I'm re-sending an old problem, because I received no answer. Cheers, Gabriel
----- Mensaje original ----- De: Gabriel Gonzalez Escamilla <ggon...@upo.es> Fecha: Lunes, 10 de Junio de 2013, 4:56 pm Asunto: Re: [Freesurfer] autorecon3 error A: Bruce Fischl <fis...@nmr.mgh.harvard.edu> CC: freesurfer@nmr.mgh.harvard.edu > 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 <fis...@nmr.mgh.harvard.edu> > Fecha: Jueves, 6 de Junio de 2013, 6:16 pm > Asunto: Re: [Freesurfer] autorecon3 error > A: Gabriel Gonzalez Escamilla <ggon...@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>> _______________________________________________ > > Freesurfer mailing list > > Freesurfer@nmr.mgh.harvard.edu > > 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. > > <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: > ggon...@upo.es<br />http://www.upo.es/neuroaging/es/</font> <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: ggon...@upo.es<br />http://www.upo.es/neuroaging/es/</font>
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