The invention discloses a multifunctional self-conversion multi-pinhole collimator and an operating method thereof. The multi-pinhole collimator comprises an external shielding component, an internalshielding component and a motion component. The external shielding component comprises an external shielding barrel and an external shielding frame; the internal shielding component comprises an internal shielding barrel and an internal shielding frame; the internal shielding barrel internally sleeves the external shielding barrel through the internal shielding frame and the external shielding frame; the motion component is a device which drives the internal shielding barrel and the external shielding barrel to generate relative displacement along own center axis; the internal shielding barrelis provided with a plurality of rows of pinholes along the direction of own center axis, the pinholes in the same row are peripherally distributed along the internal shielding barrel, and the rows ofthe pinholes are different in diameter and distance. By relative motion of the internal shielding barrel and the external shielding barrel, multifunctional quick and flexible changing and conversionof different resolutions, different view angles, different view fields, different sensitivities and the like can be realized, and complicated operation of mounting another collimator due to requirement of replacement of collimators with different functions is avoided.