view translate.xml @ 0:a55eb751d2d8 draft

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<tool id="dna_protein_transle" name="Translate DNA to protein" version="1.0">
    <description>Translate nucleic acid to protein </description>
    <requirements>
        <requirement type="package" version="1.69">biopython</requirement>
        <requirement type="python-module">Bio</requirement>
    </requirements>
    <command interpreter="python" >
        translate.py -i $dna -o $output -r $read_frame
    </command>
    <inputs>
        <param name="dna" type="data" format="fasta" label="DNA fasta file" help="DNA fasta file" />
        <param name="read_frame" type="select" label="Choose a read frame">
          <option value="1">1</option>
          <option value="2">2</option>
          <option value="3">3</option>
          <option value="-1">-1</option>
          <option value="-2">-2</option>
          <option value="-3">-3</option>
        </param>
    </inputs>
    <outputs>
        <data name="output" type="data" format="fasta"/>
    </outputs>
    <tests>
        <test>
            <param name="dna" file="demo_nucs.fasta" />
            <param name="read_frame" type="select" value="1" />
            <output name="output" file="demo_protein.fasta" />
        </test>
    </tests>
</tool>