I'm running Lith-Ion 123 cells all the way around. And the set up is pretty straight forward just open those niffty little paper books you have in your pictures they spell it out pretty well.
LOL
But really you should read through the included instructions because you really need to understand each option and how it works. I think asking the blanket question about how it is set up is really doing yourself a disservice. You spent the money for it now spend and hour looking it over.