class NumberingsTestCase(TestCase):
def setUp(self):
rows = [{
TM: 1
}, {
ALIGNMENT_POSITION: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 2,
GPCRDB_GAP: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 3,
TM: 1
}, {
ALIGNMENT_POSITION: 4,
TM: 1
}, {
ALIGNMENT_POSITION: 5,
GPCRDB_GAP: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 6,
TM: 1
}, {
ALIGNMENT_POSITION: 7,
TM: 1
}, {
ALIGNMENT_POSITION: 8
}, {
ALIGNMENT_POSITION: 9,
TM: 2
}, {
ALIGNMENT_POSITION: 10,
TM: 2,
GPCRDB_GAP: 1
}]
self.numbering = Numberings('gpcrdb_gapped_tm', rows)
def test_tm_lengths(self):
lengths = self.numbering.tm_lengths()
expected = {1: 7, 2: 2}
self.assertDictEqual(lengths, expected)
def test_tm_starts(self):
starts = self.numbering.tm_starts()
expected = {1: 1, 2: 9}
self.assertDictEqual(starts, expected)
def test_gpcrdb_gaps(self):
gaps = self.numbering.gpcrdb_gaps()
expected = {
1: set([2, 5]),
2: set([2])
}
self.assertDictEqual(gaps, expected)
class NumberingsTestCase(TestCase):
def setUp(self):
rows = [{
TM: 1
}, {
ALIGNMENT_POSITION: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 2,
GPCRDB_GAP: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 3,
TM: 1
}, {
ALIGNMENT_POSITION: 4,
TM: 1
}, {
ALIGNMENT_POSITION: 5,
GPCRDB_GAP: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 6,
TM: 1
}, {
ALIGNMENT_POSITION: 7,
TM: 1
}, {
ALIGNMENT_POSITION: 8
}, {
ALIGNMENT_POSITION: 9,
TM: 2
}, {
ALIGNMENT_POSITION: 10,
TM: 2,
GPCRDB_GAP: 1
}]
self.numbering = Numberings('gpcrdb_gapped_tm', rows)
def test_tm_lengths(self):
lengths = self.numbering.tm_lengths()
expected = {1: 7, 2: 2}
self.assertDictEqual(lengths, expected)
def test_tm_starts(self):
starts = self.numbering.tm_starts()
expected = {1: 1, 2: 9}
self.assertDictEqual(starts, expected)
def test_gpcrdb_gaps(self):
gaps = self.numbering.gpcrdb_gaps()
expected = {1: set([2, 5]), 2: set([2])}
self.assertDictEqual(gaps, expected)
def setUp(self):
rows = [{
TM: 1
}, {
ALIGNMENT_POSITION: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 2,
GPCRDB_GAP: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 3,
TM: 1
}, {
ALIGNMENT_POSITION: 4,
TM: 1
}, {
ALIGNMENT_POSITION: 5,
GPCRDB_GAP: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 6,
TM: 1
}, {
ALIGNMENT_POSITION: 7,
TM: 1
}, {
ALIGNMENT_POSITION: 8
}, {
ALIGNMENT_POSITION: 9,
TM: 2
}, {
ALIGNMENT_POSITION: 10,
TM: 2,
GPCRDB_GAP: 1
}]
self.numbering = Numberings('gpcrdb_gapped_tm', rows)
def setUp(self):
rows = [{
TM: 1
}, {
ALIGNMENT_POSITION: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 2,
GPCRDB_GAP: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 3,
TM: 1
}, {
ALIGNMENT_POSITION: 4,
TM: 1
}, {
ALIGNMENT_POSITION: 5,
GPCRDB_GAP: 1,
TM: 1
}, {
ALIGNMENT_POSITION: 6,
TM: 1
}, {
ALIGNMENT_POSITION: 7,
TM: 1
}, {
ALIGNMENT_POSITION: 8
}, {
ALIGNMENT_POSITION: 9,
TM: 2
}, {
ALIGNMENT_POSITION: 10,
TM: 2,
GPCRDB_GAP: 1
}]
self.numbering = Numberings('gpcrdb_gapped_tm', rows)