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The vertical circulation particularly plays an important role in reducing environmental pollutants. The factors of the vertical circulation are the temperature, wind, thermal diffusivity, sunlight, and so on. The wind is the most significant factor among all possible factors causing the vertical circulation. Thus, it is necessary to describe the validation and application of a three-dimensional numerical model of wind-driven circulation in a thermally stratified flow.   In this study, the numerical model is conducted in three steps to calculate the velocity components from the momentum equations in \\(x\\)- and \\(y\\)-directions, the elevations from the free surface equation, and the temperature from the scalar transport equation. The present model was applied to two tests for verification of the numerical accuracy. Numerical results are compared with analytical solutions of the sloshing free surface movement in a rectangular basin and the model is applied to the circulation for the wind-driven flow in a thermal stratification. 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