This closed loop system needs to be filled and flushed, which is the operation discussed in the article. The bacterium was described as a possible airborne hazard if used for irrigation, it's not a regulated substance though so dump and dilute might be perfectly safe.
Might be. Might not be. To put it another way, would you want this waste water diluted and dumped in a lake you swim in or a river you fish in without proper study and regulation?