Depending on your version, you can mark the issue as "Won't fix" (meaning that the debt from this issue is accepted - since 5.1) or "False positive" (meaning that you think that the analysis engine is wrong - before 5.1).
Theoretically it should be possible to nest one transition over the other. But there is a problem: transitions are applied over translate properties, while the node layout is not modified. This means for your case that the circle will follow the path defined by the rectangle, but your node will...