<tool id="rbc_splitfasta" name="SplitFasta" version="0.1.0">
    <requirements>
    </requirements>
    <stdio>
        <exit_code range="1:" />
    </stdio>

    <command interpreter="python">
    <![CDATA[
        splitFasta.py $inputFile; echo 'blah' > blah
    ]]></command>
    <inputs>
        <param name="inputFile" type="data" format="txt" label="Fasta file to split"/>
        <param name="outputFormat" type="select" label="Output Format">
            <option value="separate">Separate History Items</option>
            <option value="collection">Create dataset collection</option>
        </param>
    </inputs>
    <outputs>
        <collection type="list">
            <filter>outputFormat == 'collection'</filter>
            <discover_datasets pattern="(?P&lt;designation&gt;.*)" directory="splits" ext="fasta" visible="false"/>
        </collection>
        <data name="output">
            <filter>outputFormat == 'separate'</filter>
            <discover_datasets pattern="(?P&lt;designation&gt;.*)" directory="splits" ext="fasta" visible="true"/>
        </data>
    </outputs>
    <help><![CDATA[
        Takes an input file and writes each consecutive two lines to a separate file, in a dataset collection.
    ]]></help>
</tool>