How to program a BeMicroSDK to run verilog program?

I am trying to learn Verilog / VHDL with a BeMicroSDK using Quartus II, and trying to compile LED blinking programs from a forum post here at http://www.alteraforum.com/forum/showthread.php?t=40755 Using Quartus I have started a new project with the proper device setup, and then created two sv program. They all compiled fine, and then I started the "Programmer" trying to load the program. I can see the "sof" file being ready to program, and the Programmer detected my BeMicroSDK. I clicked "Start" and after some time the Progress box on the top right hand corner goes green saying 100% successful. However, my stick is showing only LED 1,2,4,6,7,8 on, and then nothing else. No LED is blinking... The I pushed the RCFG button on it, and the old demo program (temperature read out binary) ran. So I suspect did I really programmed the BeMicro? Any help will be much appreciated. Thank you in advance.