#!/usr/bin/env python
# coding: utf-8

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get_ipython().run_line_magic('reset', '-f')


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# !pip install oaklib==0.5.16-rc1


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get_ipython().run_cell_magic('time', '', 'from oaklib.selector import get_adapter\nsemsim = get_adapter(f"semsimian:sqlite:obo:phenio")\n')


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get_ipython().run_cell_magic('time', '', 'semsim.termset_pairwise_similarity(\n            subjects=["MP:0010771","MP:0002169","MP:0005391","MP:0005389","MP:0005367"],\n            objects=["HP:0004325","HP:0000093","MP:0006144"],\n            predicates=["rdfs:subClassOf", "BFO:0000050", "UPHENO:0000001"],\n            labels=False,\n        )\n')


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semsim.semsimian_object_cache


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get_ipython().run_cell_magic('time', '', 'semsim.termset_pairwise_similarity(\n            subjects=["MP:0010771","MP:0002169","MP:0005391","MP:0005389","MP:0005367"],\n            objects=["HP:0004325","HP:0000093","MP:0006144"],\n            predicates=["rdfs:subClassOf", "BFO:0000050", "UPHENO:0000001"],\n            labels=False,\n        )\n')


# ## Semsimian

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from semsimian import Semsimian


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subjects=["MP:0010771","MP:0002169","MP:0005391","MP:0005389","MP:0005367"]
objects=["HP:0004325","HP:0000093","MP:0006144"]
predicates=["rdfs:subClassOf", "BFO:0000050", "UPHENO:0000001"]


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semsim


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get_ipython().run_cell_magic('time', '', '\nsemsim.resource_path = str(semsim.wrapped_adapter.engine.url).lstrip("sqlite:")\ntype(semsim.resource_path)\n')


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get_ipython().run_cell_magic('time', '', 'new_semsim_obj = Semsimian(spo=None, predicates=predicates, pairwise_similarity_attributes=None, resource_path=semsim.resource_path)\n')


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new_semsim_obj.get_spo()


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get_ipython().run_cell_magic('time', '', 'new_semsim_obj.termset_pairwise_similarity(set(subjects), set(objects))\n')


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