# HG changeset patch
# User iuc
# Date 1408034187 14400
# Node ID 6e073fc99d9c434c92f247a411afd1dc38710e9b
# Parent  e76f203fc135e952b7fd1d63230d45cc64534923
Uploaded

diff -r e76f203fc135 -r 6e073fc99d9c vt_normalize.xml
--- a/vt_normalize.xml	Thu Aug 14 10:45:02 2014 -0400
+++ b/vt_normalize.xml	Thu Aug 14 12:36:27 2014 -0400
@@ -9,7 +9,7 @@
     <command>
 <![CDATA[
         vt @BINARY@
-            #if $output_format == 'bcf':
+            #if str($output_format) == 'bcf':
                 -o normalised.bcf
             #else:
                 -o normalised.vcf
@@ -29,9 +29,11 @@
                 -r "${reference_source.reference_genome}"
             #end if
 
-            "${ infile }";
+            "${ infile }"
 
-        #if $output_format == 'bcf':
+        &&
+
+        #if str($output_format) == 'bcf':
             mv normalised.bcf "${ outfile }";
         #else:
             mv normalised.vcf "${ outfile }";