I'm guessing that MRIcron was used to define the lesion mask. In most cases,
the resulting masks will be written out such that the order of the voxels is
reversed in the x direction, with a corresponding flip encoded in the
matrices in the NIfTI headers. Most parts of SPM will see the data in
alignment with each other, but for the lesion masking, the voxels themselves
have to correspond.
I suggest maybe using the reslice only option of Coreg to reslice the lesion
mask so that the voxels are aligned with the T1w.
On Wednesday 25 March 2009 20:36, Xu, Ben (NIH/NINDS) [E] wrote:
> I got the following error message when normalizing a T1 image with a lesion
> mask (skull scripted with 0s for the lesion part and 1s for the normal
> tissue). The orientation of the mask and the T1 images seems to be the
> same. What could be the problem?
> Thanks for your help!
> Running "Normalise: Estimate & Write"
> Smoothing by 0 & 8mm..
> Coarse Affine Registration..
> Fine Affine Registration..
> Error running job: Error using ==> spm_affreg at 67
> Source and its weighting image must have same orientation
> In file "/usr/local/spm5/spm_affreg.m" (v1160), function "spm_affreg" at
> line 67. In file "/usr/local/spm5/spm_normalise.m" (v946), function
> "spm_normalise" at line 182. In file "/usr/local/spm5/spm_config_norm.m"
> (v1032), function "estwrite" at line 491.