Hi Xiangzhen, that is something I have never seen before. I don't think it is a problem with freesurfer, and there is no button that will fix it. I think it must be something in your environment. What are the details of your platform? doug
On 06/28/2013 10:18 AM, 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 <mailto:fis...@nmr.mgh.harvard.edu> > *Date:* 2013-06-28 21:56 > *To:* Xiangzhen Kong <mailto:bnu...@gmail.com> > *CC:* freesurfer <mailto:freesurfer@nmr.mgh.harvard.edu> > *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 to > > > 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 > > > 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. > > > > > > _______________________________________________ > > > 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
