I don't know how strict Lincoln is going to be with Barry's liquor license. They're already planning on having open-container areas in the Haymarket expansion (The Yard, and possibly down Canopy Street). I wouldn't worry about Barry's until they deny the permit.
Yeah they will still get a liquor license no doubt just with a provision for no rooftop bar. Its a public safety thing, drinking outside is fine but when you have
drunk college kids 20ft in the air on a major road through downtown lincoln is another story. Hence why they likely had to alter their plans and enclose the rooftop section of the bar.