diff kraken_taxonomy_report.xml @ 1:b97694b21bc3 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/kraken_taxonomy_report/ commit 3265247e909410db2a6d6087a2c0d3a9885c120c

--- a/kraken_taxonomy_report.xml	Wed Jun 01 17:25:40 2016 -0400
+++ b/kraken_taxonomy_report.xml	Wed Nov 23 03:27:33 2016 -0500
@@ -1,5 +1,5 @@
 <?xml version="1.0"?>
-<tool id="kraken_taxonomy_report" name="Kraken taxonomic report" version="0.0.1">
+<tool id="kraken_taxonomy_report" name="Kraken taxonomic report" version="0.0.2">
     <description>view report of classification for multiple samples</description>
     <requirements>
         <requirement type="package" version="1.66">biopython</requirement>
@@ -62,7 +62,7 @@
         <param checked="True" falsevalue="" argument="--sanitize-names" label="Sanitize Names" name="sanitize_names" truevalue="--sanitize-names" type="boolean" help="Replace special chars (\t| |\||\.;) with underscore (_)" />
         <param checked="False" falsevalue="" argument="--show-rank" label="Output Rank Name in (second to) last column" name="show_rank" truevalue="--show-rank" type="boolean" />
         <param checked="False" falsevalue="" argument="--taxonomy" label="Output taxonomy in last column" name="taxonomy" truevalue="--taxonomy" type="boolean" />
-        <param checked="False" falsevalue="" argument="--intermediate" label="Display intermediate ranks" name="intermediate" truevalue="--intermediate" type="boolean" />
+        <param checked="True" falsevalue="" argument="--intermediate" label="Display intermediate ranks" name="intermediate" truevalue="--intermediate" type="boolean" />
         <conditional name="cluster">
             <param argument="--cluster" help="Combines rows under the selected taxon and reports only selected rank." label="Cluster by taxonomic rank" name="cluster" type="select">
                 <option value="Superkingdom">Superkingdom</option>