Hi
I had a similar problem
For some strange reason freesurfer cant access the Perl library !
and one has to set path for matlab
I work on mac and So this is what I did
source $FREESURFER_HOME/SetUpFreeSurfer.csh
setenv DIR $MNI_DIR
setenv PERL5LIB $DIR
setenv MATLABPATHLGI /Applications/MATLABversion/
setenv PATH "$MATLABPATHLGI/bin:$PATH"
cd mydirectory
setenv SUBJECTS_DIR ${PWD}
recon-all -s subjname -localGI
and this works for me.
all the best,
Raka
--- On Fri, 3/6/09, Gabriel Go.Es. <gabriel...@hotmail.com> wrote:
> From: Gabriel Go.Es. <gabriel...@hotmail.com>
> Subject: [Freesurfer] LGI
> To: "free surfer" <freesurfer@nmr.mgh.harvard.edu>
> Date: Friday, March 6, 2009, 7:00 AM
> Hello
>
>
>
> i'm trying to make a local Gyrification Index (lGI), i
> have image Processing Toolbox instaled...
> and i always recibe the next error message:
>
>
>
> [r...@localhost ~]$ recon-all -s s001 -localGI
> Subject Stamp:
> freesurfer-Linux-centos4_x86_64-stable-pub-v4.2.0
> Current Stamp:
> freesurfer-Linux-centos4_x86_64-stable-pub-v4.2.0
> INFO: SUBJECTS_DIR is /root/trabajo/freesurfer/subjects
> Actual FREESURFER_HOME /root/trabajo/freesurfer
> -rwxr-xr-x 1 root root 2622729 Mar 5 13:57
> /root/trabajo/freesurfer/subjects/s001/scripts/recon-all.log
> Linux localhost.localdomain 2.6.9-34.ELsmp #1 SMP Thu Mar 9
> 06:23:23 GMT 2006 x86_64 x86_64 x86_64 GNU/Linux
> /root/trabajo/freesurfer/subjects/s001/surf
> #--------------------------------------------
> #...@# Local Gyrification Index lh Fri Mar 6 12:43:33 CET
> 2009
>
> mris_compute_lgi --i lh.pial
>
> ERROR: Matlab is required to run mris_compute_lgi!
> Linux localhost.localdomain 2.6.9-34.ELsmp #1 SMP Thu Mar 9
> 06:23:23 GMT 2006 x86_64 x86_64 x86_64 GNU/Linux
>
> recon-all exited with ERRORS at Fri Mar 6 12:43:33 CET
> 2009
>
>
>
> what can i do?
>
>
>
> regards Gabriel
>
> _________________________________________________________________
> Chatea sin límites en Messenger con la tarifa plana de
> Orange
>
> http://serviciosmoviles.es.msn.com/messenger/orange.aspx_______________________________________________
> 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
