diff bamedit.py @ 47:759e00370aa9 draft

Uploaded

--- a/bamedit.py	Mon Nov 26 13:43:27 2012 -0500
+++ b/bamedit.py	Mon Nov 26 13:47:15 2012 -0500
@@ -13,9 +13,15 @@
 def main():
     options = simplejson.load( open( sys.argv[1] ) )
 
+    asdf = options['asdf']
+    print "asdf %s" % asdf
+
     shscript = sys.argv[2]
+    print shscript
+
+    test1 = sys.argv[3]
+
     plscript = "%s/pileup.pl" % os.environ.get('SCRIPT_PATH')
-    print shscript
     if(options['action'] == "merge"):
 	cmdline = "samtools merge  %s %s %s" % ( options['bamout'], options['input1'], options['input2'] )
 	if('input3' in options):