<macros>
    <token name="@TOOL_VERSION@">0.2.5</token>
    <token name="@VERSION_SUFFIX@">3</token>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@TOOL_VERSION@">smudgeplot</requirement>
            <requirement type="package" version="1.3">meryl</requirement>
            <requirement type="package" version="2.3.0">kmer-jellyfish</requirement>
            <requirement type="package" version="1.34">tar</requirement>
        </requirements>
    </xml>
    <xml name="citations">
        <citations>
            <citation type="doi">10.1038/s41467-020-14998-3</citation>
        </citations>
    </xml>
    <xml name="xrefs">
        <xrefs>
            <xref type="bio.tools">smudgeplots</xref>
        </xrefs>
    </xml>

    <xml name="cutoff_macro">
        <param
            name="lower_cutoff"
            min="1"
            label="Lower kmer cutoff"
            type="integer"
            optional="true"
            help="Optionally set a manual lower limit for filtering kmers with
            smudgeplot hetkmers. If no value is set, a cutoff will be
            estimated with smudgeplot cutoff. Use the GenomeScope tool to
            visualize your kmer histogram when choosing cutoff values."
        />

        <param
            name="upper_cutoff"
            min="1"
            label="Upper kmer cutoff"
            type="integer"
            optional="true"
            help="Optionally set a manual upper limit for filtering kmers with
            smudgeplot hetkmers. If no value is set, a cutoff will be
            estimated with smudgeplot cutoff. Use the GenomeScope tool to
            visualize your kmer histogram when choosing cutoff values."
        />
    </xml>
</macros>