Yes, you can just run /path/to/your/local/copy/mri_glmfit-sim
On 09/09/2014 05:49 PM, Eryilmaz, Huseyin Hamdi wrote: > Hi Doug, > > I don't seem to have the permission to change the contents of that folder. So > I can't really copy it over. Is it possible to run this locally? I'm working > on a linux workstation at Martinos and when I ask the source, it gives me > that folder: > >>> which mri_glmfit-sim > /usr/local/freesurfer/stable5_0_0/bin/mri_glmfit-sim > > > > ________________________________________ > From: freesurfer-boun...@nmr.mgh.harvard.edu > [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve > [gr...@nmr.mgh.harvard.edu] > Sent: Tuesday, September 09, 2014 5:24 PM > To: freesurfer@nmr.mgh.harvard.edu > Subject: Re: [Freesurfer] Monte Carlo Sim output / sig.masked.mgh > > You can just copy it over the old one (but make a backup of it first) > > On 09/09/2014 04:21 PM, Eryilmaz, Huseyin Hamdi wrote: >> Hi Doug, >> >> Thanks for your reply. I can certainly test it. Could you tell me how I can >> run this new 'mri_glmfit-sim' you sent me? The original 'mri_glmfit-sim' >> that I use is under '/usr/local/freesurfer/stable5_0_0/bin/' >> >> Best, >> Hamdi >> >> >> ________________________________________ >> From: freesurfer-boun...@nmr.mgh.harvard.edu >> [freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Douglas N Greve >> [gr...@nmr.mgh.harvard.edu] >> Sent: Monday, September 08, 2014 11:48 AM >> To: freesurfer@nmr.mgh.harvard.edu >> Subject: Re: [Freesurfer] Monte Carlo Sim output / sig.masked.mgh >> >> That was an oversight. I've attached a version that should work. Can you >> test it for me? Once I know it works I'll check it in to tree. >> doug >> >> >> >> >> On 09/03/2014 12:30 PM, Eryilmaz, Huseyin Hamdi wrote: >>> Dear FS experts, >>> >>> I have a question about a MC output file. When I run the MC sim >>> (using mri_glmfit-sim) on the surface, it generates a bunch of files >>> including a 'sig.masked.mgh', which is nice for displaying the >>> significance map limited to the clusters that survive the MC >>> correction. However, when I run it on the volume, it doesn't generate >>> this specific file. Does anyone know the reason for that? Is there an >>> alternative way to display the significance map that show only the >>> clusters that survive the MC correction? >>> >>> Many thanks! >>> Hamdi >>> >>> >>> -- >>> >>> Hamdi Eryilmaz, PhD >>> >>> Massachusetts General Hospital >>> A.A. Martinos Center for Biomedical Imaging >>> Psychiatric Neuroimaging Division >>> 149 13th St, Charlestown, MA 02129 >>> Phone: +1 617 643 7462 >>> Email:heryil...@partners.org <mailto:heryil...@partners.org> >>> >>> >>> _______________________________________________ >>> 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 >> >> > -- > 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 > > _______________________________________________ > 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.
