Can you run mri_glmfit-sim --debug --glmdir [my data dir]/cope7ACroi_rh.osgm.rfx/osgm --cache-label AC --grf 4 neg --cwpvalthresh 0.05 --2space |& tee doug.log
and send me doug.log? On 11/02/2015 05:08 PM, s...@u.washington.edu wrote: > Hi experts, > > I am having trouble performing a Monte Carlo correction using mri_glmfit-sim. > > My data were sampled to fsaverage and smoothed at fwhm 5, using mris_preproc. > I then ran mri_glmfit on the data. > > I want to do my analysis/correction only in auditory cortex (AC) so I did my > own simulation in AC of each hemisphere using mri_mcsim (as per > http://freesurfer.net/fswiki/BuildYourOwnMonteCarlo). > > So far, so good. > > But when I try to run: > > mri_glmfit-sim --glmdir [my data dir]/cope7ACroi_rh.osgm.rfx/osgm > --cache-label AC --grf 4 neg --cwpvalthresh 0.05 --2space > > I get "fwhm: Undefined variable." I tried adding --fwhm-override 5, but it > didn't help. > > Any thoughts? Also, can you clarify which comparison neg vs pos will give me? > > Thank you, > > Susan McLaughlin, PhD > Research Scientist > Laboratory for Auditory Brain Sciences & Neuroengineering > Institute for Learning & Brain Sciences (I-LABS) > Portage Bay Bldg. Room 204 > University of Washington, Box 357988 > Seattle, WA 98195-7988 > > Ph: (206) 616-0102 Fx: (206) 221-6472 > Cell: 206-850-8638 > E-mail: s...@uw.edu > > > _______________________________________________ > 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.
