Draft: add MISIP-MIMS #81
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| --- | |
| name: LinkML Linting GitHub Action | |
| on: | |
| pull_request: | |
| paths: | |
| - "src/mixs/schema/mixs.yaml" | |
| workflow_dispatch: # This allows manual triggering | |
| jobs: | |
| linkml: | |
| # Simplified permissions - we only need to upload artifacts | |
| permissions: | |
| contents: read | |
| pull-requests: write # This is the missing piece! | |
| name: LinkML Linting | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out repository | |
| uses: actions/checkout@v4 | |
| # Fixed: Specify exact Python version instead of using undefined matrix variable | |
| - name: Set up Python 3.11 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: '3.11' | |
| # Removed cache here since Poetry isn't installed yet | |
| # Install Poetry first before trying to use it | |
| - name: Install Poetry | |
| run: pipx install poetry | |
| # Now we can configure Poetry cache | |
| - name: Configure Poetry cache | |
| run: poetry config cache-dir ~/.cache/poetry | |
| # Install dependencies with Poetry | |
| - name: Install dependencies | |
| run: poetry install --no-interaction --no-root | |
| # Run the LinkML linting command | |
| - name: Run LinkML Linting | |
| run: | | |
| # Create linting results with timestamp header | |
| echo "# LinkML Linting Results" > linting-results.md | |
| echo "Generated on: $(date)" >> linting-results.md | |
| echo "" >> linting-results.md | |
| # Run the linter and capture output (continue even if linter finds issues) | |
| poetry run linkml lint --ignore-warnings -f markdown src/mixs/schema/mixs.yaml > linting-results.md || true | |
| # Show results in the action log for immediate visibility | |
| echo "=== Linting Results ===" | |
| cat linting-results.md | |
| - name: Comment linting results on PR | |
| if: github.event_name == 'pull_request' | |
| uses: actions/github-script@v7 | |
| with: | |
| script: | | |
| const fs = require('fs'); | |
| const lintingResults = fs.readFileSync('linting-results.md', 'utf8'); | |
| // Create or update comment with linting results | |
| github.rest.issues.createComment({ | |
| issue_number: context.issue.number, | |
| owner: context.repo.owner, | |
| repo: context.repo.repo, | |
| body: `## LinkML Linting Results\n\n${lintingResults}` | |
| }); |