comparison seqtk_mergefa.xml @ 4:ecf1c30da3a2 draft

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

3:bc7d99f46a5d

$m
$r
$h
'$in_fa1'
'$in_fa2'
> '$default'
    ]]></command>
    <inputs>
        <param name="in_fa1" type="data" format="fasta,fastq" label="Input FASTA/Q file #1"/>
        <param name="in_fa2" type="data" format="fasta,fastq" label="Input FASTA/Q file #2"/>
        <param argument="-q" type="integer" value="0" label="Quality threshold"/>
        <param argument="-i" type="boolean" truevalue="-i" falsevalue="" checked="false" label="Take intersection" />
        <param argument="-m" type="boolean" truevalue="-m" falsevalue="" checked="false" label="Convert to lowercase when one of the input base is N" />
        <param argument="-r" type="boolean" truevalue="-r" falsevalue="" checked="false" label="Pick a random allele from het" />
        <param argument="-h" type="boolean" truevalue="-h" falsevalue="" checked="false" label="Suppress hets in the input" />

        <test>
            <param name="in_fa1" value="seqtk_mergefa1.fa"/>
            <param name="in_fa2" value="seqtk_mergefa2.fa"/>
            <param name="m" value="True" />
            <output name="default" file="seqtk_mergefa2.out" ftype="fasta"/>
        </test>
    </tests>
    <help><![CDATA[
**What it does**

4:ecf1c30da3a2

$m
$r
$h
'$in_fa1'
'$in_fa2'
#echo "| gzip --no-name" if $in_fa1.is_of_type('fasta.gz', 'fastq.gz') else "" # > '$default'
    ]]></command>
    <inputs>
        <param name="in_fa1" type="data" format="fasta,fastq,fasta.gz,fastq.gz" label="Input FASTA/Q file #1"/>
        <param name="in_fa2" type="data" format="fasta,fastq,fasta.gz,fastq.gz" label="Input FASTA/Q file #2"/>
        <param argument="-q" type="integer" value="0" label="Quality threshold"/>
        <param argument="-i" type="boolean" truevalue="-i" falsevalue="" checked="false" label="Take intersection" />
        <param argument="-m" type="boolean" truevalue="-m" falsevalue="" checked="false" label="Convert to lowercase when one of the input base is N" />
        <param argument="-r" type="boolean" truevalue="-r" falsevalue="" checked="false" label="Pick a random allele from het" />
        <param argument="-h" type="boolean" truevalue="-h" falsevalue="" checked="false" label="Suppress hets in the input" />

        <test>
            <param name="in_fa1" value="seqtk_mergefa1.fa"/>
            <param name="in_fa2" value="seqtk_mergefa2.fa"/>
            <param name="m" value="True" />
            <output name="default" file="seqtk_mergefa2.out" ftype="fasta"/>
        </test>
        <test>
            <param name="in_fa1" value="seqtk_mergefa1.fa.gz" ftype="fasta.gz"/>
            <param name="in_fa2" value="seqtk_mergefa2.fa.gz" ftype="fasta.gz"/>
            <param name="m" value="True" />
            <output name="default" file="seqtk_mergefa2.out.gz" ftype="fasta.gz"/>
        </test>
    </tests>
    <help><![CDATA[
**What it does**