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JOELib/JOELib2 is a cheminformatics library which supports SMARTS substructure search, descriptor calculation, processing/filtering pipes, conversion of file formats, 100% pure Java, and interfaces to external programs (e.g. Ghemical) are available.
A tool based on the model proposed by Bellman & Zadeh (1970) fuzzy logic (fuzzy sets) decision support paper. The first version of the application was developed in Java (pure java + jgoodies and some other APIs).
Now it is being rewritten using nebular, a pure Java fuzzy API.