So i was adjusting the depo's yesterday and had the headlights on without having the car on, so the battery died! obviously

. I boosted the car and everything is fine now, but the alarm will beep 3 times now when i try to lock the car and the car doesn't lock/unlock anymore and when i put the panic on, it will lock and unlock but just once! then it goes back to beeping 3 times and keyless wont work again! Has it been reset? how do i bring it back to normal? Also my cd player is no longer working, I have the code for the head unit but the radio (am/fm/tape) work perfectly and it doesnt even ask for the code. When i press on cd nothing happens and when i go to the trunk and try to get the cd changer pack out, it wont come out! Can anyone help me out with theses problems?
Thanks in advance.