External Email - Use Caution Hi FreeSurfers,
I am attempting to run tracula on longitudinal DTI data however during trac-all -prep the process fails because it does not generate lowb_brain_mask.bbr.nii.gz from mri_concat. #------------------------------------- /Applications/freesurfer/7.3.2/bin/trac-preproc #------------------------------------- #@# Intra-subject registration (base template) Mon Nov 13 14:13:56 PST 2023 mri_concat --i /Users/corpuscallosum/Desktop/TRACULA/RRD_Longitudinal/R001A/R001A.long.R001/dlabel/anatorig/aparc+aseg_mask.nii.gz --min --o /Users/corpuscallosum/Desktop/TRACULA/RRD_Longitudinal/R001A/R001/dlabel/anatorig/aparc+aseg_mask.nii.gz ninputs = 1 Checking inputs nframestot = 1 Allocing output Done allocing nframes = 1 Computing min across all frames Writing to /Users/corpuscallosum/Desktop/TRACULA/RRD_Longitudinal/R001A/R001/dlabel/anatorig/aparc+aseg_mask.nii.gz mri_concat --i /Users/corpuscallosum/Desktop/TRACULA/RRD_Longitudinal/R001A/R001A.long.R001/dlabel/anatorig/lowb_brain_mask.bbr.nii.gz --min --o /Users/corpuscallosum/Desktop/TRACULA/RRD_Longitudinal/R001A/R001/dlabel/anatorig/lowb_brain_mask.bbr.nii.gz ninputs = 1 Checking inputs error: niiRead(): error opening file /Users/corpuscallosum/Desktop/TRACULA/RRD_Longitudinal/R001A/R001A.long.R001/dlabel/anatorig/lowb_brain_mask.bbr.nii.gz ERROR: reading /Users/corpuscallosum/Desktop/TRACULA/RRD_Longitudinal/R001A/R001A.long.R001/dlabel/anatorig/lowb_brain_mask.bbr.nii.gz Darwin PSYC-C02DP05D0833.stanford.edu 22.6.0 Darwin Kernel Version 22.6.0: Wed Oct 4 21:25:26 PDT 2023; root:xnu-8796.141.3.701.17~4/RELEASE_X86_64 x86_64 trac-preproc exited with ERRORS at Mon Nov 13 14:13:58 PST 2023 I am using FreeSurfer 7.3.2 on an iMac Pro running Ventura 13.6.1. Any suggestions for how to clear this error would be greatly appreciated! Thank you, Lauren Stephens Lauren Stephens, MS Assistant Clinical Research Coordinator Department of Psychiatry and Behavioral Science Stanford University School of Medicine E: laure...@stanford.edu P: (650)-725-1716
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