The smell is what it is... Composting and the thriving organisms breaking down all the manure doing their job. Putting lime all over it might burn your chickens' feet. Better to use PDZ, but I don't know how big your run is or how much $$ you want to spend eliminating the odor. How about a nice thick layer of straw if it's too gloppy for you? Chickens love to scratch through it and the straw will also disintegrate as it decomposes, but probably won't smell as bad as the fresh muck you've turned over.