A method for designing and configuring a system on a field programmable gate array (FPGA) is disclosed. A portion of the system that is implemented greater than a predetermined number of times is identified. A structural netlist that describes how to implement the portion of the system a plurality of times on the FPGA and that leverages a repetitive nature of implementing the portion is generated. The identifying and generating is performed prior to synthesizing and placing other portions of the system that are not implemented greater than the predetermined number of time. Synthesizing, placing, and routing the other portions of the system on the FPGA is performed in accordance with the structural netlist. The FPGA is configured with a configuration file that includes a design for the system that reflects the synthesizing, placing, and routing, wherein the configuring physically transforms resources on the FPGA to implement the system.