a method of analyzing molecules using a nanopore array including a plurality of cells included on a chip is disclosed . nanopores are caused to be formed in at least a portion of the plurality of the cells . a first physical measurement of the nanopores is evaluated . it is determined whether to cause the molecules to interact with the nanopores . at least a portion of the nanopores is caused to interact with the molecules . a second physical measurement of the nanopores that indicates a property of the molecules is evaluated . it is determined whether to cause the nanopores to be reformed so that the cells may be reused to interact with additional molecules .