>Just a small comment...

>Since Open Babel 2.3.0, it is possible to describe each of the set
>bits using the "s" output option, e.g.

Ah, nice feature.

Then one can build a dictionary of fragment<->bit mappings for a given input 
set along FP2 generation, including detection of ambiguous mappings.

Still, with FP3 the pattern<->bit mapping is ex ante valid for any possible 
input set, if the substructure patterns are unambiguous and the substructure 
detection algorithm works perfectly.

Best regards,
Ergo

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