Dear Freesurfer & localGI experts,
I want to compare local GI (gyrification index) between my two groups.
Following the help <https://surfer.nmr.mgh.harvard.edu/fswiki/LGI>, I ran
this command for one of my subjects:
recon-all -s M01 -localGI
but it resulted in the error:
make_outer_surface('/media/math/all38subj/M01/surf/tmp-mris_compute_lgi-lh.pial/lh.pial.filled.mgz',15,'/media/math/all38subj/M01/surf/tmp-mris_compute_lgi-lh.pial/lh.pial-outer');
exit
=================
ERROR:: Too many arguments.
Someone
previously<http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg23414.html>received
this error due to a space in their path, but I don't specify any
path in the above command, and my $SUBJECTS_DIR path doesn't have any
spaces or any other dodgy characters.
I'm running FreeSurfer v5.2 from inside Virtualbux/Ubuntu, so Matlab is not
included in there, although it exists separately on my Windows partition. I
could run recon through FSL, but I don't see any matlab folder there
either. Could Matlab be the problem?
Also, which files/folders will I need to delete after I'll have fixed the
problem, before re-running the recon for all subjects? Or will it just
overwrite any left-overs?
Many thanks in advance for any help!
Tudor
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