def testMakeNormalizedDF(self):
if IGNORE_TEST:
return
provider = data_provider.DataProvider()
self.provider.do()
df1 = self.provider._makeNormalizedDF()
provider = data_provider.DataProvider(
calcRef=self.provider.calcRefPooled)
provider.do()
df2 = provider._makeNormalizedDF()
self.assertTrue(isinstance(df1, pd.DataFrame))
self.assertTrue(isinstance(df2, pd.DataFrame))
diff = set(df1.columns).symmetric_difference(df2.columns)
self.assertEqual(len(diff), 0)
self.assertEqual(len(df1), len(df2))
self.assertFalse(df1.equals(df2))
def testPersistence(self):
if IGNORE_TEST:
return
self.provider.do()
provider = data_provider.DataProvider()
provider.do()
self.provider.equals(provider)
def testNormalizeReadsDF(self):
if IGNORE_TEST:
return
provider = data_provider.DataProvider(is_only_qgenes=False,
is_display_errors=False)
provider.do()
df = provider.dfs_read_count[0]
df_normalized = provider.normalizeReadsDF(df)
columns = ["T%d" % n for n in range(len(df.columns))]
self.assertTrue(helpers.isValidDataFrame(df_normalized, columns))
self.assertEqual(len(df), len(df_normalized))
def testNormalizeReadsDF(self):
if IGNORE_TEST:
return
provider = data_provider.DataProvider(
is_only_qgenes=False, is_display_errors=False)
provider.do()
df = provider.dfs_read_count[0]
df_normalized = provider.normalizeReadsDF(df)
self.assertTrue(helpers.isValidDataFrame(df_normalized,
df.columns))
self.assertEqual(len(df), len(df_normalized))
ser_length = provider.df_gene_description[cn.LENGTH]
def setUp(self):
self.provider = data_provider.DataProvider()