Hi Pradeep,
sounds like a bug. Can you overlay the surface defect segmentations and see what defect #3 is? If you edit it a bit this will probably go away. If you tar and gzip the subject dir and send it to us we'll take a look You can also try the alternative (newer) topology correction and see if it works properly. Look at the recon-all help for how to run it
cheers Bruce
On Mon, 2 Mar 2009, Pradeep Reddy Ramana wrote:
Hello FS Team,
I had a question recently regarding an error encountered in the freesurfer recon-all. I believe error is the result of: mris_fix_topology -mgz -sphere qsphere.nofix -ga FirstOrderPoly lh
CORRECTING DEFECT 3 (vertices=10731, convex hull=2557) normal vector of length zero at vertex 90051 with 0 faces vertex 90051 has 0 face No such file or directory
recon-all exited with ERRORS
I will appreciate very much if you can suggest a possible fix or a rerun with some set of flags etc.
The partial log and a previous post by somebody else is here: http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg09492.html
Thanks, Pradeep