It's an apt metaphor. Your internal clock is in a different time zone than you, and each day it comes a bit closer, until you and your internal clock are at last in sync.
Souls don't exist, but the metaphor of something slower catching up to you is nicely done IMO.
You also spend those days feeling utterly unlike yourself, in a new environment that is perhaps subtly, perhaps radically different than home. You feel distinctly unmoored and if there could be a collective unconscious psychically linking us to those around, then surely it must take a little while to get plugged into such a thing.
Most of my co-workers who have met me in person would describe me very differently to the few co-workers with whom I share the same continent. Jet lag changes my personality so significantly.
Souls don't exist, but the metaphor of something slower catching up to you is nicely done IMO.