Error in Analyze: command failed: mri_glmfit --y /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAge Gender/y.mgh --fsgd /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/qdec.fsgd dods --glmdi r /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender --surf fsaverage lh --label /home/spjwke r_PAC/Lena/CT_SA/FSL/fsaverage/label/lh.aparc.label --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_c ovIQAgeGender/contrasts/lh-Avg-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_cov IQAgeGender/contrasts/lh-Diff-HC-Abused-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-are a-AHC_covIQAgeGender/contrasts/lh-Diff-Male-Female-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/ qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-X-Group-Gender-Intercept-area.mat

lh-Avg-Intercept-area ------

Does the average area differ from zero?

Nuisance factors: IQ Age

1.000 1.000 1.000 1.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000;

lh-Diff-HC-Abused-Intercept-area ------

Does the average area, accounting for Gender, differ between HC and Abused?

Nuisance factors: IQ Age

1.000 -1.000 1.000 -1.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000;

lh-Diff-Male-Female-Intercept-area ------

Does the average area, accounting for Group, differ between Male and Female?

Nuisance factors: IQ Age

1.000 1.000 -1.000 -1.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000;

lh-X-Group-Gender-Intercept-area ------

Is there a Group--Gender interaction in the mean area?

Nuisance factors: IQ Age

1.000 -1.000 -1.000 1.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000 0.000;

ninputs = 49

Checking inputs

nframestot = 49

Allocing output

Done allocing

nframes = 49

Writing to /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/y.mgh

gdfReadHeader: reading /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/qdec.fsgd

INFO: DeMeanFlag keyword not found, DeMeaning will NOT be done.

Continuous Variable Means (all subjects)

0 IQ 98.2449 13.5474

1 Age 17.5767 1.92215

Class Means of each Continuous Variable

1 GroupHC-GenderMale 105.1905 17.4486

2 GroupAbused-GenderMale 89.2667 18.2273

3 GroupHC-GenderFemale 106.0000 17.8467

4 GroupAbused-GenderFemale 90.0000 16.3357

INFO: gd2mtx_method is dods

Reading source surface /home/spjwker_PAC/Lena/CT_SA/FSL/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/spjwker_PAC/Lena/CT_SA/FSL

cmdline mri_glmfit --y /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/y.mgh --fsgd /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/qdec.fsgd dods --glmdir /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender --surf fsaverage lh --label /home/spjwker_PAC/Lena/CT_SA/FSL/fsaverage/label/lh.aparc.label --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-Avg-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-Diff-HC-Abused-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-Diff-Male-Female-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-X-Group-Gender-Intercept-area.mat

sysname Linux

hostname nanlnx2.iop.kcl.ac.uk

machine x86_64

user spjwker

FixVertexAreaFlag = 1

UseMaskWithSmoothing 1

OneSampleGroupMean 0

y /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/y.mgh

logyflag 0

usedti 0

FSGD /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/qdec.fsgd

labelmask /home/spjwker_PAC/Lena/CT_SA/FSL/fsaverage/label/lh.aparc.label

maskinv 0

glmdir /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender

IllCondOK 0

ReScaleX 1

DoFFx 0

Creating output directory /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender

Loading y from /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/y.mgh

INFO: gd2mtx_method is dods

Saving design matrix to /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/Xg.dat

Normalized matrix condition is 13602.3

Design matrix ------

1.000 0.000 0.000 0.000 110.000 0.000 0.000 0.000 16.170 0.000 0.000 0.000;

1.000 0.000 0.000 0.000 108.000 0.000 0.000 0.000 16.170 0.000 0.000 0.000;

1.000 0.000 0.000 0.000 118.000 0.000 0.000 0.000 14.500 0.000 0.000 0.000;

1.000 0.000 0.000 0.000 113.000 0.000 0.000 0.000 17.250 0.000 0.000 0.000;

1.000 0.000 0.000 0.000 125.000 0.000 0.000 0.000 17.330 0.000 0.000 0.000;

1.000 0.000 0.000 0.000 102.000 0.000 0.000 0.000 15.420 0.000 0.000 0.000;

0.000 1.000 0.000 0.000 0.000 86.000 0.000 0.000 0.000 19.500 0.000 0.000;

0.000 1.000 0.000 0.000 0.000 93.000 0.000 0.000 0.000 20.830 0.000 0.000;

0.000 0.000 1.000 0.000 0.000 0.000 115.000 0.000 0.000 0.000 16.420 0.000;

0.000 0.000 0.000 1.000 0.000 0.000 0.000 95.000 0.000 0.000 0.000 15.000;

0.000 1.000 0.000 0.000 0.000 107.000 0.000 0.000 0.000 18.080 0.000 0.000;

0.000 0.000 1.000 0.000 0.000 0.000 106.000 0.000 0.000 0.000 16.500 0.000;

0.000 1.000 0.000 0.000 0.000 103.000 0.000 0.000 0.000 18.830 0.000 0.000;

1.000 0.000 0.000 0.000 106.000 0.000 0.000 0.000 19.080 0.000 0.000 0.000;

0.000 1.000 0.000 0.000 0.000 101.000 0.000 0.000 0.000 17.750 0.000 0.000;

0.000 1.000 0.000 0.000 0.000 71.000 0.000 0.000 0.000 18.670 0.000 0.000;

