The clues for decoding come from the alpha lupi avatar (that symbol means Fourier) and the sentence "x,y ... use u,v..." This led us to using a Fourier Transform on the left image (actually a common tool for cleaning images with repeated patterns). The sneaky thing bungie did is bury the final output (with the numbers) in the Fourier image. Each geomask (right image) represents the mask they used to for that particular left image when burying the numbers.
So in practical terms the geomask represents the area uncovered in the left image for that particular 5 minutes. The automation we created grabs that data every 5 minutes and adds to what we already have throughout the day.
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Damn that's crazy.
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You can use the steps in this thread if you want to do some experimenting yourself: http://www.bungie.net/en-US/View/community/Forum/Post?id=59803512 I use photoshop for some of the less critical steps - should be easy to substitute another program for those. The heavy lifting of doing a Fast Fourier Transform (FFT) is done in a cross platform Java app - ImageJ.