Search found 45 matches

by adamimos
Tue Mar 23, 2010 1:52 pm
Forum: Other questions
Topic: Green's Function type response
Replies: 2
Views: 1102

Re: Green's Function type response

After some messing around I find that any clamping duration greater than half the timestep of the simulation invokes a response. I am guessing this stems from whatever half-step method NEURON uses to approximate the differentiial equations>?
by adamimos
Tue Mar 23, 2010 1:08 pm
Forum: Other questions
Topic: Green's Function type response
Replies: 2
Views: 1102

Green's Function type response

Hi. I was wondering if it was possible to give an instantaneous current injection (not a hill function, but a delta function) with IClamp. Is the best I can do to set the duration of the clamp very very very low? I was also wondering how the program would deal with my setting the duration of the cla...
by adamimos
Wed Feb 24, 2010 6:11 pm
Forum: NEURON + Python
Topic: RangeVarPlot and access
Replies: 2
Views: 1255

RangeVarPlot and access

Hello, I am trying to make a very simple simulation where I have two sections which are connected. I put in constant DC current in the end of one of the sections, and I want to look at the steady state membrane potential distribution across both sections. I am using neuron in python. I have made a s...
by adamimos
Thu Feb 18, 2010 5:38 pm
Forum: NEURON + Python
Topic: Loading User-Defined Mechanisms
Replies: 5
Views: 1739

Re: Loading User-Defined Mechanisms

I used this sequence of commands to install from source: #!/bin/sh #Install Neuron with InterViews and nrnpython interphase cd $HOME mkdir neuron cd neuron cd iv make distclean sh build.sh ./configure --prefix=/Applications/nrn71_x86_64/iv \ --build=x86_64-apple-darwin10 --host=x86_64-apple-darwin10...
by adamimos
Thu Feb 18, 2010 2:13 pm
Forum: NEURON + Python
Topic: Loading User-Defined Mechanisms
Replies: 5
Views: 1739

Re: Loading User-Defined Mechanisms

I'm using OS X.6.2, i386, I was using python. I just tried nrrniv, and that works successfully...
by adamimos
Wed Feb 17, 2010 8:45 pm
Forum: Getting started
Topic: A simple netstim question
Replies: 3
Views: 1927

Re: A simple netstim question

you da man!
by adamimos
Wed Feb 17, 2010 8:45 pm
Forum: NEURON + Python
Topic: Loading User-Defined Mechanisms
Replies: 5
Views: 1739

Loading User-Defined Mechanisms

Hello, Sorry for all the questions; I am trying to just simply load up a .mod file via python. I have tried both the neuron.load_mechanisms and neuron.h.nrn_load_dll functions to no avail. In both cases I get this error: In [11]: h.nrn_load_dll('/Users/adamimos/Directory/umac/.libs/libnrnmech.so') l...
by adamimos
Wed Feb 17, 2010 4:40 pm
Forum: Getting started
Topic: A simple netstim question
Replies: 3
Views: 1927

A simple netstim question

I am trying to use NetStim to give a train of current injections with specified max current. I have a netcon which has a NetStim as a source, and an exp2syn as a target. My understanding is that when NetStim passes NetStim.threshold, NetStim.weight will be sent to exp2syn, which will give current as...
by adamimos
Wed Feb 17, 2010 4:24 pm
Forum: NEURON + Python
Topic: using neuron.h.Graph() through python
Replies: 9
Views: 5170

Re: using neuron.h.Graph() through python

I can't reproduce the problem on my osx 10.4 i686 machine. Both the standard 7.1 distribution and my latest sources are working for your test case. no problem, thanks for your help. after playing around with it a bit more, if you do from neuron import * at the begining, and then do from neuron impo...
by adamimos
Sun Feb 14, 2010 4:50 am
Forum: NEURON + Python
Topic: using neuron.h.Graph() through python
Replies: 9
Views: 5170

Re: using neuron.h.Graph() through python

Well in any case now, I've gotten acces to a linux box, so I should be good. However, it'd be helpful if anyone knew what was going on. Thanks. I'm not sure if this helps solve the mystery at all: every once in a while when I try "from neuron import gui" in python it will actually work, and I will g...
by adamimos
Sat Feb 13, 2010 2:58 pm
Forum: NEURON + Python
Topic: using neuron.h.Graph() through python
Replies: 9
Views: 5170

Re: using neuron.h.Graph() through python

hey, thanks for the reply. I'm actually using OS X.
by adamimos
Fri Feb 12, 2010 8:02 pm
Forum: NEURON + Python
Topic: using neuron.h.Graph() through python
Replies: 9
Views: 5170

Re: using neuron.h.Graph() through python

I hate to just bombard with questions. But here is a more important problem: When i try to import the GUI i get this: In [1]: from neuron import gui MPI_Initialized==false, disabling MPI functionality. NEURON -- Release 7.1 (359:7f113b76a94b) 2009-10-26 Duke, Yale, and the BlueBrain Project -- Copyr...
by adamimos
Thu Feb 11, 2010 7:14 pm
Forum: NEURON + Python
Topic: using neuron.h.Graph() through python
Replies: 9
Views: 5170

using neuron.h.Graph() through python

Hey, I'm trying to use the graphing using neuron.h.Graph() as opposed to converting the data to a numpy array and then using pylab. In order to test things out I'm trying to use the most simple code to make a graph (which I pretty much copied from the NEURON and Python paper): from neuron import h s...
by adamimos
Tue Jan 26, 2010 2:38 pm
Forum: OS X
Topic: Trying to get python with OS X working
Replies: 2
Views: 3879

Re: Trying to get python with OS X working

Thank you so much! I just had to change some very small things. It worked great!
by adamimos
Mon Jan 25, 2010 4:59 pm
Forum: OS X
Topic: Trying to get python with OS X working
Replies: 2
Views: 3879

Trying to get python with OS X working

Hey everyone, I'm just starting with NEURON and I installed from dmg and everything works fine. I am now trying to get NEURON working as a module within python. When I try to install from source I get a bunch of different errors depending on what I try. I tried this to install IV: IDIR=/Applications...