Merge pull request #46 from SchlossLab/iss-44 #176
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| name: tests | |
| on: | |
| push: | |
| branches: | |
| - main | |
| pull_request: | |
| branches: | |
| - main | |
| jobs: | |
| tests: | |
| name: tests | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| python-version: ["3.11"] | |
| steps: | |
| - uses: actions/checkout@v3 | |
| with: | |
| persist-credentials: false | |
| fetch-depth: 0 | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install pytest pytest-parallel | |
| - name: Lint workflow | |
| uses: snakemake/[email protected] | |
| with: | |
| directory: . | |
| snakefile: workflow/Snakefile | |
| args: "--lint" | |
| - name: Run test workflow | |
| uses: snakemake/[email protected] | |
| with: | |
| directory: . | |
| snakefile: workflow/Snakefile | |
| args: "archive --forceall --cores 2 --use-conda --conda-frontend mamba --conda-cleanup-pkgs cache --show-failed-logs --all-temp --configfile config/test.yaml" | |
| # - name: Test with pytest | |
| # run: | | |
| # pytest --workers 2 .tests/ |