Search found 5 matches

by tiki
Thu Nov 12, 2020 11:46 am
Forum: NEURON hacks
Topic: Flushing Output to Disk
Replies: 1
Views: 46

Flushing Output to Disk

I am using NEURON in python to simulate large groups of endocrine cells (often over 100 cells per simulation). Naturally, keeping a copy of all the variables of interest in python (as seen in step 6 here: https://www.neuron.yale.edu/neuron/docs/scripting-neuron-basics) is taking a lot of memory and ...
by tiki
Mon Jul 13, 2020 3:28 pm
Forum: Reaction-diffusion in NEURON
Topic: Connecting rxd to custom mechanism where custom mechanism models production/secretion
Replies: 8
Views: 768

Re: Connecting rxd to custom mechanism where custom mechanism models production/secretion

Right now isst is set to the flux of sst, which I felt would be more appropriately represented by ssti' in the derivative block. Unfortunately, writing ssti in this block did not change the above result.
by tiki
Mon Jul 13, 2020 1:31 pm
Forum: Reaction-diffusion in NEURON
Topic: Connecting rxd to custom mechanism where custom mechanism models production/secretion
Replies: 8
Views: 768

Re: Connecting rxd to custom mechanism where custom mechanism models production/secretion

Thank you, I did not know that a current for an ion with valence 0 would affect the charge balance equation. Do you know what the role of this current is on the concentration of ssti and ssto. The ion concentration seem to change only when the urrate and rrate that are input into the multicompartmen...
by tiki
Mon Jul 13, 2020 12:17 am
Forum: Reaction-diffusion in NEURON
Topic: Connecting rxd to custom mechanism where custom mechanism models production/secretion
Replies: 8
Views: 768

Re: Connecting rxd to custom mechanism where custom mechanism models production/secretion

Hello Ted, Should I repost my above post in another section of the forum for adamjhn or ramcdougal? As for the code, much of it was translated from the xpp files at this link: https://lbm.niddk.nih.gov/sherman/gallery/bad/ and we plan to add units in the near future, but I don't see a reason for inc...
by tiki
Fri Jul 10, 2020 8:41 am
Forum: Reaction-diffusion in NEURON
Topic: Connecting rxd to custom mechanism where custom mechanism models production/secretion
Replies: 8
Views: 768

Connecting rxd to custom mechanism where custom mechanism models production/secretion

Hello, I was looking through the past posts on this forum and I felt that my case might not neatly fit into the categories covered by previous posts. I am working on a model of endocrine cell and currently have a custom mechanisms which models the secretion of insulin as follows: NEURON{ SUFFIX D_So...