def test_check_parse(self):
"""returns valid parsed or raises"""
exp = ("1", ("k__a", "p__b", "c__c", "o__d", "f__e", "g__f", "s__g"))
obs = check_parse(good_string)
self.assertEqual(obs, exp)
obs = check_parse(good_string_2)
self.assertEqual(obs, exp)
self.assertRaises(ParseError, check_parse, bad_string)
def test_check_gap(self):
"""check if a gap exists in a string"""
id_, parsed = check_parse(good_string)
self.assertTrue(check_gap(parsed))
id_, parsed = check_parse(good_trailing)
self.assertTrue(check_gap(parsed))
id_, parsed = check_parse(gap)
self.assertFalse(check_gap(parsed))
def test_check_parse(self):
"""returns valid parsed or raises"""
exp = ("1", ("k__a", "p__b", "c__c", "o__d", "f__e", "g__f", "s__g"))
obs = check_parse(good_string)
self.assertEqual(obs, exp)
obs = check_parse(good_string_2)
self.assertEqual(obs, exp)
self.assertRaises(ParseError, check_parse, bad_string)
def test_check_gap(self):
"""check if a gap exists in a string"""
id_, parsed = check_parse(good_string)
self.assertTrue(check_gap(parsed))
id_, parsed = check_parse(good_trailing)
self.assertTrue(check_gap(parsed))
id_, parsed = check_parse(gap)
self.assertFalse(check_gap(parsed))
def test_check_prefixes(self):
"""Verify the expected prefixes are present"""
prefixes = ["k", "p", "c", "o", "f", "g", "s"]
id_, parsed = check_parse(good_string)
self.assertTrue(check_prefixes(parsed, prefixes))
id_, parsed = check_parse(bad_prefix)
self.assertFalse(check_prefixes(parsed, prefixes))
id_, parsed = check_parse(no_prefix)
self.assertFalse(check_prefixes(parsed, prefixes))
def test_check_prefixes(self):
"""Verify the expected prefixes are present"""
prefixes = ['k', 'p', 'c', 'o', 'f', 'g', 's']
id_, parsed = check_parse(good_string)
self.assertTrue(check_prefixes(parsed, prefixes))
id_, parsed = check_parse(bad_prefix)
self.assertFalse(check_prefixes(parsed, prefixes))
id_, parsed = check_parse(no_prefix)
self.assertFalse(check_prefixes(parsed, prefixes))
def test_find_gap(self):
good_string_idx = -1
gap_idx = 2
trailing_idx = -1
id_, parsed = check_parse(good_string)
self.assertEqual(find_gap(parsed), good_string_idx)
id_, parsed = check_parse(good_trailing)
self.assertEqual(find_gap(parsed), trailing_idx)
id_, parsed = check_parse(gap)
self.assertEqual(find_gap(parsed), gap_idx)
def test_find_gap(self):
good_string_idx = -1
gap_idx = 2
trailing_idx = -1
id_, parsed = check_parse(good_string)
self.assertEqual(find_gap(parsed), good_string_idx)
id_, parsed = check_parse(good_trailing)
self.assertEqual(find_gap(parsed), trailing_idx)
id_, parsed = check_parse(gap)
self.assertEqual(find_gap(parsed), gap_idx)
def test_check_prefixes(self):
"""Verify the expected prefixes are present"""
prefixes = ['k', 'p', 'c', 'o', 'f', 'g', 's']
id_, parsed = check_parse(good_string)
self.assertTrue(check_prefixes(parsed, prefixes))
id_, parsed = check_parse(good_string_2)
self.assertTrue(check_prefixes(parsed, prefixes))
id_, parsed = check_parse(bad_prefix)
self.assertFalse(check_prefixes(parsed, prefixes))
id_, parsed = check_parse(no_prefix)
self.assertFalse(check_prefixes(parsed, prefixes))
def test_check_n_levels(self):
"""requires N levels, or unclassified"""
id_, parsed = check_parse(good_string)
self.assertTrue(check_n_levels(parsed, 7))
id_, parsed = check_parse(good_string_2)
self.assertTrue(check_n_levels(parsed, 7))
self.assertFalse(check_n_levels(parsed, 8))
id_, parsed = check_parse(good_unclassified)
self.assertTrue(check_n_levels(parsed, 7))
id_, parsed = check_parse(bad_unclassified1)
self.assertFalse(check_n_levels(parsed, 7))
id_, parsed = check_parse(bad_unclassified2)
self.assertFalse(check_n_levels(parsed, 7))
id_, parsed = check_parse(bad_unclassified3)
self.assertFalse(check_n_levels(parsed, 7))
id_, parsed = check_parse(bad_unclassified4)
self.assertFalse(check_n_levels(parsed, 7))
def test_check_n_levels(self):
"""requires N levels, or unclassified"""
id_, parsed = check_parse(good_string)
self.assertTrue(check_n_levels(parsed, 7))
id_, parsed = check_parse(good_string_2)
self.assertTrue(check_n_levels(parsed, 7))
self.assertFalse(check_n_levels(parsed, 8))
id_, parsed = check_parse(good_unclassified)
self.assertTrue(check_n_levels(parsed, 7))
id_, parsed = check_parse(bad_unclassified1)
self.assertFalse(check_n_levels(parsed, 7))
id_, parsed = check_parse(bad_unclassified2)
self.assertFalse(check_n_levels(parsed, 7))
id_, parsed = check_parse(bad_unclassified3)
self.assertFalse(check_n_levels(parsed, 7))
id_, parsed = check_parse(bad_unclassified4)
self.assertFalse(check_n_levels(parsed, 7))
