def test_rna_del(self):
statement = 'var(r.1653_1655delcuu)'
expected = hgvs('r.1653_1655delcuu')
result = self.parser.parseString(statement)
self.assertEqual(expected, result.asDict())
def test_protein_trunc_legacy(self):
statement = 'var(p.65*)'
result = self.parser.parseString(statement)
expected = hgvs('p.65*')
self.assertEqual(expected, result.asDict())
def test_chromosome_1(self):
statement = 'variant(g.117199646_117199648delCTT)'
expected = hgvs('g.117199646_117199648delCTT')
result = self.parser.parseString(statement)
self.assertEqual(expected, result.asDict())
def test_chromosome_2(self):
statement = 'var(c.1521_1523delCTT)'
expected = hgvs('c.1521_1523delCTT')
result = self.parser.parseString(statement)
self.assertEqual(expected, result.asDict())
def test_unspecified(self):
statement = 'var(=)'
expected = hgvs('=')
result = self.parser.parseString(statement)
self.assertEqual(expected, result.asDict())
def test_frameshift(self):
statement = 'variant(p.Thr1220Lysfs)'
expected = hgvs('p.Thr1220Lysfs')
result = self.parser.parseString(statement)
self.assertEqual(expected, result.asDict())
def test_protein_mut(self):
statement = 'var(p.Gly576Ala)'
expected = hgvs('p.Gly576Ala')
result = self.parser.parseString(statement)
self.assertEqual(expected, result.asDict())
def test_trunc_1(self):
statement = 'trunc(40)'
result = self.parser.parseString(statement)
expected = hgvs('p.40*')
self.assertEqual(expected, result.asDict())
def test_protein_del_quoted(self):
statement = 'variant("p.Phe508del")'
expected = hgvs('p.Phe508del')
result = self.parser.parseString(statement)
self.assertEqual(expected, result.asDict())
def test_gsub(self):
statement = 'sub(G,308,A)'
result = self.parser.parseString(statement)
expected_dict = hgvs('c.308G>A')
self.assertEqual(expected_dict, result.asDict())
def test_psub_2(self):
statement = 'sub(Ala, 127, Tyr)'
result = self.parser.parseString(statement)
expected_list = hgvs('p.Ala127Tyr')
self.assertEqual(expected_list, result.asDict())
