Educational discounts are not honored in-store. I think there is someone on Apple's site about that but if not, do a search here on the site and you'll find out that you will not get your discount in-store. You must order online.
I phoned Regent St. Apple Store and they confirmed that I can get HE discount on a new iMac. I didn't ask about software. Give them a call, best way to find out (lots of posters give definite answers when really all their doing is speculating, they don't call this site MacRumors for nothing).