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I solved the issue. The solution was that under the workflowTypeVersion, "1.0" would report a the "Unrecognized token" despite a simple HelloWorld.wdl example. Switching the workflowTypeVersion to "draft-2" will parse t…
Thanks, ChrisL. That answers my question. (I also did not realize I could not perform docker in docker via JES.) I'll either try getting Docker to incorporate all the downloaded data into one container. Or I'll just have to have Gemini run outside…
Hi, Geraldine. Gemini accesses the data via an option flag on the command line during installation of the software. The option flag would point to a directory. As it's considered bad practice to load all that data into a Docker, it's suggested to c…
Thanks, Geraldine. Hopefully that support will come about soon. Meanwhile, I think I can get around the issue by mapping the files to intervals, then scattering over a TSV with the files and the intervals.