Hi All,
I have processed a batch of subjects using fmriprep:
singularity run --cleanenv ${HOME}/singularity_images/fmriprep-1.2.5.simg \
${data_folder}/trfep/raw ${data_folder}/trfep/processed \
participant \
--participant-label ${file} \
--fs-license-file ${HOME}/license.txt
--low-mem
Most of these have completed successfully, but for a few no /fmfriprep/func
folder has been generated and there is an error in the .html report:
Node Name: _autorecon31
The log for the subject shows the following:
ERROR: loading mri/wmparc.mgz
Linux nanlnx16.iop.kcl.ac.uk 3.10.0-862.14.4.el7.x86_64 #1 SMP Tue Sep 25 14:32:52 CDT 2018 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s sub-TRFEP24A exited with ERRORS at Sat Jan 12 09:42:30 UTC 2019
For more details, see the log file /home/k1201869/dcm/data/trfep/processed/freesurfer/sub-TRFEP24A/scripts/recon-all.log
To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
Standard error:
mv: '/home/k1201869/dcm/data/trfep/processed/freesurfer/sub-TRFEP24A/scripts/recon-all.env' and '/home/k1201869/dcm/data/trfep/processed/freesurfer/sub-TRFEP24A/scripts/recon-all.env.bak' are the same file
Return code: 1
Any advice appreciated
Many thanks
Rob