def test_more_than_ten_missing(self):
seqs = ['ACGT'] * 11
index = ['id%d' % d for d in range(11)]
eleven_seqs = pd.Series(seqs, index=index)
df = pd.DataFrame({'COL': [1]}, index=['x'])
df.index.name = 'id'
empty_md = qiime2.Metadata(df)
with self.assertRaisesRegex(ValueError, 'omitted'):
label_seqs(eleven_seqs, '+', empty_md, ['COL'])
def test_label_works_one_column(self):
exp_series = pd.Series(['ACGT', 'ACGT', 'ACGT'],
index=['id1+A', 'id2+B', 'id3+C'])
obs_series = label_seqs(self.seqs, '+', self.md, ['COL1'])
pdt.assert_series_equal(obs_series, exp_series)
def test_column_missing_value(self):
exp_series = pd.Series(['ACGT', 'ACGT', 'ACGT'],
index=['id1+A+1', 'id2+missing+2', 'id3+C+3'])
obs_series = label_seqs(self.seqs, '+', self.missing_md,
['COL1', 'COL2'])
pdt.assert_series_equal(obs_series, exp_series)
def test_column_missing_value_contains_delimiter(self):
with self.assertRaisesRegex(ValueError,
':.*cannot be contained.*mis:sing.*'):
label_seqs(self.seqs, ':', self.missing_md, ['COL1', 'COL2'],
'mis:sing')
def test_requested_col_not_present(self):
with self.assertRaisesRegex(ValueError, "The column 'COL3' is not"):
label_seqs(self.seqs, '+', self.md, ['COL3'])
def test_md_missing_id(self):
with self.assertRaisesRegex(ValueError, "The following.*'id4'"):
label_seqs(self.four_seqs, '+', self.md, ['COL1', 'COL2'])
def test_columns_no_md(self):
with self.assertRaisesRegex(ValueError, 'Columns and metadata'):
label_seqs(self.seqs, '+', columns=['COL1', 'COL2'])
def test_md_no_columns(self):
with self.assertRaisesRegex(ValueError, 'Columns and metadata'):
label_seqs(self.seqs, '+', self.md)
def test_delabel_works(self):
obs_series = label_seqs(self.labeled_seqs, '+')
pdt.assert_series_equal(obs_series, self.seqs)
def test_label_works(self):
obs_series = label_seqs(self.seqs, '+', self.md, ['COL1', 'COL2'])
pdt.assert_series_equal(obs_series, self.labeled_seqs)
