comparison gemini_qc.xml @ 4:246ad1a7ff20 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gemini commit 283362494058ed64143b1f27afb447b8a1cb4313

3:9e83673fa6d2

<tool id="gemini_@BINARY@" name="GEMINI @BINARY@" version="@VERSION@.0">
    <description>Quality control tool</description>
    <macros>
        <import>gemini_macros.xml</import>
        <token name="@BINARY@">qc</token>
    </macros>

    <outputs>
        <data name="outfile" format="tabular" />
    </outputs>
    <tests>
        <test>
            <param name="infile" value="gemini_amend_input.db" ftype="gemini.sqlite" />
            <param name="chrom" value="chrX" ftype="gemini.sqlite" />
            <output name="outfile" file="gemini_qc_result.tabular" />
        </test>
    </tests>
    <help>
<![CDATA[
**What it does**

4:246ad1a7ff20

<tool id="gemini_@BINARY@" name="GEMINI @BINARY@" version="@VERSION@.1">
    <description>Quality control tool</description>
    <macros>
        <import>gemini_macros.xml</import>
        <token name="@BINARY@">qc</token>
    </macros>

    <outputs>
        <data name="outfile" format="tabular" />
    </outputs>
    <tests>
        <test>
            <param name="infile" value="gemini_load_result1.db" ftype="gemini.sqlite" />
            <!-- Testing needs to be done on a chromsome that exists
            in the test database even if that has little biological meaning
            -->
            <param name="chrom" value="chr1" ftype="gemini.sqlite" />
            <output name="outfile">
                <assert_contents>
                    <has_line_matching expression="sample&#009;sex&#009;.*" />
                </assert_contents>
            </output>
        </test>
    </tests>
    <help>
<![CDATA[
**What it does**