Hello, Nick,

Thanks a lot for your help. The bad thing is case_1&2 are not oriented the same way.
Anything else I can do?

 


Guang

> Subject: Re: [Freesurfer] tkregister2 question
> From: nicks@nmr.mgh.harvard.edu
> To: freesurfer_zg@hotmail.com
> CC: freesurfer@nmr.mgh.harvard.edu
> Date: Sat, 19 Sep 2009 11:51:28 -0400
>
> Guang,
>
> If you're 100% certain that case_2 is oriented the same way as case_1,
> for instance if they were from the same scanner, then you can do this:
>
> mri_convert case_2.nii case_2.img
>
> (this outputs case_2.mat)
>
> cp case_2.mat case_1.mat
>
> now tkregister2 should work. Keep in mind this is a hack accounting for
> the missing case_1 data. If the data is from different scanners, then
> there is a risk of L-R reversal, because the orientation info may not be
> the same.
>
> Nick
>
>
> On Fri, 2009-09-18 at 17:33 -0500, Guang Zeng wrote:
> > Hi, there,
> >
> > I have a case_1.hdr file and case_1.img file, but no the
> > corresponding .mat file which contains the necessary direction cosine
> > info.
> > So everytime when I try to register another nifti file case_2.nii to
> > it using tkregister2 or mri_vol2vol, it always complains that
> >
> > "INFO: could not find ../../case_1.mat file for direction cosine info.
> > INFO: use Analyze 7.5 hdr->hist.orient value: 0, transverse unflipped
> > (default).
> > INFO: if not valid, please provide the information in ../../case_1.mat
> > file"
> >
> > Just want to know if there are other methods I can use to register
> > case_1 and case_2? Any kinds of method!
> >
> > Thanks a lot!
> >
> > Guang
> >
> >
> >
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