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<?xml version="1.0"?>
<tool_dependency>
	<package name="numpy" version="1.9">
		<repository changeset_revision="1e2b7e63dec2" name="package_numpy_1_9" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
	</package>
	<package name="samtools" version="0.1.19">
		<repository changeset_revision="786e3000ca58" name="package_samtools_0_1_19" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu" />
	</package>
	<package name="lumpy" version="0.2.9">
		<install version="1.0">
			<actions>
				<action type="download_by_url">https://github.com/arq5x/lumpy-sv/archive/0.2.9.tar.gz</action>
				<action type="shell_command">make</action>
				<action type="move_directory_files">
					<source_directory>./bin</source_directory>
					<destination_directory>$INSTALL_DIR/bin</destination_directory>
				</action>
				<action type="move_directory_files">
					<source_directory>./scripts</source_directory>
					<destination_directory>$INSTALL_DIR/scripts</destination_directory>
				</action>
				<action type="set_environment">
					<environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
					<environment_variable action="set_to" name="LUMPY_SCRIPTS">$INSTALL_DIR/scripts</environment_variable>
				</action>
			</actions>
		</install>
	</package>
</tool_dependency>