Problem with flash programmer

I expected, that you are accessing EPCS through JTAG cause you are converting to jic format. In this case a particular SFL (serial flash loader) Megafunction would been included to your design (hopefully). I reported a case where this megafunction wasn't operational although included correctly to the design. But I'm not sure about your design, but I can't imagine how the EPCS design could be programmed through JTAG without having a serial flash loader.

P.S.: If a similar serial flash loader function is also imported by SOPC builder but it doesn't work as expected, it may be meaningful to try loading the EPCS through a standalone serial flash loader as described in the serial flash loader documentations (AN370).