www.neuron.yale.edu

This verb carries a pejorative connotation that makes me think of Iago in Othello. "Imply" is much more neutral.

I apologize, i was not aware of that connotation. I am not such a villain!

Many thanks for the explanations, i am now ready to go further.

By the way, i managed to put spines, using an external code as you proposed : {xopen("CA1_template.hoc")} {xopen("create_spines.hoc")} objref N1 N1 = new CA1() initspines(N1,N1.Radiatum_thin, 3.15) // where Radiatum_thin is a sectionlist and in "create_spines.hoc" : pro...

I took the model from (Golding et al. 2001) as it was. I only extracted pieces of the neuron for illustration purposes, and did not modify nseg. In the whole model, branches contain odd and even numbers of segments. The functional considerations about nseg that you pinpointed here did not seem to be...

Thank you for the answer, i will work on this. Embedding objects in other objects seemed a natural way to mee, but i might be wrong. It's best to connect the child section's 0 end to the parent's 1 end. Ok, that has advantages such as for subtree() use indeed, but does that have an effect on computa...

Hello, I am building a template of CA1 neuron, on the basis of the model of Jarsky. I have a template of Synapse that i would like to instantiate on this neuron, so that i can build an encapsulated and "clean" code. My spine template : begintemplate SPINE public PSD, CYTOSOL, NECK create P...

Hello, I've had such a problem (dlopen failed) on a fresh install of ubuntu, when my tests were situated on a ntfs partition. I modified the /etc/fstab file so that the partition is mounted with full rights (umask=000), and execution authorized (exec option) # Partitions Windows - NTFS UUID="X4...

thanks for the link ted, i just realize that there is a dedicated section in the programmers' reference. I used documentations in http://www.davison.webfactional.com/notes/accessing-hoc-python/ , somehow kept using a regular hoc file for all the model description, and used python for all the surroun...

I have this 'bug' when using python : If ido from scipy import * , and then h.load_file(whatever.hoc) , the variables written in the hoc file like x = 0.001 will be seen as 0. If i change for x = 1e-3 , or if i import import scipy as sc , and adapt the code accordingly, the hoc variables are not cei...

Hello, I might have missed something about netstim / netcon. I am just trying to use netstim to control a series of events, as an input of a diffusion mechanism. I started with this, but the events do not seem to occur : load_file("nrngui.hoc") objref cvode // is CVODE required to be able ...

First, congratulations on browsing through the Programmer's Reference. Most of the time, such activity reveals things that might someday be useful. oooh ! Not in this particular case, however ah. Nobody ever uses spine3d or any of its related stuff (browse for more in the documentation of Geometry ...

Hello,
While searching in the ref pages, i found spine3d in the 'section' section.
That said, i did not manage to find more informations about that keyword...
What is it? How could i use it? Is there example available? Did i miss something ?

Thanks for your help!

Hello, i am launching Neuron from a python script. I use my own simulation loop up to now, in order to implement a communication with another piece of code. Every time, fadvance() function is called, i have a '1' figure in return from Neuron, and every time a h('something') is achieved. Is there a w...

Hello all, I might have misunderstood something again, related to the computation of Calcium current using USEION declaration in a POINT_PROCESS NMODL. What i want to do is to WRITE ica, in a POINT_PROCESS AMPA5, using a fractional conductance. In the following NMODL, i think i have declared correct...

Thanks Ted, i sent it to you.

Isn't it related to the fact that the BREAKPOINT block is evaluated twice per timestep with cvode ?
It's just an intuition, i still cannot realize what happens actually ...

OK, i found out what you meant, it deals with WATCH(), for threshold detection within the POINTPROCESS, and net_send() function to dialog with the NetCon object. Hence, i have the following, with a reduced test model : the hoc instantiates one ns POINTPROCESS in PRE, one nr POINTPROCESS in POST, and...