not sure what is going wrong. Does it work if you do not include the
--wls cesvar.nii.gz ?
On 6/28/17 12:29 PM, Mcnorgan, Christopher wrote:
Hi,
I’m running a group-level analysis and have encountered an error that
results in a core dump. The first-level analyses were run using the
fsaverage surfaces, rather than self surfaces. I’ve already inspected
the individual contrasts, loading the fsaverage surface in tksurfer
and rendering each subject’s contrast as an overlay, and would now
like to compute the group-level results.
I first ran isxconcat-sess, and saw no errors indicated in the program
output.
mri_glmfit was then called as followed, and produced the following
output (same result for the rh):
$ mri_glmfit --y ces.nii.gz --wls cesvar.nii.gz --osgm --surf
fsaverage lh --glmdir glm.wls --nii.gz
Reading source surface /home/chris/LDT/fsaverage/surf/lh.white
Number of vertices 163842
Number of faces 327680
Total area 65416.648438
AvgVtxArea 0.399267
AvgVtxDist 0.721953
StdVtxDist 0.195470
$Id: mri_glmfit.c,v 1.196.2.8 2012/11/01 18:51:41 greve Exp $
cwd /home/chris/LDT/RFX/LDT_fsaverage.sm4.rh/hi-v-lo
cmdline mri_glmfit --y ces.nii.gz --wls cesvar.nii.gz --osgm
--surf fsaverage lh --glmdir glm.wls --nii.gz
sysname Linux
hostname brocasarea
machine x86_64
user chris
FixVertexAreaFlag = 1
UseMaskWithSmoothing 1
OneSampleGroupMean 1
y /home/chris/LDT/RFX/LDT_fsaverage.sm4.rh/hi-v-lo/ces.nii.gz
logyflag 0
usedti 0
labelmask /home/chris/LDT/fsaverage/label/lh.cortex.label
maskinv 0
glmdir glm.wls
IllCondOK 0
ReScaleX 1
DoFFx 0
wFile cesvar.nii.gz
weightinv 1
weightsqrt 1
Creating output directory glm.wls
Loading y from
/home/chris/LDT/RFX/LDT_fsaverage.sm4.rh/hi-v-lo/ces.nii.gz
Saving design matrix to glm.wls/Xg.dat
Normalized matrix condition is 1
Matrix condition is 1
Found 149955 points in label.
ERROR: mri_reshape: number of elements cannot change
nv1 = 163842, nv1 = 537168
Pruning voxels by thr: 0.000000
Segmentation fault (core dumped)
This seems to have its root in a mismatch between the vertices in the
fsaverage lh.cortex label and those in the contrast data. However, I
carried out subject-level analyses in the fsaverage surface space
specifically to facilitate a group-level analysis in fsaverage surface
space, so I can’t see where I went wrong. The only other post I could
find that was similar was related to an attempt to carry out a group
analysis in native surface space, which is not the case here.
Thanks for your time
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