Likelihood Calculation Felsenstein #119
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: Tests | |
| on: | |
| pull_request: | |
| push: | |
| branches: [main, test] | |
| jobs: | |
| pre-commit: | |
| name: Lint | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Cancel Previous Runs | |
| uses: styfle/[email protected] | |
| with: | |
| access_token: ${{ github.token }} | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: '3.10' | |
| - uses: pre-commit/[email protected] | |
| test: | |
| name: Python | |
| runs-on: ${{ matrix.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| python: [ 3.9, "3.10", "3.11" ] | |
| os: [ macos-13, ubuntu-latest] # disable windows for now, windows-latest ] | |
| defaults: | |
| run: | |
| shell: bash | |
| steps: | |
| - name: Cancel Previous Runs | |
| uses: styfle/[email protected] | |
| with: | |
| access_token: ${{ github.token }} | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Setup Python and cache deps | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: ${{ matrix.python }} | |
| cache: 'pip' | |
| cache-dependency-path: requirements/CI.txt | |
| - name: Install pip deps | |
| run: | | |
| pip install -r requirements/CI.txt | |
| - name: Run tests | |
| run: | | |
| coverage run --source=phylokit -m pytest -x -n0 | |
| coverage: | |
| name: Coverage | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Cancel Previous Runs | |
| uses: styfle/[email protected] | |
| with: | |
| access_token: ${{ github.token }} | |
| - name: Checkout | |
| uses: actions/checkout@v4 | |
| - name: Setup Python and cache deps | |
| uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.10" | |
| cache: 'pip' | |
| cache-dependency-path: requirements/CI.txt | |
| - name: Install pip deps | |
| run: | | |
| pip install -r requirements/CI.txt | |
| - name: Generate coverage | |
| run: | | |
| PHYLOKIT_DISABLE_NUMBA=1 coverage run --source=phylokit -m pytest -x -n0 | |
| - name: Upload coverage | |
| env: | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| run: | | |
| coveralls --service=github |