I'm not sure if this was done to save time or money or both. But did you notice how quite a bit of the transformations in the movie were shown only halfway or partially? Some examples: When Megs summons the Doctor, you see the microscope start to change shape, then it cuts to the Doctor already climbing up on Sam. Another instance was Ironhide driving off screen in Egypt and then jumping onto the screen as if he had just came out of a transformation. Also, the when the Twins were upgrading they split from the truck behind a curtain. A few Alice shots involved this as well, although that seems a bit more understandable. What do you think?