Ecological industry——a promising and persuasive way to resolve environment problems and achieve sustainable development, marked by rapid growth in the last decade, is being paid more and more attention. In this paper, a model for an Eco-Iindustrial System ( EIS) is built using simulink toolbox, and static and dynamic simulation calculations are finished. Based on simulation results, the influence index method of EIS's flexibility analysis is proposed. By analysis to key factors which limit flexibility of the system, a flexibility improvement scheme can be obtained. A case study for an EIS shows that the propsed method could give out static and dynamic modeling results and effectively improve flexibility of the system.