Dear Douglas N Greve,
Today, I tested the previous group analysis on other computer, and saw the same error massage.
I attached the tested fsgd and mtx files.
command: mri_glmfit --y 052416_lh.Pa_Co_G2V2_dods_sm15.mgh --fsgd 052416_PA_CO_G2V2.fsgd dods --glmdir 052416_lh.Pa_Co_G2V2_dods_sm15.glmdir --cortex --surf fsaverage lh --C 052416_contrast.mtx
Thank you,
Best wishes,
Han
On Mon, May 23, 2016 at 12:56 PM, Douglas N Greve <greve@nmr.mgh.harvard.edu
wrote:
If you seek help with this problem, make sure to send:
- Your command line:
mri_glmfit --y lh.**G2V2.dods_sm15.mgh --fsgd **.fsgd dods --C**G2V2.mtx --surf fsaverage lh --cortex --glmdir lh.**G2V2.dods_sm15.glmdir 2. The FSGD file (if using one) 3. And the design matrix above
On 05/21/2016 04:57 PM, Hanbyul Cho wrote:
Dear FreeSurfer Team,
I processed the Group analysis by FreeSurfer 5.3.0
Our data has two groups (Patient, Control) and two covariate values (age, extra value) mtx, contrast is 1 -1 0 0 0 0 The mris_preproc, and mri_surf2surf command were completed without error.
mris_preproc --fsgd **G2V2.fsgd --target fsaverage --hemi lh --meas thickness --out lh.**G2V2.dods.mgh mri_surf2surf --hemi lh --s fsaverage --sval lh.**G2V2.dods.mgh --fwhm 15 --cortex --tval lh.**G2V2.dods_sm15.mgh mri_glmfit --y lh.**G2V2.dods_sm15.mgh --fsgd **.fsgd dods --C **G2V2.mtx --surf fsaverage lh --cortex --glmdir lh.**G2V2.dods_sm15.glmdir
After mri_glmfit command, I saw the error message.
========================================================= 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. If you seek help with this problem, make sure to send:
- Your command line:
mri_glmfit --y lh.**G2V2.dods_sm15.mgh --fsgd **.fsgd dods --C**G2V2.mtx --surf fsaverage lh --cortex --glmdir lh.**G2V2.dods_sm15.glmdir 2. The FSGD file (if using one) 3. And the design matrix above =========================================================
I think our fsgd and mtx compositions are equal to the g2v2.fsgd which FreeSurfer wiki example. (https://surfer.nmr.mgh.harvard.edu/fswiki/Fsgdf2G2V)
In this situation, how can I correct my fsgd or mtx files? Is there any other command option?
Best Regards,
Han
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