Merge pull request #9 from dwhswenson/codacy

Minor codeclimate/pylint/pep8 fixes
dwhswenson · Oct 7, 2017 · 43c43f2 · 43c43f2
2 parents 46094dc + 581e0a9
commit 43c43f2
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Showing 2 changed files with 10 additions and 7 deletions.
diff --git a/.codeclimate.yml b/.codeclimate.yml
@@ -8,14 +8,17 @@ engines:
 
     fixme:
         enabled: true
+        issue_override:
+            severity: info
         exclude_paths:
             - "**pdb"
 
     duplication:
         enabled: true
-        languages:
-            python:
-                mass_threshold: 35
+        config:
+            languages:
+                python:
+                    mass_threshold: 35
 
 ratings:
     paths:

diff --git a/contact_map/contact_map.py b/contact_map/contact_map.py
@@ -250,14 +250,14 @@ def contact_map(self, trajectory, frame_number, residue_query_atom_idxs,
                 contact_neighbors = contact_neighbors & self._haystack
                 # frozenset is unique key independent of order
                 # local_pairs = set(frozenset((atom_idx, neighb))
-                                  # for neighb in contact_neighbors)
+                #                   for neighb in contact_neighbors)
                 local_pairs = set(map(
                     frozenset,
                     itertools.product([atom_idx], contact_neighbors)
                 ))
                 contact_pairs |= local_pairs
                 # contact_pairs |= set(frozenset((atom_idx, neighb))
-                                     # for neighb in contact_neighbors)
+                #                      for neighb in contact_neighbors)
                 local_residue_partners = set(self._atom_idx_to_residue_idx[a]
                                              for a in contact_neighbors)
                 local_res_pairs = set(map(
@@ -268,8 +268,8 @@ def contact_map(self, trajectory, frame_number, residue_query_atom_idxs,
 
         atom_contacts = collections.Counter(contact_pairs)
         # residue_pairs = set(
-            # frozenset(self._atom_idx_to_residue_idx[aa] for aa in pair)
-            # for pair in contact_pairs
+        #     frozenset(self._atom_idx_to_residue_idx[aa] for aa in pair)
+        #     for pair in contact_pairs
         # )
         residue_contacts = collections.Counter(residue_pairs)
         return (atom_contacts, residue_contacts)