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The time-of-flight (TOF) method is one of the most common ways to measure the temperature of cold atoms.In the cold atomic fountain setup, the geometry of the probe beam will introduce the measurement errors to the spatial distribution of cold atomic cloud, which will lead to the mcasurement errors on atomic temperature.Using deconvolution, we recover the atomic cloud profile from the TOF signal.Then, we use the recovered signals other than the TOF signals to obtain a more accurate atomic temperature.This will be important in estimating the effects of cold atom collision shift and the shift due to transverse cavity phase distribution on an atomic fountain clock.