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view tool_dependencies.xml @ 14:2f78991873a4

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author fcaramia
date Tue, 11 Dec 2012 18:07:55 -0500
parents f521f05bc6f5
children f4345d10e1ad
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<?xml version="1.0"?>
<tool_dependency>
   <package name="bedtools" version="2.17.0">
       <install version="1.0">
           <actions>
		<action type="download_by_url" target_filename="BEDTools.v2.17.0.tar.gz">http://bedtools.googlecode.com/files/BEDTools.v2.17.0.tar.gz</action>
		<action type="shell_command">tar -zxvf BEDTools.v2.17.0.tar.gz </action>
		<action type="shell_command">cd bedtools-2.17.0</action>
		<action type="shell_command">make clean</action>
		<action type="shell_command">make all</action>
		<action type="move_directory_files">
			<source_directory>bin</source_directory>
			<destination_directory>$INSTALL_DIR/bin</destination_directory>
		</action>
		<action type="set_environment">
		   <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
		</action>
           </actions>
       </install>
       <readme>
GCC version 4.1 or greater is recommended. 3.x versions will typically not compile BEDTools
       </readme>
   </package>
</tool_dependency>