That is the point of the article indeed. Think about the book and come up with your own ideas, then write those down and put them into the context of your other

That is the point of the article indeed. Think about the book and come up with your own ideas, then write those down and put them into the context of your other ideas. (I read almost exclusively programming/product/art related non-fiction). I am someone who “thinks while writing”. Taking notes while reading a book (I usually write into the book margins) allows me to clarify what I think the author is saying, start bringing in some of my ideas and juxtapose them, reformulate some important points. It is the opposite of taking away from the book reading experience: it makes it oh so more vivid. This also applies to articles on the web and my twitter stream. Seeing how fallible my memory is, I envy people who can recall what they were thinking even just yesterday when reading a complex piece of literature, let alone retrace the complex arguments I make to myself (and the reified author) when reading.