Rna_fq2bam should support --align-only

Healthcare Parabricks
1

Clara version: nvcr.io/nvidia/clara/clara-parabricks:4.1.0-1
When running rna_fq2bam, I am CPU-constrained by the BQSR requirement of having <= CPU cores than NUM_GPUs. This slows down the priority task of RNA alignment with STAR a lot.

Please support --align-only for rna_fq2bam.

2

Hello @acristofaro,

I will report this back as feedback for the engineering team.

Thank you