Mercurial > repos > oscar_b > blosum

<tool id="blosum" name="Blosum" version="0.5.0">
    <description>Scores for peptide alignment by sequence</description>
    <requirements>
       <requirement type="package" version="8">openjdk</requirement>
    </requirements>
    <command detect_errors="aggressive"><![CDATA[
        java -Djava.awt.headless=true -jar '$__tool_directory__/Blosum.jar' '$input'
    ]]></command>
    <inputs>
        <param name="input" type="data" format="tabular" label="Peptide Sequences"/>
    </inputs>
    <outputs>
        <data name="output" format="tabular" from_work_dir="output.csv" label="peptides with scores ${on_string}"/>
    </outputs>
    <tests>
        <test>
            <param name="input" ftype="tabular" value="input.csv"/>
            <output name="output">
                <assert_contents>
                    <has_text text="33"/>
                </assert_contents>
            </output>
        </test>
    </tests>
    <help><![CDATA[
This program calculates a score of similitude between peptide sequences as referenced to a master peptide sequence of interest
    ]]></help>
    <citations>
        <citation type="doi">10.1021/ja507164a</citation>
    </citations>
</tool>
author	oscar_b
date	Wed, 14 Nov 2018 14:04:50 -0500
parents	164c74b7d943
children	6abb7756fa7e