Recommendation Interval length for genomicsdb import

Dear GATK Team

Is there any recommendations for the length of one interval specified in genomicsdb import?
I am running a genomicsdb import for about 50 bam samples (from cattles) for whole length of chromosome 20 (length:72042655) and it takes forever to run and after finished and joinly genotyped it also doesnot really work (progress meter does not run).

I use gatk3 on the same data and it runs without any problems. I inputted all sample gvcf and genotype gvcfs on interval of chromosome 20.


Any helps will be much appreciated.


Sign In or Register to comment.