Dear Doug
Sorry for late answer.
I did open as: tksurfer qsm1_17 lh inflated, and then File >>load surface >> lh.sphere.reg and tksurfer qsm1_17 lh sphere.reg
Neither of them look bad, it looks very spherical, an has nothing strange to my eyes... Any other ideas???
Best Regards Gabriel
----- Mensaje original ----- De: Bruce Fischl fischl@nmr.mgh.harvard.edu Fecha: Jueves, 6 de Junio de 2013, 6:16 pm Asunto: Re: [Freesurfer] autorecon3 error A: Gabriel Gonzalez Escamilla ggonesc@upo.es CC: freesurfer@nmr.mgh.harvard.edu
Hi Gabriel
seems like something is wrong with that surface file. Can you load the lh.sphere.reg in tksurfer and see if it looks ok? Bruce
On Thu, 6 Jun 2013, Gabriel Gonzalez Escamilla wrote:
Dear Freesurfers
I am running an autorecon3 to the same subject that Rafa sent
you (the name
looks different but is exactly the same subject), with the
command to fix
the ribbon.mgz the autorecon-2 has finished, so I continued with -autorecon3, but now is encountering the following error, this
time seems to
be something with the seg.mgz.
#----------------------------------------- #@# Cortical Parc lh Thu Jun 6 17:01:26 CEST 2013 /root/trabajo/freesurfer/subjects/qsm1_17/scripts
mris_ca_label -l ../label/lh.cortex.label -aseg
../mri/aseg.mgz -seed 1234
qsm1_17 lh
../surf/lh.sphere.reg/root/trabajo/freesurfer/average/lh.curvature.buckner40.filled.desikan_kill>iany.2010-03-25.gcs ../label/lh.aparc.annot
setting seed for random number generator to 1234 using ../mri/aseg.mgz aseg volume to correct midline $Id: mris_ca_label.c,v 1.35 2011/03/02 00:04:27 nicks Exp $ $Id: mrisurf.c,v 1.693.2.2 2011/04/27 19:21:05 nicks Exp $ f[113526]->v[1] = 539832625 - out of range!
reading atlas
from/root/trabajo/freesurfer/average/lh.curvature.buckner40.filled.desikan_kill>iany.2010-03-25.gcs...
reading color table from GCSA file.... average std = 1.0 using min determinant for regularization = 0.011 0 singular and 384 ill-conditioned covariance matrices regularized Linux localhost.localdomain 2.6.9-34.ELsmp #1 SMP Thu Mar 9
06:23:23 GMT
2006 x86_64 x86_64 x86_64 GNU/Linux
recon-all -s qsm1_17 exited with ERRORS at Thu Jun 6 17:01:33
CEST 2013
For more details, see the log file /root/trabajo/freesurfer/subjects/qsm1_17/scripts/recon-all.log To report a problem, see http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
Any ideas how to fix this?
Bests, Gabriel>> _______________________________________________
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<font size="3">--------------------------<br />PhD. student Gabriel González-Escamilla<br />Laboratory of Functional Neuroscience<br />Department of Physiology, Anatomy, and Cell Biology<br />University Pablo de Olavide<br />Ctra. de Utrera, Km.1<br />41013 - Seville<br />- Spain -<br /><br />Email: ggonesc@upo.es<br />http://www.upo.es/neuroaging/es/</font>