My best guess is that the images themselves were actually acquired in
different orientations - or the order in which the voxels are stored is
different. This is the only thing I can think of that would cause this
result if the matrices in the headers are identical between the two scans.
best regards,
-John
On Wednesday 09 July 2008 23:06, Cameron Craddock wrote:
> Hello all,
>
>
>
> I have some fMRI data that was reconstructed offline and all of the spatial
> location information is lost in the process. Previously I have been able
> to copy this information from another scan that is acquired during the same
> session with the same slice prescription using the following script.
>
>
>
> M0=spm_get_space(file_with_good_center);
>
> spm_get_space(file_with_bad_center,M0);
>
>
>
> I am using nifti files.
>
>
>
> I have recently upgraded my Matlab version and installed the latest SPM
> patches and now this procedure no longer works in two ways:
>
>
>
> 1). The location mat is only changed for the first volume in the 4D nifti
> files. This is easily corrected using a loop.
>
> 2). The image orientation after this procedure is not correct. Attached is
> a screen capture from spm. I copied the mat information from the top image
> to the bottom image. I have verified that the mat information in the
> headers are the same by using spm_vol. I have also verified the header
> information using AFNI's 3dinfo. AFNI also shows the images in the same
> manner as SPM.
>
>
>
> Is there some other header information that I need to modify to get this to
> work correctly? Is there another method that I could use that might work?
>
>
>
> Thanks in advance for any and all comments.
>
>
>
>
>
> Here is my system information:
>
>
>
> RHEL 5.0 running on quadcore intel Xeon 64bit
>
> Matlab 2008a
>
> SPM5 with Updates_1782
>
> I have recompiled SPM and haven't had any other problems.
>
>
>
> Regards,
>
> Cameron Craddock
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