Hi Lauri,

This is fixed in v7.2, but if you want to patch your current freesurfer distribution, you can try these commands:

cd $FREESURFER_HOME/bin

sudo mv fsvglrun fsvglrun.backup

sudo curl -O https://raw.githubusercontent.com/freesurfer/freesurfer/dev/scripts/fsvglrun

sudo chmod +x fsvglrun

Andrew

From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Lauri Tuominen <ljtuom@utu.fi>
Date: Wednesday, August 18, 2021 at 10:42 AM
To: freesurfer@nmr.mgh.harvard.edu <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Issue with tksurfer-sess

        External Email - Use Caution       

Dear Surfers,
I ran into a problem with tksurfer-sess. See below. I have a mac big sur.

I wonder if there is a bug. Any help would be appreciated.
Thank you
Lauri Tuominen

tksurfer-sess -s subj1 -d ../subjects -analysis ftap.sm05.rh -c ftap -freeview
Surface fsaverage rh
Map Surface fsaverage rh
FreeSurferEnv.csh 7.1.1
Darwin Lauris-MacBook-Pro.local 20.6.0 Darwin Kernel Version 20.6.0: Wed Jun 23 00:26:31 PDT 2021; root:xnu-7195.141.2~5/RELEASE_X86_64 x86_64
Wed 18 Aug 2021 10:35:41 EDT
tksurfer: Command not found.

list ftap
con/map ftap /Users/laurituominen/Documents/Learning/Turku_teaching/fMRI_demo/subjects/subj1/bold/ftap.sm05.rh/ftap/sig.nii.gz
maplist /Users/laurituominen/Documents/Learning/Turku_teaching/fMRI_demo/subjects/subj1/bold/ftap.sm05.rh/ftap/sig.nii.gz
mri_concat /Users/laurituominen/Documents/Learning/Turku_teaching/fMRI_demo/subjects/subj1/bold/ftap.sm05.rh/ftap/sig.nii.gz --o /Users/laurituominen/Documents/Learning/Turku_teaching/fMRI_demo/subjects/subj1/bold/ftap.sm05.rh/tksconcat.nii
ninputs = 1
Checking inputs
nframestot = 1
Allocing output
Done allocing
nframes = 1
Writing to /Users/laurituominen/Documents/Learning/Turku_teaching/fMRI_demo/subjects/subj1/bold/ftap.sm05.rh/tksconcat.nii
cd /Users/laurituominen/Documents/Learning/Turku_teaching/fMRI_demo/mkanalysis
setenv SUBJECTS_DIR /Users/laurituominen/Documents/Learning/Turku_teaching/fMRI_demo/SUBJECTS_DIR
tksurferfv fsaverage rh inflated -overlay /Users/laurituominen/Documents/Learning/Turku_teaching/fMRI_demo/subjects/subj1/bold/ftap.sm05.rh/tksconcat.nii -annot aparc -surf white -surf pial -fminmax 2 4

Contrasts
0 ftap


/Applications/7.1.1/freesurfer/bin/fsvglrun: line 20: conditional binary operator expected
/Applications/7.1.1/freesurfer/bin/fsvglrun: line 20: syntax error near `FS_ALLOW_VGLRUN'
/Applications/7.1.1/freesurfer/bin/fsvglrun: line 20: `if [[ ! -v FS_ALLOW_VGLRUN ]]; then'





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