Bamsort Failed with "AttributeError"

Healthcare & Life Sciences Parabricks
1

It failed when run bamsort.

image
image1136×257 12.4 KB

The cmd used:
pbrun bamsort --ref fix_WYDT04_HiFiasm_genome.fa --in-bam DY90_rmdup.bam --out-bam output.bam --sort-order coordinate

PS: haplotypecaller , deepvariant , rna_gatk , etc. can be run correctly.

Thanks for any advice.

2

Hey @lkuang,

I was just able to replicate your error. I am submitting a bug to our engineering team.

Thank you for your patience.

1 Like
3

Hi @gburnett, Does this issue also exist in PB3.8?

4

Hi, @gburnett What is the status of this bug.

5

Hey @lkuang ,

This is fixed in the latest version of Parabricks 3.8.1. You should be able to download it from the trial portal.

Thanks!

1 Like