dear doug,

i am using FS v5.1 now but ran the 20 oasis subjects through FS v5.0.  i am only having this trouble for one of the subjects.

after the mri_convert workaround i am still getting the same memory allocation error.  

cheers,
@rno



On Fri, Jan 20, 2012 at 4:23 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu> wrote:
This is a strange problem we've been having with some mgz files that were generated during a short period of time last summer when there was a bug in the mgz writing code. What version of FS are you using? In the current dev version, this should not be a problem. A work-around is to convert the orig.mgz to itself using mri_convert in the dev environment, ie,

mri_convert orig.mgz orig.mgz

doug

Arno Klein wrote:

i get the following memory allocation error for only one out of 20 oasis subjects that i processed with freesurfer 5.1 on an ubuntu 11.10 machine with 24gb memory:

mris_register -curv subjects/OAS1_0061_MR1/surf/lh.sphere templates_freesurfer/lh.KKI_2.tif subjects/OAS1_0061_MR1/surf/lh.sphere_to_KKItemplate.reg
using smoothwm curvature for final alignment
$Id: mris_register.c,v 1.59 2011/03/02 00:04:33 nicks Exp $
 $Id: mrisurf.c,v 1.693.2.2 2011/04/27 19:21:05 nicks Exp $
reading surface from subjects/OAS1_0061_MR1/surf/lh.sphere...
TAGskip: tag=1717658469, failed to calloc 1868656640 bytes!
Cannot allocate memory

system information:

FREESURFER_HOME: /usr/local/freesurfer
Build stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0
Debian version: wheezy/sid
Kernel info: Linux 3.0.0-14-generic x86_64

cheers,
@rno

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Douglas N. Greve, Ph.D.
MGH-NMR Center
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