Render README #16
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| name: Render README | |
| on: | |
| workflow_dispatch: | |
| inputs: | |
| r-version: | |
| description: 'The version of R to use' | |
| default: 'release' | |
| required: false | |
| type: choice | |
| options: | |
| - devel | |
| - latest | |
| skip-md-formatting: | |
| description: 'Skip markdown auto-formatting' | |
| default: false | |
| required: false | |
| type: boolean | |
| workflow_call: | |
| inputs: | |
| r-version: | |
| description: 'The version of R to use' | |
| default: 'release' | |
| required: false | |
| type: string | |
| skip-md-formatting: | |
| description: 'Skip markdown auto-formatting' | |
| default: false | |
| required: false | |
| type: boolean | |
| jobs: | |
| render: | |
| name: Render | |
| runs-on: ubuntu-latest | |
| container: | |
| image: "ghcr.io/pharmaverse/admiralci-${{ inputs.r-version }}:latest" | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| steps: | |
| ##################### BEGIN boilerplate steps ##################### | |
| - name: Get branch names | |
| id: branch-name | |
| uses: tj-actions/[email protected] | |
| - name: Checkout repo (PR) 🛎 | |
| uses: actions/checkout@v4 | |
| if: github.event_name == 'pull_request' | |
| with: | |
| ref: ${{ steps.branch-name.outputs.head_ref_branch }} | |
| repository: ${{ github.event.pull_request.head.repo.full_name }} | |
| token: "${{ secrets.PHARMAVERSE_BOT }}" | |
| - name: Checkout repository | |
| uses: actions/checkout@v4 | |
| if: github.event_name != 'pull_request' | |
| with: | |
| ref: ${{ steps.branch-name.outputs.head_ref_branch }} | |
| token: "${{ secrets.PHARMAVERSE_BOT }}" | |
| - name: Normalize inputs | |
| id: normalizer | |
| run: | | |
| R_VERSION="${{ inputs.r-version }}" | |
| if [ "$R_VERSION" == "" ] | |
| then { | |
| R_VERSION="4.1" | |
| } | |
| fi | |
| echo "R_VERSION=$R_VERSION" >> $GITHUB_OUTPUT | |
| shell: bash | |
| - name: Restore cache | |
| uses: actions/cache@v3 | |
| with: | |
| path: | | |
| ~/.staged.dependencies | |
| key: staged-deps | |
| - name: Run Staged dependencies | |
| uses: insightsengineering/staged-dependencies-action@v1 | |
| with: | |
| run-system-dependencies: false | |
| renv-restore: false | |
| enable-check: false | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| - name: Install dependencies from DESCRIPTION | |
| run: | | |
| remotes::install_local(force = TRUE, dependencies = TRUE) | |
| shell: Rscript {0} | |
| ##################### END boilerplate steps ##################### | |
| - name: Render README to markdown | |
| run: | | |
| if (file.exists("README.Rmd")) { | |
| rmarkdown::render("README.Rmd", output_format = "md_document") | |
| } | |
| shell: Rscript {0} | |
| env: | |
| BRANCH_NAME: "${{ steps.branch-name.outputs.current_branch }}" | |
| - name: Install Markdown formatter | |
| if: ${{ !inputs.skip-md-formatting }} | |
| run: | | |
| npm install -g n # upgrade node version to use markdown-formatter | |
| n latest | |
| n prune | |
| hash -r | |
| node --version | |
| npm install -g @quilicicf/markdown-formatter | |
| shell: bash | |
| - name: Add safe directory | |
| run: | | |
| git config --global --add safe.directory "${GITHUB_WORKSPACE}" | |
| git config --local user.email "[email protected]" | |
| git config --local user.name "pharmaverse-bot" | |
| shell: bash | |
| - name: Commit and push formatted README.md | |
| run: | | |
| if [ "${{ inputs.skip-md-formatting }}" != "true" ] | |
| then { | |
| markdown-format -r -f README.md | |
| } | |
| fi | |
| git config --global --add safe.directory "${GITHUB_WORKSPACE}" | |
| git config --local user.email "[email protected]" | |
| git config --local user.name "pharmaverse-bot" | |
| BRANCH=${GITHUB_HEAD_REF:-${GITHUB_REF#refs/heads/}} | |
| git add README.md | |
| git commit -m "[actions skip] Add/Update README.md for ${BRANCH}" || true | |
| git push origin ${BRANCH} || echo "No changes to commit" |