[Jack-Devel] Digital interface to JACK error

Hi, I am using JACK to connect an A/D interface to Processing (through the Beads library), and JACK, when running, has recently stopped recognizing the inputs from my interface, even though I setup to recognize the interface before the server starts. This is on a MacBook Pro, El Capitan, and I fear that the error was caused by a recent security update (2016-001). (I have considered upgrading the OS to Sierra but am now nervous to do so.) Is this probably the cause, and might there be any work-arounds? Thank you for any help! - Emily M.