Mercurial > repos > iuc > vsearch

diff alignment.xml @ 5:e8401372796a draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/vsearch commit 78d01e165304e0be6e6fd017b7314465492d7542
author: iuc
date: Thu, 17 Dec 2015 12:51:04 -0500
parents: 24e4f42410e5
children: 50cc0d99b800
--- a/alignment.xml	Wed Aug 26 13:34:00 2015 -0400
+++ b/alignment.xml	Thu Dec 17 12:51:04 2015 -0500
@@ -1,4 +1,4 @@
-<tool id="vsearch_alignment" name="VSearch alignment" version="@VERSION@.0">
+<tool id="vsearch_alignment" name="VSearch alignment" version="@VERSION@.1">
     <description></description>
     <macros>
         <import>vsearch_macros.xml</import>
@@ -11,11 +11,13 @@
     vsearch
         @GENERAL@
         $acceptall
-        --id $id
-        --iddef $iddef
-        --allpairs_global "$infile"
-        --alnout $outfile
-        --query_cov $query_cov
+        --id "${id}"
+        --iddef "${iddef}"
+        --allpairs_global "${infile}"
+        --alnout "${outfile}"
+        #if str( $query_cov ):
+            --query_cov "${query_cov}"
+        #end if
         @USERFIELDS@
 ]]>
     </command>
@@ -55,10 +57,6 @@
 
 @EXTERNAL_DOCUMENTATION@
 
--------
-
-@REFERENCES@
-
 
 ]]>
     </help>