Also, you should do the symbolic links documented in SECURITY GUIDE.Yo probably did something wrong in this security conf and locked all the users including root..
As for changing the lost root password, you can use "single user mode"..
Okay..
You can not connect to the server right?
In any ways? (using an already open VNC maybe?)
If you cant, then there is nothing to do..
recoverf your root password using single user mode and disable this security thing in single user mode.
Then reboot.
After that, try to implement this security thing.. But this time by knowing what you do.. Carefully.