A method for controlling the operation of a printing press, integrating several printing units chosen from a group comprising a flexographic printing press, an offset printing press, or a rotogravure printing press, in which method a digital prepress information comprising several digital files, or one digital file sub-divided into several digital files is provided, each of said digital files or subdivisions corresponding to a different motif with a certain color in the digital file to be printed in a respective printing unit of the printing press with a certain standard color element chosen from a group comprising: color model (CIELAB), color value of 32 filters and PANTONE value, wherein said method comprises performing the following steps: a) capturing information from at least one printed image printed by said printing press; and b) adjust printing settings using the result of a comparison of said information captured from said printed image with at least some digital prepress information, including at least one part of the image to be printed, the method being characterized in that, before performing said step b), it comprises: • sequential printing of different printing units or performing side or longitudinal register movements of different printing units so that each printed form of each color is associated to each printing unit of the printing press, and • comparing said information captured from said printed image, with said digital file including said corresponding motif to be printed, and perform an automatic assignment of the different colors existing in the digital prepress information to each color of a corresponding printing unit of the printing press; wherein said comparison in said step b) including: • detecting differences between colors captured from said printed image and digital-format information, • determining the relative position of the side and longitudinal register for each color of the images or parts of the images to be compared with one another; wherein said adjusting printing setting involve adjusting the pressure and register setting of at least one printing unit of said printing press, using at least the result of said comparison in said step b). a) capturing information from at least one printed image printed by said printing press; and b) adjust printing settings using the result of a comparison of said information captured from said printed image with at least some digital prepress information, including at least one part of the image to be printed, • sequential printing of different printing units or performing side or longitudinal register movements of different printing units so that each printed form of each color is associated to each printing unit of the printing press, and • comparing said information captured from said printed image, with said digital file including said corresponding motif to be printed, and perform an automatic assignment of the different colors existing in the digital prepress information to each color of a corresponding printing unit of the printing press; • detecting differences between colors captured from said printed image and digital-format information, • determining the relative position of the side and longitudinal register for each color of the images or parts of the images to be compared with one another;