The details of the method behind the NY Times Best Seller lists are a trade secret of the New York Times Company. However, it is known to be based on a survey of several thousand major retail outlets and some key wholesalers.
Regardless of whether the Times' editors include Amazon stats in their survey if Amazon is the *only* place the book is on top it definitely won't top the NY Times list. For example, the book was ranked #50 on Barnes & Noble's online best seller list at bn.com when I checked earlier.
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