compustar remote start not working

2004 Toyota Matrix XRS Compustar 2WSS-AS (alarm with remote start) brain - CM3000 I had installed HIDs into my headlights, was used to the auto on/off feature in the car and mistakenly left the lights on and battery died. Was dead batter for 4-5 hours until i realized, jumped the car charged the battery and all was fine. The alarms remote start feature which was working before will not work now. I press button II hold it until it chirps, the car acts like its going to kick over but never does. check engine light comes on, and it acts like its in accessory ignition because the fans are on in the engine bay but the engine never kicks over. if i hold button II again everything shuts down and the alarm resets. Unsure of the programming of the brain as I had it installed at a shop long time back and that shop no longer exists. Is there anything specific on the brain or programming for the brain that I hsould be looking into and verify? Thanks any help would be great appreciated.