Methods, systems, and apparatus, including computer program products, are described for calibrating control loops, specifically phase-locked loops. In one aspect, an apparatus is provided that includes an oscillator model that generates a predicted phase based on an input, a first averaging submodule that generates an average predicted phase over a predetermined number of samples, and a first summing submodule that receives a first corrected phase error and generates a predicted repetitive phase disturbance using the first corrected phase error, the predicted phase, and the average predicted phase.