jamesemery

To add to this ticket. In #7876 we have had to expand the JumboAnnotations to work in the HaplotypeCaller as well. Unfortunately this has created problems since there aren't evidences...

To add another wrinkle to this issue. I found that running the exact same set of 10-way GATK jobs succeeded when i doubled the off-java memory from 1GB to 2GB...

#carrot(GATK HaplotypeCaller Test, VariantCallingCarrot.gatk_docker, )

#carrot(GATK HaplotypeCaller Test, VariantCallingCarrot.gatk_docker, )

#carrot(GATK HaplotypeCaller vs Nightly Test, VariantCallingCarrot.gatk_docker, )

#carrot(GATK HaplotypeCaller vs Nightly Test, VariantCallingCarrot.gatk_docker, )

#carrot(GATK HaplotypeCaller vs Nightly Test, VariantCallingCarrot.gatk_docker, )

#carrot(GATK HaplotypeCaller vs Nightly Test, VariantCallingCarrot.gatk_docker, )

#carrot(GATK HaplotypeCaller vs Nightly Test, VariantCallingCarrot.gatk_docker, )

#carrot(GATK HaplotypeCaller vs Nightly Test, VariantCallingCarrot.gatk_docker, )