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comparison bamedit.py @ 64:83bbb520a6ef draft

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Uploaded
author zzhou
date Mon, 26 Nov 2012 14:47:44 -0500
parents ad92d59fb5e2
children 891f6ef8a6d9
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63:fdad5f2a7ad9 64:83bbb520a6ef
12 12
13 def main(): 13 def main():
14 options = simplejson.load( open( sys.argv[1] ) ) 14 options = simplejson.load( open( sys.argv[1] ) )
15 15
16 16
17 shscript = options['testing']
18 print shscript
19 testing = sys.argv[2] 17 testing = sys.argv[2]
20 print testing 18 print testing
21 if(options['action'] == "merge"): 19 if(options['action'] == "merge"):
22 cmdline = "samtools merge %s %s %s" % ( options['bamout'], options['input1'], options['input2'] ) 20 cmdline = "samtools merge %s %s %s" % ( options['bamout'], options['input1'], options['input2'] )
23 if('input3' in options): 21 if('input3' in options):