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Hello,
When trying to run TRACULA on my data I keep getting the following error.
domainname: Command not found.
INFO: SUBJECTS_DIR is /Volumes/DANIEL/freesurfer_Tracy
INFO: Diffusion root is /Volumes/DANIEL/dti_Tracy/trac
Actual FREESURFER_HOME /Applications/freesurfer
INFO: FreeSurfer build stamps do not match
Subject Stamp: freesurfer-darwin-OSX-ElCapitan-dev-20190326-01e71dc
Current Stamp: freesurfer-Darwin-OSX-stable-pub-v6.0.0-2beb96c
INFO: current FREESURFER_HOME does not match that of previous processing.
Current: /Applications/freesurfer
Previous: /Applications/freesurfer_dev
/Volumes/DANIEL/trac-all -c
/Volumes/DANIEL/dti_Tracy/trac/HMN002/scripts/dmrirc.local -log
/Volumes/DANIEL/dti_Tracy/trac/HMN002/scripts/trac-all.log -cmd
/Volumes/DANIEL/dti_Tracy/trac/HMN002/scripts/trac-all.cmd
domainname: Command not found.
ERROR: run list is longer than subject list
I have never had this issue before and have tried multiple options for the
run list from () to (1 2 3) to include a number for every subject. However,
I always get this error.
I wonder if there is some issue with the formatting this go around that
could be causing the issue but I can't find it.
Below is what I have for the initial part of my dmrirc folder.
*# FreeSurfer SUBJECTS_DIR*
*# T1 images and FreeSurfer segmentations are expected to be found here*
*# *
setenv SUBJECTS_DIR /Volumes/DANIEL/freesurfer_Tracy/
*# Output directory where trac-all results will be saved*
*# Default: Same as SUBJECTS_DIR*
*#*
set dtroot = /Volumes/DANIEL/dti_Tracy/trac
*# Subject IDs (one per time point per subject)*
*#*
set subjlist = (HMN002 HMN003 HMN005 HMN006 HMN007 HMN011 HMN014 HMN018
HMN020 HMN021 HMN022 HMN025 HMN029 HMN035 HMN037 HMN039 HMN045 HMN050
HMN055 HMN057 HMN060 HMN064 HMN065 HMN069 HMN072 HMN073 HMN079 HMN085
HMN087 HMN088 HMN095 HMN097 HMN098 HMN099 HMN101 HMN102 HMN103 HMN105
HMN108 HMN110 HMN112 HMN113 HMN115 HMN118 HMN120 HMN121 HMN123 HMN135
HMN141 HMN144 HMN152 HMN156 HMN160 HMN163 HMN175 HMN180 HMN186 HMN187
HMN189 HMN190 HMN191 HMN193 HMN195 HMN196 HMN200 HMN201)
*# Longitudinal base template subject IDs (one for each time point above)*
*#*
set baselist = ()
*# In case you want to analyze only Huey and Louie*
*# Default: Run analysis on all time points and subjects*
*#1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27
28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52
53 54 55 56 57 58 59 60 61 62 63 64 65 66*
set runlist = ()
*# Input diffusion DICOMs (file names relative to dcmroot)*
*# If original DICOMs don't exist, these can be in other image format*
*# but then the gradient table and b-value table must be specified (see
below)*
*#*
set dcmroot = /Volumes/DANIEL/Tracy/HMN_W1
set dcmlist = ( HMN002/image000001.dcm HMN003/image000001.dcm
HMN005/image000001.dcm HMN006/image000001.dcm HMN007/image000001.dcm
HMN011/image000001.dcm HMN014/image000001.dcm HMN018/image000001.dcm
HMN020/image000001.dcm HMN021/image000001.dcm HMN022/image000001.dcm
HMN025/image000001.dcm HMN029/image000001.dcm HMN035/image000001.dcm
HMN037/image000001.dcm HMN039/image000001.dcm HMN045/image000001.dcm
HMN050/image000001.dcm HMN055/image000001.dcm HMN057/image000001.dcm
HMN060/image000001.dcm HMN064/image000001.dcm HMN065/image000001.dcm
HMN069/image000001.dcm HMN072/image000001.dcm HMN073/image000001.dcm
HMN079/image000001.dcm HMN085/image000001.dcm HMN087/image000001.dcm
HMN088/image000001.dcm HMN095/image000001.dcm HMN097/image000001.dcm
HMN098/image000001.dcm HMN099/image000001.dcm HMN101/image000001.dcm
HMN102/image000001.dcm HMN103/image000001.dcm HMN105/image000001.dcm
HMN108/image000001.dcm HMN110/image000001.dcm HMN112/image000001.dcm
HMN113/image000001.dcm HMN115/image000001.dcm HMN118/image000001.dcm
HMN120/image000001.dcm HMN121/image000001.dcm HMN123/image000001.dcm
HMN135/image000001.dcm HMN141/image000001.dcm HMN144/image000001.dcm
HMN152/image000001.dcm HMN156/image000001.dcm HMN160/image000001.dcm
HMN163/image000001.dcm HMN175/image000001.dcm HMN180/image000001.dcm
HMN186/image000001.dcm HMN187/image000001.dcm HMN189/image000001.dcm
HMN190/image000001.dcm HMN191/image000001.dcm HMN193/image000001.dcm
HMN195/image000001.dcm HMN196/image000001.dcm HMN200/image000001.dcm
HMN201/image000001.dc)
Any help debugging the issue would be greatly appreciated!
*Daniel Callow*
*PhD Student, Neuroscience and Cognitive Science*
Exercise for Brain Health Lab
University of Maryland, College Park
*ddcc2...@gmail.com <ddcc2...@gmail.com>*
443-254-6298
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