Adding test metadata for ISI-SynTestModel #5
This file contains 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
| 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 | |
| - 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"), | |
| skip_submit_window_check = FALSE | |
| ) | |
| 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/approve-pull-request-action@v2.0.0 | |
| 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-SyndromicIndicators/.github/workflows/persist_changes.yml@main | |
| with: | |
| changes-list: ${{ needs.validate-submission_job.outputs.changed_files }} | |
| secrets: | |
| envPAT: ${{ secrets.GITHUB_TOKEN }} |