comparison tool_dependencies.xml @ 0:6f870ed59b6e draft

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0:6f870ed59b6e

<?xml version="1.0"?>
<tool_dependency>
    <package name="vfdb" version="08-07-2014">
        <install version="1.0">
            <actions_group>
                <actions>
                    <action sha256sum="eae59df6f7aad698da5e43322c58a28c25dfe91dd656cd2ee12ea330db6aa6bb" type="download_by_url">https://github.com/mariamiskander/VirulenceFactorsDB/archive/master.zip</action>
                    <action type="make_directory">$INSTALL_DIR/vfdb</action>
                    <action type="move_directory_files">
                        <source_directory>vfdb</source_directory>
                        <destination_directory>$INSTALL_DIR/vfdb</destination_directory>
                    </action>
                    <action type="set_environment">
                        <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR</environment_variable>
                        <environment_variable action="set_to" name="VF_PATH">$INSTALL_DIR</environment_variable>
                    </action>
                    <action type="shell_command">ls -lrt</action>
                    <action type="shell_command">echo $INSTALL_DIR</action>
                    <action type="shell_command">echo $PATH</action>
                </actions>
            </actions_group>
        </install>
    </package>
    
    <package name="srst2" version="0.1.4.6">
    	<repository changeset_revision="79a05e500381" name="package_srst2_0_1_4_6" owner="nml" toolshed="https://toolshed.g2.bx.psu.edu" />
    </package>
	<package name="samtools" version="0.1.18">
		<repository changeset_revision="1409782220c9" name="package_samtools_0_1_18" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu" />
	</package>
	<package name="bowtie2" version="2.1.0">
		<repository changeset_revision="017a00c265f1" name="package_bowtie2_2_1_0" owner="devteam" toolshed="https://toolshed.g2.bx.psu.edu" />
	</package>
</tool_dependency>