The system is CentOS release 6.3.
And the package of freesufer is
freesurfer-Linux-centos4_x86_64-stable-pub-v5.1.0.
I wonder whether the version mismatch(centos4 vs.centos6) causes this strange
problem. I think I have to check this.
(As I remember, tksurfer of this version works well in centos5.7)
PS: tkmedit works well with volumetric data. And freeview also works well.
【小孔成像】http://www.conxz.net
From: Bruce Fischl
Date: 2013-06-28 22:29
To: Xiangzhen Kong
CC: freesurfer
Subject: Re: Re: [Freesurfer] tksurfer display problem
it's on the configure overlay window, but it wouldn't cause what you are
showing. I didn't notice this before but your entire color scale bar
(including the text!) is mirror imaged. This is very strange, and probably
explains why it looks like an rh. Can you give us the details of your
environment. I don't have a clue what would cause this. Does the tkmedit
window look correct? Freeview? Make sure that the text is not mirror-imaged
as in this figure you sent
On Fri, 28 Jun 2013, Xiangzhen Kong wrote:
> The image is attached.
> The following cmd is all I did.
> tksurfer fsaverage lh inflated -overlay ./fwhm10lh/c1.contrast/sig.mgh
> And I did not click any button.
>
> I think the image is likely just a mirror image, but I failed to find a
> "invert" button.
> Where is the "invert" button?
>
> Best!
>
> Xiangzhen
>
>
> ____________________________________________________________________________
> 【小孔成像】http://www.conxz.net
>
> From: Bruce Fischl
> Date: 2013-06-28 21:56
> To: Xiangzhen Kong
> CC: freesurfer
> Subject: Re: [Freesurfer] tksurfer display problem
> can you resend the image? You don't have the "invert" button clicked, do
> you?
>
> On Fri, 28 Jun 2013, Xiangzhen Kong wrote:
>
> > Do you mean the threshold?
> > min=2.0
> > max=5.0
> >
> >
> > Thanks!
> >
> >
> > _________________________________________________________________________
> ___
> > 【小孔成像】http://www.conxz.net
> >
> > From: Bruce Fischl
> > Date: 2013-06-28 20:57
> > To: Xiangzhen Kong
> > CC: freesurfer
> > Subject: Re: Re: [Freesurfer] tksurfer display problem
> > sorry, I didn't notice that. What were your min and max set to?
> > On Fri, 28
> > Jun 2013, Xiangzhen Kong wrote:
> >
> > > Thanks very much.
> > > Another problem, do you know why the color bar is inversed in my first
> > > email?
> > > Might it be related to the right-left weird problem?
> > >
> > >
> > > _______________________________________________________________________
> __
> > ___
> > > 【小孔成像】http://www.conxz.net
> > >
> > > From: Bruce Fischl
> > > Date: 2013-06-28 11:18
> > > To: Xiangzhen Kong
> > > CC: freesurfer
> > > Subject: Re: [Freesurfer] tksurfer display problem
> > > There is no config that would do that. Fsaverage is somewhat unique in
?? ?th
> > at
> > > the lh and rh have the same number of vertices. All I can think of is t
> o
> > > download it again and see if that fixes your problem
> > > Bruce
> > >
> > >
> > >
> > > On Jun 27, 2013, at 10:51 PM, "Xiangzhen Kong" <bnu...@gmail.com> wrote
> :
> > >
> > >
> > > Actually when I just use "tksurfer fsaverage lh inflated", there is
> > > the similar problem.
> > > And fsaverage was copied from freesufer by recon-all.
> > > So I think there might be something wrong with using tksurfer, e.g.,
> > > config.
> > >
> > >
> > > _______________________________________________________________________
> __
> > ___
> > > 【小孔成像】http://www.conxz.net
> > >
> > > From: Bruce Fischl
> > > Date: 2013-06-28 10:28
> > > To: Xiangzhen Kong
> > > CC: freesurfer
> > > Subject: Re: [Freesurfer] tksurfer display problem
> > > Are you sure you didn't accidentally copy the rh over lh
> > >
> > >
> > >
> > > On Jun 27, 2013, at 9:31 PM, "Xiangzhen Kong" <bnu...@gmail.com>
> > > wrote:
> > >
> > > Hi all.
> > > I want to display a result with tksurfer. The cmd is here:
> > > tksurfer fsaverage lh inflated -overlay
> > > ./fwhm10lh/c1.contrast/sig.mgh
> > > That is, I want to display the result of the left hemi.
> > > However, to my surprise, the plot seems like on the right hemi
> > > of the brain.
> > > In addition, the color bar is also strange.
> > > The plot is attached.
> > > I wonder whether this is normal or something may be wrong.
> > >
> > >
> > >
> > >
> > > _______________________________________________________________________
> __
> > ___
> > > 【小孔成像】http://www.conxz.net
> > >
> > > <test.jpg>
> > >
> > > _______________________________________________
> > > 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
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> > >
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> >
> >
>
>
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