You really don't have a choice but to clean out the water. That's the problem with turtles. I've had up to four at a time, and if you can imagine your odor problems multiplied by about 8x, well, you'd have the odor that permeated my room, my hair, and my clothes. They had to go on a little trip after a few months. (To a very good friend's house. No soup.) Now, that's a biig tank for a single turtle. I would consider using a smaller tank, or having two small tanks that you would switch him to while you clean the other. What does the pump do? Is it a filtration system, or a water exchange system? If its a filter, clean your filter ASAP, and consider not using it. It's not necessary for turtles if you change the water completely every few days. Your turtle also needs UV light, and a moderate heat source.
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