I don't see about setbacks, but:
6.08.150 - Animal confines—Shelters.
A. It is unlawful for any person to keep or maintain any animal in any yard, structure or area that is not clean, dry and sanitary, free from debris and offensive odors that annoy any neighbor, and devoid of rodents and vermin.
B. Excrement shall be removed at least once each week from any animal shelter, pen or yard area where animals are kept, or more often if necessary to prevent or control odors, fly breeding or rodent infestation. If excrement is stored on the premises by any animal owner, it shall be stored in adequate containers with fly-tight lids, and all such stored or accumulated wastes shall be disposed of at least once each week.
drainage, no standing water, etc.
The bit about cruelty says you must "supply such animal with necessary and adequate care, food, drink, air, light, space, shelter and protection from the elements as necessary for health arid well-being of such kind of animal" which seems to loosely cover coop and litter. Also you can't sell ducklings or chicks under two months of age in groups smaller than twelve, and you can't dye them, which I'd say implies that you can have undyed peepers by the dozen and ones old enough to be sold in smaller groups.
There's quite a list of animals you can't keep, and this includes 'game cocks and fighting birds' which also makes it seem like if they meant to ban all chickens they'd have said that instead.