re-render after fixing merge conflicts #188
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| on: | |
| push: | |
| branches: | |
| - main | |
| pull_request: | |
| branches: | |
| - main | |
| schedule: | |
| - cron: '0 9 * * 1' | |
| name: build-deploy-qmd | |
| jobs: | |
| build-deploy-qmd: | |
| runs-on: ${{ matrix.config.os }} | |
| container: ${{ matrix.config.image }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - { os: ubuntu-latest, r: '4.5' } | |
| env: | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| RSPM: ${{ matrix.config.rspm }} | |
| CRAN: ${{ matrix.config.cran }} | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| - name: Check out repo | |
| uses: actions/checkout@v3 | |
| - name: Set up Quarto | |
| uses: quarto-dev/quarto-actions/setup@v2 | |
| - name: Install R | |
| uses: r-lib/actions/setup-r@v2 | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| - name: Set up pandoc | |
| uses: r-lib/actions/setup-pandoc@v2 | |
| - name: Install system dependencies | |
| run: | | |
| sudo apt-get update && sudo apt-get -y install libproj-dev libcurl4-openssl-dev libharfbuzz-dev libfribidi-dev libmpfr-dev | |
| - name: Install dependencies | |
| run: | | |
| install.packages("BiocManager") | |
| BiocManager::install(c("quarto", "remotes", "scales", "forcats", | |
| "dplyr", "tidyr", "ggplot2", "ggforce", | |
| "ggalt", "ggridges", "GGally", "ggsignif", | |
| "ggstatsplot", "gghighlight", "ggrepel", | |
| "ggtext", "ggnewscale", "ggrastr", "patchwork", | |
| "cowplot", "plotly", "ggiraph", "RColorBrewer", | |
| "circlize", "sessioninfo", "fueleconomy", | |
| "scattermore", "colorspace", "directlabels"), | |
| Ncpu = 2L) | |
| shell: Rscript {0} | |
| - name: Session info | |
| run: | | |
| options(width = 100) | |
| pkgs <- installed.packages()[, "Package"] | |
| sessioninfo::session_info(pkgs, include_base = TRUE) | |
| shell: Rscript {0} | |
| - name: Render site | |
| run: | | |
| quarto::quarto_render("intermediate_ggplot2.qmd") | |
| shell: Rscript {0} | |
| - name: Prepare files to deploy | |
| run: | | |
| mkdir _site | |
| cp -r index.html _site/ | |
| cp -r index2024.html _site/ | |
| cp -r index2023.html _site/ | |
| cp -r intermediate_ggplot2_files intermediate_ggplot2.html _site/ | |
| cp -r 1_fonts_errbars.html _site/ | |
| cp -r 2_ggmargin_ggrepel.html _site/ | |
| cp -r 3_many_points_scatterplot.html _site/ | |
| cp -r 4_ggpairs.html _site/ | |
| cp -r 5_combining_plot_panels.html _site/ | |
| cp -r 6_ppi_heatmaps.html _site/ | |
| cp -r 7_legend_placement.html _site/ | |
| cp -r 8_label_formatting.html _site/ | |
| - name: Install deploy dependencies | |
| if: github.ref == 'refs/heads/main' | |
| run: | | |
| sudo apt-get update && sudo apt-get -y install rsync | |
| - name: Deploy 🚀 | |
| if: github.ref == 'refs/heads/main' | |
| uses: JamesIves/github-pages-deploy-action@releases/v4 | |
| with: | |
| ACCESS_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| BRANCH: gh-pages | |
| FOLDER: _site |