view salmonquantmerge.xml @ 4:85b3dc9b6830 draft

"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/salmon commit 4c71464b5f5047e0745067c115c37a5d06867649"
author bgruening
date Mon, 13 Jul 2020 17:14:25 -0400
parents 43658f594542
children 88c07fc4024c
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<tool id="salmonquantmerge" name="Salmon quantmerge" version="@VERSION@">
    <description>Merge multiple quantification results into a single file</description>
    <macros>
        <import>macros.xml</import>
    </macros>
    <expand macro="requirements"/>
    <command detect_errors="exit_code"><![CDATA[
        @qmerge@
    ]]></command>
    <inputs>
        <expand macro="quantmerge"/>
    </inputs>
    <outputs>
        <data name="mergedfile" format="tabular" label="${tool.name} on ${on_string}" from_work_dir="qmergeout.tab"/>
    </outputs>
    <tests>
        <test expect_num_outputs="1">
            <repeat name="quantfiles">
                <param name="quants" value="quant2.sf"/>
                <param name="names" value="asdf"/>
            </repeat>
            <repeat name="quantfiles">
                <param name="quants" value="quant1.sf"/>
                <param name="names" value="qwerty"/>
            </repeat>
            <output name="mergedfile" ftype="tabular">
                <assert_contents>
                    <has_text text="qwerty"/>
                    <has_text text="NM_014621"/>
                    <has_n_columns n="3"/>
                </assert_contents>
            </output>
        </test>
    </tests>
    <help><![CDATA[
        @salmonhelp@
    ]]></help>
    <expand macro="citations"/>
</tool>