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hi i tried this ontology mining and it seems to work! here are some cleanups and optimizations. it may not compile immediately due to some imports from a larger project but these are only in the example code. the main changes included using some primitive collections from gs-collections for efficiency in the matrix classes.
here is an example of some output i generated
https://gist.github.com/automenta/40a0e2e3ff897716e38c50acf1184f42