Mercurial > repos > niels > annovar_yaml_wrapper

view annovar_yaml/annovar_yaml.xml @ 15:7f4fb56714e8 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author niels
date Fri, 07 Jun 2019 09:23:41 -0400
parents 94ddfdeb1d38
children fe3deb1dc20b
line wrap: on
line source

<tool id="annovar_yaml" name="Annovar YAML" version="1.0">
    <requirements>
        <requirement type="package" version="5.22.0">perl</requirement>
        <requirement type="package" version="1.27">perl-yaml</requirement>
        <requirement type="package" version="1.73">perl-yaml-tiny</requirement>
        <requirement type="package" version="0.74">perl-yaml-xs</requirement>
        <requirement type="package" version="2.173">perl-data-dumper</requirement>
        <requirement type="package" version="2.50">perl-getopt-long</requirement>
    </requirements>
    <command detect_errors="exit_code"><![CDATA[
        perl $__tool_directory__/annovar_yaml.pl --invcf $vcf --inyml $yaml --outvcf $output
    ]]></command>

    <inputs>

        <param type="data" name="yaml" format="txt" />
        <param type="data" name="vcf" format="vcf" />

    </inputs>
    <outputs>
        <data name="output" format="vcf"/>
    </outputs>
    <help><![CDATA[
        TODO: Fill in help for Annovar YAML tool. perl 5.22
    ]]></help>
</tool>