Mercurial > repos > devteam > picard

diff picard_MarkDuplicatesWithMateCigar.xml @ 8:3a3234d7a2e8 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/picard commit 00a7926c285bc4a339bd7deebf40b28f39c7d947-dirty
author devteam
date Thu, 16 Jul 2015 15:53:10 -0400
parents 4ff1e04010e6
children 5eaa8a968300
line wrap: on
line diff
--- a/picard_MarkDuplicatesWithMateCigar.xml	Thu Jan 29 16:11:15 2015 -0500
+++ b/picard_MarkDuplicatesWithMateCigar.xml	Thu Jul 16 15:53:10 2015 -0400
@@ -1,13 +1,9 @@
-<tool name="MarkDuplicatesWithMateCigar" id="picard_MarkDuplicatesWithMateCigar" version="1.126.0">
+<tool name="MarkDuplicatesWithMateCigar" id="picard_MarkDuplicatesWithMateCigar" version="@TOOL_VERSION@.0">
   <description>examine aligned records in BAM datasets to locate duplicate molecules</description>
-  <requirements>
-    <requirement type="package" version="1.126.0">picard</requirement>
-  </requirements>
-  
   <macros>
     <import>picard_macros.xml</import>
   </macros>
-  
+  <expand macro="requirements" />
   <command>
     @java_options@
     
@@ -18,10 +14,8 @@
     OUTPUT="${outFile}"
     
     METRICS_FILE="${metrics_file}"
-    #for $element in $comments:
-      COMMENT="${element.comment}"
-    #end for
-    
+    COMMENT="${comment}"
+
     MINIMUM_DISTANCE="${minimum_distance}"
     SKIP_PAIRS_WITH_NO_MATE_CIGAR="${skip_pairs_with_no_mate_cigar}"