I am having troubles analyzing some data in the qdec tool. I have two groups of the same subjects that were run with different versions of FS and I have put them in the same SUBJECTS_DIR and smoothed and created an average subject. I have made a qdec.table.dat file and the appropriate .levels files. The qdec.table.dat file seems to load okay but once I try to run an analysis i get the attached error messages.
Any ideas on where this error is coming from? It is stating that the error is coming from a line in text that I don't think exists.
(I have also included the qdec.table.dat)
erorr.log:
mri_glmfit: could not parse 149955th line in /cind/00/FSv4Test/Freesurfer/subjects/average/label/lh.cortex.label
Command print out:
[EMAIL PROTECTED] subjects]$ qdec &
[1] 20069
[EMAIL PROTECTED] subjects]$ Using Freesurfer version 4.
Subjects Directory is /cind/00/FSv4Test/Freesurfer/subjects
Sessions Directory is /home/sky/sessions
Reading /opt/freesurfer4.0.2/lib/tcl/tkUtils.tcl
Using /opt/freesurfer4.0.2/lib/tcl/fsgdfPlot.tcl
Loading data table /cind/00/FSv4Test/Freesurfer/subjects/qdec.table.dat...
Number of columns: 5
fsid column: 1
Number of factors: 4
Number of subjects: 68
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$Id: mri_glmfit.c,v 1.138.2.1 2007/09/12 15:38:19 nicks Exp $
cwd /cind/00/FSv4Test/Freesurfer/subjects
cmdline mri_glmfit --y /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/y.mgh --fsgd /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/qdec.fsgd --glmdir /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version --surf average lh --label /cind/00/FSv4Test/Freesurfer/subjects/average/label/lh.cortex.label --C /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/contrasts/Avg-Intercept-thickness.mat --C /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/contrasts/Diff-v3-v4-Intercept-thickness.mat
sysname Linux
hostname polaris.v21.med.va.gov
machine x86_64
user sky
FixVertexAreaFlag = 1
UseMaskWithSmoothing 1
OneSampleGroupMean 0
y /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/y.mgh
logyflag 0
usedti 0
FSGD /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/qdec.fsgd
labelmask /cind/00/FSv4Test/Freesurfer/subjects/average/label/lh.cortex.label
maskinv 0
glmdir /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version
DoFFx 0
Creating output directory /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version
Loading y from /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/y.mgh
Matrix condition is 1
mri_glmfit: could not parse 149955th line in /cind/00/FSv4Test/Freesurfer/subjects/average/label/lh.cortex.label
ERROR reading /cind/00/FSv4Test/Freesurfer/subjects/average/label/lh.cortex.label
Error in Analyze: command failed: mri_glmfit --y /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/y.mgh --fsgd /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/qdec.fsgd --glmdir /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version --surf average lh --label /cind/00/FSv4Test/Freesurfer/subjects/average/label/lh.cortex.label --C /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/contrasts/Avg-Intercept-thickness.mat --C /cind/00/FSv4Test/Freesurfer/subjects/qdec/lh.thickness.version/contrasts/Diff-v3-v4-Intercept-thickness.mat
Thanks in advance.
Staff Research Associate
CIND, San Francisco VAMC
Department of Radiology, UCSF
4150 Clement St. Bldg. 13, 2nd Floor, Mail Stop 114M
San Francisco, CA 94121
Phone 415.221.4810 ext. 4186
Fax 415.386.3954
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