def test_get_upstream():
m = MRA()
egfr = sts.Agent('EGFR', db_refs={'HGNC': '3236', 'TEXT': 'EGFR'})
kras = sts.Agent('KRAS', db_refs={'HGNC': '6407', 'TEXT': 'KRAS'})
stmts = [sts.Activation(egfr, kras)]
model_id = m.new_model(stmts)
upstream = m.get_upstream(kras, model_id)
assert(len(upstream) == 1)
assert(upstream[0].name == 'EGFR')
def test_respond_model_get_upstream():
mm = MRA_Module(testing=True)
egfr = sts.Agent('EGFR', db_refs={'HGNC': '3236', 'TEXT': 'EGFR'})
kras = sts.Agent('KRAS', db_refs={'HGNC': '6407', 'TEXT': 'KRAS'})
stmts = [sts.Activation(egfr, kras)]
model_id = mm.mra.new_model(stmts)
kras_term = ekb_from_agent(kras)
msg = KQMLList('MODEL-GET-UPSTREAM')
msg.sets('target', kras_term)
msg.set('model-id', str(model_id))
reply = mm.respond_model_get_upstream(msg)
ups = reply.get('upstream')
assert(len(ups) == 1)
def create_build(self):
self.bioagent.mra.explain = \
sts.Activation(sts.Agent('KRAS', db_refs={'HGNC': '6407'}),
sts.Agent('JUN', db_refs={'HGNC': '6204'}))
return _get_build_model_request('KRAS activates MEK.')