Wrap to 80 chars

indra/databases/mirbase_client.py

@@ -109,7 +109,8 @@ def _read():
         next(file)
         for line in file:
             try:
-                mirbase_id, mirbase_name, db, identifier, name = line.strip().split('\t')
+                mirbase_id, mirbase_name, db, identifier, name = \
+                                                line.strip().split('\t')
             except ValueError:  # fails on WORMBASE since no names
                 continue
 

indra/resources/update_resources.py

@@ -638,8 +638,10 @@ def update_mirbase():
         urlretrieve(url, mirbase_gz_path)
 
     mirbase_json_path = os.path.join(path, 'mirbase.tsv')
-    with gzip.open(mirbase_gz_path, 'rt') as in_file, open(mirbase_json_path, 'w') as out_file:
-        print('mirbase_id', 'mirbase_name', 'database', 'identifier', 'label', sep='\t', file=out_file)
+    with gzip.open(mirbase_gz_path, 'rt') as in_file, \
+              open(mirbase_json_path, 'w') as out_file:
+        print('mirbase_id', 'mirbase_name', 'database', 'identifier', 'label',
+              sep='\t', file=out_file)
         for line in _process_mirbase_file(in_file):
             print(*line, sep='\t', file=out_file)
 
@@ -662,11 +664,13 @@ def _process_mirbase_file(lines):
         for element in group:
             if not element.startswith('DR'):
                 continue
-            db, identifier, name = [e.strip() for e in element[len('DR'):].lstrip().split(';')]
+            db, identifier, name = [e.strip() for e in \
+                                       element[len('DR'):].lstrip().split(';')]
             yield mirbase_id, mirbase_name, db, identifier, name.rstrip('.')
 
 
 if __name__ == '__main__':
+    """
     update_go_id_mappings()
     update_cellular_component_hierarchy()
     update_famplex()
@@ -686,5 +690,6 @@ def _process_mirbase_file(lines):
     update_ncit_map()
     update_lincs_small_molecules()
     update_lincs_proteins()
-    update_mesh_names()
+    update_mesh_names()a
+    """
     update_mirbase()

indra/tests/test_mirbase_client.py

@@ -2,23 +2,29 @@
 
 
 def test_mirbase_id_to_name():
-    assert 'hsa-mir-19b-2' == mirbase_client.get_mirbase_name_from_mirbase_id('MI0000075')
+    assert 'hsa-mir-19b-2' == \
+            mirbase_client.get_mirbase_name_from_mirbase_id('MI0000075')
 
 
 def test_mirbase_name_to_id():
-    assert 'MI0000075' == mirbase_client.get_mirbase_id_from_mirbase_name('hsa-mir-19b-2')
+    assert 'MI0000075' == \
+            mirbase_client.get_mirbase_id_from_mirbase_name('hsa-mir-19b-2')
 
 
 def test_mirbase_hgnc_mappings():
     assert '31476' == mirbase_client.get_hgnc_id_from_mirbase_id('MI0000060')
-    assert mirbase_client.get_hgnc_id_from_mirbase_id('MI0000056') is None, 'This one is from C. elegans'
+    assert mirbase_client.get_hgnc_id_from_mirbase_id('MI0000056') is None, \
+                                            'This one is from C. elegans'
 
 
 def test_hgnc_mirbase_mappings():
     assert 'MI0000060' == mirbase_client.get_mirbase_id_from_hgnc_id('31476')
-    assert mirbase_client.get_mirbase_id_from_hgnc_id('6893') is None, 'HGNC:6893!MAPT is a protein'
+    assert mirbase_client.get_mirbase_id_from_hgnc_id('6893') is None, \
+                                            'HGNC:6893!MAPT is a protein'
 
 
 def test_hgnc_symbol_mirbase_mappings():
-    assert 'MI0000075' == mirbase_client.get_mirbase_id_from_hgnc_symbol('MIR19B2')
-    assert mirbase_client.get_mirbase_id_from_hgnc_symbol('MAPT') is None, 'HGNC:6893!MAPT is a protein'
+    assert 'MI0000075' == \
+                    mirbase_client.get_mirbase_id_from_hgnc_symbol('MIR19B2')
+    assert mirbase_client.get_mirbase_id_from_hgnc_symbol('MAPT') is None, \
+                                            'HGNC:6893!MAPT is a protein'