If I'm understanding you correctly, you just want to know how many copper and iron smelters you need right? If so, then yes, you need to specify all the recipes you want to use in that chain. The mod couldn't know which recipes to use and so on otherwise. Using one subfloor for every science pack is a smart approach to this btw. If you break all the chains down, one per subfloor, the ingredient amounts at the very top will tell you how much ore you'll need.
Oh I also just realised, if you want to tally up all the smelters in one place, break down your recipes down to plates, without adding the smelting recipes on every floor. Then, on the top floor, add your smelting recipes once at the end, and they will produce enough for all the other recipes.
Hopefully this helps, feel free to ask if something is still unclear.