Comments (1)
There's not enough information in this report too diagnose the problem. Based on the mention of a Scala IDE I suspect the way it's being run is part of the problem.
Could you please reopen this as an issue on the (GATK help forum)[https://gatk.broadinstitute.org/hc/en-us/community/topics)]?
When you open the new issue could you also include
- The complete command line you ran which gave this error ( or if it was run from within some IDE an explanation of that.)
- What version of GATK you're running
- Some details about the machine you're running on (OS, disk / ram available)
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