Did you take the pump off and now putting it back on? If the pump is set to go from an injection shop or is new, then it is just a matter of getting the flywheel in the correct position. I can get that info. for you.
If you mean setting up the pump too, you need to have a dial indicator that fits the end of the pump to set it up right or have an injection shop do it for you. Then you time it on the tractor.
Either way, I will send you the procedure.