It looks like the input is a surface and not a volume, but mri_glmfit does not know this, so it interprets it as a volume, and so the neighbor relations need to compute the spatial AR1 are messed up. Try running it with --surf subject hemi, eg, --surf fsaverage lh
doug muet0...@umn.edu wrote: > Hello, > > I am noticing a warning message with mri_glmfit (no voxels in AR1 > computation): > > Fit completed in 0.06015 minutes > Computing spatial AR1 in volume. > fMRIspatialAR1(): hit 0 voxels > WARNING: no voxels in AR1 computation > Residual: ar1mn = (nan,nan,nan) fwhm = (nan,nan,nan) nan > Writing results > mean > maxvox sig=4.90974 F=32.2461 at index 110161 0 0 seed=1257436991 > Gender > maxvox sig=-2.95011 F=14.2207 at index 30454 0 0 seed=1257436991 > Age > maxvox sig=-3.74657 F=20.6006 at index 120417 0 0 seed=1257436991 > mri_glmfit done > > > > We haven't seen this before, and I didn't notice anything on the freesurfer > wiki or email list about it. > > > The analysis I am working on is from the paired analysis section of the > wiki. > > I am using freesurfer version 4.5. > > Here is my fsgd file: > GroupDescriptorFile 1 > Class Main > Variables Gender Age > Input 1038 Main 2 13.5808 > Input 1039 Main 2 13.6986 > Input 1040 Main 2 20.5616 > Input 1041 Main 2 21.2575 > and so on....(also, both males and females are represented equally) > > Here are my contrasts: > Mean > 1 0 0 > Age > 0 0 1 > Gender > 0 1 0 > > and the mri_glmfit command: > > mri_glmfit --glmdir sm15_output --y paired_diff_file.sm15 --C mean.mtx --C > Gender.mtx --C Age.mtx --fsgd fsgd_file > > Should I be concerned about this warning (i.e., am I setting up my analysis > incorrectly)? > > Thank you! > > Best, > Ryan > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
