Hi,
Correctheader only works for the "4-byte missing" error for non-
compliant NIFTI-files. If you have 60 pixels wrong then this is
probably due to a mismatch between the header-reported offset and a
(possibly) missing extension. Do you get an error-message when you use
(e.g.)
fslmaths <input_file> <output_file>
For the next version of FSL there will be a more advanced header byte-
offset correction utility - I could send you a beta version if you are
interested.
Many Regards
Matthew
> Hi,
> I've just upgraded to FSL 4.0.4 and discover some of my images do
> not appear
> where they are expected within the Viewer even though they looked
> fine in
> FSL 3. I tried the "correctheader" option and that doesn't take
> care of it.
> This seems to be the same issue as some concerns from last year, but
> the
> threads were never resolved:
>
> 013039 07/09/02 16:27 30 More Nifti Shifting
> 012941 07/08/30 00:06 15 Re: location of masks shift from
> FSL3.3 to
> FSL4.0
>
>
> Is there a solution to this problem so that I don't lose my previous
> work?
>
> For example, the "data.nii" and "nodif.nii" files used as input to
> FDT (FSL
> 3) no longer align with the outputs when viewed in FSL 4. This can
> be as
> few as 6 pixels difference or as much as 60 in a 128 x 128 image
> (i.e. brain
> now shifted all the way to the side and wrapping around.)
>
> thanks,
> Ruth
>
