External Email - Use Caution Hello FreeSurfer Developers,
I'm attempting to compare cortical surface area among three groups while controlling for estimated total intracranial volume (eTIV), as described on the Surface Based Group Analysis tutorial ( https://secure-web.cisco.com/1A0QSPCwnovVVVsFNKDP8OXxiBFqZ78jELzRvCgQt7us3rKayy2caTMVKC0nI4ildx0WJqzN5lLz1i-T5FHTbnyaiJAYj3f4mSQ4YHgEnKgBthfsubdAmofQmb_wxbJARZK70-yJh-Q-zB-SO-qUOdB5mSbQ71p0R-muUphnBpsvIZSn12rCp8u9iFutHnHZiR2SHvMYZrtWgA2qG1HwIVF7eXEz_S43Y9x_BasmQivW7O0E14rKYKn2Hc6i1PPi-krEJ-p90KuI4uEnOqU2T3HEQaZ4yicZdxZVpeFkSkL2Taw7LCrmTuBUijdwzR0I8MhzyhVIWFnyo-WUBgBXiig/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FFsTutorial%2FGroupAnalysisV6.0 I ran the following command: mri_glmfit --y three_group_comparison.area.lh.10.mgh --fsgd three_group_comparison.area.fsgd dods --C three_group_comparison.area.mtx --surf fsaverage lh --cortex --glmdir three_group_comparison.area.lh.glmdir --eres-save Then I got the following error: gdfRead(): reading three_group_comparison.area.fsgd INFO: DeMeanFlag keyword not found, DeMeaning will NOT be done. Continuous Variable Means (all subjects) 0 eTIV 1.53351e+06 139455 Class Size and Means of each Continuous Variable 1 0 42 1566070.5417 2 1 34 1515147.1360 3 2 15 1483959.5000 INFO: gd2mtx_method is dods Reading source surface /media/sjkim/hd2/subject_data/fsaverage/surf/lh.white Number of vertices 163842 Number of faces 327680 Total area 65417.000000 AvgVtxArea 0.399269 AvgVtxDist 0.721953 StdVtxDist 0.195472 7.2.0 cwd /media/sjkim/hd2/subject_data/glm cmdline mri_glmfit --y three_group_comparison.area.lh.10.mgh --fsgd three_group_comparison.area.fsgd dods --C three_group_comparison.area.mtx --surf fsaverage lh --cortex --glmdir three_group_comparison.area.lh.glmdir --eres-save sysname Linux hostname sjkim-System-Product-Name machine x86_64 user sjkim FixVertexAreaFlag = 1 UseMaskWithSmoothing 1 OneSampleGroupMean 0 y /media/sjkim/hd2/subject_data/glm/three_group_comparison.area.lh.10.mgh logyflag 0 usedti 0 FSGD three_group_comparison.area.fsgd labelmask /media/sjkim/hd2/subject_data/fsaverage/label/lh.cortex.label maskinv 0 glmdir three_group_comparison.area.lh.glmdir IllCondOK 0 ReScaleX 1 DoFFx 0 Creating output directory three_group_comparison.area.lh.glmdir Loading y from /media/sjkim/hd2/subject_data/glm/three_group_comparison.area.lh.10.mgh ... done reading. INFO: gd2mtx_method is dods Saving design matrix to three_group_comparison.area.lh.glmdir/Xg.dat Computing normalized matrix Normalized matrix condition is 833.575 Matrix condition is 1e+08 Found 149955 points in label. Pruning voxels by thr: 1.175494e-38 Found 149953 voxels in mask Saving mask to three_group_comparison.area.lh.glmdir/mask.mgh Reshaping mriglm->mask... search space = 74612.059149 DOF = 85 Starting fit and test Fit completed in 0.0373833 minutes Computing spatial AR1 on surface Residual: ar1mn=0.997826, ar1std=0.000886, gstd=8.674183, fwhm=20.426140 Writing results three_group_comparison.area maxvox sig=3.0263 F=7.57212 at index 107440 0 0 seed=1645215319 error: No such file or directory error: MatrixMultiplyD(): m2 is null break /home/rd521/space_freesurfer/build/docker_ubuntu18/trunk/rd521-7.2.0/utils/matrix.cpp:596 I used FreeSurfer version 7.2.0 and Ubuntu 20.04. I've searched the mail archives and similar errors have been reported in qdec, but I could not find any specific solution for this problem. Do you have any suggestions to solve this problem? Thank you in advance, Hyunwoo Jeong
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