Dear Freesurfers,

I have had a problem when running recon-all on your tutorial data (bert). Please find following the content of recon-all.log:

$Id: mris_sphere.c,v 1.47 2007/03/08 18:36:08 greve Exp $

  $Id: mrisurf.c,v 1.557.2.19 2009/08/05 22:10:21 nicks Exp $

MRISread(../surf/lh.inflated): could not open file

No such file or directory

mris_sphere: could not read surface file ../surf/lh.inflated

No such file or directory

Linux freesurfer-virtual 2.6.28-11-generic #42-Ubuntu SMP Fri Apr 17 01:57:59 UTC 2009 i686 GNU/Linux

recon-all exited with ERRORS at Fri Nov 20 17:32:05 EST 2009

I suspected that the problem occurred at “mri_ca_register” and reran it as following:

mri_ca_register -align-after -nobigventricles -mask brainmask.mgz -T transforms/talairach.lta norm.mgz $FREESURFER_HOME/average/RB_all_2007-08-08.gca transforms/talairach.m3z

It said the following at the end of the process and “talairach.m3z” could not be found in dir “transforms/”

…

0621: dt=0.056000, rms=0.414 (0.016%), neg=0, invalid=3625

0622: dt=0.056000, rms=0.414 (0.020%), neg=0, invalid=3625

0623: dt=0.056000, rms=0.414 (0.005%), neg=0, invalid=3625

writing output transformation to transforms/talairach.m3z...

Segmentation fault

Here is what given by “bugr” command:

FREESURFER_HOME: /usr/local/freesurfer

Build stamp: freesurfer-Linux-centos4-stable-pub-v4.5.0

Debian version: 5.0         

Kernel info: Linux 2.6.28-11-generic i686

I am running the VirtualBox Ubuntu version.

I have looked at previous posts but have not been able to figure out an appropriate answer to my problem. Any of your help would be highly appreciated.

Thank you.

Kind regards,

Long