Commit c80a94ef by Eric Coissac

Add logger to the scafforld call

parent cfb160ee
......@@ -87,7 +87,8 @@ def run(config):
cg = asm.compactAssembling(verbose=False)
genesincontig(cg,r,x)
scaffold(asm,cg,minlink=5,back=int(back),addConnectedLink=False)
scaffold(asm,cg,minlink=5,back=int(back),addConnectedLink=False,
logger=logger)
with open(output+'.gml','w') as gmlfile:
print(cg.gml(),file=gmlfile)
......
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