Re: [Freesurfer] skull strip T2 image in Freesurfer

2011-05-22 Thread Douglas Greve
Do you still have version 4.1 in your path? It looks like it is calling an old version of fslregister. doug On 5/22/11 1:26 AM, Xiaoying Tang wrote: Hi Douglas and Bruce, I have updated my freesurfer version to 5.0.0. But I still have error when I tried to run bbregister. The error informatio

Re: [Freesurfer] skull strip T2 image in Freesurfer

2011-05-22 Thread Xiaoying Tang
Hi Douglas, Thanks for your reply! bbregister succeeded in running now. But I still have another question. You mentioned that "If you have a T1 that you've run through FS".What do you mean by "run through"? I just ran autorecon1 to get the skullstripped T1. Do you mean that I also have to run au

Re: [Freesurfer] skull strip T2 image in Freesurfer

2011-05-22 Thread Bruce Fischl
yes, bbregister uses the surfaces generated by recon-all, so run it through to the end, then use bbregister. cheers Bruce On Sun, 22 May 2011, Xiaoying Tang wrote: > Hi Douglas, > > Thanks for your reply! > > bbregister succeeded in running now. But I still have another question. > > You mentio

Re: [Freesurfer] skull strip T2 image in Freesurfer

2011-05-22 Thread Xiaoying Tang
I see. Thanks a lot. Xiaoying 2011/5/22 Bruce Fischl > yes, bbregister uses the surfaces generated by recon-all, so run it through > to the end, then use bbregister. > > cheers > Bruce > > On Sun, 22 May 2011, Xiaoying Tang wrote: > > Hi Douglas, >> >> Thanks for your reply! >> >> bbregister

[Freesurfer] overlay properties tksurfer window incomplete...

2011-05-22 Thread Gonzalo Rojas Costa
Hi: I have an ubuntu based computer with Freesurfer 5, and it seems that because the font size or the screen resolution, the lowest part of the "Overlay Properties" window in tksurfer didn't appears (Ok and Cancel buttons, for example, etc)... Any solution ?... Sincerely, Gonzalo Roja