My daughter says she remembers this science fiction movie. I'ts on another planet. She can only remember that here are these clone prisoners that are kept underground. Some or all of them are infected, until this catlike physician comes down to save them.

There is a Doctor Who episode that sounds close to that plot line:

Doctor Who: New Earth Episode Summary on TV.com (http://www.tv.com/doctor-who/new-earth/episode/449730/summary.html?tag=ep_guide;summary)