Add --localcores option to cellranger and spaceranger commands #4
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| name: Womtools check | |
| on: | |
| pull_request: | |
| branches: | |
| - master | |
| jobs: | |
| test: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - name: Checkout code | |
| uses: actions/checkout@v2 | |
| with: | |
| ref: ${{ github.event.pull_request.head.ref }} | |
| repository: ${{ github.repository }} | |
| - name: Set up Java | |
| uses: actions/setup-java@v3 | |
| with: | |
| distribution: 'temurin' | |
| java-version: '21' | |
| - name: Fetch Womtool | |
| run: | | |
| curl -L -o womtool.jar https://github.com/broadinstitute/cromwell/releases/download/87/womtool-87.jar | |
| - name: List modified files | |
| id: diff | |
| run: echo "name=files::$(git diff --name-only ${{ github.event.pull_request.base.sha }} ${{ github.event.pull_request.head.sha }})" >> $GITHUB_OUTPUT | |
| - name: Validate WDL files using Womtool | |
| run: | | |
| for file in ${{ steps.diff.outputs.files }} | |
| do | |
| if [[ $file == *.wdl ]]; then # Assuming you are validating WDL files | |
| echo "Validating $file" | |
| java -jar womtool.jar validate "$file" | |
| fi | |
| done |