[Core] Move geometry container to mesh #13423
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📝 Description
This PR is the continuation of #13377, aiming to move the geometries container to meshes.
@sunethwarna @matekelemen
PS: I neglected to add the
RemoveGeometriesin a similar way asRemoveElements, as at this point
Geometrydoesn't haveflags. This might be resolved in the other PR.