Hi Dave,

that's a giant defect - about 1/2 of the brain. This means something is dramatically wrong with your recon. Check the lh.orig and/or the filled.mgz to see if the cerebellum or skull is attached. If so, you'll probably have to edit the wm.mgz to remove the connection

cheers Bruce

On Thu, 1 Apr 2010, Dave Brohawn wrote:

Hello,

I ran into a recon-all error during fix topology lh step, and I'm not sure what to do.

The command I ran is:

recon-all -autorecon-all -s 20011 -no-isrunning -notal-check

Here is the error message:

CORRECTING DEFECT 64 (vertices=70874, convex hull=10348) Excessive topologic defect encountered: could not allocate 273534355 edges for retessellation Cannot allocate memory Linux seymour 2.6.18-128.7.1.el5 #1 SMP Mon Aug 24 08:20:55 EDT 2009 i686 i686 i386 GNU/Linux

recon-all exited with ERRORS at Thu Apr 1 03:08:47 EDT 2010

Here is my info.

FREESURFER_HOME: /usr/local/freesurfer/stable4

Build stamp: freesurfer-Linux-centos4-stable-v4.5.0-20100311

RedHat release: CentOS release 5.3 (Final)

Kernel info: Linux 2.6.18-128.7.1.el5 i686

NMR Center info (/space/freesurfer exists):

machine: seymour

SUBJECTS_DIR: /space/seymour/1/users/MTH_Study/

PWD: /space/seymour/1/users/MTH_Study

ssh seymour setenv SUBJECTS_DIR /space/seymour/1/users/MTH_Study/ cd /space/seymour/1/users/MTH_Study

---

Please include the following additional information in your report:

1. subject name
2. the entire command-line executed
3. the error message generated
4. optionally include the subject's /script/recon-all.log

See also: http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting

Can someone help?

Thanks,

Dave Brohawn _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer