Auto siphon into sanitized lauter tun which has sugars in for priming, wrap siphon hose on the bottom of the tun to create swirl. Once all in tun w/ sugars, attach bottle wand and go to town siphoning into bottles. Have sanitized lauter tun near by to place bottle wand in in between. Works well. Beer does not flow until you push wand down, and stopping flow in between does not hinder the flow for the next bottle. Switched to this after fear of scratches on my ale pail and I am not turning back! That is to say, using an auto siphon to bottle can be a breeze.
I bottle a six pack, then cap, and continue. Six pack by six pack.
And horray for bottle trees!