run at cross purposes

See: conflict
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Government must reverse the widespread perception that justice is for sale, that lawmakers make more money than they do laws, that local governments tend to run at cross purposes with national development goals, and that our public facilities and services are designed to inflict the greatest pain to the Filipino public.
Some workflows may even run at cross purposes (in order to ensure checks and balances within the system).
In many organizations, those functions can run at cross purposes to one another; in our case, they are encouraged by the space to support each other because they are constantly communicating and interacting.