2024-12-18-ISI-RC_AdaptEns2 #92
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| name: HubSubmissionValidation(R) | |
| on: | |
| workflow_dispatch: | |
| pull_request_target: | |
| branches: main | |
| paths: | |
| - 'model-output/**' | |
| - 'model-metadata/*' | |
| - '!**README**' | |
| - '!**.md' | |
| - '!**.MD' | |
| jobs: | |
| validate-submission_job: | |
| runs-on: ubuntu-latest | |
| outputs: | |
| changed_files: ${{ steps.get_changed_files.outputs.all_changed_files }} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| PR_NUMBER: ${{ github.event.pull_request.number }} | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| ref: ${{ github.event.pull_request.head.sha }} | |
| # Get changes from pull request for later use | |
| # -------------------------------------------- | |
| - name: Get changes | |
| id: get_changed_files | |
| uses: tj-actions/changed-files@v41 | |
| # DEBUG ONLY | |
| - name: List all changed files | |
| run: | | |
| for file in ${{ steps.get_changed_files.outputs.all_changed_files }}; do | |
| echo "$file was changed" | |
| done | |
| # Install Python | |
| - name: Set up Python | |
| uses: actions/setup-python@v3 | |
| with: | |
| python-version: '3.x' | |
| # Checkout the python tools repo | |
| # used to verify the PR changes | |
| # ------------------------------------------ | |
| - name: checkout python tools repo | |
| uses: actions/checkout@v3 | |
| with: | |
| token: ${{ secrets.GITHUB_TOKEN }} | |
| repository: 'european-modelling-hubs/hub-tools' | |
| ref: 'main' | |
| path: tools | |
| # Check if some submission is outside allowed folders | |
| - name: Check submission paths | |
| env: | |
| pr_changes: ${{ steps.get_changed_files.outputs.all_changed_files }} | |
| run: | | |
| python ./tools/code/check_submission_paths.py | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| install-r: false | |
| use-public-rspm: true | |
| - name: Install system dependencies | |
| run: | | |
| sudo apt-get update | |
| sudo apt-get install libcurl4-openssl-dev libv8-dev | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| packages: Infectious-Disease-Modeling-Hubs/hubValidations, any::sessioninfo | |
| - name: Run validations | |
| env: | |
| PR_NUMBER: ${{ github.event.number }} | |
| run: | | |
| library("hubValidations") | |
| v <- hubValidations::validate_pr( | |
| gh_repo = Sys.getenv("GITHUB_REPOSITORY"), | |
| pr_number = Sys.getenv("PR_NUMBER") | |
| ) | |
| hubValidations::check_for_errors(v, verbose = TRUE) | |
| shell: Rscript {0} | |
| # Eventually comment on it | |
| - name: Comment PR | |
| uses: thollander/actions-comment-pull-request@v2 | |
| with: | |
| message: | | |
| All validation checks completed successfully. | |
| pr_number: ${{ github.event.pull_request.number }} | |
| # Approve pull request | |
| # --------------------------- | |
| - name: Approve Pull Request | |
| uses: juliangruber/[email protected] | |
| with: | |
| github-token: ${{ secrets.GITHUB_TOKEN }} | |
| number: ${{ github.event.pull_request.number }} | |
| # And then merge it | |
| # --------------------------- | |
| - name: Merge the pull request | |
| id: merge_pr | |
| run: | | |
| echo ">>> Merging PR URL: ${{ github.event.pull_request.html_url }}" | |
| gh pr merge --auto --squash $PR_URL | |
| env: | |
| PR_URL: ${{ github.event.pull_request.html_url }} | |
| GH_TOKEN: ${{ github.token }} | |
| call-persisting-wf: | |
| needs: validate-submission_job | |
| uses: european-modelling-hubs/RespiCast-Covid19/.github/workflows/persist_changes.yml@main | |
| with: | |
| changes-list: ${{ needs.validate-submission_job.outputs.changed_files }} | |
| secrets: | |
| envPAT: ${{ secrets.GITHUB_TOKEN }} |