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replace deprecated assertRaisesRegexp with assertRaisesRegex #830

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Merged
ElDeveloper merged 2 commits into from
Jan 12, 2026
Merged

replace deprecated assertRaisesRegexp with assertRaisesRegex #830

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d7ae9ae
replace deprecated assertRaisesRegexp with assertRaisesRegex
a-detiste Jan 12, 2026
4b4eb13
please flake8
a-detiste Jan 12, 2026
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58 changes: 29 additions & 29 deletions tests/test_core.py
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Original file line number Diff line number Diff line change
Expand Up @@ -236,41 +236,41 @@ def test_one_dimensional(self):
self.ord_res.proportion_explained = \
self.ord_res.proportion_explained[:1].copy()

with self.assertRaisesRegexp(ValueError, "Ordinations with less than "
"two dimensions are not supported"):
with self.assertRaisesRegex(ValueError, "Ordinations with less than "
"two dimensions are not supported"):
Emperor(self.ord_res, self.mf, remote=False)

def test_initial_unbalanced_more_than_five(self):
mf = self.mf.copy()
mf.drop(['PC.354', 'PC.355', 'PC.356', 'PC.481', 'PC.607', 'PC.636'],
inplace=True)
with self.assertRaisesRegexp(KeyError, "There are samples not "
"included in the sample mapping file. "
"Override this error by using the "
"`ignore_missing_samples` argument. "
"Showing only the first 5 samples out of "
"6: PC.354, PC.355, PC.356, PC.481, "
"PC.607 ..."):
with self.assertRaisesRegex(KeyError, "There are samples not "
"included in the sample mapping file. "
"Override this error by using the "
"`ignore_missing_samples` argument. "
"Showing only the first 5 samples out of "
"6: PC.354, PC.355, PC.356, PC.481, "
"PC.607 ..."):
Emperor(self.ord_res, mf, remote=self.url)

def test_initial_unbalanced(self):
mf = self.mf.copy()
mf.drop(['PC.354'], inplace=True)
with self.assertRaisesRegexp(KeyError, "There are samples not "
"included in the sample mapping file. "
"Override this error by using the "
"`ignore_missing_samples` argument. "
"Offending samples: PC.354"):
with self.assertRaisesRegex(KeyError, "There are samples not "
"included in the sample mapping file. "
"Override this error by using the "
"`ignore_missing_samples` argument. "
"Offending samples: PC.354"):
Emperor(self.ord_res, mf, remote=self.url)

# test feature metadata
fmf = self.feature_mf.copy()
fmf.drop(['f.PC.636'], inplace=True)
with self.assertRaisesRegexp(KeyError, "There are features not "
"included in the feature mapping file. "
"Override this error by using the "
"`ignore_missing_samples` argument. "
"Offending features: f.PC.636"):
with self.assertRaisesRegex(KeyError, "There are features not "
"included in the feature mapping file. "
"Override this error by using the "
"`ignore_missing_samples` argument. "
"Offending features: f.PC.636"):
Emperor(self.biplot, self.mf, fmf, remote=self.url)

def test_initial_unbalanced_ignore(self):
Expand Down Expand Up @@ -322,21 +322,21 @@ def test_no_overlap(self):
mf = self.mf.copy()
mf.index = mf.index + '.not'

with self.assertRaisesRegexp(ValueError, 'None of the sample '
'identifiers match between the metadata '
'and the coordinates. Verify that you are'
' using metadata and coordinates '
'corresponding to the same dataset.'):
with self.assertRaisesRegex(ValueError, 'None of the sample '
'identifiers match between the metadata '
'and the coordinates. Verify that you are'
' using metadata and coordinates '
'corresponding to the same dataset.'):
Emperor(self.ord_res, mf, remote=self.url)

fmf = self.feature_mf.copy()
fmf.index = fmf.index + '.not'

with self.assertRaisesRegexp(ValueError, 'None of the feature '
'identifiers match between the metadata '
'and the coordinates. Verify that you are'
' using metadata and coordinates '
'corresponding to the same dataset.'):
with self.assertRaisesRegex(ValueError, 'None of the feature '
'identifiers match between the metadata '
'and the coordinates. Verify that you are'
' using metadata and coordinates '
'corresponding to the same dataset.'):
Emperor(self.biplot, self.mf, fmf, remote=self.url)

def test_get_template(self):
Expand Down
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