I’ve opened your project file. It looks as if you’ve only completed your schematic. So in breadboard view, you’ll have to hookup those wires yourself. OR if you already have this running on a protoboard, I’d go right into PCB layup and be done with things. But that’s just me.
The simple answer is, yes. You will have to do some wire layout by hand. The PCB side of things has an autorouter. I prefer to layout things by hand myself. This is something I never trust the computer with, and it looks better.
As for publishing. What are you talking about exactly? Share online, order a pcb, export gerber files? Not sure of your exact question. If you could elaborate a bit more that would be great.