DeepRVAT 🧬🧪💻🧑🔬 #387
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| name: DeepRVAT | |
| run-name: DeepRVAT 🧬🧪💻🧑🔬 | |
| on: [ push ] | |
| jobs: | |
| DeepRVAT-Pipeline-Smoke-Tests: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Check out repository code | |
| uses: actions/checkout@v3 | |
| - name: Training Association Testing smoke test | |
| uses: snakemake/snakemake-github-action@v1.24.0 | |
| with: | |
| directory: 'example' | |
| snakefile: 'pipelines/training_association_testing.snakefile' | |
| args: '-j 1 -n' | |
| stagein: 'pip install -e ${{ github.workspace }}' | |
| - name: Seed Gene Discovery Smoke Test | |
| uses: snakemake/snakemake-github-action@v1.24.0 | |
| with: | |
| directory: 'example' | |
| snakefile: 'pipelines/seed_gene_discovery.snakefile' | |
| args: '-j 1 -n' | |
| - name: Link pretrained models | |
| run: cd ${{ github.workspace }}/example && ln -s ../pretrained_models | |
| - name: Association Testing Pretrained Smoke Test | |
| uses: snakemake/snakemake-github-action@v1.24.0 | |
| with: | |
| directory: 'example' | |
| snakefile: 'pipelines/association_testing_pretrained.snakefile' | |
| args: '-j 1 -n' |