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Hello FreeSurfer experts, I'm attempting to QDEC analysis between a healthy control group and one individual patient in thickness. First time, I had no problem when analyzing it without any variance. However, I got the error when I selected continuous or nuisance factors. I tried my best, but failed to find any solution on FreeSurfer Mail Archive. I've searched the list and no similar errors have been reported. Does anyone have any thoughts on how to trouble-shoot this one? Also, I've attached the log information.
1) FreeSurfer version: freesurfer-Linux-centos6_x86_ 2) Platform: CentOS release 6.7 (Final)
Loading data table /home/gitamen/Study/FCD_Study_ Number of columns: 4 fsid column: 1 Number of factors: 3 Number of subjects: 24
Data table /home/gitamen/Study/FCD_Study_ Verifying subject data........................ Input table: /home/gitamen/Study/FCD_Study_ Subj#, SubjID, Data... 1 NML001 NML 39.000000 1.166685 2 NML002 NML 45.000000 1.241351 3 NML003 NML 39.000000 1.097524 4 NML004 NML 41.000000 1.266187 5 NML005 NML 38.000000 1.241621 6 NML007 NML 34.000000 1.286933 7 NML008 NML 38.000000 1.115885 8 NML009 NML 37.000000 1.252660 9 NML010 NML 32.000000 1.162417 10 NML012 NML 57.000000 1.105987 11 NML013 NML 46.000000 1.084537 12 NML014 NML 28.000000 1.055648 13 NML017 NML 46.000000 1.199341 14 NML018 NML 35.000000 1.001247 15 NML021 NML 52.000000 1.296659 16 NML022 NML 43.000000 1.316231 17 NML023 NML 40.000000 1.260854 18 NML024 NML 55.000000 1.149161 19 NML025 NML 52.000000 1.072912 20 NML026 NML 52.000000 1.295002 21 NML028 NML 35.000000 1.099504 22 NML029 NML 43.000000 0.969897 23 NML030 NML 55.000000 1.228311 24 T1003 FCD 42.000000 1.198920 1 Group discrete 2 1 NML 2 FCD 2 Age continuous 0 3 eTIV continuous 0 Continuous Factors: Mean: StdDev: ------------------- ----- ------- Age 42.667 7.894 eTIV 1.174 0.098
Number of subjects: 24 Number of factors: 3 (1 discrete, 2 continuous) Number of classes: 2 Number of regressors: 6 ============================== Data table loading completed successfully. SUBJECTS_DIR is '/home/gitamen/Study/FCD_ lh-Avg-Intercept-thickness ----------------------- Does the average thickness differ from zero? Nuisance factors: eTIV 1.000 1.000 0.000 0.000;
lh-Diff-NML-FCD-Intercept- Does the average thickness differ between NML and FCD? Nuisance factors: eTIV 1.000 -1.000 0.000 0.000;
ninputs = 24 Checking inputs nframestot = 24 Allocing output Done allocing nframes = 24 Writing to /home/gitamen/Study/FCD_Study_ gdfReadHeader: reading /home/gitamen/Study/FCD_Study_ INFO: DeMeanFlag keyword not found, DeMeaning will NOT be done. Continuous Variable Means (all subjects) 0 eTIV 1.17356 0.0962103 Class Means of each Continuous Variable 1 GroupNML 1.1725 2 GroupFCD 1.1989 INFO: gd2mtx_method is dods Reading source surface /home/gitamen/Study/FCD_Study_ 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/gitamen/Study/FCD_Study_ cmdline mri_glmfit --y /home/gitamen/Study/FCD_Study_ sysname Linux hostname u203.gpu74.samsung.co.kr machine x86_64 user gitamen FixVertexAreaFlag = 1 UseMaskWithSmoothing 1 OneSampleGroupMean 0 y /home/gitamen/Study/FCD_ logyflag 0 usedti 0 FSGD /home/gitamen/Study/FCD_Study_ labelmask /home/gitamen/Study/FCD_ maskinv 0 glmdir /home/gitamen/Study/FCD_Study_ IllCondOK 0 ReScaleX 1 DoFFx 0 Creating output directory /home/gitamen/Study/FCD_Study_ Loading y from /home/gitamen/Study/FCD_Study_ INFO: gd2mtx_method is dods Saving design matrix to /home/gitamen/Study/FCD_Study_ Normalized matrix condition is 1e+08 Design matrix ------------------ 1.000 0.000 1.167 0.000; 1.000 0.000 1.241 0.000; 1.000 0.000 1.098 0.000; 1.000 0.000 1.266 0.000; 1.000 0.000 1.242 0.000; 1.000 0.000 1.287 0.000; 1.000 0.000 1.116 0.000; 1.000 0.000 1.253 0.000; 1.000 0.000 1.162 0.000; 1.000 0.000 1.106 0.000; 1.000 0.000 1.085 0.000; 1.000 0.000 1.056 0.000; 1.000 0.000 1.199 0.000; 1.000 0.000 1.001 0.000; 1.000 0.000 1.297 0.000; 1.000 0.000 1.316 0.000; 1.000 0.000 1.261 0.000; 1.000 0.000 1.149 0.000; 1.000 0.000 1.073 0.000; 1.000 0.000 1.295 0.000; 1.000 0.000 1.100 0.000; 1.000 0.000 0.970 0.000; 1.000 0.000 1.228 0.000; 0.000 1.000 0.000 1.199; ------------------------------ 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 --y /home/gitamen/Study/FCD_Study_ 2. The FSGD file (if using one) 3. And the design matrix above Error in Analyze: command failed: mri_glmfit --y /home/gitamen/Study/FCD_Study_ |