Even if Yuzuru misses this competition and the Grand Prix Final I still think he will still be chosen for the Olympics provided that he is capable and wants to do so. Japan has 3 slots and Yuzuru already made a name for himself and I'm sure the federation already knows it and it's already decided. That said if he is really in pain, I hope he skips this completion. If he forces it, it could just get worse and he will just end up not being ready for the Olympics. Anyway let's see how it goes.
I believe one of the listed criteria for selection to the Japanese team is podium placement at Worlds the previous year, so as reigning World Champ they'd still name him to the team.