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changeset 4:576963db5f1b draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/vsearch commit 89e3a62dd6cbc8bcec84d08c1710bfb4e7f5938f
author iuc
date Fri, 20 Jan 2017 03:39:22 -0500
parents 4258854759ba
children b3c7199d8786
files alignment.xml clustering.xml vsearch_macros.xml
diffstat 3 files changed, 5 insertions(+), 5 deletions(-) [+]
line wrap: on
line diff
--- a/alignment.xml	Tue Mar 01 07:07:03 2016 -0500
+++ b/alignment.xml	Fri Jan 20 03:39:22 2017 -0500
@@ -32,6 +32,7 @@
     </inputs>
     <outputs>
         <data name="outfile" format="fasta" label="${tool.name} on ${on_string}" />
+        <expand macro="userfields_output" />
     </outputs>
     <tests>
         <test>
--- a/clustering.xml	Tue Mar 01 07:07:03 2016 -0500
+++ b/clustering.xml	Fri Jan 20 03:39:22 2017 -0500
@@ -70,7 +70,7 @@
         <param name="infile" type="data" format="fasta" label="Select your input FASTA file" help="" />
         <conditional name="clustering_mode">
             <param name="clustering_mode_select" type="select" label="Choose sorting method to use before clustering" help="">
-                <option value="cluster_fast" default="True">Cluster sequences after sorting by length (--cluster-fast)</option>
+                <option value="cluster_fast" selected="True">Cluster sequences after sorting by length (--cluster-fast)</option>
                 <option value="cluster_smallmem">Cluster already sorted sequences (--cluster-smallmem)</option>
             </param>
             <when value="cluster_fast">
--- a/vsearch_macros.xml	Tue Mar 01 07:07:03 2016 -0500
+++ b/vsearch_macros.xml	Fri Jan 20 03:39:22 2017 -0500
@@ -1,7 +1,7 @@
 <macros>
     <xml name="requirements">
         <requirements>
-            <requirement type="package" version="1.9.7">vsearch</requirement>
+            <requirement type="package" version="@VERSION@">vsearch</requirement>
         </requirements>
     </xml>
     <token name="@VERSION@">1.9.7</token>
@@ -159,19 +159,18 @@
     </xml>
 
     <xml name="general_output">
-        <param name="outputs" type="select" multiple="True" label="Select output files" help="">
+        <param name="outputs" type="select" multiple="True" optional="false" label="Select output files" help="">
             <option value="--alnout">Human-readable alignment output</option>
             <option value="--blast6out" selected="True">Blast-like tab-separated output</option>
             <option value="--fastapairs">Write query/target pairs of sequences</option>
             <yield/>
-            <validator type="no_options" message="Please select at least one output." />
         </param>
     </xml>
 
     <token name="@EXTERNAL_DOCUMENTATION@">
 <![CDATA[
 
-For details about this tool, please refer to the `github account <https://github.com/torognes/vsearch>`_ or the `vsearch manual <https://github.com/torognes/vsearch/raw/master/doc/vsearch_manual.pdf>`_.
+For details about this tool, please refer to the `GitHub repository <https://github.com/torognes/vsearch>`_ or the `vsearch manual <https://github.com/torognes/vsearch/releases/download/v1.9.7/vsearch_manual.pdf>`_.
 
 ]]>
     </token>