To celebrate the release of GATK 4.0, we are giving away free credits for running the GATK4 Best Practices pipelines in FireCloud, our secure online analysis portal. It’s first come first serve, so sign up now to claim your free credits worth $250. Sponsored by Google Cloud. Learn more at https://software.broadinstitute.org/firecloud/documentation/freecredits

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!

Answers

Sign In or Register to comment.