The 10mm is what you applied, but data will have an intrinsic smoothness, and the final smoothness is a combo of the two. LGI data tends to start out extremely smooth. I would re-run it without smoothing and see what fwhm you get
doug On 01/08/2013 03:24 PM, Gregory Kirk wrote: > > > > run > mri_glmfit-sim --glmdir lh.lgi.glmdir --cache 2 pos > > get > > cmdline mri_glmfit --y lh.lgi.10.mgh --fsgd lgi.fsgd dods --C CC.mtx --surf > subset_average lh --cortex --glmdir lh.lgi.glmdir > SURFACE: subset_average lh > log file is lh.lgi.glmdir/cache.mri_glmfit-sim.log > > cd /study5/aa-scratch/UTAH/freesurfer_final > /apps/x86_64_sci6/freesurfer-latest/bin/mri_glmfit-sim > --glmdir lh.lgi.glmdir --cache 2 pos > > $Id: mri_glmfit-sim,v 1.36.2.1 2011/03/28 15:46:10 greve Exp $ > Tue Jan 8 14:21:47 CST 2013 > Linux tick.keck.waisman.wisc.edu 2.6.32-279.11.1.el6.x86_64 #1 SMP Tue Oct 16 > 11:16:02 CDT 2012 x86_64 x86_64 x86_64 GNU/Linux > gkirk > setenv SUBJECTS_DIR /study5/aa-scratch/UTAH/freesurfer_final > FREESURFER_HOME /apps/x86_64_sci6/freesurfer-latest > > Original mri_glmfit command line: > cmdline mri_glmfit --y lh.lgi.10.mgh --fsgd lgi.fsgd dods --C CC.mtx --surf > subset_average lh --cortex --glmdir lh.lgi.glmdir > > DoSim = 0 > UseCache = 1 > DoPoll = 0 > DoPBSubmit = 0 > DoBackground = 0 > DiagCluster = 0 > gd2mtx = dods > fwhm = 38.299834 > ERROR: cannot find > /apps/x86_64_sci6/freesurfer-latest/average/mult-comp-cor/subset_average/lh/cortex/fwhm38/pos/th20/mc-z.csd > > > i ran mri_surf2surf with --fwhm 10 > > whats the problem here ? > > thx > > greg > _______________________________________________ > 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: 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.
