External Email - Use Caution Dear Douglas, |
age_sim.mtx
Description: Binary data
CMTX_b.fsgd
Description: Binary data
Thank you once again for your reply and your help. Attached please find the fsgd file (CMTX_b.fsgd) including age row scores and the contrast file. The command line I used is the following: - mri_glmfit --y lh.CMTX_b.thickness.10.mgh --fsgd CMTX_b.fsgd --C Contrasts/age_sim.mtx --surf fsaverage lh --cortex --glmdir lh.CMTX_b_thickness.glmdir The output is the following: georgias-mbp:CMTX georgina$ mri_glmfit --y lh.CMTX_b.thickness.10.mgh --fsgd CMTX_b.fsgd --C Contrasts/age_sim.mtx --surf fsaverage lh --cortex --glmdir lh.CMTX_b_thickness.glmdir gdfRead(): reading CMTX_b.fsgd INFO: DeMeanFlag keyword not found, DeMeaning will NOT be done. Continuous Variable Means (all subjects) 0 age 45.2083 12.1603 Class Means of each Continuous Variable 1 patientmale 38.7778 2 patientfemale 53.0000 3 controlmale 40.1667 4 controlfemale 51.8462 INFO: gd2mtx_method is dods Reading source surface /Users/georgina/Dropbox/UP_TO_DATE/CMTX_STUDY/CMTX/fsaverage/surf/lh.white Number of vertices 163842 Number of faces 327680 Total area 65416.984375 AvgVtxArea 0.399269 AvgVtxDist 0.721953 StdVtxDist 0.195470 $Id: mri_glmfit.c,v 1.241.2.4 2016/12/08 22:02:40 zkaufman Exp $ cwd /Users/georgina/Dropbox/UP_TO_DATE/CMTX_STUDY/CMTX cmdline mri_glmfit.bin --y lh.CMTX_b.thickness.10.mgh --fsgd CMTX_b.fsgd --C Contrasts/age_sim.mtx --surf fsaverage lh --cortex --glmdir lh.CMTX_b_thickness.glmdir sysname Darwin hostname 192.168.1.32 machine x86_64 user georgina FixVertexAreaFlag = 1 UseMaskWithSmoothing 1 OneSampleGroupMean 0 y /Users/georgina/Dropbox/UP_TO_DATE/CMTX_STUDY/CMTX/lh.CMTX_b.thickness.10.mgh logyflag 0 usedti 0 FSGD CMTX_b.fsgd labelmask /Users/georgina/Dropbox/UP_TO_DATE/CMTX_STUDY/CMTX/fsaverage/label/lh.cortex.label maskinv 0 glmdir lh.CMTX_b_thickness.glmdir IllCondOK 0 ReScaleX 1 DoFFx 0 Creating output directory lh.CMTX_b_thickness.glmdir Loading y from /Users/georgina/Dropbox/UP_TO_DATE/CMTX_STUDY/CMTX/lh.CMTX_b.thickness.10.mgh ... done reading. INFO: gd2mtx_method is dods Saving design matrix to lh.CMTX_b_thickness.glmdir/Xg.dat Computing normalized matrix Normalized matrix condition is 160.248 Matrix condition is 182721 Found 149955 points in label. Pruning voxels by thr: 1.175494e-38 Found 148239 voxels in mask Saving mask to lh.CMTX_b_thickness.glmdir/mask.mgh Reshaping mriglm->mask... search space = 73702.448371 ERROR: dimension mismatch between X and contrast Contrasts/age_sim.mtx X has 8 cols, C has 5 cols Please note that an equivalent error appears with grey matter volume and surface area. Thank you once again, Best, Georgina |
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
