Google Analytics - Multiple Domains

I read an article on Google Analytics about spanning the stats across multiple domains, however, I believe my case is different.

I have two domain names but both point to the exact same area(files). Do I need to modify the tracking code to include:

pageTracker._setDomainName("none");
pageTracker._setAllowLinker(true);

From what it looks like I only need to do that if I am linking to different pages on different domains and cookies become an issue.

Does Google Analytics actually look at the domain name that is being accessed
?

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