Mercurial > repos > zzhou > bamedit

changeset 47:759e00370aa9 draft

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Uploaded
author zzhou
date Mon, 26 Nov 2012 13:47:15 -0500
parents 566222f3088e
children a4c2120abe14
files bamedit.py
diffstat 1 files changed, 7 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- 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):