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view igblastn.xml @ 9:afb3bd4f7186 draft

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author davidvanzessen
date Tue, 24 Sep 2013 05:05:31 -0400
parents 40954f0f8d14
children 215aa111db64
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<tool id="igblastn" name="igBLASTn" version="0.1.0">
    <description>Run igBLASTn</description>
    <command>
    igblastn -germline_db_V /usr/local/ncbi-igblast-1.0.0/database/human_gl_V -germline_db_J /usr/local/ncbi-igblast-1.0.0/database/human_gl_J -germline_db_D /usr/local/ncbi-igblast-1.0.0/database/human_gl_D -domain_system imgt -query $input -auxiliary_data /usr/local/ncbi-igblast-1.0.0/optional_file/human_gl.aux -show_translation -outfmt 3 > $output
    </command>
    <inputs>
        <param name="input" type="data" format="fasta" label="Fasta file"/>
    </inputs>
    <outputs>
        <data name="output" format="text" label="${input.name}-igBLASTn Report"/>
	<!--<data name="log" format="text" label="log"/>-->
    </outputs>
	<requirements>
		<requirement type="package" version="1.0.0">igBlastn</requirement>
	</requirements>
    <help>
        there is no help
    </help>
</tool>