Create Jenkinsfile #5
Workflow file for this run
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| name: Nextflow Pipeline Check | |
| on: | |
| push: | |
| branches: | |
| - main | |
| pull_request: | |
| branches: | |
| - main | |
| jobs: | |
| check-nextflow: | |
| runs-on: ubuntu-latest | |
| steps: | |
| # Step 1: Checkout the repository | |
| - name: Checkout code | |
| uses: actions/checkout@v3 | |
| # Step 2: Install Nextflow | |
| - name: Install Nextflow | |
| run: | | |
| if ! command -v nextflow &> /dev/null; then | |
| echo "Nextflow not found, installing..." | |
| curl -s https://get.nextflow.io | bash | |
| sudo mv nextflow /usr/local/bin/ | |
| else | |
| echo "Nextflow already installed" | |
| fi | |
| # Step 4: Run the pipeline | |
| - name: Run pipeline | |
| run: | | |
| nextflow run main.nf -profile conda -params-file params.mm.json |