Provided is a hard disc drive controlling method, and more particularly, a method of controlling track seek in a hard disc drive (HDD) provided against a shift between discs, and a computer readable recording medium having embodied thereon a computer program for the method. The method of controlling track seek in a HDD, including disc switching, includes: head switching to a head corresponding to a disc having a target track; calculating track seek length by comparing the previous target track address and the current target track address; determining whether or not the track seek length is shorter than the limit seek length set by considering a maximum possible shift amount of a disc; if the track seek length is shorter than the limit seek length, reading the track address of a track on which the head is put on the switched disc, and by referring to the read track address and the target track address, determining track seek length and a seek profile thereof; and performing track seek according to the determined seek profile. According to the track seek control method of the invention, even when there is a shift between discs, the shift is automatically reflected and compensated for when track seek is performed, such that stable track seek can be performed.