annotate factera/tool_dependencies.xml @ 8:a81a91bfb789 draft

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<?xml version="1.0"?>
<tool_dependency>
  
	<package name="package_blast_plus_2_2_26" version="2.2.26">
    <repository changeset_revision="85e43fb3f363" name="package_blast_plus_2_2_26" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
  </package>

	<package name="package_samtools_0_1_19" version="0.1.19">
		<repository changeset_revision="95d2c4aefb5f" name="package_samtools_0_1_19" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
	</package>

	<package name="package_ucsc_user_apps" version="1.0.0">		
		<repository changeset_revision="11857fecc707" name="package_ucsc_user_apps" owner="malbuquerque" toolshed="https://toolshed.g2.bx.psu.edu" />
	</package>

	<package name="factera_perl_dependency" version="1.0.0">
		<install version="1.0">
			<actions>

				<action type="download_by_url">http://search.cpan.org/CPAN/authors/id/S/SH/SHLOMIF/Statistics-Descriptive-3.0608.tar.gz</action>
				<action type="shell_command">perl Makefile.PL PREFIX=$INSTALL_DIR</action>
				<action type="shell_command">make</action>
				<action type="shell_command">make install</action>
				
				<action type="set_environment">
					<environment_variable action="prepend_to" name="PERL5LIB">$INSTALL_DIR/lib/perl5/site_perl</environment_variable>
				</action>

			</actions>
		</install>	
	</package>

	<package name="factera_1_4_3" version="1.4.3">
		<install version="1.0">
  		<actions>
				
      	<action type="download_by_url">http://factera.stanford.edu/files/factera-v1.4.3.pl</action>
        
				<action type="move_directory_files">
					<source_directory>.</source_directory>
					<destination_directory>$INSTALL_DIR</destination_directory>
				</action>

				<action type="set_environment">
					<environment_variable action="set_to" name="FACTERA_DIR">$INSTALL_DIR</environment_variable>
				</action>

			</actions>
		</install>
	</package>

</tool_dependency>