External Email - Use Caution
Dear Freesurfer experts,
I get the error that you can find at the end of this message when I am
running mri_glmfit.
Whenever I run an analysis in which the experimental design has more than
12 columns, I get the same error, whereas if the experimental design has
less than 12 columns, the analysis is successful.
I also send you the fsgd.txt file (through FTP File Exchange). In this file
you can see that there are four groups that have been created by the
combination of two discrete variables (sex and apoe-type).
How can I solve this problem?
Thank you in advance.
ERROR MESSAGE:
(...)
Saving design matrix to
/usr/local/freesurfer/subjects/amy_frapsaliva_stats/stats/cortex/cortex_caseageeducfrap/pruebax_frapsalgroup_NEG/lh.fsgd_subj_gauss001/Xg.dat
Computing normalized matrix
Normalized matrix condition is 1e+08
Design matrix ------------------
0.00000 1.00000 0.00000 0.00000 0.00000 0.83619 0.00000
0.00000 0.00000 0.91963 0.00000 0.00000 0.00000 0.79984
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.39700 0.00000
0.00000 0.00000 -0.73337 0.00000 0.00000 0.00000 -0.84287
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.74935 0.00000
0.00000 0.00000 0.91963 0.00000 0.00000 0.00000 -0.82284
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 -1.45403 0.00000 0.00000
0.00000 -0.32012 0.00000 0.00000 0.00000 0.17882 0.00000
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.57318 0.00000
0.00000 0.00000 0.91963 0.00000 0.00000 0.00000 0.33908
0.00000 0.00000;
0.00000 0.00000 1.00000 0.00000 0.00000 0.00000 1.71704
0.00000 0.00000 0.00000 0.09313 0.00000 0.00000 0.00000
-0.02652 0.00000;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
0.66002 0.00000 0.00000 0.00000 -0.11350 0.00000 0.00000
0.00000 0.46929;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
0.48385 0.00000 0.00000 0.00000 -0.94000 0.00000 0.00000
0.00000 1.23055;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
0.83619 0.00000 0.00000 0.00000 -2.38637 0.00000 0.00000
0.00000 -0.90297;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.04466 0.00000
0.00000 0.00000 0.91963 0.00000 0.00000 0.00000 0.28399
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 0.48385 0.00000
0.00000 0.00000 0.91963 0.00000 0.00000 0.00000 0.86996
0.00000 0.00000;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
1.18853 0.00000 0.00000 0.00000 0.91963 0.00000 0.00000
0.00000 0.18883;
0.00000 1.00000 0.00000 0.00000 0.00000 -2.15871 0.00000
0.00000 0.00000 -0.94000 0.00000 0.00000 0.00000 1.53105
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 -1.98254 0.00000 0.00000
0.00000 0.50638 0.00000 0.00000 0.00000 0.73974 0.00000
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -1.45403 0.00000
0.00000 0.00000 0.50638 0.00000 0.00000 0.00000 0.23391
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 0.13151 0.00000
0.00000 0.00000 0.91963 0.00000 0.00000 0.00000 -0.91298
0.00000 0.00000;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
-1.63020 0.00000 0.00000 0.00000 0.09313 0.00000 0.00000
0.00000 0.78982;
0.00000 1.00000 0.00000 0.00000 0.00000 0.66002 0.00000
0.00000 0.00000 -1.55987 0.00000 0.00000 0.00000 -0.15173
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 1.54087 0.00000 0.00000
0.00000 -0.32012 0.00000 0.00000 0.00000 1.28564 0.00000
0.00000 0.00000;
0.00000 0.00000 1.00000 0.00000 0.00000 0.00000 0.30768
0.00000 0.00000 0.00000 -0.94000 0.00000 0.00000 0.00000
-0.76775 0.00000;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
1.71704 0.00000 0.00000 0.00000 0.50638 0.00000 0.00000
0.00000 1.41085;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
0.48385 0.00000 0.00000 0.00000 -0.52675 0.00000 0.00000
0.00000 0.73974;
1.00000 0.00000 0.00000 0.00000 -0.92552 0.00000 0.00000
0.00000 1.53950 0.00000 0.00000 0.00000 -0.76274 0.00000
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 0.66002 0.00000 0.00000
0.00000 0.91963 0.00000 0.00000 0.00000 -0.50731 0.00000
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.39700 0.00000
0.00000 0.00000 -0.94000 0.00000 0.00000 0.00000 -0.93803
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 -0.04466 0.00000 0.00000
0.00000 0.29975 0.00000 0.00000 0.00000 -1.07325 0.00000
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 0.30768 0.00000
0.00000 0.00000 1.74613 0.00000 0.00000 0.00000 -0.46725
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.39700 0.00000
0.00000 0.00000 -0.73337 0.00000 0.00000 0.00000 -1.50396
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 1.01236 0.00000
0.00000 0.00000 0.09313 0.00000 0.00000 0.00000 0.65460
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -1.10169 0.00000
0.00000 0.00000 1.12625 0.00000 0.00000 0.00000 -0.26191
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 1.01236 0.00000
0.00000 0.00000 1.53950 0.00000 0.00000 0.00000 0.05361
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -1.45403 0.00000
0.00000 0.00000 0.71300 0.00000 0.00000 0.00000 -0.77776
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 -0.22083 0.00000 0.00000
0.00000 -0.32012 0.00000 0.00000 0.00000 0.94007 0.00000
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.74935 0.00000
0.00000 0.00000 -0.94000 0.00000 0.00000 0.00000 0.76979
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 1.71704 0.00000
0.00000 0.00000 -1.76650 0.00000 0.00000 0.00000 -3.43214
0.00000 0.00000;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
