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19 years agoHere is an application note that addresses this topic.
http://www.altera.com/literature/an/an379.pdf The secret is knowing that there is a hidden atom in the FPGA that allows you to access the EPCS pins through the FPGA fabric. In a Cyclone II device for example the atom is called cycloneii_asmiblock. This block will be recognized by Quartus and compile into your design. A whole reference design exists in application note 379.