# HG changeset patch
# User urgi-team
# Date 1460131655 14400
# Node ID 1fd1f727c330a8a22d8735cd671eeb5927dc7781
# Parent  6bebeb76fa8df1bdbda301500f438361a3e61ef2
Uploaded

diff -r 6bebeb76fa8d -r 1fd1f727c330 VCFGandalfTools/VCFCarto_wrapper.py
--- a/VCFGandalfTools/VCFCarto_wrapper.py	Tue Apr 05 08:33:41 2016 -0400
+++ b/VCFGandalfTools/VCFCarto_wrapper.py	Fri Apr 08 12:07:35 2016 -0400
@@ -47,10 +47,6 @@
         args += " "
         args += "-o %s" % self._options.outFile
         args += " "
-        args += "-A %s" % self._options.refA
-        args += " "
-        args += "-H %s" % self._options.refH
-        args += " "
         args += "-v 2 "
         if self._options.onlyPar :
             args += " "
@@ -61,6 +57,11 @@
             if self._options.graphs :
                 args += " "
                 args += "-g"
+        else : 
+            args += " "
+            args += "-A %s" % self._options.refA
+            args += " "
+            args += "-H %s" % self._options.refH
         cmd = "%s %s" %(prg, args)
         
         print cmd