Hakuba/Nagano - Osaka/Kyoto - Tokyo

Hello, I am just wondering if part of my routes are covered by the JR Pass,
from my research, it seems like only a part of Nagano to Osaka is on a JR line and then you have to transfer to a different line, am I wrong? If it's covered, can someone please provide more information on which trains to take?

so here's my itinerary:
1. Hakuba/Nagano - Osaka (does JR Pass cover this full route? ¥11,060 if I buy reg ticket)
2. Osaka - Kyoto (round trip, I know covered by JR Pass, and ¥1,120 if I buy reg. ticket)
3. Osaka - Tokyo (one way, covered by JR Pass, and approx. ¥14,670 if I buy reg. ticket)

I will also be traveling a bit within Osaka and Tokyo metro (mainly around Shibuya and Shinjuku).

I guess my main question is if the JR Pass will cover the route from Hakuba to Osaka.

thanks!