rd.edu>>
On Behalf Of Lawless, Dylan
Sent: Wednesday, October 11, 2023 10:39 AM
To: Freesurfer support list
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] Error in trac-all prep intra-subject registration:
if: Expression Syntax. brainmask not found.
Ex
ERROR: cannot find $SUBJECTS_DIR/$subjid/mri/$fsvol"
exit 1;
endif
Can you ‘stem2fname
/home/dylan/Documents/TRACULA/INPUTS/BIDS/derivatives/freesurfer/sub-01/mri/brainmask’
from your command line?
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of Lawless, Dylan
Sent: Wednesd
what your FREESURFER_HOME and SUBJECTS_DIR are. What are the
files in
/home/dylan/Documents/TRACULA/INPUTS/BIDS/derivatives/freesurfer/sub-01/mri/?
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of Lawless, Dylan
Sent: Tuesday, October 10, 2023 10:29 AM
To: Freesurfer support list
here doesn’t show which command it was running.
Can you attach the log file?
Best,
Yujing
From: freesurfer-boun...@nmr.mgh.harvard.edu
On Behalf Of Lawless, Dylan
Sent: Tuesday, October 10, 2023 9:52 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject: [Freesurfer] Error in trac-all prep
External Email - Use Caution
Hello,
I am attempting to create a freesurfer v7.2.0 docker container that can run
tracula on the freesurfer outputs, however, I am unable to get past the
intra-subject registration step without receiving the following error:
--s sub-01 --mov
