runPALM is failing to generate the volume file. Right and left surface files are generated successfully.
Call:
qunex runPALM \
--image="/gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/BOLD/BOLD.Dense.GBC.SCZ.dtseries.nii" \
--design="name:/gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within|d:dRB.Mean.SCZ|t:t1|eb:ebSCZ" \
--args="n:100|accel:tail|twotail|zstat|demean" \
--root="/gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ" \
--overwrite="yes"
Error:
--> running PALM for CIFTI input
... started running PALM Volume at 2020-05-28 10:39:16, track progress in /gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ_volume.log
... started running PALM Left Surface at 2020-05-28 10:39:16, track progress in /gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ_left_surface.log
... started running PALM Right Surface at 2020-05-28 10:39:16, track progress in /gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ_right_surface.log
... finished running PALM Volume (exit code: 1), log in /gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ_volume.log
... finished running PALM Left Surface (exit code: 0), log in /gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ_left_surface.log
... finished running PALM Right Surface (exit code: 0), log in /gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ_right_surface.log
... DONE
===> ERROR in completing runPALM:
PALM failed
The following PALM calls failed:
- PALM Volume [/gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ_volume.log]
Aborting further processing, please check files and logs!
Volume log file:
/gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ_volume.log
Relevant section of volume log:
Building null distribution.
1% [Design 1/1, Contrast 1/1, Shuffling 1/100, Modality 1/1]
Saving file: /gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ_volume_vox_ztstat
Error using subsasgn>assigndat (/opt/palm/palm-latest-o/fileio/@nifti/subsasgn.m:384)
Unknown filename extension (.SCZ_volume_vox_ztstat).
Error in subsasgn>fun (/opt/palm/palm-latest-o/fileio/@nifti/subsasgn.m:76->subsasgn>assigndat)
Error in subsasgn (/opt/palm/palm-latest-o/fileio/@nifti/subsasgn.m:20->subsasgn>fun)
Error in palm_miscwrite (/opt/palm/palm-latest-o/palm_miscwrite.m:94->subsasgn)
Error in palm_quicksave (/opt/palm/palm-latest-o/palm_quicksave.m:163->palm_miscwrite)
Error in palm_core (/opt/palm/palm-latest-o/palm_core.m:1609->palm_quicksave)
Error in palm (/opt/palm/palm-latest-o/palm.m:81->palm_core)
Left hemisphere log (completed successfully):
/gpfs/project/fas/n3/Studies/BlackThorn/analysis/PRT/2020/PALM/Within/PRT.Within.RB.Mean.SCZ_left_surface.log
Container accessed via:
srun --pty -p pi_anticevic --time=2-00:00:00 --mem=20000 bash -l
singularity run /gpfs/project/fas/n3/software/Singularity/qunex_suite-latest.sif