They'll never be over each other. He told Joe he was reluctant to date Patty because she was not Iris, Iris masked her disappointment when she caught Barry kissing Patty, and then we have whatever the Hell is going on with Earth-2 Barry and Iris.
Barry is not his son.
Think about it. He raised Barry, knows Barry is an A-plus guy who genuinely and everlastingly loves Iris, and can provide and protect for her. Joe basically groomed the perfect son-in-law.