0.000 1.000 0.000 0.000 0.000 110.000 0.000 0.000 0.000 17.750 0.000 0.000;

1.000 0.000 0.000 0.000 106.000 0.000 0.000 0.000 19.080 0.000 0.000 0.000;

1.000 0.000 0.000 0.000 91.000 0.000 0.000 0.000 18.330 0.000 0.000 0.000;

0.000 0.000 0.000 1.000 0.000 0.000 0.000 82.000 0.000 0.000 0.000 17.920;

0.000 0.000 0.000 1.000 0.000 0.000 0.000 80.000 0.000 0.000 0.000 19.670;

0.000 1.000 0.000 0.000 0.000 84.000 0.000 0.000 0.000 18.670 0.000 0.000;

1.000 0.000 0.000 0.000 109.000 0.000 0.000 0.000 16.670 0.000 0.000 0.000;

0.000 1.000 0.000 0.000 0.000 99.000 0.000 0.000 0.000 20.080 0.000 0.000;

0.000 1.000 0.000 0.000 0.000 88.000 0.000 0.000 0.000 13.670 0.000 0.000;

0.000 0.000 0.000 1.000 0.000 0.000 0.000 82.000 0.000 0.000 0.000 15.920;

0.000 1.000 0.000 0.000 0.000 77.000 0.000 0.000 0.000 18.670 0.000 0.000;

0.000 0.000 0.000 1.000 0.000 0.000 0.000 95.000 0.000 0.000 0.000 16.920;

0.000 1.000 0.000 0.000 0.000 73.000 0.000 0.000 0.000 18.080 0.000 0.000;

0.000 1.000 0.000 0.000 0.000 73.000 0.000 0.000 0.000 12.920 0.000 0.000;

0.000 1.000 0.000 0.000 0.000 82.000 0.000 0.000 0.000 20.830 0.000 0.000;

1.000 0.000 0.000 0.000 96.000 0.000 0.000 0.000 16.250 0.000 0.000 0.000;

1.000 0.000 0.000 0.000 119.000 0.000 0.000 0.000 18.250 0.000 0.000 0.000;

0.000 0.000 1.000 0.000 0.000 0.000 94.000 0.000 0.000 0.000 19.830 0.000;

1.000 0.000 0.000 0.000 107.000 0.000 0.000 0.000 15.170 0.000 0.000 0.000;

0.000 0.000 0.000 1.000 0.000 0.000 0.000 115.000 0.000 0.000 0.000 13.500;

1.000 0.000 0.000 0.000 112.000 0.000 0.000 0.000 20.170 0.000 0.000 0.000;

1.000 0.000 0.000 0.000 88.000 0.000 0.000 0.000 18.830 0.000 0.000 0.000;

1.000 0.000 0.000 0.000 82.000 0.000 0.000 0.000 18.250 0.000 0.000 0.000;

0.000 0.000 0.000 1.000 0.000 0.000 0.000 81.000 0.000 0.000 0.000 15.420;

1.000 0.000 0.000 0.000 97.000 0.000 0.000 0.000 17.920 0.000 0.000 0.000;

0.000 1.000 0.000 0.000 0.000 92.000 0.000 0.000 0.000 19.080 0.000 0.000;

1.000 0.000 0.000 0.000 109.000 0.000 0.000 0.000 18.420 0.000 0.000 0.000;

1.000 0.000 0.000 0.000 104.000 0.000 0.000 0.000 19.330 0.000 0.000 0.000;

0.000 0.000 1.000 0.000 0.000 0.000 108.000 0.000 0.000 0.000 18.330 0.000;

1.000 0.000 0.000 0.000 93.000 0.000 0.000 0.000 19.330 0.000 0.000 0.000;

0.000 0.000 1.000 0.000 0.000 0.000 100.000 0.000 0.000 0.000 19.330 0.000;

1.000 0.000 0.000 0.000 114.000 0.000 0.000 0.000 14.500 0.000 0.000 0.000;

0.000 0.000 1.000 0.000 0.000 0.000 113.000 0.000 0.000 0.000 16.670 0.000;

------

ERROR: matrix is ill-conditioned or badly scaled, condno = 13602.3

------

Possible problem with experimental design:

Check for duplicate entries and/or lack of range of

continuous variables within a class.

If you seek help with this problem, make sure to send:

1. Your command line:

mri_glmfit --y /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/y.mgh --fsgd /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/qdec.fsgd dods --glmdir /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender --surf fsaverage lh --label /home/spjwker_PAC/Lena/CT_SA/FSL/fsaverage/label/lh.aparc.label --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-Avg-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-Diff-HC-Abused-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-Diff-Male-Female-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-X-Group-Gender-Intercept-area.mat

2. The FSGD file (if using one)

3. And the design matrix above

Error in Analyze: command failed: mri_glmfit --y /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/y.mgh --fsgd /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/qdec.fsgd dods --glmdir /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender --surf fsaverage lh --label /home/spjwker_PAC/Lena/CT_SA/FSL/fsaverage/label/lh.aparc.label --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-Avg-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-Diff-HC-Abused-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-Diff-Male-Female-Intercept-area.mat --C /home/spjwker_PAC/Lena/CT_SA/FSL/qdec/lh-area-AHC_covIQAgeGender/contrasts/lh-X-Group-Gender-Intercept-area.mat