class Code_Mutator_Test(unittest.TestCase):
def setUp(self):
self.trna_space = Test_Space(get_uniform_mutation_matrix(3, .0001))
self.aars_space = Test_Space(get_uniform_mutation_matrix(3, .0001))
self.code = Code([1, 2], [1, 2], self.trna_space, self.aars_space)
self.mutator = Code_Mutator(self.code, self.aars_space.mutation_matrix,
self.trna_space.mutation_matrix)
def test_mutant_codes(self):
""" Tests if all possible code variants are created. """
possible_codes = self.mutator.get_possible_codes()
# Each code contains 4 items with 3 variants for each item
# variants can be reused
# so 3^4 = 81
self.assertEqual(81, len(possible_codes))
def test_mutant_probability(self):
""" Does basic checks on the mutation probability from one code to another. """
# No mutations
to_code = Code([1, 2], [1, 2], self.trna_space, self.aars_space)
self.assertAlmostEqual(.9998**4,
self.mutator.mutation_probability(to_code))
# 1 mutation
to_code = Code([1, 1], [1, 2], self.trna_space, self.aars_space)
self.assertAlmostEqual(.9998**3 * .0001,
self.mutator.mutation_probability(to_code))
# 4 mutations
to_code = Code([0, 0], [0, 0], self.trna_space, self.aars_space)
self.assertAlmostEqual(.0001**4,
self.mutator.mutation_probability(to_code))
def test_custom_mutant_probability(self):
""" Checks if the mutation probability uses the correct indices. """
aars_mutation = self.aars_space.mutation_matrix.copy()
aars_mutation[0, :] = [.75, .15, .10]
from_code = Code([1, 2], [0, 1], self.trna_space, self.aars_space)
custom_mutator = Code_Mutator(from_code, aars_mutation,
self.trna_space.mutation_matrix)
to_code = Code([1, 2], [1, 1], self.trna_space, self.aars_space)
self.assertAlmostEqual(.9998**3 * .15,
custom_mutator.mutation_probability(to_code))
class Code_Mutator_Test(unittest.TestCase):
def setUp(self):
self.trna_space = Test_Space(get_uniform_mutation_matrix(3, .0001))
self.aars_space = Test_Space(get_uniform_mutation_matrix(3, .0001))
self.code = Code([1,2], [1,2], self.trna_space, self.aars_space)
self.mutator = Code_Mutator(self.code, self.aars_space.mutation_matrix,
self.trna_space.mutation_matrix)
def test_mutant_codes(self):
""" Tests if all possible code variants are created. """
possible_codes = self.mutator.get_possible_codes()
# Each code contains 4 items with 3 variants for each item
# variants can be reused
# so 3^4 = 81
self.assertEqual(81, len(possible_codes))
def test_mutant_probability(self):
""" Does basic checks on the mutation probability from one code to another. """
# No mutations
to_code = Code([1,2], [1,2], self.trna_space, self.aars_space)
self.assertAlmostEqual(.9998 ** 4, self.mutator.mutation_probability(to_code))
# 1 mutation
to_code = Code([1,1], [1,2], self.trna_space, self.aars_space)
self.assertAlmostEqual(.9998 ** 3 * .0001, self.mutator.mutation_probability(to_code))
# 4 mutations
to_code = Code([0,0], [0,0], self.trna_space, self.aars_space)
self.assertAlmostEqual(.0001 ** 4, self.mutator.mutation_probability(to_code))
def test_custom_mutant_probability(self):
""" Checks if the mutation probability uses the correct indices. """
aars_mutation = self.aars_space.mutation_matrix.copy()
aars_mutation[0,:] = [.75, .15, .10]
from_code = Code([1,2], [0,1], self.trna_space, self.aars_space)
custom_mutator = Code_Mutator(from_code, aars_mutation,
self.trna_space.mutation_matrix)
to_code = Code([1,2], [1,1], self.trna_space, self.aars_space)
self.assertAlmostEqual(.9998 ** 3 * .15, custom_mutator.mutation_probability(to_code))
def test_custom_mutant_probability(self):
""" Checks if the mutation probability uses the correct indices. """
aars_mutation = self.aars_space.mutation_matrix.copy()
aars_mutation[0,:] = [.75, .15, .10]
from_code = Code([1,2], [0,1], self.trna_space, self.aars_space)
custom_mutator = Code_Mutator(from_code, aars_mutation,
self.trna_space.mutation_matrix)
to_code = Code([1,2], [1,1], self.trna_space, self.aars_space)
self.assertAlmostEqual(.9998 ** 3 * .15, custom_mutator.mutation_probability(to_code))
def test_custom_mutant_probability(self):
""" Checks if the mutation probability uses the correct indices. """
aars_mutation = self.aars_space.mutation_matrix.copy()
aars_mutation[0, :] = [.75, .15, .10]
from_code = Code([1, 2], [0, 1], self.trna_space, self.aars_space)
custom_mutator = Code_Mutator(from_code, aars_mutation,
self.trna_space.mutation_matrix)
to_code = Code([1, 2], [1, 1], self.trna_space, self.aars_space)
self.assertAlmostEqual(.9998**3 * .15,
custom_mutator.mutation_probability(to_code))
