def test_simulate(self):
dm = basico.load_example('LM')
data = basico.get_experiment_data_from_model()
self.assertTrue(len(data) == 5)
df = basico.run_time_course(100, automatic=False)
self.assertTrue(df.shape == (101, 5))
basico.remove_datamodel(dm)
def test_load_example(self):
dm = basico.load_example('brusselator')
self.assertTrue(dm is not None)
self.assertTrue(isinstance(dm, COPASI.CDataModel))
self.assertTrue('The Brusselator' in basico.model_io.overview())
# save model to string
copasi = basico.save_model_to_string()
basico.remove_datamodel(dm)
# try to load the model from string
dm = basico.load_model(copasi)
self.assertTrue(dm is not None)
self.assertTrue(isinstance(dm, COPASI.CDataModel))
self.assertTrue('The Brusselator' in basico.model_io.overview())
# save model as temp file
sbml_name = tempfile.mktemp()
basico.save_model(sbml_name, type='sbml')
cps_name = tempfile.mktemp()
basico.save_model(cps_name, type='copasi')
# model and data
basico.save_model_and_data(cps_name, delete_data_on_exit=True)
basico.remove_datamodel(dm)
def setUp(self):
dm = basico.load_example('LM-test1')
self.assertTrue(dm is not None)
self.assertTrue(isinstance(dm, COPASI.CDataModel))
self.assertTrue(
'Kinetics of a Michaelian enzyme measured spectrophotometrically'
in basico.model_io.overview())
print('Running setup')
def setUp(self):
basico.load_example('bruss')
self.assertIsNotNone(basico.get_species('X', exact=True))
def setUp(self):
self.model = basico.load_example('bruss')
self.assertTrue(self.model.getModel().getObjectName() == 'The Brusselator')
def setUp(self):
self.model = basico.load_example('PK')
self.assertTrue(self.model.getModel().getObjectName() ==
'Pritchard2002_glycolysis')
def setUp(self):
self.model = basico.load_example('LM')
self.assertTrue(
self.model.getModel().getObjectName() ==
'Kinetics of a Michaelian enzyme measured spectrophotometrically')
def test_load_example(self):
dm = basico.load_example('brusselator')
self.assertTrue(dm is not None)
self.assertTrue(isinstance(dm, COPASI.CDataModel))
self.assertTrue('The Brusselator' in basico.model_io.overview())
basico.remove_datamodel(dm)
def setUp(self):
basico.load_example('brusselator')
self.assertEqual(basico.get_current_model().getModel().getObjectName(),
'The Brusselator')
def setUp(self):
dm = basico.load_example('brusselator')
self.assertTrue(dm is not None)
self.assertTrue(isinstance(dm, COPASI.CDataModel))
self.assertTrue('The Brusselator' in basico.model_io.overview())
print('Running setup')
