annotate tool_dependencies.xml @ 2:12d4359b7e2f draft

Updated command line format per dev team standards.

<?xml version="1.0"?>
<tool_dependency>
    <package name="lastz" version="1.02.00">
        <install version="1.0">
            <actions>
                <action type="download_by_url" target_filename="lastz-distrib-1.02.00.tar.gz">http://www.bx.psu.edu/miller_lab/dist/lastz-1.02.00.tar.gz</action>
                <action type="shell_command">make</action>
                <action type="move_file">
                    <source>src/lastz</source>
                    <destination>$INSTALL_DIR/bin</destination>
                </action>
                <action type="move_file">
                    <source>src/lastz_D</source>
                    <destination>$INSTALL_DIR/bin</destination>
                </action>
                <action type="set_environment">
                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
                </action>
            </actions>
        </install>
        <readme>
LASTZ is a program for aligning DNA sequences, a pairwise aligner. Originally designed to handle sequences the size of human chromosomes and from different species, it is also useful for sequences produced by NGS sequencing technologies such as Roche 454.
        </readme>
    </package>
</tool_dependency>