Dear Melanni,
                        Have you tried fslswapdim with the -copysform2qform or -copyqform2sform options to restore whichever transform has changed to it’s original value?

Kind Regards
Matthew
--------------------------------
Dr Matthew Webster
FMRIB Centre
John Radcliffe Hospital
University of Oxford

> On 21 Jun 2019, at 17:31, melanni nanni <[log in to unmask]> wrote:
>
> Dear experts,
>
> I'm working with some functional images, that I got after run gRAICAR (a toolbox for melodic reproducibility). For some reason the resultant functional components has an inconsistant order acording to fslhd:
>
> qform_xorient  Left-to-Right
> qform_yorient  Posterior-to-Anterior
> qform_zorient  Superior-to-Inferior
> ..
> sform_xorient  Left-to-Right
> sform_yorient  Posterior-to-Anterior
> sform_zorient  Inferior-to-Superior
>
> Therefore any manipulation that I want to perform on these images (fslmaths, etc)  I get the following error:
> ERROR: Inconsistent left-right order stored in sform and qform in file comp001   Using sform instead of qform values
>
> Even after use fslorient -swapdim or fslswapdim, I get the same error. How can I change the order?
> Thank you
>
> Melanni
>
>
>
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