It's the fare class paid rather than the fare class flown that counts. R is the standard upgrade bucket that your fare class is kicked into when you get upgraded (congrats, btw); i.e., R is the fare class flown. So whatever you ended up paying for originally will count as the amount of EQMs you'll receive (which is likely 100% EQMs).

PS: Welcome to Flyertalk. In the future, if you see a moderated post dialog pop up, you only have to post once. Thanks.