def testGenome(self):
"""Test basic functions of a genome
"""
d = Genome(elementNumber=10, chromosomeNumber=3)
self.assertEqual(d.getChromosomeNumber(), 3)
self.assertEqual(d.getElements(), set(range(1, 11)))
#Test clone
self.assertEqual(str(d), str(d.clone()))
#Test inversions
for i in xrange(100):
e = d.clone()
self.assertEquals(d.getOutOfOrderDistance(e), 0)
self.assertEquals(d.getCircularDcjDistance(e), 0)
e.permuteByInversion()
self.assertEquals(e.getChromosomeNumber(), 3)
self.assertEquals(e.getElements(), d.getElements())
self.assertTrue(d.getOutOfOrderDistance(e) >= 0)
self.assertTrue(d.getCircularDcjDistance(e) in [0, 1])
#Test dcj
for i in xrange(100):
e = d.clone()
self.assertEquals(d.getOutOfOrderDistance(e), 0)
self.assertEquals(d.getCircularDcjDistance(e), 0)
e.permuteByDcj()
self.assertEquals(e.getElements(), d.getElements())
self.assertTrue(d.getOutOfOrderDistance(e) >= 0)
self.assertTrue(d.getCircularDcjDistance(e) in [0, 1, 2])
#Test translocations
for i in xrange(100):
e = d.clone()
self.assertEquals(d.getOutOfOrderDistance(e), 0)
self.assertEquals(d.getCircularDcjDistance(e), 0)
e.permuteByTranslocation()
self.assertEquals(e.getElements(), d.getElements())
self.assertTrue(d.getOutOfOrderDistance(e) >= 0)
self.assertTrue(d.getCircularDcjDistance(e) in [0, 1, 2])
def testGenome(self):
"""Test basic functions of a genome
"""
d = Genome(elementNumber=10, chromosomeNumber=3)
self.assertEqual(d.getChromosomeNumber(), 3)
self.assertEqual(d.getElements(), set(range(1, 11)))
#Test clone
self.assertEqual(str(d), str(d.clone()))
#Test inversions
for i in xrange(100):
e = d.clone()
self.assertEquals(d.getOutOfOrderDistance(e), 0)
self.assertEquals(d.getCircularDcjDistance(e), 0)
e.permuteByInversion()
self.assertEquals(e.getChromosomeNumber(), 3)
self.assertEquals(e.getElements(), d.getElements())
self.assertTrue(d.getOutOfOrderDistance(e) >= 0)
self.assertTrue(d.getCircularDcjDistance(e) in [ 0, 1 ])
#Test dcj
for i in xrange(100):
e = d.clone()
self.assertEquals(d.getOutOfOrderDistance(e), 0)
self.assertEquals(d.getCircularDcjDistance(e), 0)
e.permuteByDcj()
self.assertEquals(e.getElements(), d.getElements())
self.assertTrue(d.getOutOfOrderDistance(e) >= 0)
self.assertTrue(d.getCircularDcjDistance(e) in [ 0, 1, 2 ])
#Test translocations
for i in xrange(100):
e = d.clone()
self.assertEquals(d.getOutOfOrderDistance(e), 0)
self.assertEquals(d.getCircularDcjDistance(e), 0)
e.permuteByTranslocation()
self.assertEquals(e.getElements(), d.getElements())
self.assertTrue(d.getOutOfOrderDistance(e) >= 0)
self.assertTrue(d.getCircularDcjDistance(e) in [ 0, 1, 2 ])
