Hi Ajay, I ran into the same error processing hires data a while ago using a nightly build of centos 6 with the hires flag only. Disk space or alike wasn't an issue. I ran mris_topo_fixer instead of mris_fix_topology to get working surfaces.
Best, Falk -----Ursprüngliche Nachricht----- Von: [email protected] [mailto:[email protected]] Im Auftrag von Bruce Fischl Gesendet: Sonntag, 29. November 2015 22:48 An: Freesurfer support list Betreff: Re: [Freesurfer] Freesurfer 6.0 - Autorecon2 failure (mris_euler_number) using high res (0.5mm isotropic) T1 image Hi Ajay are you sure you didn't run out of disk space? That error is a sanity check on the surfaces that should never occur cheers Bruce On Sun, 29 Nov 2015, Ajay Kurani wrote: > Hello Freesurfer experts, > I am trying to run Freesurfer 6.0 beta (downloaded 10/15/15 > version) with the -hires flag to process an MNI template image which > is 0.5mm isotropic. Stage 1 ran well and on stage 2 there is an error > during > pocessing: > > Command run: > recon-all -s ICBM -autorecon2 -openmp 8 -3T -hires -expert expert.opts > > I supplied a skull stripped brain which was nu corrected and so I used > the T1.mgz and copied it to brainmask.mgz and nu.mgz in autorecon1 > stage. I then ran autorecon2 and it was working well until I was at > the -fix stage and ran into the following error: > > > Error: > mris_euler_number ./surf/lh.orig > mrisFindNeighbors: ./surf/lh.orig: face[46196].v[0] = 24215, but face > 46196 not in vertex 24215 face list > > > > I am not sure if this is due to the fact that we have a very high > resolution image (template) and if there are any modifications needed > aside from the hires flag. Are there any suggestions you have? > > Thanks, > Ajay > > _______________________________________________ Freesurfer mailing list [email protected] https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
