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interfacing custom hardware with device toplevel

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Hello, I know its a beginner question and I am reading the handbook also. However I would really appreciate if anyone can direct me to any example or give me some suggestion regarding the following. I am new in FPGA.

I have a hardware module (initially done for asic) and I need to synthesize it on the FPGA board and use signaltap to debug. To do that, I need to assign the pin of my hdl design with the clock pin of the board. Isn't it correct?

How can I do that ? I believe there is a top level file for every boards and I can just instantiate my module on that top level and port map the pins. Is there any other way? I already synthesized my design without any kind of pin assignment with toplevel.

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