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magnitudes are always positive. the noise in a static scene can produce noticeable flow vectors... albeit in random directions... which don't affect magnitudes.
you should sum up all the flow vectors instead. that will give you average motion and direction. the average will represent camera motion or full scene motion. it will only imperfectly track one object moving across the view.
if you want to ignore static parts of the image and only react to moving parts, make a mask for the static parts (magnitudes less than some threshold) and, for the summing/averaging, select only flow vectors that aren't in that mask.
