Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
problem with IndelRealigner, --disable_bam_indexing, and --nWayOut
Hi, I've run into what appears to be a bug in handling output in IndelRealigner. When specifying --nWayOut everything works, but when I add --disable_bam_indexing, it appears to be expecting --out instead?
##### ERROR A USER ERROR has occurred (version 2.1-13-g1706365): .... ##### ERROR MESSAGE: Value for argument with name '--out' (-o) is missing.
Post edited by Geraldine_VdAuwera on