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I noticed that not all I/O assignments for Genesys2 are valid at the moment. In fact the only inputs that seem to work are sw[7:6]. However all the led[7:0] seem to work. Therefore I prepared a design that outputs an 8-bit counter using sw[7] as the clock and sw[6] as the reset. That seems to work (at least for as many counts as I can be bothered to test without wearing out the switches completely. This pull request is FYI, no need to consider merging till the equivalent I/O functionality from the low cost k325 board has been identified.
I present the hypothesis that only one clock region is working and this region only can reach certain I/Os.