view tool_dependencies.xml @ 51:b60e0f0dab74 draft default tip

another try at adding amigo tool

<?xml version="1.0"?>
<tool_dependency>
    <package name="ontologizer-jar" version="0.0.3">
        <install version="1.0">
            <actions>
                <action type="download_by_url" target_filename="ontologizer.jar">http://compbio.charite.de/contao/index.php/cmdlineOntologizer.html?file=tl_files/ontologizer/cmdline/Ontologizer.jar</action>
                <action type="move_file">
                    <source>ontologizer.jar</source>
                    <destination>$INSTALL_DIR/bin</destination>
                </action>
                <action type="set_environment">
                    <environment_variable name="ONTOLOGIZER_JAR" action="set_to">$INSTALL_DIR/bin/ontologizer.jar</environment_variable>
                </action>
            </actions>
        </install>
        <readme>
            ontologizer requires java and curl to be installed.
        </readme>
    </package>
    <package name="obo-scripts" version="1.0.12">
        <install version="1.0">
            <actions>
                <action type="shell_command">git clone http://github.com/cmungall/obo-scripts</action>
                <action type="move_directory_files">
                    <source_directory>./</source_directory>
                    <destination_directory>$INSTALL_DIR</destination_directory>
                </action>
                <action type="set_environment">
                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
                </action>
            </actions>
        </install>
        <readme>
          obo_scripts require perl to be installed.
      </readme>
  </package>
</tool_dependency>