Fluid simulation: How to make fluid flow through a mesh?

I’ve seen tutorials on this (going through a pipe), and even after following all the steps I can’t manage to do it on my more complicated file (but I have had success by creating a simple pipe from scratch). The problem is, I don’t see what is wrong with my mesh that prevents fluid from flowing through it. I have the same fluid settings for the file that worked and the one that did not (my main file).

To elaborate, I have a inflow sphere inside roots, and want it so the sphere pumps water downwards through the roots. I am using obstacle with the shell setting on the root mesh, but it still does not work.

Here is the blend file for those who are not clear with my explanation.
http://www.pasteall.org/blend/42337

Thank you for your time.

I apllied scale on all the objects, and I made a simulation with a fluid resolution of 340.
You should increase the fluid resolution value, and make your root bigger.

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Oh, ok. I did not realize that resolution was restricting the fluid from flowing through the mesh.

Thank you very much for your help!