view nullarbor_prepare.xml @ 3:63ba2e9353bb draft default tip

planemo upload for repository https://github.com/quadram-institute-bioscience/galaxy-tools/tree/master/tools/nullarbor commit 5215b942916d8c1186656f098cfdf4db52b5854b-dirty

<tool id="nullarbor_prepare" name="Nullarbor prepare" version="@VERSION@">
    <description>Prepare a tab file from a collection of paired-end reads</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <command detect_errors="exit_code"><![CDATA[
    #for $input in $reads:
      echo -e '$input.element_identifier''\t''$input[0]''\t''$input[1]' >> 'tab_file';
    #end for
    ]]></command>

    <inputs>
        <param name="reads" format="fastqsanger,fastqsanger.gz,fastqsanger.bz2" type="data_collection" collection_type="list:paired" label="Paired collection" help="Collection of reads, requires a mininum of 4 isolates to run (due to Roary)"/>
     </inputs>
    <outputs>
        <data name="tab_file" format="tabular"  label="${tool.name} on ${on_string}: Tab file" from_work_dir="tab_file"/>
    </outputs>
    <help><![CDATA[
        ]]></help>
</tool>