def setUp(self):
self.alphabet = TestAlphabet()
genome_1 = MutableSeq("11111111", self.alphabet)
self.org_1 = Organism(genome_1, test_fitness)
genome_2 = MutableSeq("22222222", self.alphabet)
self.org_2 = Organism(genome_2, test_fitness)
genome_3 = MutableSeq("333", self.alphabet)
self.org_3 = Organism(genome_3, test_fitness)
self.crossover = UniformCrossover(1.0, 0.8)
def setUp(self):
self.alphabet = TestAlphabet()
genome_1 = MutableSeq("11111111", self.alphabet)
self.org_1 = Organism(genome_1, test_fitness)
genome_2 = MutableSeq("22222222", self.alphabet)
self.org_2 = Organism(genome_2, test_fitness)
genome_3 = MutableSeq("333", self.alphabet)
self.org_3 = Organism(genome_3, test_fitness)
self.crossover = UniformCrossover(1.0, 0.8)
class UniformTest(unittest.TestCase):
"""Test simple point crossovers.
"""
def setUp(self):
self.alphabet = TestAlphabet()
genome_1 = MutableSeq("11111111", self.alphabet)
self.org_1 = Organism(genome_1, test_fitness)
genome_2 = MutableSeq("22222222", self.alphabet)
self.org_2 = Organism(genome_2, test_fitness)
genome_3 = MutableSeq("333", self.alphabet)
self.org_3 = Organism(genome_3, test_fitness)
self.crossover = UniformCrossover(1.0, 0.8)
def test_basic_crossover(self):
"""Test basic uniform crossover functionality.
"""
start_genome_1 = self.org_1.genome[:]
start_genome_2 = self.org_2.genome[:]
new_org_1, new_org_2 = self.crossover.do_crossover(self.org_1,
self.org_2)
self.assertNotEqual(str(new_org_1.genome), str(start_genome_1),
"Did not perform a crossover when expected.")
self.assertNotEqual(str(new_org_2.genome), str(start_genome_2),
"Did not perform a crossover when expected.")
self.assertNotEqual(str(new_org_1), str(self.org_1),
"Returned an exact copy of the original organism.")
self.assertNotEqual(str(new_org_2), str(self.org_2),
"Returned an exact copy of the original organism.")
def test_ds_prop_uniform_crossover(self):
"""Test properties of differing genome length, uniform crossovers.
"""
new_org_1, new_org_2 = self.crossover.do_crossover(self.org_1,
self.org_3)
self.assertTrue(len(new_org_1.genome) > len(new_org_2.genome),
"Strings are of wrong sizes after uniform crossover.")
self.assertEqual(str(new_org_2.genome).count("1"),
str(new_org_1.genome).count("3"),
"There should be equal distributions of the smaller string")
self.assertEqual(str(self.org_1.genome[len(new_org_2.genome):]),
str(new_org_1.genome[len(new_org_2.genome):]),
"Uniform should not touch non-overlapping elements of genome")
def test_ss_prop_uniform_crossover(self):
"""Test properties of equal genome length, uniform crossovers.
"""
new_org_1, new_org_2 = self.crossover.do_crossover(self.org_1,
self.org_2)
self.assertEqual(len(new_org_1.genome), len(new_org_2.genome),
"Strings are of different sizes after uniform crossover.")
self.assertEqual(str(new_org_1.genome).count("1"),
str(new_org_2.genome).count("2"),
"There should be equal, inverse distributions")
self.assertEqual(str(new_org_1.genome).count("2"),
str(new_org_2.genome).count("1"),
"There should be equal, inverse distributions")
class UniformTest(unittest.TestCase):
"""Test simple point crossovers.
"""
def setUp(self):
self.alphabet = TestAlphabet()
genome_1 = MutableSeq("11111111", self.alphabet)
self.org_1 = Organism(genome_1, test_fitness)
genome_2 = MutableSeq("22222222", self.alphabet)
self.org_2 = Organism(genome_2, test_fitness)
genome_3 = MutableSeq("333", self.alphabet)
self.org_3 = Organism(genome_3, test_fitness)
self.crossover = UniformCrossover(1.0, 0.8)
def test_basic_crossover(self):
"""Test basic uniform crossover functionality.
"""
start_genome_1 = self.org_1.genome[:]
start_genome_2 = self.org_2.genome[:]
new_org_1, new_org_2 = self.crossover.do_crossover(
self.org_1, self.org_2)
self.assertNotEqual(str(new_org_1.genome), str(start_genome_1),
"Did not perform a crossover when expected.")
self.assertNotEqual(str(new_org_2.genome), str(start_genome_2),
"Did not perform a crossover when expected.")
self.assertNotEqual(
str(new_org_1), str(self.org_1),
"Returned an exact copy of the original organism.")
self.assertNotEqual(
str(new_org_2), str(self.org_2),
"Returned an exact copy of the original organism.")
def test_ds_prop_uniform_crossover(self):
"""Test properties of differing genome length, uniform crossovers.
"""
new_org_1, new_org_2 = self.crossover.do_crossover(
self.org_1, self.org_3)
self.assertTrue(
len(new_org_1.genome) > len(new_org_2.genome),
"Strings are of wrong sizes after uniform crossover.")
self.assertEqual(
str(new_org_2.genome).count("1"),
str(new_org_1.genome).count("3"),
"There should be equal distributions of the smaller string")
self.assertEqual(
str(self.org_1.genome[len(new_org_2.genome):]),
str(new_org_1.genome[len(new_org_2.genome):]),
"Uniform should not touch non-overlapping elements of genome")
def test_ss_prop_uniform_crossover(self):
"""Test properties of equal genome length, uniform crossovers.
"""
new_org_1, new_org_2 = self.crossover.do_crossover(
self.org_1, self.org_2)
self.assertEqual(
len(new_org_1.genome), len(new_org_2.genome),
"Strings are of different sizes after uniform crossover.")
self.assertEqual(
str(new_org_1.genome).count("1"),
str(new_org_2.genome).count("2"),
"There should be equal, inverse distributions")
self.assertEqual(
str(new_org_1.genome).count("2"),
str(new_org_2.genome).count("1"),
"There should be equal, inverse distributions")
