I am referring to the source code here:
https://github.com/EQEmu/Server
Not the database version you are on from PEQ. If you are running the latest source code on the older snapshot of the PEQ DB, it should have updated everything automatically for you when you started the server (as long as you chose the options to update the required in the startup script that gets ran when you start the world process).
Have you updated your source code from Github and compiled the latest version yet?