Merge pull request #777 from VariantEffect/release-2026.2.5 #1609
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| name: Run Tests | |
| on: | |
| push: | |
| branches: | |
| - main | |
| - 'release-*' | |
| pull_request: | |
| env: | |
| LOG_CONFIG: test | |
| jobs: | |
| run-mypy-3_11: | |
| runs-on: ubuntu-latest | |
| name: MyPy checks on Python 3.11 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.11" | |
| cache: 'pip' | |
| - run: sudo apt-get update | |
| - run: sudo apt-get install -y tabix | |
| - run: pip install --upgrade pip | |
| - run: pip install poetry | |
| - run: poetry install --with dev --extras server | |
| - run: poetry run mypy src/ | |
| run-ruff-lint: | |
| runs-on: ubuntu-latest | |
| name: Ruff linting on Python 3.11 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.11" | |
| cache: 'pip' | |
| - run: sudo apt-get update | |
| - run: sudo apt-get install -y tabix | |
| - run: pip install --upgrade pip | |
| - run: pip install poetry | |
| - run: poetry install --with dev --extras server | |
| - run: poetry run ruff check | |
| run-tests-3_11-core-dependencies: | |
| runs-on: ubuntu-latest | |
| name: Pytest on Core Dependencies-- Python 3.11 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.11" | |
| cache: 'pip' | |
| - run: pip install --upgrade pip | |
| - run: pip install poetry | |
| - run: poetry install --with dev | |
| - name: Run fast tests on PRs | |
| if: github.event_name == 'pull_request' | |
| run: poetry run pytest tests/ -m "not network and not slow" | |
| - name: Run full tests on main and release branches | |
| if: github.event_name == 'push' | |
| run: poetry run pytest tests/ | |
| run-tests-3_12-core-dependencies: | |
| runs-on: ubuntu-latest | |
| name: Pytest on Core Dependencies-- Python 3.12 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.12" | |
| cache: 'pip' | |
| - run: pip install --upgrade pip | |
| - run: pip install poetry | |
| - run: poetry install --with dev | |
| - name: Run fast tests on PRs | |
| if: github.event_name == 'pull_request' | |
| run: poetry run pytest tests/ -m "not network and not slow" | |
| - name: Run all tests on main and release branches | |
| if: github.event_name == 'push' | |
| run: poetry run pytest tests/ | |
| run-tests-3_11: | |
| runs-on: ubuntu-latest | |
| name: Pytest on Optional Dependencies-- Python 3.11 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.11" | |
| cache: 'pip' | |
| - run: sudo apt-get update | |
| - run: sudo apt-get install -y tabix | |
| - run: pip install --upgrade pip | |
| - run: pip install poetry | |
| - run: poetry install --with dev --extras server | |
| - name: Run fast tests with coverage on PRs | |
| if: github.event_name == 'pull_request' | |
| run: | | |
| mkdir -p coverage | |
| poetry run pytest tests/ -m "not network and not slow" --show-capture=stdout --cov=src --cov-report=term-missing --cov-report=lcov:coverage/lcov.info | |
| - name: Run all tests with coverage on main and release branches | |
| if: github.event_name == 'push' | |
| run: | | |
| mkdir -p coverage | |
| poetry run pytest tests/ --show-capture=stdout --cov=src --cov-report=term-missing --cov-report=lcov:coverage/lcov.info | |
| - name: Upload coverage to Coveralls | |
| uses: coverallsapp/github-action@v2 | |
| with: | |
| path-to-lcov: coverage/lcov.info |