Clara parabricks fq2bam fails on Terra

Hi all,

I’m trying to run the fq2bam workflow provided in the Clara-Parabricks workspace on the Terra platform but I keep getting this error:

[Parabricks Options Error]: Could not find accessible GPUs. Please make sure the container options enable GPUs

I’m running the workflow exactly as provided and the documentation doesn’t specify needing to enable GPUs separately. Is there something simple I’m missing? Thanks for your help!

-Justin

1 Like

I’m having the same problem. Any known solution to this?

Hello @rhoades1 and @tblewett,

I am in the process of revamping the documentation and upgrading these workflows to Parabricks 4.2. This is a known issue and should be fixed in the next week or so.

Thank you for your patience.

Hi @gburnett,

Any progress on this? I am encountering a similar issue with Parabricks 4.2.0. When using workload managers like HTCondor on my university’s distributed cluster, Parabricks docker containers do not recognize GPUs. nvidia-smi will not even run. This is limited to Parabricks releases after 4.0.1 - swapping the a 4.2.0, 4.1.0 or 4.0.2 tag with 4.0.1 tag resolves the issue completely.

-Joe

Hi @gburnett,

Just wanted to check in and see if there is any update on this. Thanks!