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Place the Kit (Atmospherics) and change the variant to Filtration.
Place filters in the machine for what you want to filter out.
There are three filtration pipe connections.
Filtration Input is where you connect the incoming atmosphere to be passed through the Filtration Atmospherics.
Filtration Waste is the remaining mix after extracting whatever the filters did.
Filtration Output is the filtered material for which you placed filters in the machine for.