v0.1.3 - Bug fixes in plexDIA and DIANN converter #751
Workflow file for this run
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| # This workflow will install Python dependencies, run tests and lint with a single version of Python | |
| # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions | |
| name: CI | |
| on: | |
| push: | |
| branches: [ main, dev ] | |
| pull_request: | |
| branches: [ main, dev ] | |
| release: | |
| types: [published] | |
| permissions: | |
| contents: read | |
| jobs: | |
| pre-commit: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| submodules: true | |
| - name: Set up Python 3.10 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.10" | |
| - name: Install uv | |
| uses: astral-sh/setup-uv@v5 | |
| with: | |
| enable-cache: true | |
| - name: Sync workspace | |
| run: uv sync | |
| - name: Run pre-commit hooks | |
| run: uv run pre-commit run --all-files | |
| test-core: | |
| name: Core Tests (Python ${{ matrix.python-version }}) | |
| runs-on: ubuntu-latest | |
| needs: pre-commit | |
| strategy: | |
| matrix: | |
| python-version: ["3.10", "3.11", "3.12", "3.13"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install uv | |
| uses: astral-sh/setup-uv@v5 | |
| with: | |
| enable-cache: true | |
| - name: Sync workspace (core dependencies only) | |
| run: uv sync | |
| - name: Run core tests (excluding ontology) | |
| run: uv run pytest -m "not ontology" -v | |
| test-ontology: | |
| name: Ontology Tests (Python ${{ matrix.python-version }}) | |
| runs-on: ubuntu-latest | |
| needs: pre-commit | |
| strategy: | |
| matrix: | |
| python-version: ["3.10", "3.11", "3.12", "3.13"] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| submodules: true | |
| - name: Set up Python ${{ matrix.python-version }} | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install uv | |
| uses: astral-sh/setup-uv@v5 | |
| with: | |
| enable-cache: true | |
| - name: Sync workspace with ontology dependencies | |
| run: uv sync --extra ontology | |
| - name: Run ontology tests | |
| run: uv run pytest -m "ontology" -v | |
| publish: | |
| runs-on: ubuntu-latest | |
| needs: [test-core, test-ontology] | |
| if: github.event_name == 'release' && github.event.action == 'published' | |
| steps: | |
| - uses: actions/checkout@v4 | |
| with: | |
| fetch-depth: 0 | |
| submodules: true | |
| - name: Set up Python 3.10 | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.10" | |
| - name: Install uv | |
| uses: astral-sh/setup-uv@v5 | |
| with: | |
| enable-cache: true | |
| - name: Build package | |
| run: uv build | |
| - name: Publish package | |
| run: uv publish --token ${{ secrets.PYPI_API_TOKEN }} |