feat: Snakemake8 #1530
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: Snakemake dry run | |
| on: | |
| push: | |
| branches: | |
| - develop | |
| - master | |
| pull_request: | |
| branches: | |
| - develop | |
| - master | |
| workflow_dispatch: | |
| jobs: | |
| snakemake-dry-run: | |
| name: Run snakemake dry run | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Set up Python 3.11 | |
| uses: actions/setup-python@v3 | |
| with: | |
| python-version: 3.11 | |
| - name: Install requirements.txt | |
| run: | | |
| pip install -r requirements.txt | |
| - name: Install requirements.test.txt | |
| run: | | |
| pip install -r requirements.test.txt | |
| - name: snakemake dry run | |
| working-directory: .tests/integration | |
| run: | | |
| snakemake -n -s ../../workflow/Snakefile --configfiles ../../config/config.yaml config/config.yaml | |
| - name: snakemake dry run reference | |
| working-directory: .tests/integration | |
| run: | | |
| snakemake -s ../../workflow/Snakefile_references.smk --configfiles ../../config/config.yaml ../../config/config_references.yaml config/config.yaml config/config_reference.yaml -n |