Purpose :

This WDL workflowi runs a generic command

Requirements/expectations :

• A command to execute
• An array of input files
• An output directory used in the command, should not be current working directory
  • Example: /outputs/

Output :

• An array of output files generated by command

Software version notes :

• Cromwell version support
  • Successfully tested on v36
  • Does not work on versions < v23 due to output syntax

Important Notes :

• Runtime parameters are optimized for Broad's Google Cloud Platform implementation.
• For help running workflows on the Google Cloud Platform or locally please view the following tutorial (How to) Execute Workflows from the gatk-workflows Git Organization.

Contact Us :

• The following material is provided by the Data Science Platforum group at the Broad Institute. Please direct any questions or concerns to one of our forum sites : GATK or Terra.

LICENSING :

Copyright Broad Institute, 2020 | BSD-3

This script is released under the WDL open source code license (BSD-3) (full license text at https://github.com/openwdl/wdl/blob/master/LICENSE). Note however that the programs it calls may be subject to different licenses. Users are responsible for checking that they are authorized to run all programs before running this script.