Add reader for Stereo-seq files. #165
Workflow file for this run
This file contains 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: Test | |
| on: | |
| push: | |
| branches: [main] | |
| tags: | |
| - "v*" # Push events to matching v*, i.e. v1.0, v20.15.10, v1.0-rc.1, v2.1-alpha, v3.0-beta.3 | |
| pull_request: | |
| branches: [main] | |
| jobs: | |
| test: | |
| runs-on: ${{ matrix.os }} | |
| defaults: | |
| run: | |
| shell: bash -e {0} # -e to fail on error | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python: ["3.9", "3.10"] | |
| os: [ubuntu-latest] | |
| env: | |
| OS: ${{ matrix.os }} | |
| PYTHON: ${{ matrix.python }} | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Set up Python ${{ matrix.python }} | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: ${{ matrix.python }} | |
| - name: Get pip cache dir | |
| id: pip-cache-dir | |
| run: | | |
| echo "::set-output name=dir::$(pip cache dir)" | |
| - name: Restore pip cache | |
| uses: actions/cache@v2 | |
| with: | |
| path: ${{ steps.pip-cache-dir.outputs.dir }} | |
| key: pip-${{ runner.os }}-${{ env.pythonLocation }}-${{ hashFiles('**/pyproject.toml') }} | |
| restore-keys: | | |
| pip-${{ runner.os }}-${{ env.pythonLocation }}- | |
| - name: Install test dependencies | |
| run: | | |
| python -m pip install --upgrade pip wheel | |
| pip install pytest-cov | |
| - name: Install dependencies | |
| run: | | |
| pip install -e ".[dev,test]" | |
| - name: Test | |
| env: | |
| MPLBACKEND: agg | |
| PLATFORM: ${{ matrix.os }} | |
| DISPLAY: :42 | |
| run: | | |
| pytest -v --cov --color=yes --cov-report=xml | |
| - name: Upload coverage to Codecov | |
| uses: codecov/[email protected] | |
| with: | |
| name: coverage | |
| verbose: true | |
| deploy: | |
| # this will run when you have tagged a commit, starting with "v*" | |
| # and requires that you have put your twine API key in your | |
| # github secrets (see readme for details) | |
| needs: [test] | |
| runs-on: ubuntu-latest | |
| if: contains(github.ref, 'tags') | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v3 | |
| - name: Set up Python 3.10 | |
| uses: actions/setup-python@v4 | |
| with: | |
| python-version: "3.10" | |
| - name: Install hatch | |
| run: pip install hatch | |
| - name: Build project for distribution | |
| run: hatch build | |
| - name: Publish a Python distribution to PyPI | |
| uses: pypa/gh-action-pypi-publish@release/v1 | |
| with: | |
| password: ${{ secrets.PYPI_API_TOKEN }} |