[galaxy-dev] Which tools do I need to install?

Hi guys, I've finished a local galaxy install on our cluster but I'm confused as to which tools are not included and how I need to install them. I saw this page: http://wiki.galaxyproject.org/Admin/Tools/Tool%20Dependencies But how do I tell what is not installed yet? And where do I install everything I'll need? In galaxy-dist somewhere? Or will that interfere with code updates? Thanks, Greg