def test_update_species(self):
species = Species(name='H2O')
mixture = Mixture(species=[species])
self.assertTrue(species in mixture.update_species())
dna = DNA(name='test_DNA')
mixture.add_components(dna)
crn_list = mixture.update_species()
for s_dna in dna.update_species():
self.assertTrue(s_dna in crn_list)
def test_update_species(self):
from biocrnpyler import Mixture
from biocrnpyler import Species
from biocrnpyler import DNA
# from biocrnpyler import Dilution
species = Species(name='H2O')
mixture = Mixture(species=[species])
self.assertTrue(species in mixture.update_species())
dna = DNA(name='test_DNA')
mixture.add_components(dna)
crn_list = mixture.update_species()
for s_dna in dna.update_species():
self.assertTrue(s_dna in crn_list)
def test_update_reactions(self):
mixture = Mixture()
with self.assertRaisesRegexp(AttributeError, 'Mixture.crn_species not defined.'):
mixture.update_reactions()
component = Component(name='test_component')
# creating a mock update function to decouple the update process from the rest of the code
def mock_update_reactions():
rxn = Reaction(inputs=[], outputs=[], k=0.1)
return [rxn]
component.update_reactions = mock_update_reactions
mixture.add_components(component)
mixture.update_species()
crn_rxn = mixture.update_reactions()
crn_rxn_mock = mock_update_reactions()
self.assertEqual(crn_rxn, crn_rxn_mock)
def test_update_reactions(self):
from biocrnpyler import Mixture
from biocrnpyler import Reaction
from biocrnpyler import Component
mixture = Mixture()
with self.assertRaises(AttributeError):
mixture.update_reactions()
component = Component(name='test_component')
def mock_update_reactions():
rxn = Reaction(inputs=[], outputs=[], k=0.1)
return [rxn]
component.update_reactions = mock_update_reactions
mixture.add_components(component)
mixture.update_species()
crn_rxn = mixture.update_reactions()
crn_rxn_mock = mock_update_reactions()
self.assertEqual(crn_rxn, crn_rxn_mock)