The graduation project management system based on workflow can not only make the system procedure clear but also solve the disorganization of system access control and the difficulcy in satisfing the flexible management. This paper firstly describes the internal structure of the system based on workflow, and then put forward a newly tasks, roles and departments based access control model which effectively solve the problem of user-role authorization in university-college two level management system, and lastly designs a flow template which can enhance the management information system flexibility.