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adding @wasade suggestion
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qiita_db/metadata_template/base_metadata_template.py

Lines changed: 3 additions & 4 deletions
Original file line numberDiff line numberDiff line change
@@ -1182,10 +1182,9 @@ def _common_to_dataframe_steps(self, samples=None):
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sql += ' AND sample_id IN %s'
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qdb.sql_connection.TRN.add(sql, [tuple(samples)])
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1185-
df = pd.DataFrame(qdb.sql_connection.TRN.execute_fetchindex())
1186-
df = pd.concat([df.drop(1, axis=1),
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pd.DataFrame(df[1].tolist(), dtype='str')], axis=1)
1188-
df.set_index(0, inplace=True)
1185+
data = qdb.sql_connection.TRN.execute_fetchindex()
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df = pd.DataFrame([d for _, d in data], index=[i for i, _ in data],
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dtype=str)
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df.index.name = 'sample_id'
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df.where((pd.notnull(df)), None)
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id_column_name = 'qiita_%sid' % (self._table_prefix)

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