Wrong in use Parabrick 4.4.0

[fan724963]

Hi! I have this issue when I use parabricks 4.4.0 . How to slove it ? Thank you
docker run --rm --gpus 0 --volume /data3/fast/caicc/pan_bro/hifi/INPUT_DIR:/1 --volume /data3/fanwy/:/2 --workdir /1 nvcr.io/nvidia/clara/clara-parabricks:4.4.0-1 pbrun minimap2 --ref /1/NHYX.hap1.T2T.fa --in-fq /1/NHYX.hifi.ccs.fq.gz --out-bam /2/1.bam

[Parabricks Options Mesg]: Automatically generating ID prefix
[Parabricks Options Mesg]: Read group created for /1/NHYX.hifi.ccs.fq.gz
[Parabricks Options Mesg]:
@RG\tID:m84075_240924_174306_s1/256969\tLB:lib1\tPL:bar\tSM:sample\tPU:m84075_240924_174306_s1/256969
[PB Info 2024-Nov-21 10:32:49] ------------------------------------------------------------------------------
[PB Info 2024-Nov-21 10:32:49] || Parabricks accelerated Genomics Pipeline ||
[PB Info 2024-Nov-21 10:32:49] || Version 4.4.0-1 ||
[PB Info 2024-Nov-21 10:32:49] || minimap2 ||
[PB Info 2024-Nov-21 10:32:49] ------------------------------------------------------------------------------
terminate called after throwing an instance of ‘std::system_error’
what(): Operation not permitted
[PB Error 2024-Nov-21 10:32:49][-unknown-:0] Received signal: 6
For technical support visit NVIDIA Clara - NVIDIA Docs, exiting.
For technical support visit NVIDIA Clara - NVIDIA Docs
Exiting…
Please visit NVIDIA Clara - NVIDIA Docs for detailed documentation

Could not run minimap2
Exiting pbrun …

[fan724963]

[dpuleri]

Can you confirm that the input files exist and that you have permission to write files in the working directory? You can run the container interactively and confirm that you can read and write files.

[fan724963]

Hello,first thank you for your reply . I update my docker and it seems slove this problem. But I meet new problem.

this is my command：

[gburnett]

Hi @fan724963, are the index files for your reference in the same folder as your reference fasta? This can cause Parabricks to fail sometimes.