your 2nd column is all 0s, which probably means you are missing one of the diagnosis-gender combinations

Toh Hock Wong wrote:

On 10/06/2009, at 9:51 PM, Toh Hock Wong wrote:

...

Hi all, I have reconstructed 12 paediatric subjects aged 4-13 and managed to load qdec as well as generating stats. The factors are age, diagnosis, gender and a continuos factor such as lh temporalpole thickness. When i click analyze, the return is a list of errors as follow.

/UseMaskWithSmoothing// //1///

/OneSampleGroupMean 0///

/y// ///Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/y.mgh///

/logyflag 0///

/usedti// //0///

/FSGD /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/qdec.fsgd///

/labelmask// ///Applications/freesurfer/subjects/fsaverage/label/lh.cortex.label///

/maskinv 0///

/glmdir /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness///

/DoFFx 0///

/Creating output directory /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness///

/Loading y from /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/y.mgh///

/Matrix condition is 1e+08///

/ERROR: matrix is ill-conditioned or badly scaled, condno = 1e+08///

/Possible problem with experimental design:///

/Check for duplicate entries and/or lack of range of///

/continuous variables within a class.///

/1.000// //0.000// //0.000// //0.000// //3.701// //0.000// //0.000// //0.000;///

/ //0.000// //0.000// //1.000// //0.000// //0.000// //0.000// //4.554// //0.000;///

/ //1.000// //0.000// //0.000// //0.000// //4.044// //0.000// //0.000// //0.000;///

/ //0.000// //0.000// //1.000// //0.000// //0.000// //0.000// //4.459// //0.000;///

/ //0.000// //0.000// //1.000// //0.000// //0.000// //0.000// //3.857// //0.000;///

/ //0.000// //0.000// //1.000// //0.000// //0.000// //0.000// //3.537// //0.000;///

/ //0.000// //0.000// //1.000// //0.000// //0.000// //0.000// //3.652// //0.000;///

/ //1.000// //0.000// //0.000// //0.000// //2.870// //0.000// //0.000// //0.000;///

/ //0.000// //0.000// //1.000// //0.000// //0.000// //0.000// //3.736// //0.000;///

/ //0.000// //0.000// //1.000// //0.000// //0.000// //0.000// //3.636// //0.000;///

/ //1.000// //0.000// //0.000// //0.000// //4.102// //0.000// //0.000// //0.000;///

/ //1.000// //0.000// //0.000// //0.000// //3.755// //0.000// //0.000// //0.000;///

/ //0.000// //0.000// //0.000// //1.000// //0.000// //0.000// //0.000// //2.816;///

/ /

/ /

/Error in Analyze: command failed: mri_glmfit --y /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/y.mgh --fsgd /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/qdec.fsgd dods --glmdir /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness --surf fsaverage lh --label /Applications/freesurfer/subjects/fsaverage/label/lh.cortex.label --C /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/contrasts/lh-Avg-Intercept-thickness.mat --C /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/contrasts/lh-Avg-thickness-lh_temporalpole_thickness-Cor.mat --C /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/contrasts/lh-Diff-nonepileptic-epilepsy-Intercept-thickness.mat --C /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/contrasts/lh-Diff-nonepileptic-epilepsy-Cor-thickness-lh_temporalpole_thickness.mat --C /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/contrasts/lh-Diff-Male-Female-Intercept-thickness.mat --C /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/contrasts/lh-Diff-Male-Female-Cor-thickness-lh_temporalpole_thickness.mat --C /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/contrasts/lh-X-diagnosis-gender-Intercept-thickness.mat --C /Applications/freesurfer/subjects/qdec/lh_temporalpole_thickness/contrasts/lh-X-diagnosis-gender-Cor-thickness-lh_temporalpole_thickness.mat/

What do i need to do from here?

Do i have to write a fsgd file/contrast etc? Any suggestions will be most appreciated!

If i wish to use freesurfer for a paediatric group less than 10 years old, what errors or difficulties should i be anticipating?

Thanks! Toh Wong

/ /

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