Its not a bad idea, but just to make sure its working... look at your input valve and make sure you see the bubbles being drawn into the filter...
If it is being drawn in, then what will happen is that your CO2 bubbles will get smashed into smaller bubbles by the impeller at the output valve... which is why you don't see it.
There are a couple of risks I can think of...
the biggest being that you must make sure your piping has no big kinks that might trap the CO2... if CO2 builds up and forms in the kink, it could cause enough of a disruption that your filter output might stop... If that happens without you noticing, your whole bacteria colony might die.









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