Add anatomical tests #57
Workflow file for this run
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| name: Python Tests | |
| permissions: | |
| contents: read | |
| on: | |
| push: | |
| branches: | |
| - main | |
| pull_request: | |
| workflow_dispatch: | |
| inputs: | |
| e2e: | |
| description: Run end-to-end tests | |
| required: false | |
| default: false | |
| type: boolean | |
| jobs: | |
| unit: | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| os: [ubuntu-latest, macos-latest, windows-latest] | |
| steps: | |
| - uses: actions/checkout@v6 | |
| - name: Setup venv | |
| uses: ./.github/actions/setup-venv | |
| - name: Run quick tests | |
| id: run-quick-tests | |
| shell: bash | |
| run: > | |
| uv run pytest \ | |
| -m "not slow and not full_pipeline" \ | |
| --junitxml=pytest-quick.xml \ | |
| --cov=src tests \ | |
| --log-level=DEBUG \ | |
| --verbose | |
| - name: Run slow tests (manual trigger) | |
| if: github.event_name == 'workflow_dispatch' | |
| shell: bash | |
| run: > | |
| uv run pytest \ | |
| -m "slow and not full_pipeline" \ | |
| --junitxml=pytest-slow.xml \ | |
| --cov=src tests \ | |
| --cov-append \ | |
| --verbose | |
| - name: Run full pipeline tests (manual trigger) | |
| if: github.event_name == 'workflow_dispatch' && inputs.e2e == true | |
| shell: bash | |
| run: > | |
| uv run pytest \ | |
| -m "full_pipeline" \ | |
| --junitxml=pytest-full.xml \ | |
| --cov=src tests \ | |
| --cov-append \ | |
| --verbose | |
| - name: Generate coverage report | |
| shell: bash | |
| run: > | |
| uv run pytest \ | |
| --cov-report=term-missing:skip-covered \ | |
| --cov-report=xml:coverage.xml \ | |
| --cov=src | |
| - name: Upload coverage to Codecov | |
| uses: codecov/codecov-action@671740ac38dd9b0130fbe1cec585b89eea48d3de | |
| with: | |
| token: ${{ secrets.CODECOV_TOKEN }} | |
| files: ./coverage.xml | |
| verbose: true | |
| ruff: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v6 | |
| - name: Setup venv | |
| uses: ./.github/actions/setup-venv | |
| with: | |
| only-dev: true | |
| - name: Ruff format | |
| run: uv run ruff format --check | |
| - name: Ruff check | |
| run: uv run ruff check | |
| mypy: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v6 | |
| - name: Setup venv | |
| uses: ./.github/actions/setup-venv | |
| - run: | | |
| uv run mypy . | |
| deptry: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v6 | |
| - name: Setup venv | |
| uses: ./.github/actions/setup-venv | |
| - run: |- | |
| uv run deptry ./src |