[Owncloud] remote.php vs public.php

[Arman Khalatyan]

Hi,
As I understand them from https://owncloud.org/apps/public-php-and-remote-php/
 the public.php is used when external users are accesing app without
need to login.
When you need to put your password you should use remote.php, right?

I am trying to integrate my command line tools with 4.5.8. They are
using XMLRPC calls to acces OC_Api.
can some one explain in more details remote vs public? Which one I
should use for remote calls?
Should I add my changes in lib/base.php  to handle this case, like a webdav?

Thanks,
Arman.