updates for compatibility with input zstacks #237
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| --- | |
| name: Lint and test workflow | |
| on: | |
| push: | |
| branches: ['*', '!push-action/*'] | |
| pull_request: | |
| branches: ['*', '!push-action/*'] | |
| jobs: | |
| quality: | |
| name: Lint code | |
| if: github.event.pull_request.merged == false | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Setup Python environment | |
| uses: khanlab/actions/.github/actions/action-setup_task-installPyProject@v0.3.6 | |
| with: | |
| python-version: '3.11' | |
| - name: snakemake lint | |
| run: poetry run snakemake --lint --storage-gcs-project placeholder | |
| - name: snakefmt | |
| run: poetry run snakefmt --check workflow | |
| test: | |
| runs-on: ubuntu-latest | |
| needs: [quality] | |
| strategy: | |
| matrix: | |
| python-version: ['3.11'] | |
| steps: | |
| - name: Setup Python environments | |
| uses: khanlab/actions/.github/actions/action-setup_task-installPyProject@v0.3.6 | |
| with: | |
| python-version: ${{ matrix.python-version }} | |
| install-library: true | |
| - name: Integration dry-run test | |
| run: poetry run snakemake -np --storage-gcs-project placeholder |