I just compiled my knowledge about nanofactories into this block diagram.
Any thoughts? ( You can open and edit the attached *.graphml file with the closed java freeware program yEd - here: http://www.yworks.com/en/products/yfiles/yed/ )

Attached files

2015-09-20_nanofac-process-diagram.graphml (139.5 KB) 

Related to this quite some time ago I extracted this flow-chart out of the minimal toolset paper:
http://www.molecularassembler.com/Papers/MinToolset.pdf

In the diagram above this chart corresponds to the points:

• moiety preparation
• moiety routing
• tooltip cycle

This is only the most minimal toolset. You can begin to see the complexity here.
The red ones are rate limiting  gas pase steps which still need better solutions.
Note that I had to decide for a lot of tradeoffs in this visualisation. 
It is thus far from perfect and definitely improvable.
(License: Public Domain)

Attached files

yEd-tooltip-cycle-graph_v1.00.graphml (297.3 KB)