Measurement data is the basis for the investigation of empirical relations and for the winning of natural scientific knowledge. The mapping from physical dimensions to numerical values is done by a measurement device or a whole measurement system. In terms of philosophy, the measurement is a medium for the cognition process. There exist two forms of congnition: sensory cognition and rational cognition. By sensory cognition the subject gains an image of the surrounding reality, while rational cognition concerns the analysis, synthesis, etc. of the image acquired. The reality consists of a series of qualities which are expressed by its states. The mapping of a state to a numerical value is the measurement of the state or the value of the quality respectively. The presentation of an unbiased image, showing the proper correlations between qualities, is a big challenge when complexity of the metrological question increases. Because of incompatibilities, the interaction between different measurement devices is often not possible or leads to big timing troubles, which is the cause of distortions in the image produced. Rational cognition, in this case, becomes influenced by an uncertainty, which is critical; especially in indirect measurements. This can be seen at the example of a Scanning Electrochemical Microscope (SECM) where the current is a measure of the surface reactivity of a substrate as well as a measure of the distance to the substrate itself. Hence, the distance measurement in the submicrometer range is a difficult metrological task. This work introduces theoretical and softwaretechnological aspects to perform data capture and control processes without losing important information and therefore to produce an undistorted image of reality.