The adaptive filter algorithm was applied to the fuzzy controller.The output of the filter was used to control the influence of fuzzy controller on the system.The filter can remove the steady state oscillation in the time delay system.But,unfortunately,it brings in the steady state error.Therefore,an algorithm was proposed to compensate the error and also,to reduce the workload of parameter tuning.The algorithm was designed and used in the automated chemiluminescence immunoassay analyzer.The conclusion indicates that the algorithm can adaptively control the temperature in the time delay system.It is robust to the slight changes in the external environment.