<?xml version="1.0"?>
<tool_dependency>
  <package name="PeptideShaker" version="0.20.1">
    <install version="1.0">
      <actions>
        <action type="download_by_url">http://peptide-shaker.googlecode.com/files/PeptideShaker-0.20.1.zip</action>
	<action type="shell_command">chmod -R o+w resources</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>
      This package downloads and installs the peptideshaker tool as a part of the peptideshaker framework.
      (https://github.com/jmchilton/peptide-shaker).
    </readme>
  </package>
</tool_dependency>