<?xml version="1.0"?>
<tool_dependency>
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        <install version="1.0">
            <actions>
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                    <!-- libxml2 needs to be sourced after R because R also was compiled against a different version of libxml2 -->
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                    <!-- gplots dependency -->
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                    <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_6_1/gdata_2.13.3.tar.gz</package>
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                    <package>https://github.com/bgruening/download_store/raw/master/DESeq2-1_6_1/gplots_2.14.2.tar.gz</package>

                    <!-- wrapper dependency -->
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                    <package>http://cran.r-project.org/src/contrib/Archive/rjson/rjson_0.2.14.tar.gz</package>
                </action>
                <action type="set_environment">
                    <environment_variable action="set_to" name="DESEQ2_ROOT_PATH">$INSTALL_DIR</environment_variable>
                </action>
            </actions>
        </install>
        <readme>
        Differential gene expression analysis based on the negative binomial distribution.
        http://www.bioconductor.org/packages/release/bioc/html/DESeq2.html
        </readme>
    </package>
</tool_dependency>