Open lovelycatZ opened 1 month ago
@lovelycatZ The problem is most likely a mismatch between the version of GATK you're running, and the version of the GCNV kernel installed in your Python environment. Please try running either within the official GATK conda environment distributed with your version of GATK in the gatkcondaenv.yml
file, or within the corresponding docker image at https://hub.docker.com/r/broadinstitute/gatk/.
Hello,
I'm testing gatk4.3 against 3 WES samples. For less time comsuption, I scattered the bed file into 45 small interval list. But an error prompted out in the GermlineCNVCaller step with the err below: