The problem is in the noE4female group. You only have 3 subjects and the zAPOB and thickness are nearly equal and opposite in sign. The correlation between these two regressors exceeds .96. This is probably spurious, but it is killing the design matrix. doug
On 12/02/2013 11:44 AM, Gabriel Gonzalez Escamilla wrote: > There you are! > > Hope it helps > > ----- Mensaje original ----- > De: Douglas N Greve <gr...@nmr.mgh.harvard.edu> > Fecha: Lunes, 2 de Diciembre de 2013, 5:09 pm > Asunto: Re: [Freesurfer] glmfit error on v5.1 > A: freesurfer@nmr.mgh.harvard.edu > > > Can you send the matrix that it creates? > > > > On 12/02/2013 06:09 AM, Gabriel Gonzalez Escamilla wrote: > > > Dear Freesurfer experts, > > > > > > Sorry for the inconvenience but I posted this message last > > week, but I > > > did not receive any answer. I really need to keep going on > > with my > > > analyses. > > > > > > > > > I have runned the following command line: > > > mri_glmfit --surf PLI_MCI_sample7_avg lh --C > > > > > > /root/trabajo/freesurfer/subjects/PLI_MCI_sample7_avg/stats_MRI_PET_Biomarkers/glm_files/contrast_withinE4_neg.mat > > > > > --fsgd > > > > > > /root/trabajo/freesurfer/subjects/PLI_MCI_sample7_avg/stats_MRI_PET_Biomarkers/glm_files/lh.cortex_AVGthickness_APOB_fsgd.txt > > > > > dods --label > > > > > > /root/trabajo/freesurfer/subjects/PLI_MCI_sample7_avg/label/lh.cortex.label > > > > --y > > > > > > /root/trabajo/freesurfer/subjects/PLI_MCI_sample7_avg/stats_MRI_PET_Biomarkers/lh.thickness_s12mm.mgh > > > > > --no-prune --glmdir > > > > > > /root/trabajo/freesurfer/subjects/PLI_MCI_sample7_avg/stats_MRI_PET_Biomarkers/resultsthickness_cortex_s12mm_BiomrkrsWithin/lh.cortex_AVGthickness_APOB_contrast_withinE4_neg/ > > > > > > > > > > > which is always prompts the following error: > > > > > > -------------------------------- > > > ERROR: matrix is ill-conditioned or badly scaled, condno = > > 1.75146e+07> -------------------------------- > > > Possible problem with experimental design > > > > > > > > > I'm sending attached the fsgd.txt and contras.mat files used > > in case > > > you need them > > > > > > > > > Does anyone knows what's wrong with my design? > > > > > > > > > Many thanks in advanced, > > > Gabriel. > > > > > > > > > _______________________________________________ > > > 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. > > > > <font size="3">--------------------------<br />PhD. student Gabriel > González-Escamilla<br />Laboratory of Functional Neuroscience<br > />Department of Physiology, Anatomy, and Cell Biology<br />University > Pablo de Olavide<br />Ctra. de Utrera, Km.1<br />41013 - Seville<br > />- Spain -<br /><br />Email: ggon...@upo.es<br > />http://www.upo.es/neuroaging/es/</font> -- 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
