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We present here our work on deconvolution of a magnetic probe to measure electromagnetic emissions in near-field zone. To achieve this work, we have chosen a rectangular waveguide (WR90) as a radiating structure. Theoretical near-field is simulated using a FEM software (COMSOL) and also obtained by using a program based on transverse operator method (TOM) ,that lead to a very good field reconstruction after deconvolution due to its precision