annotate substitutions.xml @ 1:aca54f2b2151 draft default tip

"planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/tools/substitutions commit f929353ffb0623f2218d7dec459c7da62f3b0d24"

<tool id="substitutions1" name="Fetch substitutions " version="1.0.1">
    <description> from pairwise alignments</description>
    <requirements>
        <requirement type="package" version="0.8.8">bx-python</requirement>
    </requirements>
    <command>
        python '$__tool_directory__/substitutions.py'
            '$input'
            '$out_file1'
    </command>
    <inputs>
        <param format="maf" name="input" type="data" label="Select pair-wise alignment data"/>
    </inputs>
    <outputs>
        <data format="tabular" name="out_file1" metadata_source="input"/>
    </outputs>
    <tests>
        <test>
            <param name="input" value="Interval2Maf_pairwise_out.maf"/>
            <output name="out_file1" file="subs.out"/>
        </test>
    </tests>
    <help>

.. class:: infomark

**What it does**

This tool takes a pairwise MAF file as input and fetches substitutions per alignment block.

-----

.. class:: warningmark

**Note**

Any block/s not containing exactly two sequences, will be omitted. 

    </help>
</tool>