Is there any way to have a reasoner (such as HermiT in Protege) to check ontology consistency and inferences in marmotta? Or is there a way to generate rules for sKWRL reasoner from ontology file?
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Protégé has a plugin for HermiT and other reasoners also support it (FaCT++, Pellet). What is the connection in your question to Apache Marmotta?

Ignazio
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I rephrased the question. Is there a way to use something similar to HermiT in Marmotta, or is there a way to generate/extract SWRL rules (which are implied in the ontology) from an ontology file directly? – user3816378 Jul 05 '15 at 15:24