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Mmmmm ... how the logical performance depends on the size of the transistor?
Lets say you have an inverter. The sizes of the pmos/nmos transistors will affect the electrical parameters, like transistion time, delay .. etc... but however you change the sizes it will be an inverter.. and it's...
Yes with -noSpecialNet you will comment all Special nets in innovus, but if you want to comment out some of the special nets, as it is in the question, you can use awk/grep ... as Sam wrote.
You can try something with defOut -selected as well. But probably best way is an external tool.
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