Dear Freesurfer experts
I am trying to process the data of a Longitudinal DTI Study with 2 Timepoints
I have encountered the following error while running the tracula pre-processing:
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-------- freesurfer-Darwin-lion-stable-pub-v5.3.0 -------- Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /Applications/freesurfer/ FSFAST_HOME /Applications/freesurfer//fsfast FSF_OUTPUT_FORMAT nii.gz SUBJECTS_DIR /Users/zenso/Subjects/structural_23VPs FSL_DIR /Applications/fsl MNI_DIR /Applications/freesurfer//mni FSL_DIR /Applications/fsl
[iMac:Subjects] zenso% trac-all -prep -c /Users/zenso/Subjects/Tracula/dmrirc.long.sad Too many )'s.
INFO: SUBJECTS_DIR is /Users/zenso/Subjects/structural_23VPs INFO: Diffusion root is /Users/zenso/Subjects/Tracula
Actual FREESURFER_HOME /Applications/freesurfer
trac-preproc -c /Users/zenso/Subjects/Tracula/1Pre_VP3/scripts/dmrirc.local -log /Users/zenso/Subjects/Tracula/1Pre_VP3/scripts/trac-all.log -cmd /Users/zenso/Subjects/Tracula/2Post_VP3/scripts/trac-all.log -cmd /Users/zenso/Subjects/Tracula/2Post_VP3/scripts/trac-all.cmd ; trac-preproc -c /Users/zenso/Subjects/Tracula/VP3_Base/scripts/dmrirc.local -log /Users/zenso/Subjects/Tracula/VP3_Base/scripts/trac-all.log -cmd /Users/zenso/UZH/MSc/FS2013/Psychologie/Masterarbeit/Subjects/Tracula/VP3_Base/scripts/trac-all.cmd ; ERROR: flag ; unrecognized -c /Users/zenso/Subjects/Tracula/1Pre_VP3/scripts/dmrirc.local -log /Users/zenso/Subjects/Tracula/1Pre_VP3/scripts/trac-all.log -cmd /Users/zenso/Subjects/Tracula/1Pre_VP3/scripts/trac-all.cmd ; trac-preproc -c /Users/zenso/Subjects/Tracula/2Post_VP3/scripts/dmrirc.local -log /Users/zenso/Subjects/Tracula/2Post_VP3/scripts/trac-all.log -cmd /Users/zenso/Subjects/Tracula/2Post_VP3/scripts/trac-all.cmd ; trac-preproc -c /Users/zenso/Subjects/Tracula/VP3_Base/scripts/dmrirc.local -log /Users/zenso/Subjects/Tracula/VP3_Base/scripts/trac-all.log -cmd /Users/zenso/Subjects/Tracula/VP3_Base/scripts/trac-all.cmd ;
Darwin iMac.local 12.3.0 Darwin Kernel Version 12.3.0: Sun Jan 6 22:37:10 PST 2013; root:xnu-2050.22.13~1/RELEASE_X86_64 x86_64
trac-preproc exited with ERRORS at Sa 25 Mai 2013 11:28:57 CEST
IsRunningFile: Undefined variable.
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Please let me know if this is not enough information.
Thanks a lot for your support.
Vivian