Mercurial > repos > devteam > picard

diff picard_CollectGcBiasMetrics.xml @ 8:e417b1d6288d draft
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit bf94a1505c131fb3f67c867b6e1d886780efa42e
author: devteam
date: Tue, 06 Dec 2016 10:04:26 -0500
parents: 08f69add4d06
children: 41b8d087a2d2
--- a/picard_CollectGcBiasMetrics.xml	Sun Nov 27 15:11:36 2016 -0500
+++ b/picard_CollectGcBiasMetrics.xml	Tue Dec 06 10:04:26 2016 -0500
@@ -8,6 +8,7 @@
   </expand>
   <command detect_errors="exit_code"><![CDATA[
     @java_options@
+    @symlink_element_identifier@
     ##set up input files
 
     #set $reference_fasta_filename = "localref.fa"
@@ -20,7 +21,7 @@
 
     picard
     CollectGcBiasMetrics
-    INPUT="${inputFile}"
+    INPUT='$inputFile.element_identifier'
     OUTPUT="${outFile}"
     CHART_OUTPUT="${pdfFile}"
     SUMMARY_OUTPUT="${summaryFile}"