Update md5sum_checker.wdl #16
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| name: Test workflows | |
| on: [push] | |
| jobs: | |
| build: | |
| runs-on: ubuntu-22.04 | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - uses: actions/setup-python@v4 | |
| with: | |
| python-version: '3.9' | |
| - name: Setup engines | |
| run: | | |
| curl -o requirements.txt "https://raw.githubusercontent.com/dockstore/dockstore/1.13.0-beta.3/dockstore-webservice/src/main/resources/requirements/1.13.0/requirements3.txt" | |
| pip3 install --user -r requirements.txt | |
| - name: Setup CLI | |
| run: | | |
| curl -L -o dockstore https://github.com/dockstore/dockstore/releases/download/1.12.2/dockstore | |
| chmod +x dockstore | |
| mkdir /home/runner/dockstore_bin | |
| mv dockstore /home/runner/dockstore_bin | |
| echo "/home/runner/dockstore_bin" >> $GITHUB_PATH | |
| - name: Prime CLI | |
| run: | | |
| echo "$PATH" | |
| mkdir ~/.dockstore | |
| # we recommend suppressing INFO output for Cromwell, but if you run into a problem | |
| # you may need to change ERROR to INFO to give you hints on how to debug | |
| printf "cromwell-vm-options: -DLOG_LEVEL=ERROR\nserver-url: https://dockstore.org/api" > ~/.dockstore/config | |
| dockstore | |
| - name: Run cwl workflows with CLI | |
| run: | | |
| dockstore --script workflow launch --local-entry checker_workflow_wrapping_workflow.cwl --json md5sum.json | |
| dockstore --script workflow launch --local-entry checker_workflow_wrapping_tool.cwl --json md5sum.json | |
| - name: Run wdl workflow with CLI | |
| run: | | |
| dockstore --script workflow launch --local-entry checker.wdl --json md5sum.wdl.json |