Dear all,
I am trying to compute the local gyrification index but unfortunately
encounter the problem below. Matlab Version ( R2007a) and also the Image
Processing Toolbox are installed on my computer (Ubuntu 9.04,32-bit).
I think the matlab isn't rightly called by the script. But the
"make_outer_surface.m" is not a bash command. Here, how does it invoke the
Matlab?
Any help is greatly appreciated!
Best wishes,
/mnt/freesurfer/subjects$ recon-all -s dinghai_4 -localGI
Subject Stamp: freesurfer-Linux-centos4-stable-pub-v4.5.0
Current Stamp: freesurfer-Linux-centos4-stable-pub-v4.5.0
INFO: SUBJECTS_DIR is /mnt/freesurfer/subjects
Actual FREESURFER_HOME /usr/local/freesurfer
-rw-rw-r-- 1 huiguang huiguang 803627 Aug 25 09:44
/mnt/freesurfer/subjects/dinghai_4/scripts/recon-all.log
Linux hhg-linux 2.6.24-19-generic #1 SMP Wed Aug 20 22:56:21 UTC 2008 i686
GNU/Linux
/mnt/freesurfer/subjects/dinghai_4/surf
#--------------------------------------------
#@# Local Gyrification Index lh Tue Aug 25 09:54:08 CST 2009
mris_compute_lgi --i lh.pial
=================
rm -Rf /mnt/freesurfer/subjects/dinghai_4/surf/tmp-mris_compute_lgi-lh.pial
=================
=================
mkdir -p
/mnt/freesurfer/subjects/dinghai_4/surf/tmp-mris_compute_lgi-lh.pial
=================
=================
mris_fill -c -r 1 lh.pial
/mnt/freesurfer/subjects/dinghai_4/surf/tmp-mris_compute_lgi-lh.pial/lh.pial.filled.mgz
=================
reading surface from lh.pial...
writing filled volume to
/mnt/freesurfer/subjects/dinghai_4/surf/tmp-mris_compute_lgi-lh.pial/lh.pial.filled.mgz...
conforming output volume
setting resolution for intermediate calculations to 1.0000
=================
make_outer_surface('/mnt/freesurfer/subjects/dinghai_4/surf/tmp-mris_compute_lgi-lh.pial/lh.pial.filled.mgz',15,'/mnt/freesurfer/subjects/dinghai_4/surf/tmp-mris_compute_lgi-lh.pial/lh.pial-outer');
exit
=================
if: Expression Syntax.
ERROR: make_outer_surface did not create output file
'/mnt/freesurfer/subjects/dinghai_4/surf/tmp-mris_compute_lgi-lh.pial/lh.pial-outer'!
Linux hhg-linux 2.6.24-19-generic #1 SMP Wed Aug 20 22:56:21 UTC 2008 i686
GNU/Linux
recon-all exited with ERRORS at Tue Aug 25 09:54:18 CST 2009
Then I open the matlab ,there is a warning: "Executing startup failed in
matlabrc.',...
'This indicates a potentially serious problem in your MATLAB
setup,',...
'which should be resolved as soon as possible. "
--
Albert
Lab of Complex System and Artificial Intelligence,
Institute of Automation,Chinese Academy of Sciences(CASIA)
Beijing, 100190,P.R.CHINA