The flap settings are on page 68 and 69 of the dx6i manual:
http://www.spektrumrc.com/ProdInfo/Files/SPM6600-Manual_DX6i.pdf
there are 4 numbers on the screen, which are the flap positions (up and down -- first column) and amount of elevator mix (second column). These are live settings, so changing the number on the active switch position should move the servo.
Assuming you've centered the flap servo when you installed it, the 0/0 settings should lock the flap at neutral in both positions. changing the flaps column (to like 0/20), should move the flap when you flip the switch. How much will depend on how it flies -- the sportcub manual has travel recommendations for the flap throw. The elevator column adds up/down percent of flap -- change the number and watch the elevator change -- make sure it gives a little down pressure . . . then take it for a test flight.
get it a few mistakes high, slow the throttle to where it just begins to descend in level flight . . . and turn on the flaps. if it rises gently without changing pitch it's good. Otherwise, land, adjust and test in the air. If it pitches up, more up elevator, down more down elevator.
Try not to use the flaps *at least* until you've got a feel for what they'll do -- don't want to flip them on when landing and have the elevator mix nose over into the ground.