The credit card measurements regard relief, that is when you depress the first fret and the 12th and sight how much space is between the top of the eighth or so fret to the bottom of the string you're pressing down. What you're talking about is just straight up measurement from the top of the 12th fret to the bottom of the string, which by factory measurements should be around 3/32", I think.
Edit: I'd normally refer you to the EBMM FAQs, but Jon and Dargin plan on revising that later on. What I recommend if you need a guide to setup your bass is to do a search in the bass guitar forums regarding setups. Search for posts by Rod Trussbroken, too - he's given great posts on tutorials for these kinds of things.