This section has been recently updated for ChipWhisperer 5. The previous version can be found here: https://wiki.newae.com/V4:CW1173_ChipWhisperer-Lite/XMEGA_Programmer
The XMEGA device programmer requires only two connections to the target: clock (PDIC) and data (PDID). The PDIC line is usually shared with the RESET pin, and the PDID pin is a specific pin on the XMEGA device. See #20-Pin_Connector for details of XMEGA programming pin connections. Once you have the scope setup, the programmer can be accessed through cw.programmers.XMEGAProgrammer:
prog = cw.programmers.XMEGAProgrammer
cw.program_target(scope, prog, "<path to fw hex file>")