Commit 85b7683b by Eric Coissac

Add the logger to the scaffold call

parent d682d89f
......@@ -84,7 +84,8 @@ def run(config):
genesincontig(cg,r,x)
scaffold(asm,cg,minlink=config['orgasm']['minlink'],
back=int(back),addConnectedLink=False)
back=int(back),addConnectedLink=False,
logger=logger)
# fastaout = open(output+".fasta","w")
fastaout = sys.stdout
......
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