Your FSGD file appears to have been made under windows or using an editor that is not simple text. The contrast matrix looks ok.
doug On 12/01/2014 02:41 PM, lindsay hanford wrote: > Hello Freesurfer Experts! > > I am encountering the dreaded mri_glmfit error: matrix is > ill-conditioned or badly scaled, condno = 1e+08. I have tried to > troubleshoot how to solve this problem from other inquiries, however, > I still have had no luck. I am trying to run a 4 group 1 variable > analysis: with diagnosis being my variable of interest and trying to > regress out the effects of sex and age. > > 1. Command line: > mri_glmfit --y lh.10.73.SZHC.mgh --fsgd g4v1.73.fsgd dods --C > SZ-HC.intercept.73.mtx --surf fsaverage lh --cortex --glmdir g4v1.73.lh > 2. The FSGD file (if using one) (see attached) > 3. And the design matrix: > 0.5 0.5 -0.5 -0.5 0 0 0 0 (or see attached) > > To the best of my knowledge, all my files are the right format and I > believe I have adequate number of participants per group? > I also tried mean centering my age variable. I had success when I ran > just a two group analysis (diagnosis) not controlling for sex or age, > however, as soon as I try to run four groups, I encounter this error. > I have no idea how to proceed. > > I am looking forward to your response! > Thanks, > > > Lindsay > > -- > Lindsay Hanford, BSc, PhD Candidate > McMaster Integrative Neuroscience Discovery & Study| *Department of > Psychology, Neuroscience & Behaviour * > McMaster University *|* 1280 Main Street West, PC329 Psychology > Building *|* Hamilton, ON, L8S 4L8 > 905 525 9140 x24784***|*lindsay.hanf...@gmail.com > <mailto:lindsay.hanf...@gmail.com> > > > _______________________________________________ > 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 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
