Fusion Digital Power Designer doesn't see my hardware

I have a Xilinx AC701 FPGA board that uses some UCD90120ARGC devices for the various voltages needed by the board.  I needed to reprogram one of these chips to modify a GPIO line, so I bought the TI USB adapter, plugged it into the board, and was able to see the configuration of the devices using Fusion Digital Power Designer.  I made my adjustment in the software, and clicked the button to write to the hardware.  It started writing, because I could see the status messages going by, but it was really slow.  I had no idea how long this should take, but after an hour, I searched online and saw a bug report on the Xilinx website.  It stated that when the USB adapter was plugged in, the power LEDS on the board would not light, and I needed to update the firmware on the USB adapter.  I was hesitant to do this while it was still writing to the device, but after almost three hours, I stopped it and updated the firmware.  This fixed the problem with the LEDs, but now, the software does not see the UCD90120ARGC devices.  When I start up the software, it displays: No Devices Found!  It is talking to the USB adapter, but it can't see the chips.  Did I corrupt the chips by stopping the update after 3 hours?