In order to realize the automatic train operation effectively, analysis performance characteristics of train operation at different stages, analytic hierarchy process was used to get quantitative description of each performance indexes and evaluation function of comprehensive performance, then the fuzzy manipulation rules of the online control is got combined with the idea of sub-regional control. The sub-regional and switch points of each operation are scored to select the best one. Finally, the simulation model is designed based on practical information of a line and a train, and verify the train running under the control algorithm has good parking precision, comfort and time saving.