Really a question best suited for your medical team, on here you're likely to get every opinion ranging from "your long term health is important, skip the ride completely" to "harden up and quit whining".

Did your PT folks give you any sort of guidance? They'd be the first ones I'd be talking to, as their specialty is exactly using exercise to repair injury. Also, do you know your bike is properly fit to you? If not, the money spent on that may go a long way to helping your situation, if you are already finding some changes from your base setup to help or hurt.