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view data_manager/mash_build_sketch_refseq.xml @ 0:9d53c3f65ee6 draft

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planemo upload for repository https://github.com/dfornika/galaxytools/tree/master/data_managers/data_manager_build_mash_sketch_refseq/ commit b12e918e7ed6127297b258843f9c107c40878881-dirty
author dfornika
date Wed, 06 Mar 2019 18:52:43 -0500
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<?xml version="1.0"?>
<tool id="mash_build_sketch_refseq" name="Mash RefSeq Sketch Builder" tool_type="manage_data" version="2.0">
    <description>database builder</description>
    <requirements>
        <requirement type="package" version="2.1">mash</requirement>
    </requirements>
    <version_command>mash --version</version_command>
    <command detect_errors="exit_code">
    <![CDATA[
        python '$__tool_directory__/mash_build_sketch_refseq.py'
          '${out_file}'
          --threads \${GALAXY_SLOTS:-1}
	  --sketch-type ${sketch_type}
    ]]>
    </command>
    <inputs>
      <param name="sketch_type" type="select" multiple="false" label="Select MiniKraken2 database version to download">
	    <option value="genome">genome</option>
            <option value="plasmid">plasmid</option>
	    <option value="genome+plasmid">genome+plasmid</option>
        </param>
    </inputs>
    <outputs>
        <data name="out_file" format="data_manager_json" />
    </outputs>
    <help>
    </help>
    <citations>
        <citation type="doi">10.1186/gb-2014-15-3-r46</citation>
    </citations>
</tool>