view macros.xml @ 0:04d05400d3a6 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/adapter_removal/ commit 138d7e0d844a783f1e8100d264d57540199f290f"

<macros>
    <token name="@TOOL_VERSION@">2.3.3</token>
    <token name="@VERSION_SUFFIX@">0</token>
    <token name="@PROFILE@">20.09</token>
    <token name="@DATATYPES@">fastqsanger.gz,fastqsanger</token>
    <xml name="bio_tools">
        <xrefs>
            <xref type="bio.tools">adapterremoval</xref>
        </xrefs>
    </xml>
    <xml name="requirements">
        <requirements>
            <requirement type="package" version="@TOOL_VERSION@">adapterremoval</requirement>
        </requirements>
    </xml>
    <xml name="interleaved_output_param">
        <param argument="--interleaved_output" type="select" label="Write paired-end reads to a single file, interleaving mate 1 and mate 2 reads?">
            <option value="no" selected="true">No</option>
            <option value="yes">Yes</option>
        </param>
    </xml>
    <xml name="identify_adapters_param">
        <param argument="--identify_adapters" type="boolean" truevalue="--identify-adapters" falsevalue="" checked="false" label="Attempt to build a consensus adapter sequence from fully overlapping pairs of paired-end reads?" help="No trimming is performed in this mode"/>
    </xml>
    <xml name="combined_output_param">
        <param argument="--combined_output" type="boolean" truevalue="--combined-output" falsevalue="" checked="false" label="Output trimmed reads such that the sequences of reads discarded due to quality filters or read merging are replaced with a single 'N' with Phred score 0?"/>
    </xml>
    <xml name="sanitizer">
        <sanitizer>
            <valid initial="string.printable">
                <remove value="&apos;" />
            </valid>
            <mapping initial="none">
                <add source="&apos;" target="__sq__"/>
            </mapping>
        </sanitizer>
    </xml>
    <xml name="citations">
        <citations>
            <citation type="doi">10.1186/s13104-016-1900-2</citation>
        </citations>
    </xml>
</macros>