Re: [Freesurfer] 'Invalid' license file

Hi Zeke, Thanks for you reply. It's great to hear about the release of version 6. Could you give a more specific timepoint for the new release? I may prefer the new one. And thanks for the solution for the version 5.3. If the new version may take more time, I'll try this one first. Thanks. Best

Re: [Freesurfer] 'Invalid' license file

Hi, I have a similar problem. My opensuse version is 13.2. Could you help how to sovle this invilad license problem? Thanks. Best, Xiangzhen On Tue, Aug 16, 2016 at 3:05 PM, wrote: > Hello Lee, > > Opensuse platforms versions greater than 12.1 are not compatible with the > FreeSurfer licensin

[Freesurfer] Invalid FreeSurfer license key problem

I used tksurfer, something was printed out. "ERROR: Invalid FreeSurfer license key found in license file x/freesurfer/license.txt" Please help. Thanks, Xiangzhen -- - Kong Xiangzhen State Ke

[Freesurfer] Get thickness of one peak vertex for a group subject

Hi, all. Is there any FS tool for extracting the thickness value of a peak vertex ? From glmfit, I have got the vertex index of the peak. Thanks. Best, Xiang-zhen 【小孔成像】http://www.conxz.net___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu h

Re: [Freesurfer] tksurfer display problem

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 wou

Re: [Freesurfer] tksurfer display problem

n? 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, Xi

Re: [Freesurfer] tksurfer display problem

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

Re: [Freesurfer] tksurfer display problem

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

Re: [Freesurfer] tksurfer display problem

6-28 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" wrote: Hi all. I want to display a result with tksurfer. The cmd is here: tksur

[Freesurfer] tksurfer display problem

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

[Freesurfer] mri_glmfit & .nii.gz & FSF_OUTPUT_FORMAT

Hi, all. I have come across a problem when using mri_glmfit. We know that the output format is controlled by the $FSF_OUTPUT_FORMAT. I have checked that in my environment, $FSF_OUTPUT_FORMAT is nii.gz. But the output fils are all in mgh format. How can I get output files in nii.gz? Thanks! Xian

Re: [Freesurfer] 回复: Re: /path/to/dmri/dwi_orig_flip.mghdti.bvecs': No such file or directory

Thanks for your rapid reply . best! Xiangzhen Kong 发件人： Anastasia Yendiki 发送时间： 2012-06-07 23:19 收件人： Xiangzhen Kong 抄送： freesurfer 主题： Re: [Freesurfer] 回复: Re: /path/to/dmri/dwi_orig_flip.mghdti.bvecs': No such file or directory Hi Xiangzhen - Currently mri_convert does not su

[Freesurfer] 回复: Re: /path/to/dmri/dwi_orig_flip.mghdti.bvecs': No such file or directory

the DICOM header? thank in advance. Xiangzhen Kong From: Anastasia Yendiki Date: 2012-02-04 00:52 To: Xiangzhen Kong CC: freesurfer Subject: Re: [Freesurfer] /path/to/dmri/dwi_orig_flip.mghdti.bvecs': No such file or directory Unless your dicoms came from the same acquisition as the de

Re: [Freesurfer] What does trac-all do on the file 'bvecs'?

uot;` e.g. When the orientation of DWI is LPS, we have to transform data to RAS. ($fslplipx=1) The first sign = +-+ and the second sign = --+. So I have to multiple the bvecs(extracted from DICOM) by [-1 -1 +1], but NOT [+1 -1 +1]. Why are they different? Thanks! 2012-02-04 Xiangzhen Kong 发件

[Freesurfer] /path/to/dmri/dwi_orig_flip.mghdti.bvecs': No such file or directory

files 'dwi_orig_flip.nii.gz' , 'dwi_orig.nii.gz' and a dir 'xfms'. Does trac-all extract bvals/bvecs automatically when start with DICOM data? My data is from a siemens scanner. Thanks! Xiangzhen 2012-02-03 Xiangzhen Kong

[Freesurfer] What does trac-all do on the file 'bvecs'?

Hi, all~ I use trac-all with .nii data, not dicom. So I have to specify the bvecs and bvals in the config file. Trac-all requires a bvecs file in 3 columes, but FSL need that in 3 raws. I wonder what does trac-all do on the bvecs file that I specify. And I have check the code 'trac-preproc' and

[Freesurfer] Two questions when using the new trac-all

h, compared with that one config-file for all subjects. Thanks! conxz 2012-02-01 Xiangzhen Kong ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail