> I definitely remember reading discussion where Noel was mentioning a limit 
> (that at this point can't be 1k atoms) but I can't find it since Sourceforge 
> seems to be down for maintenance.

There is an explicit limit for InChI as defined by IUPAC. (I believe 1024 
atoms.) 

There was at one point a limit in Open Babel for SMILES, but this was removed. 
I don't advocate huge SMILES because some programs don't like 10,000 character 
lines. :-)

The only limit in modern versions of Open Babel is your patience, RAM, and 
atomic indices, which is an unsigned integer. At worst, that's 2^32 ~4.2 
billion atoms.

Maybe the question was in regards to 2D depiction? There might be a limit in 
that code - I haven't checked it thoroughly.

-Geoff
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