Guys,
I am having trouble getting volumes/surfaces to show when I use the command line to try to bring them up. Prior, I was just using the csurf interface to bring up all my volumes, but now that I've make my first final surface I'm trying to get the pial surface using the command line.
I type in... tksurfer </up/to/the/directory/before/mri, surf, tmp, scripts, etc> lh pial (or others, they all dont work)
and i get this error every time... tksurfer: error while loading shared libraries: libglut.so.3: cannot open shared object file: No such file or directory
it does the same thing when i try to open something with tkmedit...any ideas on what the problem is?
Dave
David A. Soscia Neurosciences Advanced Imaging Research Center 47 New Scotland Ave. Albany, NY 12208-3479 Building S Rm. 132 P- (518)-262-0826 C- (518)-469-8317 sosciad@mail.amc.edu
Does it still work with csurf?
Do you have libglut installed? If so, find libglut.so and make sure that there's a link from libglut.so.3 to it.
On Tue, 2 Aug 2005, David Soscia wrote:
Guys,
I am having trouble getting volumes/surfaces to show when I use the command line to try to bring them up. Prior, I was just using the csurf interface to bring up all my volumes, but now that I've make my first final surface I'm trying to get the pial surface using the command line.
I type in... tksurfer </up/to/the/directory/before/mri, surf, tmp, scripts, etc> lh pial (or others, they all dont work)
and i get this error every time... tksurfer: error while loading shared libraries: libglut.so.3: cannot open shared object file: No such file or directory
it does the same thing when i try to open something with tkmedit...any ideas on what the problem is?
Dave
David A. Soscia Neurosciences Advanced Imaging Research Center 47 New Scotland Ave. Albany, NY 12208-3479 Building S Rm. 132 P- (518)-262-0826 C- (518)-469-8317 sosciad@mail.amc.edu _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hi All, It seems that my talairach transforms are still suspect, FOF values falling between the 13-.17 range. I've tried Xiao Han's suggestion to skull strip first, but it the final objective function value is still high. Once the transform is applied on the image in native space, it does look a little blurry and jagged, like the resolution has changed. Any ideas or insight of what the problem may be?
Thanks! Tracy
Tracy Wang Research Assistant Cognitive Neuroscience Laboratory
Washington University Department of Psychology, Campus Box 1125 One Brookings Drive St. Louis MO 63130-4899 314-935-5019 twang@artsci.wustl.edu
Hi Tracy,
I don't know what the problem could be, but you can always by-pass the automatic talairaching with manual with tkregister2. When you run recon-all just make sure to include -notalairach as the last option.
doug
Tracy Wang wrote:
Hi All, It seems that my talairach transforms are still suspect, FOF values falling between the 13-.17 range. I've tried Xiao Han's suggestion to skull strip first, but it the final objective function value is still high. Once the transform is applied on the image in native space, it does look a little blurry and jagged, like the resolution has changed. Any ideas or insight of what the problem may be?
Thanks! Tracy
Tracy Wang Research Assistant Cognitive Neuroscience Laboratory
Washington University Department of Psychology, Campus Box 1125 One Brookings Drive St. Louis MO 63130-4899 314-935-5019 twang@artsci.wustl.edu
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
the final objective function value is not a great indicator of failure of the talairaching procedure. it's a better indicator of success. if it is low(<.1), you can be confident it is correct. if it is high, that does not mean it is incorrect, but that you should check it. certain brains (with large ventricles) will have higher final objective functions.
you will have to look at your talairach transforms to be sure they are accurate. use tkregister2 as it shows in the documentation to check/fix it.
thanks, brian
On Tue, 2 Aug 2005, Tracy Wang wrote:
Hi All, It seems that my talairach transforms are still suspect, FOF values falling between the 13-.17 range. I've tried Xiao Han's suggestion to skull strip first, but it the final objective function value is still high. Once the transform is applied on the image in native space, it does look a little blurry and jagged, like the resolution has changed. Any ideas or insight of what the problem may be?
Thanks! Tracy
Tracy Wang Research Assistant Cognitive Neuroscience Laboratory
Washington University Department of Psychology, Campus Box 1125 One Brookings Drive St. Louis MO 63130-4899 314-935-5019 twang@artsci.wustl.edu
freesurfer@nmr.mgh.harvard.edu
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Brian T. Quinn -
David Soscia -
Doug Greve -
Kevin Teich -
Tracy Wang