4.11 SP 2 problems with JTAG

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When I install SP2 and try to use my Atmel JTAG adapter I get a message saying that the firmware needs updating. The screen flashes a few times and error box pops up saying that "no supported boards found!" version 1.40.

With 4.11 with out SP2 will detect the JTAG and allow me to program parts, however when I load the coff file the AVR studio says it can not connect to JTAG.

I am using a USB to serial adapter, I have tried a couple of USB to serial adapters and all have same bug/problem.