code redundancy: refactor

[jjon]

commit fab39b3 the first step toward expanding the application toward TODOs below.

Existing functionality

• ancillary scripts to
  • translate biomine graphs into RDF
  • upload resulting RDF to AllegroGraph instance in VM
• visualize data in bmg files (biomine, datamining)
• UI to annotate 'mightBe' assertions with user supplied confidence metrics

TODO

• Translate .ann files for individual documents directly to RDF graph.
• Visualize the resulting graph.
• Compare multiple documents as with bmg files.
• User interface to annotate arbitrary Entity or Triple: especially in order to assert sameAs relationships.
• Store resulting graphs and annotations in AG triple-store.
• Incorporate relevant ancillary scripts into UI.
• UI for translating brat configuration document directly into RDF/OWL ontology

Long-range?

• UI link with brat: Refactor as a brat module? or incorporate brat minimal functionality?

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