There's 'vertical pumping' on plenty of real coasters, done on purpose on some newer rides. It can be seen distinctly on Roar at SFA and SFMW...
http://rcdb.com/ig485.htm?picture=4 or even on rides like Medusa at SFGAdv between the dive loop and 0-g roll... probably used in that case to reduce the duration of g's in that area (though that's not too likely since there are more sustained g's throughout the ride), to just have a low slightly turning segment which maintains more speed than a normal pullout, or for any multitude of other reasons.
Therefore, if done right, 'pumping' is acceptable and can be benificial to the design (though I don't think it is in Roar's case). But, as seen on your ride even though IMO your pumping for the most part wasn't nearly as bad as that of other NL rides I've seen, sloppily done elements with pumping can be *very* detrimental to a track design, especially if it's found throughout the ride. It decreases the sense of speed and makes the ride feel very virtual instead of creating a sense of realism.