0.30768 0.00000 0.00000 0.00000 -0.94000 0.00000 0.00000
0.00000 0.60452;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
-0.92552 0.00000 0.00000 0.00000 -0.11350 0.00000 0.00000
0.00000 0.61954;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
-0.22083 0.00000 0.00000 0.00000 0.50638 0.00000 0.00000
0.00000 0.91503;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.39700 0.00000
0.00000 0.00000 -0.32012 0.00000 0.00000 0.00000 -0.16175
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -1.27786 0.00000
0.00000 0.00000 -0.94000 0.00000 0.00000 0.00000 0.80485
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.57318 0.00000
0.00000 0.00000 0.50638 0.00000 0.00000 0.00000 0.21888
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 -0.92552 0.00000 0.00000
0.00000 1.53950 0.00000 0.00000 0.00000 -0.28194 0.00000
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 -0.22083 0.00000 0.00000
0.00000 -0.52675 0.00000 0.00000 0.00000 -0.49229 0.00000
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -1.98254 0.00000
0.00000 0.00000 0.71300 0.00000 0.00000 0.00000 0.69968
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.04466 0.00000
0.00000 0.00000 -0.11350 0.00000 0.00000 0.00000 -0.71766
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 -0.92552 0.00000 0.00000
0.00000 0.91963 0.00000 0.00000 0.00000 -0.55239 0.00000
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 -1.10169 0.00000 0.00000
0.00000 -0.11350 0.00000 0.00000 0.00000 -2.14502 0.00000
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 0.48385 0.00000
0.00000 0.00000 -0.94000 0.00000 0.00000 0.00000 -1.17341
0.00000 0.00000;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
0.48385 0.00000 0.00000 0.00000 0.91963 0.00000 0.00000
0.00000 2.19214;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.92552 0.00000
0.00000 0.00000 0.71300 0.00000 0.00000 0.00000 -1.38877
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.04466 0.00000
0.00000 0.00000 -0.73337 0.00000 0.00000 0.00000 -0.08662
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 1.36470 0.00000
0.00000 0.00000 -1.35325 0.00000 0.00000 0.00000 0.66462
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 1.36470 0.00000
0.00000 0.00000 1.12625 0.00000 0.00000 0.00000 0.71971
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 1.18853 0.00000
0.00000 0.00000 -0.52675 0.00000 0.00000 0.00000 0.58448
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -1.63020 0.00000
0.00000 0.00000 0.50638 0.00000 0.00000 0.00000 0.95009
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.39700 0.00000
0.00000 0.00000 -1.97312 0.00000 0.00000 0.00000 -0.47226
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.39700 0.00000
0.00000 0.00000 -1.14662 0.00000 0.00000 0.00000 -0.45222
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 1.18853 0.00000 0.00000
0.00000 -0.11350 0.00000 0.00000 0.00000 0.12372 0.00000
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 0.30768 0.00000 0.00000
0.00000 -1.35325 0.00000 0.00000 0.00000 -0.26191 0.00000
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 1.18853 0.00000
0.00000 0.00000 -1.35325 0.00000 0.00000 0.00000 -0.12168
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 1.01236 0.00000
0.00000 0.00000 1.53950 0.00000 0.00000 0.00000 0.39417
0.00000 0.00000;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
-1.45403 0.00000 0.00000 0.00000 0.91963 0.00000 0.00000
0.00000 -0.53737;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
0.30768 0.00000 0.00000 0.00000 -0.32012 0.00000 0.00000
0.00000 1.10534;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
1.01236 0.00000 0.00000 0.00000 0.09313 0.00000 0.00000
0.00000 0.46429;
0.00000 1.00000 0.00000 0.00000 0.00000 0.48385 0.00000
0.00000 0.00000 0.09313 0.00000 0.00000 0.00000 0.33908
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 -0.04466 0.00000
0.00000 0.00000 -0.52675 0.00000 0.00000 0.00000 0.32906
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 0.83619 0.00000 0.00000
0.00000 -1.55987 0.00000 0.00000 0.00000 -1.73434 0.00000
0.00000 0.00000;
0.00000 0.00000 0.00000 1.00000 0.00000 0.00000 0.00000
1.01236 0.00000 0.00000 0.00000 1.12625 0.00000 0.00000
0.00000 1.63622;
0.00000 1.00000 0.00000 0.00000 0.00000 0.66002 0.00000
0.00000 0.00000 -0.73337 0.00000 0.00000 0.00000 -0.98310
0.00000 0.00000;
0.00000 1.00000 0.00000 0.00000 0.00000 0.83619 0.00000
0.00000 0.00000 2.36600 0.00000 0.00000 0.00000 -2.40545
0.00000 0.00000;
1.00000 0.00000 0.00000 0.00000 -0.57318 0.00000 0.00000
0.00000 -0.52675 0.00000 0.00000 0.00000 1.24557 0.00000
0.00000 0.00000;
--------------------------------
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:
1. Your command line:
mri_glmfit.bin --surf amy_frapsaliva_average lh --C
/usr/local/freesurfer/subjects/amy_frapsaliva_stats/contrast.mat --fsgd
/usr/local/freesurfer/subjects/amy_frapsaliva_stats/fsgd.txt dods --label
/usr/local/freesurfer/subjects/amy_frapsaliva_average/label/lh.cortex.label
--y
/usr/local/freesurfer/subjects/amy_frapsaliva_stats/lh.fsgd_subj_gauss001.mgh
--no-prune --glmdir
/usr/local/freesurfer/subjects/amy_frapsaliva_stats/stats/cortex/cortex_caseageeducfrap/pruebax_frapsalgroup_NEG/lh.fsgd_subj_gauss001
2. The FSGD file (if using one)
3. And the design matrix above
Attempting to diagnose further
SumSq: Min=0.768203 (col 15), Max=6.706254 (col 10)
... could not determine the cause of the problem
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