Yes, the program stops but the Scalar keeps on working. This is really cool if you sleep in the field because you can run a program for 2 hours, then after it stops automatically you have 6 hours to rest and heal from the program-effects, as you sleep in the native mode of the scalar field.
For more details, please check this link: https://www.facebook.com/groups/spooky2scalar/permalink/811003386139888/