Unlocking the Oil Processing milestone gives access to the Oil Extractor and the Refinery. I'll explain how Refineries work and how they have dual inputs and outputs and how you need to manage them.
Here I will demonstrate how to build vertically for a copper node making copper products.
Manual Automation shows you how to use storage containers for the inputs and outputs of a machine and hence you can fill those containers with materials and parts will automatically be created, all you need to do is top up the containers occasionally.
Overclocking is how you can increase the production rates of the machines in game. Underclocking allows you to reduce the power consumption of machines, but at a reduced output rate.