cmake -DCMAKE_BUILD_TYPE=Debug -DARM_NONE_EABI_TOOLCHAIN_PATH=.. -DNRF5_SDK_PATH=.. -DNRFJPROG=.. ../
-- Configuring done
CMake Error at cmake-nRF5x/CMake_nRF5x.cmake:365 (add_executable):
Cannot find source file:

../modules/nrfx/mdk/system_nrf52.c

Have you committed those?