The biggest thing reading 'Good Calories, Bad Calories' did for me, was make me question every single scientific study in much greater detail. It's shocking how much niche* scientific research makes it's way into the 'news', 'common knowledge' or even public policy.
I don't mean this as a knock against this specific study -- however, we don't have enough information to conclude anything about it.
* = where 'niche' implies a strict and specific set of conditions or even assumptions, reducing 'general applicability'