Update 07_reder.qmd #10
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| on: | |
| push: | |
| branches: | |
| - master | |
| workflow_dispatch: | |
| name: Render and Publish | |
| # you need these permissions to publish to GitHub pages | |
| permissions: | |
| contents: write | |
| pages: write | |
| jobs: | |
| build-deploy: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out repository | |
| uses: actions/checkout@v4 | |
| - name: Set up Quarto | |
| uses: quarto-dev/quarto-actions/setup@v2 | |
| env: | |
| GH_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| with: | |
| # To install LaTeX to build PDF book | |
| tinytex: true | |
| # uncomment below and fill to pin a version | |
| # version: SPECIFIC-QUARTO-VERSION-HERE | |
| # add software dependencies here and any libraries | |
| # From https://github.com/actions/setup-python | |
| # - name: Setup Python | |
| # uses: actions/setup-python@v3 | |
| # From https://github.com/r-lib/actions/tree/v2-branch/setup-r | |
| - name: Setup R | |
| uses: r-lib/actions/setup-r@v2 | |
| # Install knitr and rmarkdown | |
| - name: Install R dependencies | |
| run: | | |
| Rscript -e 'install.packages(c("knitr", "rmarkdown", "igraph", "BiocManager"))' | |
| Rscript -e 'BiocManager::install("RedeR")' | |
| # From https://github.com/julia-actions/setup-julia | |
| # - name: Setup Julia | |
| # uses: julia-actions/setup-julia@v1 | |
| # See more at https://github.com/quarto-dev/quarto-actions/blob/main/examples/example-03-dependencies.md | |
| # To publish to Netlify, RStudio Connect, or GitHub Pages, uncomment | |
| # the appropriate block below | |
| # - name: Publish to Netlify (and render) | |
| # uses: quarto-dev/quarto-actions/publish@v2 | |
| # with: | |
| # target: netlify | |
| # NETLIFY_AUTH_TOKEN: ${{ secrets.NETLIFY_AUTH_TOKEN }} | |
| # - name: Publish to RStudio Connect (and render) | |
| # uses: quarto-dev/quarto-actions/publish@v2 | |
| # with: | |
| # target: connect | |
| # CONNECT_SERVER: enter-the-server-url-here | |
| # CONNECT_API_KEY: ${{ secrets.CONNECT_API_KEY }} | |
| # NOTE: If Publishing to GitHub Pages, set the permissions correctly (see top of this yaml) | |
| - name: Render Book project | |
| uses: quarto-dev/quarto-actions/render@v2 | |
| with: | |
| to: html | |
| - name: Publish HTML book | |
| uses: quarto-dev/quarto-actions/publish@v2 | |
| with: | |
| target: gh-pages | |
| render: false | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} # this secret is always available for github actions | |
| # - name: Publish to confluence | |
| # uses: quarto-dev/quarto-actions/publish@v2 | |
| # with: | |
| # target: confluence | |
| # env: | |
| # CONFLUENCE_USER_EMAIL: ${{ secrets.CONFLUENCE_USER_EMAIL }} | |
| # CONFLUENCE_AUTH_TOKEN: ${{ secrets.CONFLUENCE_AUTH_TOKEN }} | |
| # CONFLUENCE_DOMAIN: ${{ secrets.CONFLUENCE_DOMAIN }} | |