comparison seqtk_trimfq.xml @ 4:ecf1c30da3a2 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqtk commit ad43df79dca3dc7c3511c6eb2ccf8589d2804eb2

3:bc7d99f46a5d

#else:
    -b $mode.b
    -e $mode.e
#end if
'$in_file'
> '$default'
    ]]></command>
    <inputs>
        <expand macro="in_faq"/>
        <conditional name="mode">
            <param name="mode_select" type="select" label="Mode for trimming FASTQ File">

    <outputs>
        <data name="default" format_source="in_file" label="$in_file.name trimmed"/>
    </outputs>
    <tests>
        <test>
            <param name="in_file" value="seqtk_trimfq.fq"/>
            <param name="mode_select" value="quality"/>
            <param name="q" value="0.05"/>
            <param name="l" value="30"/>
            <output name="default" file="seqtk_trimfq_default.fq" ftype="fastq"/>
        </test>
        <test>
            <param name="in_file" value="seqtk_trimfq.fq"/>
            <param name="mode_select" value="position"/>
            <param name="b" value="5"/>
            <param name="e" value="5"/>
            <output name="default" file="seqtk_trimfq_be.fq" ftype="fastq"/>
        </test>
    </tests>
    <help><![CDATA[
**What it does**

4:ecf1c30da3a2

#else:
    -b $mode.b
    -e $mode.e
#end if
'$in_file'
@CONDITIONAL_GZIP_OUT@
    ]]></command>
    <inputs>
        <expand macro="in_faq"/>
        <conditional name="mode">
            <param name="mode_select" type="select" label="Mode for trimming FASTQ File">

    <outputs>
        <data name="default" format_source="in_file" label="$in_file.name trimmed"/>
    </outputs>
    <tests>
        <test>
            <param name="in_file" value="seqtk_trimfq.fq" ftype="fastqsanger"/>
            <param name="mode_select" value="quality"/>
            <param name="q" value="0.05"/>
            <param name="l" value="30"/>
            <output name="default" file="seqtk_trimfq_default.fq" ftype="fastqsanger"/>
        </test>
        <test>
            <param name="in_file" value="seqtk_trimfq.fq" ftype="fastqsanger"/>
            <param name="mode_select" value="position"/>
            <param name="b" value="5"/>
            <param name="e" value="5"/>
            <output name="default" file="seqtk_trimfq_be.fq" ftype="fastqsanger"/>
        </test>
        <test>
            <param name="in_file" value="seqtk_trimfq.fq.gz" ftype="fastqsanger.gz"/>
            <param name="mode_select" value="position"/>
            <param name="b" value="5"/>
            <param name="e" value="5"/>
            <output name="default" file="seqtk_trimfq_be.fq.gz" ftype="fastqsanger.gz"/>
        </test>
    </tests>
    <help><![CDATA[
**What it does**