Leo,
I'd like you to try a 'dev' build of mri_glmfit, which I believe has fixed some byte-endian issues that might be the source of your problem.
goto this site:
ftp://surfer.nmr.mgh.harvard.edu/pub/dist
and copy mri_glmfit.gz to your $FREESURFER_HOME/bin, then type:
cd $FREESURFER_HOME/bin mv mri_glmfit mri_glmfit.old gunzip mri_glmfit.gz chmod a+x mri_glmfit
then rerun your mri_glmfit command.
Nick
On Tue, 2007-02-27 at 20:32 -0800, Leonardo Bonilha wrote:
Hi,
I am getting a bus error during a group analysis and I wondered if someone could give me some help.
I am running FreSurfer 3.0.5 on an intel Mac (MacBookPro 2.33Ghz, 3Gb, MacOSX 10.4.8). While going through the steps from the web tutorial (with my own data) I am getting the following message:
After the command: mri_glmfit --y lh.age.thickness.10.mgh --fsgd age_fsgd.txt doss --glmdir lh.age.glmdir --surf average lh --C age.mat
gdfReadHeader: reading age_fsgd.txt INFO: gd2mtx_method is doss Reading source surface /Applications/freesurfer//sub_aging//average/surf/lh.white reading group avg surface area 782 cm^2 from file Reading in average area /Applications/freesurfer//sub_aging//average/surf/lh.white.avg.area.mgh Number of vertices 163842 Number of faces 327680 Total area 67091.234375 AvgVtxArea 0.409487 AvgVtxDist 0.738119 StdVtxDist 0.221868
$Id: mri_glmfit.c,v 1.78.2.7 2007/01/23 21:37:47 greve Exp $ cwd /Applications/freesurfer/sub_aging/stats cmdline mri_glmfit --y lh.age.thickness.10.mgh --fsgd age_fsgd.txt doss --glmdir lh.age.glmdir --surf average lh --C age.mat sysname Darwin hostname Macintosh.local machine i386 user leonardobonilha FixVertexAreaFlag = 1 OneSampleGroupMean 0 y /Applications/freesurfer/sub_aging/stats/lh.age.thickness.10.mgh FSGD age_fsgd.txt glmdir lh.age.glmdir Creating output directory lh.age.glmdir Bus error
Interestingly, I ran the same analysis (with the same data) on another machine (this time a PC running Ubuntu) and it went fine, without any problems.
Thanks for the support
Leo
Leonardo Bonilha MD PhD Research Assistant Professor Dep of Neuropsychiatry and Communication Sciences and Disorders University of South Carolina
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