<macros>
    <token name="@TOOL_VERSION@">1.7.0</token>
    <token name="@VERSION_SUFFIX@">2</token>
    <token name="@PROFILE@">20.09</token>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@TOOL_VERSION@">magicblast</requirement>
            <requirement type="package" version="1.18">samtools</requirement>
        </requirements>
    </xml>
    <xml name="output_sort_param">
        <param name="output_sort" type="select" label="BAM sorting mode" help="The 'Not sorted' option can significantly extend the run time of the tool (it runs using a single thread)">
            <option value="coordinate" selected="True">Sort by chromosomal coordinates</option>
            <option value="name">Sort by read names</option>
            <option value="unsorted">Not sorted (sorted as input)</option>
        </param>
    </xml>
    <xml name="sanitize_query" token_validinitial="string.ascii_letters,string.digits,string.whitespace,string.punctuation">
        <sanitizer>
            <valid initial="@VALIDINITIAL@">
                <remove value="&apos;"/>
            </valid>
            <mapping initial="none">
                <add source="&apos;" target="&apos;&quot;&apos;&quot;&apos;"/>
            </mapping>
        </sanitizer>
    </xml>
    <xml name="citations">
        <citations>
            <citation type="doi">10.1186/s12859-019-2996-x</citation>
        </citations>
    </xml>
</macros>