The LBS should reorder the frame. They might not want to, but they should. They would be well within their rights to charge you a restocking fee (or a rebuild fee or something), but they should make this right for you.

Of course it's not a pair of shoes. You put more miles on a bike than you do a pair of shoes. And granted it's just paint, but sheesh. Some of us here go to great lengths to make sure our bikes look perfect.