comparison tool_dependencies.xml @ 0:20d6a614d09a draft default tip

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0:20d6a614d09a

<?xml version="1.0"?>
<tool_dependency>
    <package name="R" version="3.2.0">
        <install version="1.0">
            <actions>
                <action type="download_by_url">http://cran.r-project.org/src/base/R-3/R-3.2.0.tar.gz</action>
                <action type="shell_command">./configure</action>
                <action type="shell_command">make</action>
                <action type="shell_command">make install</action>
                <action type="move_file">
                    <source>R.3.2.0</source>
                    <destination>$INSTALL_DIR</destination>
                </action>
                <action type="set_environment">
                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
                </action>
            </actions>
        </install>
        <readme>
R-3.2.0 installed now try edgeR
        </readme>
    </package>
    <package name="limma" version="3.24.12">
        <install version="1.0">
            <actions>
				<action type="setup_r_environment">
				 <!--repository name="limmatest2" owner="deepakjadmin" toolshed="https://testtoolshed.g2.bx.psu.edu"-->
					<package name="R" version="3.2.0" />
					
                <action type="download_by_url">http://bioconductor.org/packages/release/bioc/src/contrib/limma_3.24.15.tar.gz?raw=true</action>
                <action type="shell_command">R CMD INSTALL limma_3.24.15.tar.gz</action>
                </action>
             </actions>
        </install>
        <readme>
limma_3.24.12 installed now try edgeR 
        </readme>
    </package>
    
</tool_dependency>