www.neuron.yale.edu

Amazing. Thanks!

Does it contain a statment of the form begintemplate Foo Yes. Following are the starting statements begintemplate celltemplate public soma,dend,all,dends,basal,apcounter,apvec,nil,LOTlist,CClist,FocalList,Vvec,numdend,primedends//,FocalDends,NumberActiveDends objref all,dends,basal,apcounter,apvec,...

Thanks for your prompt responses. What do you get and how is it different from what you expected? I am expecting to load the morphology (similar to loading a swc file), check different parameters to make sure I can use it for my simulations. What I tried to do- 1) Double click and load the hoc file....

Hi Ted I am trying to load a morphology as a hoc file in GUI instead of using the import3d<cell builder tool (because i don't have the swc file). When I do this, I don't get something similar to the cell builder tool. I double checked that using the model view option. Can you point where I am going ...

The error which I posted is from 7.6.7.
is working. But the GUI doesn't pop up, but it gives the output which I shared in the first post.

After using sudo pip3 install neuron, it did the installation(successfully) but didn't work. This is its location. It is still present. neuron in /usr/local/lib/python3.8/dist-packages (7.8.1.1) I then installed using tar.gz file of 7.6.7 version of nrn and iv, which I had downloaded some days back ...

Hi, After installing the package I wanted to run the gui for which I wrote in the terminal- nrngui -python This gave the following error- Duke, Yale, and the BlueBrain Project -- Copyright 1984-2018 See http://neuron.yale.edu/neuron/credits /home/sohaib/neuron/nrn/x86_64/bin/nrniv: Couldn't find: st...

Do you see a problem with iteration over segments when you just use Python from NEURON, without Jupyter? Had not tried before. However, upon checking, it works fine with just python. In both cases, i.e Loading with or without GUI doesn't affect it and works fine. Jupyter seems to create some troubl...

email that zip file

Thanks. Sure.

what version of
NEURON is being used by the notebook

Neuron Version : NEURON -- VERSION 7.5 master (6b4c19f) 2017-09-25
Anaconda: Version 5.2.0 , Build Channel- py36_3

You should get something like this I do get like this. But intriguingly, sometimes it doesn't print all of them. Also sometimes, when i load a file such as this. from neuron import h h.load_file('/home/sohaib/neuron/ASC Files/fmc3_1') h.load_file('/home/sohaib/neuron/ASC Files/fmc3_1') (fmc3_1 is a...

Two things happen when this command is run. for sec in h.allsec(): for seg in sec: print(seg) It prints soma(0.5) dend[0](0.5) dend[1](0.5) dend[2](0.5) dend[3](0.5) so on and so forth But sometime it prints soma(0.5) dend[0](0.1) dend[0](0.3) dend[0](0.5) dend[0](0.9) dend[1](0.1) dend[1](0.3) dend...

I tried doing a weighted compartment analysis. However, I checked some of the parameters of all the dendrites to get an idea and found this problem. I took a dendrite randomly and enquired into its segments and their morphological parameters. x = h.dend[2] for i in x.allseg(): print(i, i.area(), i.d...

That was really insightful. By Excitability, I meant that the cell may report a higher number of AP's by a reduction in the threshold, reduced spike interval, or increased amplitude of Vsoma. The reason for this view is because REM sleep deprivation has been hypothesized to increase cell excitabilit...

I am trying to study the effect of the altered structure on cell function caused due to REM sleep deprivation. I have morphology for both control and treatment group, and I am using biophysical properties of the control group. I am exciting a single dendrite at its midpoint and checking voltage at t...

No it doesn't. It does seem to load the hoc file. I accessed details like h.soma.Ra which it reported the value I had put in earlier. I also ran a simulation placing an I clamp at a different dendritic positions and it generated spike perfectly. Read the Programmer's Reference documentation of load...