remove comma #49
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| # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples and adapted | |
| on: | |
| push: | |
| branches: [main] | |
| name: Build_gh-pages.yml #shown when action is run | |
| jobs: | |
| pkgdown: | |
| runs-on: ubuntu-latest | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} #to push results to gh-pages branch! | |
| steps: #Series of steps that is executed sequencially: https://github.com/r-lib/actions/ | |
| - uses: actions/checkout@v4 # goes to gh-pages branch to work there | |
| - name: Install libglpk40 | |
| run: sudo apt-get install -y libglpk40 | |
| - uses: r-lib/actions/setup-pandoc@v2 #installs pandoc | |
| - uses: r-lib/actions/setup-r@v2 #installs R | |
| with: | |
| use-public-rspm: true | |
| - name: Install fgsea & pkgdown | |
| run: | | |
| Rscript -e 'install.packages("remotes")' | |
| Rscript -e 'remotes::install_github("ctlab/fgsea")' # see: https://github.com/ctlab/fgsea/issues/165 | |
| Rscript -e 'install.packages("pkgdown")' | |
| - name: Install MetaProViz from GitHub by remotes | |
| run: Rscript -e 'remotes::install_github("saezlab/MetaProViz")' #we install from GitHub as if we are a random user | |
| - name: Build pkgdown site | |
| run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE) | |
| shell: Rscript {0} | |
| - name: Deploy to GitHub pages 🚀 | |
| if: github.event_name != 'pull_request' | |
| uses: JamesIves/[email protected] | |
| with: | |
| clean: false | |
| branch: gh-pages | |
| folder: docs |