In some ways we better understand how super computers are made, but we can also far more easily replicate cells than a supercomputer. So, again supper computers are more complex.
In terms of the minimum amount of information to turn raw matter into a simple cell, again super computers take more information.
I suspect you want some sort of third definion where cells are more complex, but that’s more begging the question than how things actually are.
It is not about simulating processes, it is about doing those processes.
Protean folding is very complex to simulate. But, so is even a hydrogen atom starting from quantum mechanic equations. Saying we can abstract away that hydrogen atom does not mean the complexity disappears. Further from a QM standpoint protean folding is really slow, it's a complex dance like plate tectonics even if it's blindingly fast from our viewpoint.
Within each manufacturing process, how many different kinds of steps are there and how "complicated" is each step (the required processing that is required to do that step)?
What kind of dynamic manufacturing infrastructures are created and then taken down within the cell for each of these processes?