I am running a WDL workflow. Here is the output block in the main workflow output { Array[File] out_foos = some_task.foos } Let's say that array had three elements. The output files would then look like this: /path/to/out/out_foos/00/fooA.txt /path/to/out/out_foos/01/fooB.txt /path/to/out/out_foos/02/fooC.txt How do I change it so that the output is less nested so it instead looks like this: /path/to/out/out_foos/fooA.txt /path/to/out/out_foos/fooB.txt /path/to/out/out_foos/fooC.txt My preference is to make this happen with the workflow. I would also be open, however, to just moving the files after the workflow finishes, but this workflow is being submitted to aws with aws omics start-run so it's not clear to me how to do that either Continue reading...
