stixout

has anyone done a auto to man transmission swap? i have an 87 4runner that had an aotu in it and im trying to bring it back to life. i have rebuilt the engine and put a new turbo on it but it has no power at all. i have chased all the vaccum leaks and still nothing. i got the truck with the motor in pieces so i hope they correct. i was told that the computer probably cant read different transmission but i want to see if anyone else has had this problem before i go any farther