Here the Time Traveller is wrestling with his realization that the Morlocks eat the Eloi. From a scientific point of view, that's the end of the story: animals eat other animals, and that's the way it is. But the Time Traveller has some difficulty with that notion. He's trying to be scientific and not be bothered by the idea that Weena is going to be eaten, but he <em>is</em> bothered by it. This is another scene where we see how hard it is to suppress one's emotions in the pursuit of science. It's like when you watch a nature show: one episode will be about the deer and you root for the deer, and the next episode will be about wolves and you root for the wolves. The scientific point of view would be not to root for either side, but rather to see both sides as part of the same system.