In order to improve the generated energy of PV array and adding the utilization ration of solar energy, the photovoltaic tracking system adapts electro-optical tracking techniques which making the solar panels always perpendicular to sunlight. This paper mainly introduces the basic structure of photovoltaic automatic tracking system and the control strategy of the stepper motor. The theories of cerebellum model articulation controller and conventional PID control are also described. And combined with the characteristics of PID control, the compound control based on the cerebellum model articulation controller and conventional PID was applied to photovoltaic automatic tracking system and compared with fuzzy PID control algorithm. The simulation result shows that the cerebellum model articulation controller and conventional PID parallel control algorithm has the advantage of small overshoot, high robustness, fast response, high control accuracy, and so on.