def test_policy_multiple():
pol1 = Policy('michaelis_menten', parameters={'Km': Param('my_Km', 1.0),
'kc': Param('my_kc', 1e-1)})
pol2 = Policy('one_step', parameters={'kf': Param('d', 10.0)})
stmt1 = Inhibition(Agent('a'), Agent('b'))
stmt2 = Translocation(Agent('a'), 'cytoplasm', 'nucleus')
pa = PysbAssembler([stmt1, stmt2])
model = pa.make_model(policies={stmt1.uuid: pol1,
stmt2.uuid: pol2})
assert model.parameters['d'].value == 10.0
print(model.expressions['a_deactivates_b_activity_rate'])
print(model.rules)
def test_policy_object():
stmt = Phosphorylation(Agent('a'), Agent('b'))
pa = PysbAssembler([stmt])
pol = Policy('two_step')
model = pa.make_model(policies={stmt.uuid: pol})
assert len(model.rules) == 3
assert str(pol) == 'Policy(two_step)'
def test_policy_parameters():
pol = Policy('two_step', parameters={'kf': Param('a', 1.0),
'kr': Param('b', 2.0),
'kc': Param('c', 3.0)})
# Make sure we can correctly stringify here
assert str(pol)
stmt = Deubiquitination(Agent('a'), Agent('b'))
pa = PysbAssembler([stmt])
model = pa.make_model(policies={stmt.uuid: pol})
assert model.parameters['c'].value == 3.0
def test_mod_parameter():
stmt = Phosphorylation(Agent('a'), Agent('b'))
pol = Policy('one_step', parameters={'kf': Param('my_kf_param', 0.99)})
pa = PysbAssembler([stmt])
model = pa.make_model(policies={stmt.uuid: pol})
assert model.parameters['my_kf_param'].value == 0.99
def test_policy_object_invalid():
stmt = Phosphorylation(Agent('a'), Agent('b'))
pa = PysbAssembler([stmt])
model = pa.make_model(policies={'xyz': Policy('two_step')})
assert len(model.rules) == 3