comparison mummerplot.xml @ 1:c0cedc12fcc5 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/mummer4 commit 96608e94742d17cb73d57201099ff5f5abbef276"

0:e8c60daa41e0

<tool id="mummer_mummerplot" name="Mummerplot" version="@MUMMER_VERSION@">
    <description>Generate 2-D dotplot of aligned sequences</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements">
        <requirement type="package" version="5.2.3">gnuplot</requirement>
    </expand>
    <command detect_errors="exit_code">
        <![CDATA[
        ln -s $reference_sequence reference.fa &&
        ln -s $query_sequence query.fa &&

            #if $range.custom == 'yes':
                -x [$range.min_x:$range.max_x]
                -y [$range.min_y:$range.max_y]
            #end if
            '$delta'
        ]]>
    </command>
    <inputs>
        <param name="delta" type="data" format="tabular" label="Match File" />
        <param name="reference_sequence" type="data" format="fasta" label="Reference Sequence" />

1:c0cedc12fcc5

<tool id="mummer_mummerplot" name="Mummerplot" version="@MUMMER_VERSION@@WRAPPER_VERSION@">
    <description>Generate 2-D dotplot of aligned sequences</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements">
        <expand macro="gnuplot_requirement"/>
    </expand>
    <command detect_errors="exit_code">
        <![CDATA[
        ln -s $reference_sequence reference.fa &&
        ln -s $query_sequence query.fa &&

            #if $range.custom == 'yes':
                -x [$range.min_x:$range.max_x]
                -y [$range.min_y:$range.max_y]
            #end if
            '$delta'
            @MUMMER_GNUPLOT_MANUAL@
        ]]>
    </command>
    <inputs>
        <param name="delta" type="data" format="tabular" label="Match File" />
        <param name="reference_sequence" type="data" format="fasta" label="Reference Sequence" />