The present invention relates to a method and to a system for configuring a magnetic field generating device (1) for directioning magnetic substances (300), comprising an image capturing device and a computer device, the image capturing device being electronically connected to the computer device, the image capturing device being configured to obtain at least one image of at least two dimensions of the body area (500) and locate, in said at least one image of two dimensions of the body area (500), a target area (400), the image capturing device generating at least one image of at least two dimensions of the target area (400) from said at least one image of at least two dimensions of the body area (500), the image capturing device being configured to send said at least one image of at least two dimensions of the target area (400) to the computer device, the computer device being configured to generate a three-dimensional geometry of the target area (400) from said at least one image of at least two dimensions of the target area (400), the computer device being further configured to generate a three-dimensional geometry of the magnetic field generating device (1) correlated to the three-dimensional geometry of the target area (400).
