For WDL questions, see the WDL specification and WDL docs.
For Cromwell questions, see the Cromwell docs and please post any issues on Github.
How to specify an output directory with the Options JSON file?
How can I tell WDL to copy over some of the outputs I'm interested in into a separate directory? I know this requires (i) an
output section at the end of the WORKFLOW and (ii) the OPTIONS JSON file. However, it's not clear to me what needs to go into the OPTIONS JSON file and how to autogenerate it.