Merge branch 'dev' into nf-core-template-merge-2.11.dev0-2 #105
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| name: nf-core download | |
| on: | |
| push: | |
| pull_request: | |
| release: | |
| types: [published] | |
| env: | |
| NXF_ANSI_LOG: false | |
| jobs: | |
| download: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Install Nextflow | |
| uses: nf-core/setup-nextflow@v1 | |
| - uses: actions/setup-python@v3 | |
| with: | |
| python-version: "3.7" | |
| architecture: "x64" | |
| - uses: eWaterCycle/setup-singularity@v7 | |
| with: | |
| singularity-version: 3.8.7 | |
| - name: Install dependencies | |
| run: | | |
| python -m pip install --upgrade pip | |
| pip install nf-core | |
| - name: Download the pipeline | |
| env: | |
| NXF_SINGULARITY_CACHEDIR: ./ | |
| run: nf-core download sarek -r dev -c singularity --singularity-cache-copy -x none --force -o test | |
| - name: Run the downloaded pipeline | |
| env: | |
| NXF_SINGULARITY_CACHEDIR: ./ | |
| run: nextflow run test/workflow -profile test,singularity --outdir ./results |