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. gabriellbk@hotmail.com wrote:

From: Gabriel Go.Es. gabriellbk@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:

[root@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