FWIW, Chris Brown who has that site Smartfooball.com and writes for Grantland.com made a comment last year on twitter during one of our games about how some of our passing concepts were outdated. If you know anything about Chris Brown, it's that he started that site analyzing a lot of CPJ's running and passing concepts. He's a fan of CPJ's.
We all know that a lot of our passing concepts are derived from the Run and Shoot (Choice, Switch, Go, etc.). If you've been paying attention to modern football, a lot of the pro passing game has implemented Run and Shoot concepts...though in modified forms. The core tenet being that routes are no longer static, but run based on coverage and chosen on the fly...the QB and WR being on the same page as the play progresses.
http://grantland.com/features/chris-brown-victor-cruz-new-york-giants/
Those core tenets are also the cornerstone of the popular Air Raid offenses we see today.
The point is, and some others have touched on it, the passing game and the way coaches and quarterbacks want the routes run will vary because they each have their own quirks. Peyton Manning for instance, is NOTORIOUS for making his receiver stay after practice and getting them together in the offseason to run routes and patterns the way he likes it. Many articles have been written about this and how one of our very own guys (Demaryius Thomas) has had to adjust.
There is NO WR going to walk into a pro camp from college with the ability to transition seamlessly into a pro team's offense...I don't care if the WR comes from the best "pro" offense in college. All pro teams want WR to run their system a different way...and that includes routes. What colleges can do is prepare players for basic WR responsibilities...reading defenses, knowing how to get off the line in man coverage, blocking, know the route tree, etc. There is nothing on that list that GT doesn't prepare a WR for outside of the entire route tree. Even then, a GT WR will run a lot routes similar to those on a route tree because a lot our routes from the Run and Shoot passing concepts call for it even though they're not necessarily called the same things.
IMHO, the most important factor outside of physical ability for a player's success is their willingness to learn and ability to apply their knowledge on the field.