Fhir resolver #53
Workflow file for this run
This file contains hidden or 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: CI | |
| on: | |
| push: | |
| branches: [main, master, develop] | |
| pull_request: | |
| branches: [main, master, develop] | |
| workflow_dispatch: # Allow manual triggering | |
| jobs: | |
| lint: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v6 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.12" | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install ruff mypy | |
| pip install -e ".[dev]" | |
| - name: Run Ruff linter | |
| run: ruff check src/ | |
| - name: Run Ruff formatter check | |
| run: ruff format --check src/ | |
| - name: Run MyPy | |
| run: mypy src/omophub | |
| test: | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ["3.10", "3.11", "3.12", "3.13"] | |
| steps: | |
| - uses: actions/checkout@v6 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install -e ".[dev]" | |
| - name: Run unit tests with coverage | |
| run: | | |
| pytest tests/unit --cov=omophub --cov-report=xml --cov-report=term-missing | |
| - name: Upload coverage to Codecov | |
| if: matrix.python-version == '3.12' | |
| uses: codecov/codecov-action@v5 | |
| with: | |
| files: ./coverage.xml | |
| fail_ci_if_error: false | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| integration: | |
| # Only run on push to main/develop, not on PRs (saves ~7-8 min per PR) | |
| if: github.event_name == 'push' || github.event_name == 'workflow_dispatch' | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v6 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.12" | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install -e ".[dev]" | |
| - name: Run integration tests | |
| env: | |
| TEST_API_KEY: ${{ secrets.TEST_API_KEY }} | |
| run: | | |
| pytest tests/integration -v |