: Python 3.6
        uses: actions/setup-python@v1
        with:
          python-version: '3.6'

      - name: Install pandoc filters
        run: |
          python -m pip install --upgrade pip
          pip install pandoc-fignos pandoc-eqnos pandoc-tablenos pandoc-secnos pandoc-xnos
          which pandoc pandoc-fignos pandoc-eqnos pandoc-tablenos pandoc-secnos pandoc-xnos

      - name: Install LaTeX
        run: |
          sudo apt-get install texlive-latex-base
          sudo apt-get install texlive-fonts-recommended
          sudo apt-get install texlive-fonts-extra
          sudo apt-get install texlive-latex-extra

      - name: Install system dependencies
        if: runner.os == 'Linux'
        env:
          RHUB_PLATFORM: linux-x86_64-ubuntu-gcc
        run: |
          sudo apt-get install libpoppler-cpp-dev
          sudo apt-get install libcurl4-openssl-dev
          sudo apt-get install libglu1-mesa-dev
          sudo apt-get install libmagick++-dev

      - name: Install R dependencies
        run: Rscript -e "install.packages(c('glue', 'tidyverse', 'readr', 'rmarkdown', 'pagedown', 'rorcid', 'rcrossref'))"

      - name: Build html
        run: Rscript -e "rmarkdown::render('index.Rmd')"

      - name: Build pdf
        run: Rscript -e "pagedown::chrome_print(input = 'index.html', output = 'index.pdf')"

      - name: Prepare deployment
        run: |
          mkdir docs
          mv index.html docs/index.html
          mv index.pdf docs/BenMerSci.pdf
      
      - name: Deploy gh_pages
        uses: JamesIves/github-pages-deploy-action@releases/v3
        with:
          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
          BRANCH: gh-pages
          FOLDER: docs
          SINGLE_COMMIT: true