final

debruijn/debruijn.py

@@ -286,12 +286,15 @@ def simplify_bubbles(graph):
         graph, nx.DiGraph: a bubble-less de bruijn graph
     """
     fork_nodes = []# empty list containing nodes with 2 or more ancestors
+
     for node in graph:
-        while graph.in_degree(node) >= 2: # if 2 or more ancestor add node
+        if graph.in_degree(node) >= 2: # if 2 or more ancestor add node
             pred = [n for n in graph.predecessors(node)] 
             ancestor = algorithms.lowest_common_ancestor(graph,pred[0], pred[1])
             graph = solve_bubble(graph, ancestor, node)
 
+
+
     return graph
 
 def solve_entry_tips():
@@ -302,7 +305,6 @@ def solve_out_tips():
     pass
 
 def main():
-    print(sys.argv[1])
     fichier = str(sys.argv[1])
     k = int(sys.argv[2])
     hash_table = build_kmer_dict(fichier, k)