Hello again,

Sorry, I forgot to include the required info:

john

FREESURFER_HOME: /trumpet/downloads/FreeSurfer/freesurfer

Build stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v4.3.0

RedHat release: Fedora release 10 (Cambridge)

Kernel info: Linux 2.6.27.21-170.2.56.fc10.x86_64 x86_64

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Please include the following additional information in your report:

  1) subject name: convertedfile

  2) the entire command-line executed:
      mris_anatomical_stats -mgz -f ../stats/lh.aparc.stats -b -a
../label/lh.aparc.annot -cf ../label/aparc.annot.ctab convertedfile lh

  3) the error message generated:
      Segmentation fault

  4) optionally include the subject's /script/recon-all.log


On Tue, May 26, 2009 at 2:23 PM, John Drozd <john.dr...@gmail.com> wrote:

> Hello,
>
> I am running the reconall steps individually for a firts try.
>
> I noticed that I get a segmentation fault when I run mris_anatomical_stats
> as whown below:
>
> [jdr...@trumpet mri]$ mris_anatomical_stats -mgz -f
> ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -cf
> ../label/aparc.annot.ctab convertedfile lh
> INFO: assuming MGZ format for
> volumes.
> computing statistics for each annotation in ../label/lh.aparc.annot.
> reading volume
> /trumpet/downloads/FreeSurfer/freesurfer/subjects/buckner_data/tutorial_subjs/convertedfile/mri/wm.mgz...
> reading input surface
> /trumpet/downloads/FreeSurfer/freesurfer/subjects/buckner_data/tutorial_subjs/convertedfile/surf/lh.white...
> reading input pial surface
> /trumpet/downloads/FreeSurfer/freesurfer/subjects/buckner_data/tutorial_subjs/convertedfile/surf/lh.pial...
> reading input white surface
> /trumpet/downloads/FreeSurfer/freesurfer/subjects/buckner_data/tutorial_subjs/convertedfile/surf/lh.white...
> reading colortable from annotation file...
> colortable with 35 entries read (originally
> /space/amaebi/26/users/buckner_cortical_atlas/scripts/colortable_final.txt)
> Saving annotation colortable ../label/aparc.annot.ctab
>
> table columns are:
>     number of vertices
>     total surface area (mm^2)
>     total gray matter volume (mm^3)
>     average cortical thickness +- standard deviation (mm)
>     integrated rectified mean curvature
>     integrated rectified Gaussian curvature
>     folding index
>     intrinsic curvature index
>     structure name
>
> Segmentation fault
>
> john
>
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