Mercurial > repos > sanbi-uwc > data_manager_rnastar_index_builder

view data_manager/rnastar_index_builder.xml @ 12:a42dbab7917c draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/pvanheus/data_manager_rnastar_index_builder commit 599e0c3b37869cc016156f7058e16d6c268bc703
author sanbi-uwc
date Mon, 15 Feb 2016 06:55:55 -0500
parents 6096741e8d83
children
line wrap: on
line source

<?xml version="1.0" encoding="UTF-8" ?>
<tool id="rnastar_index_builder" name="RNA STAR index" tool_type="manage_data" version="0.0.1">
    <description>Build an index for use by the RNA STAR mapping tool</description>
    <requirements>
        <requirement type="package" version="2.4.0d">rnastar</requirement>
    </requirements>
    <command interpreter="python">rnastar_index_builder.py "${out_file}" --fasta_filename "${input1.fields.path}" --fasta_dbkey "${input1.fields.dbkey}" --fasta_description "${input1.fields.name}" --data_table_name "rnastar_index"</command>
    <inputs>
        <param name="input1" type="select" label="Genome to index(FASTA format)">
            <options from_data_table="all_fasta"/>
        </param>
        <param type="text" name="sequence_name" value="" label="Name of sequence" />
        <param type="text" name="sequence_id" value="" label="ID for sequence" />
    </inputs>
    <outputs>
        <data name="out_file" format="data_manager_json" />
    </outputs>
    <help>Help!</help>
    <citations><citation></citation>
    </citations>
    <tests>

    </tests>
</tool>