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Cunha also found that the lab lacked formal and uniform protocols for many of its basic operations, including testing methods, caused in part by its lack of accreditation. His investigation also concluded that the lab's quality control system focused mainly on the functionality of the lab's equipment and was ineffective in detecting malfeasance, incompetence and inaccurate results.

Cunha said lab managers did not act decisively when other workers at the lab questioned Dookhan's work after it became clear she was handling a much higher volume of cases than any other chemist.