IMO I have no specific idea what will happen to the clone troopers.
This MIGHT be a spolier , but MAYBE, just maybe Anakin gets cloned and Palpatine tries to make more dark jedi with Anakin's DNA; he is the chosen one, and they do have a cloning place.
Maybe he tries to clone Anakin and it doesn't work out as well and he just uses them as storm troopers.
(Oh yeah, the masks of the storm troopers is like vader, and obviously the clone troopers masks are like Jango Fett)
It could be a combo of Jango's clones and Anakin's clones, if I'm correct, although I doubt the latter, would be freakin weak though. (Clones of Anakin, if there were any would be dead or killed in Ep III)
Anyway, the storm troopers are conscripted--they have an academy where ppl can sign up, from the OT.
But they could still be a combo of clones and conscripted ppl, although I don't think Palpatine cares about cloning ppl when he can just use people to do his bidding.