Hi Sam,
Yes - setup_masks expects all input images to have the same voxel
dimensions, resolution, and voxel-to-world affine.
Paul
On 24/07/2019, Sam W. <[log in to unmask]> wrote:
> Hi,
>
> I inherited some lesion data and the structural scans of the different
> subjects show slightly different transformation matrices. Now I tried to
> run setup_masks with lesions masks and got a warning:
>
> WARNING:: Inconsistent orientations for individual images when attempting
> to merge.
> Merge will use voxel-based orientation which is probably
> incorrect - *PLEASE CHECK*!
>
> I tried the setup_masks command with two subjects and the output image
> includes only the first lesion mask. I assume this is because the lesions
> also have different transformation matrices?
> Do I need to ensure that all subjects have the same transformation matrix
> before running setup_masks?
>
> Best regards,
> Sam
>
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