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changeset 1:d844fdcce44e draft

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planemo upload for repository https://github.com/galaxyproject/tools-devteam/blob/master/tool_collections/taxonomy/kraken2tax/ commit 6ae04a550dca76f641cb8ea82408fe3b068df960-dirty
author devteam
date Thu, 08 Oct 2015 12:34:17 -0400
parents 065938419efe
children f03c7ba8d8bc
files kraken2tax.xml
diffstat 1 files changed, 2 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/kraken2tax.xml	Mon Aug 17 11:03:38 2015 -0400
+++ b/kraken2tax.xml	Thu Oct 08 12:34:17 2015 -0400
@@ -1,4 +1,4 @@
-<tool id="Kraken2Tax" name="Convert Kraken" version="1.0">
+<tool id="Kraken2Tax" name="Convert Kraken" version="1.1">
   <description>data to Galaxy taxonomy representation</description>
     <requirements>
         <requirement type="package" version="4.1.0">gnu_awk</requirement>
@@ -6,7 +6,7 @@
     </requirements>
   <command>
 <![CDATA[
-  awk '{ print \$${read_name}, \$${tax_id} }' OFS="\t" "${input}" | taxonomy-reader ${ncbi_taxonomy.fields.path}/names.dmp ${ncbi_taxonomy.fields.path}/nodes.dmp 1 > "${out_file}"
+  awk '{ print \$${read_name}, \$${tax_id} }' OFS="\t" "${input}" | taxonomy-reader "${ncbi_taxonomy.fields.path}/names.dmp" "${ncbi_taxonomy.fields.path}/nodes.dmp" 1 > "${out_file}"
 ]]>
   </command>
   <inputs>