hmmm, if either of you wants to upload a subject that is an example of
this we will track it down and fix it.
cheers
Bruce
On Mon, 30 Nov 2015, Falk Lüsebrink
wrote:
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: freesurfer-boun...@nmr.mgh.harvard.edu
[mailto:freesurfer-boun...@nmr.mgh.harvard.edu] 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
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