Search found 41 matches

by figoyouwei
Tue Nov 19, 2013 8:00 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: simple internal calcium concentration
Replies: 8
Views: 6428

Re: simple internal calcium concentration

thanks Ted, I got it now, it works :) and I appreciated your sharing of resource.
by figoyouwei
Sat Nov 16, 2013 1:21 pm
Forum: Adding new mechanisms and functions to NEURON
Topic: simple internal calcium concentration
Replies: 8
Views: 6428

Re: simple internal calcium concentration

Hi Ted, For this topic, I understand that one can initialize ion concentration in the mod file. In calcium case, e.g. parameter it <cai0 = some value> and <cao0 = soma value>. It works fine, but that means if there are ten different calcium mod files, one has to specify the parameters in all these t...
by figoyouwei
Wed Nov 06, 2013 12:20 pm
Forum: NEURON + Python
Topic: reset NEURON
Replies: 10
Views: 7079

Re: reset NEURON

thanks for the syntax "pc.gid_clear()"

but what is exactly the syntax for "unref all the NetCon" ? When for example, all the NetCon objects are stored in a list call "nclist" ?
by figoyouwei
Thu Oct 03, 2013 10:02 pm
Forum: NEURON + Python
Topic: reset NEURON
Replies: 10
Views: 7079

Re: reset NEURON

Hi Hines:

How exactly to do these three things in hoc and in PyNeuron ? thanks !

ParallelContext.gid_clear()
unref all the NetCon
unref all the cell objects.
by figoyouwei
Sun Dec 16, 2012 9:35 am
Forum: Anatomically detailed models
Topic: parents and children of a section
Replies: 3
Views: 3444

Re: parents and children of a section

Hi Ted:

I wonder, is there a sec.get_parent_loc() like function ? e.g. if dend (connected at pos 0) is a child of soma (connected at pos 1). If do : dend.get_parent_loc(), it will return "soma, 1" ? How could one get that info ? Thanks !
by figoyouwei
Fri Jan 13, 2012 11:42 am
Forum: NEURON + Python
Topic: Finding available variables in each section
Replies: 4
Views: 2422

Re: Finding available variables in each section

Thanks Hines ! The 'n' print is what I want :-)
by figoyouwei
Thu Dec 29, 2011 10:43 pm
Forum: NEURON + Python
Topic: Finding available variables in each section
Replies: 4
Views: 2422

Re: Finding available variables in each section

Hi Hines : I have the same question ! Although it has been asked by another post by mattioni, which the indirect way is "loop and check" whether a variable exists, but ... Is there any direct way, like <$ dir(soma)> function which automatically lists all the range variables accessible from a Section...
by figoyouwei
Tue Dec 27, 2011 1:20 am
Forum: NEURON + Python
Topic: PyNeuron Model View Error while calling the Py Class
Replies: 5
Views: 2524

Re: PyNeuron Model View Error while calling the Py Class

Thanks, Ted ! The model view code is useful ~ I guess here the main Python-Neuron problem is that ... when you load a hoc by calling h.load_file("bla.hoc"), the neuron model is callable from hoc. For example, suppose the neuron is called MSN in original hoc implementation. Then you can call it direc...
by figoyouwei
Thu Dec 15, 2011 11:06 am
Forum: NEURON + Python
Topic: PyNeuron Model View Error while calling the Py Class
Replies: 5
Views: 2524

Re: PyNeuron Model View Error while calling the Py Class

Hi

Maybe I ask the other way around, how can I generate "mview.hoc" file manually instead of clicking on the GUI->Tools-> Model View ?

Youwei
by figoyouwei
Wed Dec 14, 2011 6:54 am
Forum: NEURON + Python
Topic: PyNeuron Model View Error while calling the Py Class
Replies: 5
Views: 2524

PyNeuron Model View Error while calling the Py Class

Dear all: With python, I am creating a cell class in a file name "MSP.py". In the MSP.py, basically I define the cell class like class Cell(object): ... self.soma = h.Section(name='soma',cell=self) self.dend = h.Section(name='dend',cell=self) self.dend.connect(self.soma(1),0) ... I can h.run() the m...
by figoyouwei
Mon Aug 09, 2010 6:11 pm
Forum: OS X
Topic: python neuron install to import neuron on python IDLE
Replies: 0
Views: 1845

python neuron install to import neuron on python IDLE

Hallo viewers : I had problems by import neuron on Python Shell, with the help of hines, The following works by my MacBook Pro Version 10.6.4 , Processor :2.26 GHz Intel Core 2 Duo ************************************* 1. Install iv $ sh build.sh $ ./configure --prefix=/Applications/nrn71/iv --host=...