precommit

spras/mincostflow.py

@@ -138,8 +138,8 @@ def parse_output(raw_pathway_file, standardized_pathway_file):
         """
         Convert a predicted pathway into the universal format
 
-        Although the algorithm constructs a directed network, the resulting network is treated as undirected. 
-        This is because the flow within the network doesn't imply causal relationships between nodes. 
+        Although the algorithm constructs a directed network, the resulting network is treated as undirected.
+        This is because the flow within the network doesn't imply causal relationships between nodes.
         The primary goal of the algorithm is node identification, not the identification of directional edges.
 
         @param raw_pathway_file: pathway file produced by an algorithm's run function

test/generate-inputs/test_generate_inputs.py

@@ -10,12 +10,12 @@
 OUTDIR = "test/generate-inputs/output/"
 EXPDIR = "test/generate-inputs/expected/"
 algo_exp_file = {
-    'mincostflow': 'edges', 
-    'meo': 'edges', 
-    'omicsintegrator1': 'edges', 
-    'omicsintegrator2': 'edges', 
-    'domino': 'network', 
-    'pathlinker': 'network', 
+    'mincostflow': 'edges',
+    'meo': 'edges',
+    'omicsintegrator1': 'edges',
+    'omicsintegrator2': 'edges',
+    'domino': 'network',
+    'pathlinker': 'network',
     'allpairs': 'network'
     }