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github-action-rna-seq-pop.yml
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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"