You have to use initialization string and you can do that by using torque pro app. Paste this string in vehicle profile>Show Advance Settings>Custom initialization String
ATIB96\nATIIA13\nATSH8113F1\nATSP4\nATSW00
I have to use this for my corolla 2003 on stock ecu and also the jdm ecu I am currently using with my swap.