www.neuron.yale.edu

Hi

I'm trying to simulate ion accumulation/depletion and diffusion in the Frankenhauser Hodgkin space surrounding a dendrite. Here I want to investigate what happens in this space during intense activation of AMPA and NMDA.
My problem arises when I want my MOD files to communicate with my FH space. At first I defined my FH space as When running my script, there was no response, even if I upped the current going outwards. Meanwhile the concentration inside the dendrite declined in a fashion I would expect.
Then I tried scrapping my FH space and define a extracellular space with rxd.Extracellular, and with this modification the code worked as intended. I found a solution, but moving forwards it would be hard to use that solution with rxd.Extracellular
My main question is if it is even possible to treat a region 'o' as extracellular space and get MOD files to interact with it?

We'll look into this. What you describe sounds like it should have worked.

Try putting the Shell next to the dendrite... i.e. you want lo = 1
The numbers here are in fractions of a radius not µm.

Thanks it worked.
I made the exact error as you suggested, and setting lo=1 did the trick