view giveinfofasta.xml @ 0:2d76b1e109d4 draft default tip

1st Uploaded

<tool id="giveinfofasta" name="GiveInfoFasta" version="0.1.0">
    <requirements>
        <requirement type="package" version="2.5">repet</requirement>
    </requirements>
    <stdio>
        <exit_code range="1:" />
    </stdio>
    <command><![CDATA[
        GiveInfoFasta.py -i ${input} ${stat}  
        && 
        cp ${input}.stats ${output_stats}
    ]]></command>
    <inputs>
        <param name="input" type="data" format="fasta" label="Input file (format='fasta')"/>
        <param name="stat" type="boolean" checked="false" truevalue="-l" falsevalue="" label="Give stats for each input sequence" help="Default=No"/>
        <param name="label" type="text" label="Output name" help="Optionnal"/>
    </inputs>
    <outputs>
        <data name="output_stats" format="txt" label="#if str($label)=='' then $input.name else $label #.stats"/>
    </outputs>
    <help><![CDATA[
    Give Information about your Fasta File
    GiveInfoFasta is a tool from the REPET suite
     -i: name of the input file (format='fasta')
     -l: give stats for each input sequence
     -o: name of the output file (default=inFileName+.'stats')
     -v: verbose (default=0/1)

    **Authors**
    Valentin Marcon

    ]]></help>
    <tests>
        <test>
            <param name="input" value="input"/>
            <param name="stat" value="-l"/>
            <output name="output_stats" file="output"/>
        </test>
    </tests>
</tool>