cutadapt to fastp #242
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| name: rna-seq-pop | |
| on: [push, pull_request] | |
| jobs: | |
| run-workflow: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Set up python3 | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: '3.7' # Version range or exact version of a Python version to use, using SemVer's version range syntax | |
| - name: Set up python2 | |
| uses: actions/setup-python@v2 | |
| with: | |
| python-version: '2.7' # Version range or exact version of a Python version to use, using SemVer's version range syntax | |
| - name: Checkout repository | |
| uses: actions/checkout@v2 | |
| with: | |
| submodules: recursive | |
| - name: Test workflow paired-end | |
| uses: snakemake/[email protected] | |
| with: | |
| directory: '.test' | |
| snakefile: 'workflow/Snakefile' | |
| args: '--cores 4 --use-conda --configfile .test/config/config_paired_end.yaml --conda-cleanup-pkgs cache' | |
| - name: Test workflow single-end | |
| uses: snakemake/[email protected] | |
| with: | |
| directory: '.test' | |
| snakefile: 'workflow/Snakefile' | |
| args: "--cores 4 --use-conda --configfile .test/config/config_single_end.yaml --conda-cleanup-pkgs cache" |