def test_predicate(self):
pc = cmb.PredicateCombinator(ilxtr.predicate)
objects1 = ilxtr.object1, ilxtr.object2
gen = pc(ilxtr.subject, *objects1)
self._doit(gen)
Restriction = cmb.Restriction(None)
objects2 = (cmb.unionOf(Restriction(ilxtr.property, ilxtr.value1)),
cmb.intersectionOf(
Restriction(ilxtr.property, ilxtr.value2)))
gen = pc(ilxtr.subject, *objects2)
self._doit(gen)
gen = pc(ilxtr.subject, *objects1, *objects2)
self._doit(gen)
oc(BFO['0000015']),
olit(BFO['0000015'], rdfs.label, 'process'),
oc(ilxtr.technique, BFO['0000015']), # FIXME technique/
olit(ilxtr.technique, rdfs.label, 'technique'),
olit(ilxtr.technique, NIFRID.synonym, 'method'),
olit(
ilxtr.technique, definition,
'A repeatable process that is constrained by some prior information.'),
(ilxtr.technique, ilxtr.hasTempId, OntId('HBP_MEM:0000000')),
# NOTE: not all techniques have primary participants, especially in the case of composite techniques
oc_(ilxtr.technique, restriction(ilxtr.hasExecutor, ilxtr.executor)),
oc_(
rdflib.BNode(),
oECN(
intersectionOf(
BFO['0000015'],
restN(hasParticipant, restN(ilxtr.hasAspect,
asp.nonLocal))), # vs hasExpAspect
intersectionOf(
BFO['0000015'],
restN(ilxtr.processHasAspect,
restN(ilxtr.hasContext, BFO['0000002'])))),
# FIXME still doesn't get the binding right
intersectionOf(
BFO['0000015'],
# FIXME nonLocal in time requires some time keeping device
# id some periodic phenomenon
restN(ilxtr.processHasContext, BFO['0000002'])),
),
#oc_(rdflib.BNode(),
#restN(ilxtr.hasAspect, asp.nonLocal),
#oec(ilxtr.physiologicalSystem)
#),
#(ilxtr.physiologicalSystemDisjointWithOrganism, owl.disjointWith, OntTerm('NCBITaxon:1')),
oc(ilxtr.viralParticle, ilxtr.physiologicalSystem),
oc(ilxtr.AAVretro, ilxtr.viralParticle),
oc(OntTerm('UBERON:0000465'), ilxtr.materialEntity),
oc(OntTerm('UBERON:0000955'), OntTerm('UBERON:0000465')),
oc(OntTerm('UBERON:0007798'), OntTerm('UBERON:0000465')),
oc(OntTerm('UBERON:0001049', label='neural tube'),
OntTerm('UBERON:0000465')),
oc(OntTerm('UBERON:0000479', label='tissue'), OntTerm('UBERON:0000465')),
oc_(
ilxtr.partOfSomePrimaryInput,
oECN(
intersectionOf(
ilxtr.materialEntity,
restN(partOf, restN(ilxtr.primaryInputIn, ilxtr.technique))))
), # it would be nice to say the technique in question...
oc(ilxtr.section, ilxtr.materialEntity),
oc_(
ilxtr.section,
intersectionOf(
ilxtr.partOfSomePrimaryInput,
restN(partOf,
ilxtr.primaryInputOfThisInstanceOfTechnique), # FIXME
restN(ilxtr.hasAspect,
asp.flatness), # FIXME has aspect needs more love
)),
oc(ilxtr.thinSection, ilxtr.section),
oc_(
ilxtr.thinSection,
def combinator(self):
return cmb.intersectionOf(*self)