Anti theft immobilizer, how to disarm the alarm

I had an aftermarket viper 550 ESP remote start system in it. I cut that all out where they had it spliced into the wiring harness. They only totally cut one wire in half and the rest of the wires they just expose the wire in the harness and made contact with it that way and didn’t cut the lines. I cut all those out and put the big black and yellow wire back together. Again I tried to start it and nothing. All the lights and the door dinger stereo everything comes on and works but when I turn it to the start position nothing. Is there something I’ll have to take it to the factory to have them programmed into the computer?

I’m going to start over.
1996 pathfinder. 220,000+ miles. The driver side window is down a little bit and it was raining when I got out to get gas. The lock switch got wet and caused my doors to lock on their own and I didn’t know it until I tried to get back in after pumping gas. The alarm was activated.
The back hatch opener/handle broke previously and I had to remove it within a hammer and screwdriver to open it long before this alarm problem.
So I went in through the hatch and unlocked hug doors. Popped the hood and unhooked the battery and let it set.
Several minutes later I hooked it back up and the horn was beeping and lights were flashing still. I unhooked it again. Then I removed the control relays under the hood labeled about theft horn and the one labeled anti theft head lights. And reconnected the battery. Lights and horn stopped.I reinstalled the relays to the anti theft spots tried to start it and when key is turned to the start position all I hear is a relay clicking under the dash near the fuses.
I decided to remove the unit, a “ viper 550 esp remote start aftermarket system is in there.
I watched a video and removed the system. The only wire that was cut thru was the thick black with yellow stripe. All the other wires were spliced in and taped. None were cut.
I traced all of them and cut the viper 550 esp out and taped the wires so there were no bare wires exposed. I reconnected the black with yellow stripe thick gauge wire together. Tried to start it again and still have the same problem.

I was able to unlock the back glass and everything was reset. Now yesterday the vehicle wouldn’t start I left it parked where I was at overnight and went to it this morning before work when I unlock the drivers door with the key it sounded the alarm I went and open the back glass again the alarm shut off. I went and tried to ignition and it started right up. When I got out of work I tried to start it it would not start. It would not turn over it just made a click in the relays under the dash. So I locked the vehicle And use the key to unlock the drivers door to set the alarm off activate it and the alarm sounded I went to the back glass opened it with the key and the alarm stopped. I tried the ignition to start it and it just clicked in the relays under the dash. I thought maybe where the sun was shining in it the relays got hot so I took them out and I’m sitting at work in the shade letting them cool.