A centrifugal pump system having an impeller rotating with first and second magnetic structures on opposite surfaces. A levitation magnetic structure is disposed at a first end of a pump housing having a levitating magnetic field for axially attracting the first magnetic structure. A multiphase magnetic stator at a second end of the pump housing generates a rotating magnetic field for axially and rotationally attracting the second magnetic structure. A commutator circuit provides a plurality of phase voltages to the stator. A sensing circuit determines respective phase currents. A controller calculates successive commanded values for the phase voltages during a running state in response to a desired impeller speed and an actual impeller phase. The controller has a startup interval during which the commanded values of the phase voltages are determined in response to a pseudo impeller phase and in response to a ramping gain factor.