Hi doug and other FS experts,
Thanks doug.
I have 2 new questions:
1,What you told me is generate a hemisphere. So there is only one hemisphere I can see in the AFNI?
2,After typing this code:
"mri_surf2vol --surfval rh.36sb.10.mgh --hemi rh --fillribbon --subject fsaverage --template /mnt/sdb1/psylab16/BACKUP/freesurfer/freesurfer/subjects/fsaverage/mri/orig --o test.nii."
the command window echo this error message:
"gdiagno = -1
A volume registration file must be supplied"
Thanks.
All the best.
Rujing Zha
 
2014-03-13
charujing123
发件人：Douglas Greve <greve@nmr.mgh.harvard.edu>
发送时间：2014-03-12 23:00
主题：Re: [Freesurfer] convert sig.mgh into *.nii
收件人："freesurfer"<freesurfer@nmr.mgh.harvard.edu>
抄送：
 

Use mri_surf2vol to do this. Soemthing like

mri_surf2vol --surfval rh.36...mgh --hemi rh --fillribbon --subject fsaverage --template $SUBJECTS_DIR/fsaverage/mri/orig --o yourvolume.nii

doug


On 3/11/14 10:10 PM, charujing123 wrote:
Hi Bruce,
Thanks Bruce.
I knew that code, but I have no idea to deal with my problem after reading the help. Would you please tell me how to use mri_surf2vol after I describe my problem details?
I have a file named rh.36sb.score.thickness.10.mgh which is created from the "mris_preproc --fsgd $FSGDFILE --target fsaverage --hemi $style --meas thickness --out ${style}.${FSGDFILE%_*}.00.mgh". I want to convert this file into nii format volume-based, so I can read it by AFNI.
Thanks.
All the best.
Rujing Zha
 
2014-03-12
charujing123
发件人：Bruce Fischl <fischl@nmr.mgh.harvard.edu>
发送时间：2014-03-12 09:44
主题：Re: [Freesurfer] convert sig.mgh into *.nii
收件人："charujing123"<charujing123@163.com>
 
try mri_surf2vol with the output volume named .nii 
 
cheers 
Bruce 
On Wed, 12 Mar 2014,  
charujing123 wrote: 
 
> Hi doug, 
> Thanks doug. 
> I try this code, but it represent two dimension for each subject data when 
> loaded in the AFNI. Is there any code to volume-based conversion from mgh to 
> nii? 
> All the best. 
> Rujing Zha 
>   
> 2014-03-12 
>  
> ____________________________________________________________________________ 
> charujing123 
>  
> ____________________________________________________________________________ 
> 发件 人：Douglas N Greve <greve@nmr.mgh.harvard.edu> 
> 发送时间：2014-03-12 00:16 
> 主题：Re: [Freesurfer] convert sig.mgh into *.nii 
> 收件 人："freesurfer"<freesurfer@nmr.mgh.harvard.edu> 
> 抄送： 
>   
>   
> mri_convert file.mgh file.nii  
>   
> doug  
>   
> On 03/11/2014 05:55 AM, charujing123 wrote:  
> > Hi FS experts,  
> > I want to extract time course from sig.mgh. But the *.y.ocn.mgh cannot   
> > be created. So I want to view it in other formats, such as nii. So how   
> > to convert it into nii format.  
> > Thanks.  
> > All the best.  
> > Rujing Zha  
> > 2014-03-11  
> > ------------------------------------------------------------------------ 
?? ?> charujing123  
> >  
> >  
> > _______________________________________________  
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>   
> --   
> Douglas N. Greve, Ph.D.  
> MGH-NMR Center  
> Phone Number: 617-724-2358  
> Fax: 617-726-7422  
>   
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