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a guest Mar 20th, 2019 60 Never
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  1. task heredoc {
  2.   File in
  3.  
  4.   command<<<
  5.   python <<CODE
  6.     with open("${in}") as fp:
  7.       for line in fp:
  8.         if not line.startswith('#'):
  9.           print(line.strip())
  10.   CODE
  11.   >>>
  12. }
  13.  
  14. java -jar wdltool.jar validate myWorkflow.wdl
  15. java -jar wdltool.jar inputs myWorkflow.wdl > myWorkflow_inputs.json
  16. java -jar Cromwell.jar run myWorkflow.wdl --inputs myWorkflow_inputs.json
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