Protecting the Manager
The script does not have a built in user management system. As a result you would need to enable password protection on the folder in a manner that your hosting allows.
In CPanel, click on "Password protect directories", click on the folder name you wish to password protect (in this instance the manager folder you uploaded), check the box beside "Folder requires a password", enter the name you wish to give to the protected folder and click on the "Save" button. Additional users can be added using this same method.
If you do not have Cpanel, or any control panel with similar feature, you can go the .htaccess route. Follow the link here for basic instructions on how to setup user authentication on apache. Authentication How-To.
For nGinx users without .htaccess abilities use a code similar to this one in your site's configuration file.
location /manager {
index index.php;
alias /var/www/username/public_html/manager;
auth_basic "Protected Access";
auth_basic_user_file /var/www/username/.htpasswd;
}
You can create an .htpasswd file using tools such as this one, which should work for both the nginx and apache htaccess method. Htpasswd Generator