Not knowing the set up, i think i would leave the water neck off, and connect the lower hose to the block. Start filling the system slowly and once you see the anti freeze appear where the water neck should be, stop. If it doesn't fill all the way in the block, poor more through the water neck hole until its high enough to install your thermostat..After that, put the top stuff back together, then top off the radiator. Next i would run the engine if you can at about 2,500 rpm and leave the cap off, that should help move any air out of the engine once it warms up. If you go much faster on the rpm's, it will probably blow out, if you go any lower, the antifreeze wont move through the cooling system enough, leaving air bubbles....