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Rarotonga the capital of the Cook Islands is rapidly developing with tourism as one of the major income earners for the country. The health of the lagoon and reef is important for the welfare of the people. It is vital that the health of the lagoon is monitored and action is taken to protect the health of the lagoon, coral reef and the people that use it. Human activities contribute to the decreased water quality, for example farming of pigs, deforestation and farming crops close to streams. The water quality monitoring programme gives an evaluation of the state of the streams and lagoon, and can be used to identify issues that need to be addressed.