The lines are connected to each other by brackets, which are welded to the lines. A couple of those brackets are used to bolt the lines to the tranny housing. They are basically shaped to run along the tranny, and since the tranny shapes are different, the line shapes are, too. I tried to use the auto lines to save time, but there wasn't any feasible way I could see them fitting, so I went ahead and swapped them.
You'll also need the 5MT Y-pipe that connects both sides of the header.