You don't say at what point in the startup sequence this message occurs. But, assuming it is early on, try the following:
1) Hold down PROGRAM at powerup, and say yes when asked "do you want to.."
2) If that fails, hold down the '8' key at powerup, and say yes when asked "do you want to..". This will delete all user presets and settings.
3) If that fails, return it to Eventide or a dealer for service. You might want to disconnect the power and then remove the top and check that all socketed parts inside are well seated in their sockets before doing this..