Interactively reorient sample and apply manual transform not yielding same fused image

[lacan]

Perhaps I am having difficulty undertanding something.

I would like to reorient my samples before fusing the images.

If I do it manually using "Interactively Reorient Sample" then it works.

If I undo that last transform to be in the same initial state and then try instead to use Multiview > Apply Transformation and define two rotations (180 around y and 180 around x)
then the fused image does not take into account the two last transformations that I did to all the tiles... How do I "Commit" these two tranformations?

Thanks