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UnifiedGenotyper command -o not found

daianagandaianagan Member
edited June 2017 in Ask the GATK team

Hello everyone,
I am running UnifiedGenotyper, which works, it gets to the very end where it says "DONE" and then no file is generated since it says "-o command not found"
I have already tried using an Uppercase O, and also --out, and none of this worked.

Also, many different failed tasks appear, which I am not sure if that may interfere. I am attaching a screenshot.
Any ideas?
Thank you!


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