PPJ,

Hi, if you want, you can send me the input files (the two aseg's and the
lta) and i can try to replicate the segfault in a debugger.

also, if you want, there is a beta of the upcoming v5.2 which is posted
here:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/5.2.0-BETA/
which you could try.  hopefully that mri_cc doesnt segfault.

Nick



On Tue, 2012-12-18 at 12:46 -0200, Pedro Paulo de Magalhães Oliveira

Junior wrote:
> I'm having a segfault with mri_cc it's happening sometimes using
> FreeSurfer 5.1
>
>
> Searching the mailing list I saw a similar problem in 2008 but with no
> answers.
>
>
> The relevant portion of recon-all.log:
>
>
>  mri_cc -aseg aseg.auto_noCCseg.mgz -o aseg.auto.mgz
> -lta /usr/local/freesurfer/subjects/c70eb728-c505-46c2-a2a1-1ed409c36ea1/mri/transforms/cc_up.lta c70eb728-c505-46c2-a2a1-1ed409c36ea1
>
>
> will read input aseg from aseg.auto_noCCseg.mgz
> writing aseg with cc labels to aseg.auto.mgz
> will write lta
> as /usr/local/freesurfer/subjects/c70eb728-c505-46c2-a2a1-1ed409c36ea1/mri/transforms/cc_up.lta
> reading aseg
> from /usr/local/freesurfer/subjects/c70eb728-c505-46c2-a2a1-1ed409c36ea1/mri/aseg.auto_noCCseg.mgz
> reading norm
> from /usr/local/freesurfer/subjects/c70eb728-c505-46c2-a2a1-1ed409c36ea1/mri/norm.mgz
> 2358 voxels in left wm, 13846 in right wm, xrange [122, 136]
> searching rotation angles z=[-10  4], y=[-31 -17]
> ^Msearching scale 1 Z rot -9.8  ^Msearching scale 1 Z rot -9.5
>  ^Msearching scale 1 Z rot -9.3  ^Msearching scale 1 Z rot -9.0
>  ^Msearching scale 1 Z rot -8.8  ^Msearching scale 1 Z rot -8.5
>  ^Msearching scale 1 Z rot -8.3  ^Msearching scale 1 Z rot -8.0
>  ^Msearching scale 1 Z rot -7.8  ^Msearching scale 1 Z rot -7.5
>  ^Msearching scale 1 Z rot -7.3  ^Msearching scale 1 Z rot -7.0
>  ^Msearching scale 1 Z rot -6.8  ^Msearching scale 1 Z rot -6.5
>  ^Msearching scale 1 Z rot -6.3  ^Msearching scale 1 Z rot -6.0
>  ^Msearching scale 1 Z rot -5.8  ^Msearching scale 1 Z rot -5.5
>  ^Msearching scale 1 Z rot -5.3  ^Msearching scale 1 Z rot -5.0
>  ^Msearching scale 1 Z rot -4.8  ^Msearching scale 1 Z rot -4.5
>  ^Msearching scale 1 Z rot -4.3  ^Msearching scale 1 Z rot -4.0
>  ^Msearching scale 1 Z rot -3.8  ^Msearching scale 1 Z rot -3.5
>  ^Msearching scale 1 Z rot -3.3  ^Msearching scale 1 Z rot -3.0
>  ^Msearching scale 1 Z rot -2.8  ^Msearching scale 1 Z rot -2.5
>  ^Msearching scale 1 Z rot -2.3  ^Msearching scale 1 Z rot -2.0
>  ^Msearching scale 1 Z rot -1.8
> ^Msearching scale 1 Z rot -1.5  ^Msearching scale 1 Z rot -1.3
>  ^Msearching scale 1 Z rot -1.0  ^Msearching scale 1 Z rot -0.8
>  ^Msearching scale 1 Z rot -0.5  ^Msearching scale 1 Z rot -0.3
>  ^Msearching scale 1 Z rot -0.0  ^Msearching scale 1 Z rot 0.2
>  ^Msearching scale 1 Z rot 0.5  ^Msearching scale 1 Z rot 0.7
>  ^Msearching scale 1 Z rot 1.0  ^Msearching scale 1 Z rot 1.2
>  ^Msearching scale 1 Z rot 1.5  ^Msearching scale 1 Z rot 1.7
>  ^Msearching scale 1 Z rot 2.0  ^Msearching scale 1 Z rot 2.2
>  ^Msearching scale 1 Z rot 2.5  ^Msearching scale 1 Z rot 2.7
>  ^Msearching scale 1 Z rot 3.0  ^Msearching scale 1 Z rot 3.2
>  ^Msearching scale 1 Z rot 3.5  ^Msearching scale 1 Z rot 3.7  global
> minimum found at slice 129.0, rotations (-2.52, -3.27)
> final transformation (x=129.0, yr=-2.521, zr=-3.273):
>  0.997   0.057  -0.044  -2.975;
> -0.057   0.998   0.003  -6.742;
>  0.044  -0.000   0.999  -9.547;
>  0.000   0.000   0.000   1.000;
> Segmentation fault
>
>
> Thanks
>
>
> PPJ
> ---------------------------------------------------------------------
> Pedro Paulo de Magalhães Oliveira Junior
> Netfilter & SpeedComm Telecom
> -- www.netfilter.com.br
> -- For mobile: http://itunes.apple.com/br/artist/netfilter/id365306441
>
>
>
>

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