www.neuron.yale.edu

It would seem fairly easy to copy the voltage over from vv to v -- this would go after the SOLVE in the BREAKPOINT. But this is less than 1/2 the problem since then will also want to get back into vv and this is not a simple copy but needs to add in to the integration. Therefore what you need is the...

An unrelated problem with install on Natty: slow processing of input lines due to some kind of readline incompatibility. This manifested in an xterm by extremely slow cut and paste of commands into neuron with either the hoc or python prompt (slow line parsing) The solution was to use the NEURON nat...

A runtime error can arise due to conflicts between different terminal definitions provided by different versions of ncurses compiled in for NEURON vs Python. This will manifest as a series of "conflict" measures: eg Name collision between dumb dumb .... Name collision between att615-w att6...

savefig for a pylab.scatter() or line plot works from native python but does not seem to work from the python interpreter when using 'nrniv -python' import pylab pylab.scatter([5,3,4],[1,7,8]) pylab.savefig("ff.png") # generates 'libpng error: zlib error' under nrniv pylab.savefig("ff...

> .....python setup.py install ...... ok, this is the problem; this is the step I was trying to side-step; sorry I should have made that clear but had mistakenly been thinking that this was an optional rather than an obligatory step this step requires writing to python system directories rather than...

I still seem to be having this problem (or a very similar one?) 2 years on?? >>> import sys >>> sys.path.append('/usr/site/nrniv/nrn/share/lib/python') >>> import neuron Traceback (most recent call last): File "<stdin>", line 1, in <module> File "/usr/site/nrniv/nrn/share/lib/python/n...

A question and a problem. Q: What are the various advantages/disadvantages of choosing one of these many available routes to running NEURON with python?: 1. nrniv using nrnpython(); 2. nrniv -python; 3. python with import; 4. ipython with import (to get pylab); 5. sage with import Obviously a major ...

matplotlib offers interactive graphics through setting of variables in ~/.matplotlib/matplotlibrc backend : TkAgg interactive : True (see matplotlib.sourceforge.net/users/shell.html) This works from a regular python shell but does not seem to work from the python shell spawned by 'nrniv -python' pyt...

take a look at my intf.mod in various models in modeldb
this uses 4 different synapse types for a single net_receive() block

in the mod file the weight is handled by summation
so the sign of the weight determines whether the input is excitatory or inhibitory

} else { : synaptic activation
gsyn = gsyn+w
}

I may be missing the point of this thread -- what code are you trying to run that does not run?

I don't offhand see why there would be any problem with convergence? What difficulty did you run into?

Real people needed for research in virtual laboratory. We are recruiting programmers and postdocs for development of in silico brain (thalamus-cortex) for interfacing within a real sensorimotor task being performed online with ongoing cortical and thalamic recording. Project offers an unusual opport...

In the specific case of izh.mod the threshold monitoring is internal to the "cell" and the NetCon does no monitoring the thresholding is done here: WATCH (vv>thresh) 2 so the threshold is a RANGE variable that can be set different for each cell -- the default value is thresh=30 any post-co...

reposting code as <code> // $Id: myizh.hoc,v 1.4 2010/01/26 19:20:38 billl Exp $ // load_file("izh.hoc") load_file("stdgui.hoc") nrnmainmenu() objref g[10] tstop=500 //* setup the cell create acell access acell objref izh,stim,nc,fih[2] cvode_local(1) acell izh=new IZH(0.5) //* p...

It's often easier to work within the context of a cell template. This is the way that the CellBuilder and NetworkBuilder sets things up so particularly helpful if you want to end up connecting this cell to some other cell type (eg a compartment cell or an event-driven ArtCell) Anyway, that's how I'v...