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Always check that there’s no blockage in one of the flow paths, this can be verified by checking the amount of collected liquid in a specific time frame and compare it with the expected amount for the flow rate used. If this isn't the case, droplet formation on the end of the tubing is the problem. Each falling droplet affects the flow a bit, resulting in changes in flow rates. Resolve this by keeping the end of the tubing in the collection reservoir submerged in liquid.