I am using the class GATKVariantContextUtils in some of my project and I want to add the non-fat jar for GATK for this as a maven dependency. What is the best way to do this? Thanks!
For the utils part it would be just gatk, not gatk-tools-protected.
Did you follow the maven install instructions?
Hi @afrieden, have a look at https://www.broadinstitute.org/gatk/guide/article?id=6214
Hi @Grenaldine_VdAuwera I don't think so, we have tried adding
but that doesn't seem to add the utils part of GATK.