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:
- subject name
- the entire command-line executed
- the error message generated
- 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