diff hmmconvert.xml @ 3:b03487ad64c8 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hmmer3 commit fa7dec5f222510d58f566f4799a04e3731fa03f6

--- a/hmmconvert.xml	Wed Apr 04 14:02:29 2018 -0400
+++ b/hmmconvert.xml	Sat Apr 07 03:52:10 2018 -0400
@@ -1,5 +1,5 @@
 <?xml version="1.0"?>
-<tool id="hmmer_hmmconvert" name="hmmconvert" version="@WRAPPER_VERSION@.0">
+<tool id="hmmer_hmmconvert" name="hmmconvert" version="@TOOL_VERSION@">
   <description>convert profile file to a HMMER format</description>
   <macros>
     <import>macros.xml</import>
@@ -9,20 +9,20 @@
   <command><![CDATA[
 hmmconvert
 $format
-$hmmfile > $output
-      ]]></command>
+'$hmmfile'
+> '$output'
+  ]]></command>
   <inputs>
     <expand macro="input_hmm" />
-    <param type="select" label="Output Format" name="format">
+    <param name="format" type="select" label="Output Format">
       <option value="-a" selected="true">output models in HMMER3 ASCII format</option>
       <!--<option value="-b">output models in HMMER3 binary format</option>-->
       <option value="-2">backward compatible HMMER2 ASCII format</option>
     </param>
   </inputs>
   <outputs>
-    <data format="hmm3" name="output" label="$hmmfile.name">
+    <data name="output" format="hmm3" label="$hmmfile.name">
       <change_format>
-        <when input="format" value="-a" format="hmm3"/>
         <when input="format" value="-2" format="hmm2"/>
       </change_format>
     </data>
@@ -44,6 +44,6 @@
 current HMMER3 ASCII format.
 
 @ATTRIBUTION@
-]]></help>
+  ]]></help>
   <expand macro="citation"/>
 </tool>