class SimpleIndicesTest(unittest.TestCase):
def setUp(self):
self.pairs = [None, None, 6, 5, None, 3, 2]
self.sequence = 'aacugcc'
self.parser = Parser(self.pairs)
self.indices = self.parser.indices()
self.flanking = self.parser.indices(flanking=True)
def test_hairpins(self):
ans = [tuple([[4]])]
self.assertEqual(self.indices['hairpin'], ans)
def test_hairpin_sequences(self):
ans = ['g']
val = self.parser.loops(self.sequence)
self.assertEqual(val['hairpin'], ans)
def test_flanking_hairpins(self):
ans = [tuple([[3, 4, 5]])]
self.assertEqual(self.flanking['hairpin'], ans)
def test_hairpin_flanking_sequences(self):
ans = ['ugc']
val = self.parser.loops(self.sequence, flanking=True)
self.assertEqual(val['hairpin'], ans)
class SimpleIndicesTest(unittest.TestCase):
def setUp(self):
self.pairs = [None, None, 6, 5, None, 3, 2]
self.sequence = 'aacugcc'
self.parser = Parser(self.pairs)
self.indices = self.parser.indices()
self.flanking = self.parser.indices(flanking=True)
def test_hairpins(self):
ans = [tuple([[4]])]
self.assertEqual(self.indices['hairpin'], ans)
def test_hairpin_sequences(self):
ans = ['g']
val = self.parser.loops(self.sequence)
self.assertEqual(val['hairpin'], ans)
def test_flanking_hairpins(self):
ans = [tuple([[3, 4, 5]])]
self.assertEqual(self.flanking['hairpin'], ans)
def test_hairpin_flanking_sequences(self):
ans = ['ugc']
val = self.parser.loops(self.sequence, flanking=True)
self.assertEqual(val['hairpin'], ans)
class MultiLoopTest(unittest.TestCase):
def setUp(self):
self.pairs = [26, 25, None, None, 13, 12, None, 11, None, None, None,
7, 5, 4, None, 23, None, 21, None, None, None, 17, None,
15, None, 1, 0]
self.parser = Parser(self.pairs)
self.indices = self.parser.indices()
def test_hairpin(self):
val = self.indices['hairpin']
ans = [tuple([[18, 19, 20]]), tuple([[8, 9, 10]])]
self.assertEqual(val, ans)
class MultiLoopTest(unittest.TestCase):
def setUp(self):
self.pairs = [
26, 25, None, None, 13, 12, None, 11, None, None, None, 7, 5, 4,
None, 23, None, 21, None, None, None, 17, None, 15, None, 1, 0
]
self.parser = Parser(self.pairs)
self.indices = self.parser.indices()
def test_hairpin(self):
val = self.indices['hairpin']
ans = [tuple([[18, 19, 20]]), tuple([[8, 9, 10]])]
self.assertEqual(val, ans)