Don't require index template file if in count_only mode #51
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| name: Test | |
| on: | |
| push: | |
| branches: [ dev, main ] | |
| pull_request: | |
| branches: [ dev, main ] | |
| env: | |
| NXF_ANSI_LOG: false | |
| jobs: | |
| test: | |
| name: Run pipeline with test data | |
| runs-on: ubuntu-latest | |
| strategy: | |
| matrix: | |
| NXF_VER: | |
| - "latest-everything" | |
| steps: | |
| - name: Check out pipeline code | |
| uses: actions/checkout@v2 | |
| - name: Set up Python 3.11 | |
| uses: actions/setup-python@v3 | |
| with: | |
| python-version: '3.11' | |
| - name: Install Nextflow | |
| uses: nf-core/setup-nextflow@v1 | |
| with: | |
| version: "${{ matrix.NXF_VER }}" | |
| - name: Install Singularity | |
| uses: singularityhub/install-singularity@main | |
| - name: Run pipeline with test data | |
| run: | | |
| cd ${GITHUB_WORKSPACE} | |
| nextflow main.nf -profile test -config .test/test.config |