view oligator.xml @ 0:a811f7256f6e draft default tip

planemo upload for repository https://github.com/abims-sbr/tools-abims/tree/master/tools/oligator commit b7e63a01570e9fc381abb01d5b176fcea024e251

<tool id="oligator" name="Oligator" version="1.2.0" >

    <description>Oligator: design PCR primers</description>

    <requirements>
        <requirement type="package" version="2.7">python</requirement>
        <requirement type="package" version="1.4.0">argparse</requirement>
    </requirements>

    <command><![CDATA[
        python $__tool_directory__/oligator/oligator_cmdLine.py --input $input --tm $tm
    ]]></command>
    <inputs>
        <param argument="--input" type="data" format="fasta" label="DNA sequence - fasta format" />
        <param argument="--tm" type="integer" value="70" label="Tm temperature" />
    </inputs>
    <outputs>
       <data name="oligator_results" format="tabular" from_work_dir="oligator_results.csv" label="Oligator_global" />
       <data name="oligator_sens" format="tabular" from_work_dir="oligator_sens.csv" label="Oligator_sens" />
       <data name="oligator_anti_sens" format="tabular" from_work_dir="oligator_anti-sens.csv" label="Oligator_anti-sens" />
    </outputs>
    <tests>
        <test>
            <param name="input" value="allseqfasta.fas" ftype="fasta" />
            <param name="tm" value="70" />
            <output name="oligator_results" value="oligator_results.csv" />
            <output name="oligator_sens" value="oligator_sens.csv" />
            <output name="oligator_anti_sens" value="oligator_anti-sens.csv" />
        </test>
    </tests>
    <help><![CDATA[
.. class:: infomark

**Authors**
Oligator was written by Frederic Lechauve [e-mail]
and integrated in Galaxy by ABiMS - Station Biologique de Roscoff - Sorbonne Université / CNRS

    ]]></help>
    <citations/>
</tool>