Why does atmospheric pressure cancel in hydraulic jump analysis?

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Clara Chung
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Typeset lecture notes section 4.2.3 on analysis of the hydraulic jump, with a sketch of a channel showing depth h1 at station A and h2 at station B, flow speeds u1 and u2, and a red box around the pressure assumption p = ρg(h1 - z).

Sorry for the poor image... A better picture can be viewed here https://www.dropbox.com/s/uyi01l27vu2fwyw/96.png?dl=0
I don't understand the assumption in the red box...
If I don't ignore the atmospheric pressure, F_1 = integrate from 0 to h_1 (ρg(h_1-z)+p_a)dz = 1/2 ρgh_1^2 + p_a*h_1, similarly for F_2.. Therefore, the final line would be f_3(h) = h^2 + 2Q^2/gh +2/ρg*p_a*h which a linear term is added...
 
Thanks for the reference links.
 
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I think I got the answer...
Only the gradient of pressure produce a force on the region. (The euler equation)
If I really want to included the atmospheric pressure as well, I also have to account for the pressure on the acting on the jump area... Therefore, p_a*h_1 + p_a*(h_2-h_1) balances the force on the other side p_a*h_2...
 
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