large non-protein molecule qmmm or md preparation


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Hi Huub,

Thanks for your info.

What I want to say is the point here: " 3. make unique atom names:
This has to do with the requirement that all atoms names have to be unique within a given residue."

My question is that within a single residue the atom names have to be unique. Therefore it seems to be logic to dismentle big molecules like graphene sheet into small identical residues instead of a big piece as a big residue. Am I right?

Cheers,

Alvyn