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Pressure compensating emitters have many advantages over non-pressure compensating emitters. Most of these advantages are determined by the internal flow fields and functioning of the emitter. It is difficult to observe these flow fields due to the tiny size of emitter channel and complex nature of the emitter. Computational Fluid Dynamics (CFD) technology of has been widely used for predicting the characteristics of non-pressure compensating emitters, but the working principles of pressure compensating emitter is more complex. In this paper, a technique called Fluid Structure Interaction (FSI) technology is used for to develop 3D flow simulations of an online pressure compensating emitter. Then CFD and Computational Structure Dynamics (CSD) were used respectively to determine the flow field and the structure deformation. The corresponding hydraulic characteristics of the pressure compensating emitters were modeled. A comparison between numerical simulation and experimental data shows that the analysis can provide the 3D complex flow in the emitters.