Hello again,<br><br>Sorry, I forgot to include the required info:<br><br>john<br><br><span class="gI"></span>FREESURFER_HOME: /trumpet/downloads/FreeSurfer/freesurfer<br><br>Build stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v4.3.0<br>
<br>RedHat release: Fedora release 10 (Cambridge)<br><br>Kernel info: Linux 2.6.27.21-170.2.56.fc10.x86_64 x86_64<br><br>---------------------------------------------------------------------<br>Please include the following additional information in your report:<br>
<br>  1) subject name: convertedfile<br><br>  2) the entire command-line executed:<br>      mris_anatomical_stats -mgz -f ../stats/lh.aparc.stats -b -a
../label/lh.aparc.annot -cf ../label/aparc.annot.ctab convertedfile lh<br><br>  3) the error message generated:<br>      Segmentation fault<br><br>  4) optionally include the subject&#39;s /script/recon-all.log<br><br><br>
<div class="gmail_quote">On Tue, May 26, 2009 at 2:23 PM, John Drozd <span dir="ltr">&lt;<a href="mailto:john.drozd@gmail.com">john.drozd@gmail.com</a>&gt;</span> wrote:<br><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
Hello,<br><br>I am running the reconall steps individually for a firts try.<br><br>I noticed that I get a segmentation fault when I run mris_anatomical_stats as whown below:<br><br>[jdrozd@trumpet mri]$ mris_anatomical_stats -mgz -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -cf ../label/aparc.annot.ctab convertedfile lh                          <br>

INFO: assuming MGZ format for volumes.                                                   <br>computing statistics for each annotation in ../label/lh.aparc.annot.<br>reading volume /trumpet/downloads/FreeSurfer/freesurfer/subjects/buckner_data/tutorial_subjs/convertedfile/mri/wm.mgz...<br>

reading input surface /trumpet/downloads/FreeSurfer/freesurfer/subjects/buckner_data/tutorial_subjs/convertedfile/surf/lh.white...<br>reading input pial surface /trumpet/downloads/FreeSurfer/freesurfer/subjects/buckner_data/tutorial_subjs/convertedfile/surf/lh.pial...<br>

reading input white surface /trumpet/downloads/FreeSurfer/freesurfer/subjects/buckner_data/tutorial_subjs/convertedfile/surf/lh.white...<br>reading colortable from annotation file...<br>colortable with 35 entries read (originally /space/amaebi/26/users/buckner_cortical_atlas/scripts/colortable_final.txt)<br>

Saving annotation colortable ../label/aparc.annot.ctab<br><br>table columns are:<br>    number of vertices<br>    total surface area (mm^2)<br>    total gray matter volume (mm^3)<br>    average cortical thickness +- standard deviation (mm)<br>

    integrated rectified mean curvature<br>    integrated rectified Gaussian curvature<br>    folding index<br>    intrinsic curvature index<br>    structure name<br><br>Segmentation fault<br><font color="#888888"><br>john<br>

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