Both did marry but they did not marry each other. In "The Wedding of River Song", the Eleventh Doctor married River, who is Amy's daughter. In "The Day of the Doctor", the Tenth Doctor married Queen Elizabeth I of England.
In "The Big Bang", Amy married Rory Williams. In "The Power of Three", Amy seemingly married King Henry VIII of England. However, that was unintentional on Amy's part (which makes it invalid by Christian standards), she was already married to Rory (which also makes it invalid by Christian standards) & the marriage was never consummated (a third reason it's invalid by Christian standards).
Had Amy actually married Henry VIII, that would have made Elizabeth I Amy's stepdaughter. Amy would then be both the Doctor's mother-in-law (through River) & his stepmother-in-law (through Elizabeth I).