protecting web project files in a subdomain

[fenderplayer]

So i have this subdomain (mysub.mysite.com) whose webroot folder is in sub/www/ inside mysite.com's webroot folder (as in public_html/sub/www).

If i place a completely new web project inside sub/ and i password protect important folders in sub/, say the lib/ or db/ or password/ (eeek!!!) folders, then is it safe from access from mysite.com? Say i try mysite.com/sub/lib/php/privatefile.php , will it be safe from access?

[wwb_99]

You should make the new site a sibling of the public_html (or whatever your web root is) and configure your web server to serve that folder as a virtual site.