# HG changeset patch
# User bgruening
# Date 1408034237 14400
# Node ID d67bfd79bf6c188688e7e21114db4ea35f8453b1
# Parent  b425a93b4da6797f228a7b93fc0f6c2a74b1f7e1
Uploaded

diff -r b425a93b4da6 -r d67bfd79bf6c vt_normalize.xml
--- a/vt_normalize.xml	Thu Aug 14 10:44:32 2014 -0400
+++ b/vt_normalize.xml	Thu Aug 14 12:37:17 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 }";