run isort recursive

bigbio · Sep 4, 2023 · 9f780be · 9f780be
1 parent 7729d9a
commit 9f780be
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Showing 5 changed files with 16 additions and 26 deletions.
diff --git a/sdrf_pipelines/maxquant/maxquant.py b/sdrf_pipelines/maxquant/maxquant.py
@@ -8,8 +8,7 @@
 import re
 import time
 from datetime import datetime
-from xml.dom.minidom import Document
-from xml.dom.minidom import parse
+from xml.dom.minidom import Document, parse
 
 import numpy as np
 import pandas as pd

diff --git a/sdrf_pipelines/sdrf/sdrf.py b/sdrf_pipelines/sdrf/sdrf.py
@@ -1,20 +1,16 @@
 import logging
 
 import pandas as pd
-
-from sdrf_pipelines.sdrf.sdrf_schema import CELL_LINES_TEMPLATE
-from sdrf_pipelines.sdrf.sdrf_schema import HUMAN_TEMPLATE
-from sdrf_pipelines.sdrf.sdrf_schema import MASS_SPECTROMETRY
-from sdrf_pipelines.sdrf.sdrf_schema import NON_VERTEBRATES_TEMPLATE
-from sdrf_pipelines.sdrf.sdrf_schema import PLANTS_TEMPLATE
-from sdrf_pipelines.sdrf.sdrf_schema import VERTEBRATES_TEMPLATE
-from sdrf_pipelines.sdrf.sdrf_schema import cell_lines_schema
-from sdrf_pipelines.sdrf.sdrf_schema import default_schema
-from sdrf_pipelines.sdrf.sdrf_schema import human_schema
-from sdrf_pipelines.sdrf.sdrf_schema import mass_spectrometry_schema
-from sdrf_pipelines.sdrf.sdrf_schema import nonvertebrates_chema
-from sdrf_pipelines.sdrf.sdrf_schema import plants_chema
-from sdrf_pipelines.sdrf.sdrf_schema import vertebrates_chema
+from sdrf_pipelines.sdrf.sdrf_schema import (CELL_LINES_TEMPLATE,
+                                             HUMAN_TEMPLATE, MASS_SPECTROMETRY,
+                                             NON_VERTEBRATES_TEMPLATE,
+                                             PLANTS_TEMPLATE,
+                                             VERTEBRATES_TEMPLATE,
+                                             cell_lines_schema, default_schema,
+                                             human_schema,
+                                             mass_spectrometry_schema,
+                                             nonvertebrates_chema,
+                                             plants_chema, vertebrates_chema)
 
 
 class SdrfDataFrame(pd.DataFrame):

diff --git a/sdrf_pipelines/sdrf/sdrf_schema.py b/sdrf_pipelines/sdrf/sdrf_schema.py
@@ -4,14 +4,11 @@
 from typing import Any
 
 import pandas as pd
-from pandas_schema import Column
-from pandas_schema import Schema
-from pandas_schema.validation import LeadingWhitespaceValidation
-from pandas_schema.validation import MatchesPatternValidation
-from pandas_schema.validation import TrailingWhitespaceValidation
-from pandas_schema.validation import _BaseValidation
-from pandas_schema.validation import _SeriesValidation
-
+from pandas_schema import Column, Schema
+from pandas_schema.validation import (LeadingWhitespaceValidation,
+                                      MatchesPatternValidation,
+                                      TrailingWhitespaceValidation,
+                                      _BaseValidation, _SeriesValidation)
 from sdrf_pipelines.sdrf import sdrf
 from sdrf_pipelines.utils.exceptions import LogicError
 from sdrf_pipelines.zooma.ols import OlsClient

diff --git a/sdrf_pipelines/sdrf_merge/add_data_analysis_param.py b/sdrf_pipelines/sdrf_merge/add_data_analysis_param.py
@@ -3,7 +3,6 @@
 
 import pandas as pd
 import yaml
-
 from sdrf_pipelines.openms.unimod import UnimodDatabase
 from sdrf_pipelines.sdrf.sdrf import SdrfDataFrame
 from sdrf_pipelines.zooma.zooma import OlsClient

diff --git a/sdrf_pipelines/zooma/zooma.py b/sdrf_pipelines/zooma/zooma.py
@@ -1,6 +1,5 @@
 import requests
 from requests import HTTPError
-
 from sdrf_pipelines.zooma.ols import OlsClient