2000 Oldsmobile Intrigue Won't start and many other functio

I had the trans. Rebuilt and after they installed it the alternator diode was blown so they replaced it and the fuse that it took out at the same time. Now the car won't start unless you jumper across the crank relay connections or put your test light on the #76 (yellow/blk) wire on the PCM. The theft light goes out on the dash in a few seconds after turning on the key. There is no radio, p/windows/, door locks or interior lights. There is headlights, brake lights, back-up lights and horn. I am suspecting the PCM, could this be it?