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This occurs for each subject that we tested under these new settings.
I'd appreciate any help with figuring out what's going wrong.
I haven't been able to understand what the issue is.
Please let me know if the inclusion of any more information could be helpful.
The text was updated successfully, but these errors were encountered:
Hello,
I'm running the qsiprep-0.15.3 singularity image to reprocess some subjects.
Error is thrown from qsiprep/interfaces/confounds.py.
Here's the qsub call
qsub -cwd -l h_vmem=64.0G,s_vmem=64.0G -l gpu=1 -pe threaded 8 \ -j y -o /cbica/projects/anxiousMisery/qsiprep_work_dirs/postQC_reruns/qsiprep_${sub}_\$JOB_ID.o \ run_qsiprep.sh \ ${data_root} ${sub} /cbica/projects/anxiousMisery/qsiprep_work_dirs/postQC_reruns/qsiprep_${sub}_\$JOB_ID
Here's the script run_qsiprep.sh that's being submitted
data_root=${1}
sub=${2}
workdir=${3}
img=/software/singularity/qsiprep-0.15.3.sif
fs_license=/software/freesurfer/license.txt
niidir=/data/raw
outdir=/data/derivatives/postQC_reruns/qsiprep
sliceInfo=/cbica/projects/anxiousMisery/data/slspec/slspec.txt
cudaInfo=/usr/local/cuda-10.2
singularity run --nv --cleanenv \ -B ${data_root}:/data,${sliceInfo}:/data/slspec/slspec.txt,${cudaInfo}:/usr/local/cuda \ ${img} ${niidir} ${outdir} participant \ --fs-license-file ${fs_license} --notrack \ --nthreads 8 --omp-nthreads 8 \ -w ${workdir} --skip_bids_validation \ --verbose --eddy-config eddy_params_prisma_cuda.json \ --participant-label ${sub} --mem-mb 58000 \ --distortion-group-merge concat --output-resolution 1.5
No issues are encountered until the confounds are concatenated.
Here's the crash report :
crash-20220322-151218-anxiousmisery-concat-4fae89d2-9994-4961-a873-26f6b136a459.txt
This occurs for each subject that we tested under these new settings.
I'd appreciate any help with figuring out what's going wrong.
I haven't been able to understand what the issue is.
Please let me know if the inclusion of any more information could be helpful.
The text was updated successfully, but these errors were encountered: