def test_duplication_mapper(log_file_in_tmpdir):
"""A positive all-up test of duplication mappers.
This is an acyclic workflow.
"""
elements = [
ComputeElement('dm', 'muscle.duplication_mapper'),
ComputeElement('first', 'receiver'),
ComputeElement('second', 'receiver')
]
conduits = [Conduit('dm.out', 'first.in'), Conduit('dm.out2', 'second.in')]
model = Model('test_model', elements, conduits)
settings = Settings()
configuration = Configuration(model, settings)
implementations = {
'muscle.duplication_mapper': duplication_mapper,
'receiver': receiver
}
run_simulation(configuration, implementations)
def test_all(log_file_in_tmpdir):
"""A positive all-up test of everything.
"""
elements = [
ComputeElement('macro', 'macro_impl'),
ComputeElement('micro', 'micro_impl', [10])
]
conduits = [
Conduit('macro.out', 'micro.in'),
Conduit('micro.out', 'macro.in')
]
model = Model('test_model', elements, conduits)
settings = Settings(
OrderedDict([('test1', 13), ('test2', 13.3), ('test3', 'testing'),
('test4', True), ('test5', [2.3, 5.6]),
('test6', [[1.0, 2.0], [3.0, 1.0]])]))
configuration = Configuration(model, settings)
implementations = {'macro_impl': macro, 'micro_impl': micro}
run_simulation(configuration, implementations)
def test_settings_overlays(log_file_in_tmpdir):
"""A positive all-up test of settings overlays.
"""
elements = [
ComputeElement('qmc', 'qmc'),
ComputeElement('macro', 'macro', [10]),
ComputeElement('relay', 'explicit_relay'),
ComputeElement('relay2', 'explicit_relay'),
ComputeElement('micro', 'micro', [10])]
conduits = [
Conduit('qmc.settings_out', 'macro.muscle_settings_in'),
Conduit('macro.out', 'relay.in'),
Conduit('relay.out', 'micro.in'),
Conduit('micro.out', 'relay2.in'),
Conduit('relay2.out', 'macro.in')]
model = Model('test_model', elements, conduits)
settings = Settings(OrderedDict([
('test1', 13),
('test2', 13.3),
('test3', 'testing'),
('test4', True),
('test5', [2.3, 5.6]),
('test6', [[1.0, 2.0], [3.0, 1.0]])]))
configuration = Configuration(model, settings)
implementations = {
'qmc': qmc,
'macro': macro,
'explicit_relay': explicit_relay,
'micro': micro}
run_simulation(configuration, implementations)
feed = np.array(feed)
kill = np.array(kill)
# Compute elements for the macro and micro model: specify the name of the python file here
elements = [ComputeElement('macro', 'macro', [n_samples]),
ComputeElement('micro', 'micro', [n_samples])]
# connect the submodels
conduits = [Conduit('macro.state_out', 'micro.state'),
Conduit('micro.sgs', 'macro.state_in')]
# create model instance
model = Model('gray_scott_reduced', elements, conduits)
# common settings
settings_dict = {'micro.t_max': 0.1, 'micro.dt': 0.1, 'N_Q': 2, 'N_LF': 128}
# parameter value settings, differs per run
for i in range(n_samples):
settings_dict['macro[%d].feed' % i] = feed[i]
settings_dict['macro[%d].kill' % i] = kill[i]
settings = Settings(settings_dict)
configuration = Configuration(model, settings)
# actual subroutines to run, imported from macro.py and micro.py
implementations = {'macro': gray_scott_macro, 'micro': reduced_sgs}
# execute ensemble on a single node
run_simulation(configuration, implementations)