Hi Tudor, the lGI stream definitely uses matlab, so that will be a
problem at some point if not now. I would have thought that it would
have reported that it could not find matalb. Marie would know for sure.
doug
On 6/14/13 3:25 AM, Tudor Popescu wrote:
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
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.
