Code formating (updated yapf)

km3buu/config.py

km3buu/geometry.py

km3buu/jobcard.py

km3buu/output.py

km3buu/physics.py

km3buu/tests/test_config.py

km3buu/tests/test_ctrl.py

km3buu/tests/test_environment.py

km3buu/tests/test_geometry.py

km3buu/tests/test_jobcard.py

km3buu/tests/test_output.py

km3buu/tests/test_physics.py

km3buu/tests/test_propagation.py