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To fully exploit the capabilities of run-time reconfigurable FPGAs in self-aware systems, design tools are required that exceed the capabilities of present vendor design tools. Such tools must allow the implementation of scaleable reconfigurable systems with various different partial modules that might be loaded to different positions of the device at runtime. This comprises several complex tasks, including floorplanning, communication architecture synthesis, physical constraints generation, and the physical implementation all the way down to the final bitstream generation. In this paper, we present how our GOAHEAD framework helps in implementing self-aware systems with a minimum of user interaction.