MAINT: Bring back BIOMV100, drop downcast trnsfrmr

qiime2 · Jul 30, 2019 · 8d7855f · 8d7855f
1 parent c3d9dc2
commit 8d7855f
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diff --git a/q2_types/feature_table/_transformer.py b/q2_types/feature_table/_transformer.py
@@ -73,30 +73,13 @@ def _table_to_v210(data):
     return ff
 
 
-def _table_to_v100(data):
-    ff = BIOMV100Format()
-    with ff.open() as fh:
-        data.to_json(generated_by=_get_generated_by(), direct_io=fh)
-    return ff
-
-
 def _dataframe_to_table(df):
     if df.index.inferred_type != 'string':
         raise TypeError("Please provide a DataFrame with a string-based Index")
     return biom.Table(df.T.values, observation_ids=df.columns,
                       sample_ids=df.index)
 
 
-@plugin.register_transformer
-def _1(data: biom.Table) -> BIOMV100Format:
-    data = _drop_axis_metadata(data)
-
-    ff = BIOMV100Format()
-    with ff.open() as fh:
-        fh.write(data.to_json(generated_by=_get_generated_by()))
-    return ff
-
-
 @plugin.register_transformer
 def _2(ff: BIOMV100Format) -> biom.Table:
     return _parse_biom_table_v100(ff)
@@ -152,12 +135,6 @@ def _10(df: pd.DataFrame) -> BIOMV210Format:
     return _table_to_v210(_dataframe_to_table(df))
 
 
-@plugin.register_transformer
-def _11(ff: BIOMV210Format) -> BIOMV100Format:
-    data = _parse_biom_table_v210(ff)
-    return _table_to_v100(data)
-
-
 @plugin.register_transformer
 def _12(data: biom.Table) -> qiime2.Metadata:
     return _table_to_metadata(data)

diff --git a/q2_types/feature_table/tests/test_transformer.py b/q2_types/feature_table/tests/test_transformer.py
@@ -24,20 +24,6 @@
 class TestTransformers(TestPluginBase):
     package = 'q2_types.feature_table.tests'
 
-    def test_biom_table_to_biom_v100_format(self):
-        filepath = self.get_data_path('feature-table_v100.biom')
-        transformer = self.get_transformer(biom.Table, BIOMV100Format)
-        input = biom.load_table(filepath)
-
-        obs = transformer(input)
-        obs = biom.load_table(str(obs))
-
-        exp = input
-        self.assertEqual(obs.ids(axis='observation').all(),
-                         exp.ids(axis='observation').all())
-        self.assertEqual(obs.ids(axis='sample').all(),
-                         exp.ids(axis='sample').all())
-
     def test_biom_v100_format_to_biom_table(self):
         input, obs = self.transform_format(BIOMV100Format, biom.Table,
                                            filename='feature-table_v100.biom')
@@ -111,17 +97,6 @@ def test_biom_v100_format_to_biom_v210_format(self):
         self.assertEqual(obs.ids(axis='sample').all(),
                          exp.ids(axis='sample').all())
 
-    def test_biom_v210_format_to_biom_v100_format(self):
-        input, obs = self.transform_format(BIOMV210Format, BIOMV100Format,
-                                           filename='feature-table_v210.biom')
-        exp = biom.load_table(str(input))
-        obs = biom.load_table(str(obs))
-
-        self.assertEqual(obs.ids(axis='observation').all(),
-                         exp.ids(axis='observation').all())
-        self.assertEqual(obs.ids(axis='sample').all(),
-                         exp.ids(axis='sample').all())
-
     def test_to_pandas_data_frame_to_biom_v210_format(self):
         filepath = self.get_data_path('feature-table_v100.biom')
         transformer1 = self.get_transformer(BIOMV100Format, pd.DataFrame)