def test_equals_false(self):
# type mismatch
a = BiologicalSequence('ACGT', id='foo', description='abc',
quality=[1, 2, 3, 4])
b = NucleotideSequence('ACGT', id='bar', description='def',
quality=[5, 6, 7, 8])
self.assertFalse(a.equals(b, ignore=['quality', 'description', 'id']))
# id mismatch
a = BiologicalSequence('ACGT', id='foo')
b = BiologicalSequence('ACGT', id='bar')
self.assertFalse(a.equals(b))
# description mismatch
a = BiologicalSequence('ACGT', description='foo')
b = BiologicalSequence('ACGT', description='bar')
self.assertFalse(a.equals(b))
# quality mismatch (both provided)
a = BiologicalSequence('ACGT', quality=[1, 2, 3, 4])
b = BiologicalSequence('ACGT', quality=[1, 2, 3, 5])
self.assertFalse(a.equals(b))
# quality mismatch (one provided)
a = BiologicalSequence('ACGT', quality=[1, 2, 3, 4])
b = BiologicalSequence('ACGT')
self.assertFalse(a.equals(b))
# sequence mismatch
a = BiologicalSequence('ACGT')
b = BiologicalSequence('TGCA')
self.assertFalse(a.equals(b))
def test_equals_true(self):
# sequences match, all other attributes are not provided
self.assertTrue(
BiologicalSequence('ACGT').equals(BiologicalSequence('ACGT')))
# all attributes are provided and match
a = BiologicalSequence('ACGT', id='foo', description='abc',
quality=[1, 2, 3, 4])
b = BiologicalSequence('ACGT', id='foo', description='abc',
quality=[1, 2, 3, 4])
self.assertTrue(a.equals(b))
# ignore type
a = BiologicalSequence('ACGT')
b = DNASequence('ACGT')
self.assertTrue(a.equals(b, ignore=['type']))
# ignore id
a = BiologicalSequence('ACGT', id='foo')
b = BiologicalSequence('ACGT', id='bar')
self.assertTrue(a.equals(b, ignore=['id']))
# ignore description
a = BiologicalSequence('ACGT', description='foo')
b = BiologicalSequence('ACGT', description='bar')
self.assertTrue(a.equals(b, ignore=['description']))
# ignore quality
a = BiologicalSequence('ACGT', quality=[1, 2, 3, 4])
b = BiologicalSequence('ACGT', quality=[5, 6, 7, 8])
self.assertTrue(a.equals(b, ignore=['quality']))
# ignore sequence
a = BiologicalSequence('ACGA')
b = BiologicalSequence('ACGT')
self.assertTrue(a.equals(b, ignore=['sequence']))
# ignore everything
a = BiologicalSequence('ACGA', id='foo', description='abc',
quality=[1, 2, 3, 4])
b = DNASequence('ACGT', id='bar', description='def',
quality=[5, 6, 7, 8])
self.assertTrue(a.equals(b, ignore=['quality', 'description', 'id',
'sequence', 'type']))
