Quantifying the surface roughness evolution in contacts is a crucial step in the fatigue prediction process. Surfaces are initially conditioned by the running-in process and later altered by surface fatigue. The aim of this study is to understand and predict the evolution of the micro-geometry in the first few overrolling cycles. Numerical predictions are validated by experiments. A major difficulty in understanding surface degradation is the measurement of the surface roughness evolution at the relevant scales. A twin disc micro-test rig, called μMag, was specially designed for this kind of analysis. The μMag allows the "in situ" observation of changes in the disc surface during interrupted tests, thus avoiding dismounting the specimens, which is a major cause of inaccuracy. The new method also maintains the relative position of the two discs. The precision of the measurements allows one to use the initial surface microgeometry as input for the numerical contact calculation. Thus, the plastic deformation of the surfaces can be measured during the first cycles and compared to the numerical prediction. Results show a very good agreement between numerical predictions and experimental measurements.