RANS simulation of a gas turbine combustor with complex geometry is performed. The turbulence is modelled using a two-equation approach. The scalar mixing and combustion is modelled using a flamelet based approach for partially premixed combustion. In this approach transport equations to described scalar mixing and reacting fields and their statistical interactions are solved along with standard conservation equations. The boundary conditions are specified using measured values. The computed spatial variations of averaged temperature and dry mole fractions of various scalars, including CO and NOx, compared quite well with measured values. The results of this combustion model are compared to the eddy-dissipation-concept (EDC) model commonly used for gas turbine combustion calculation and this comparison showed that the results of partially premixed combustion model is improved considerably.