www.neuron.yale.edu

Unfortunately, copying that library also doesn't help. The complete error reads: btorb:~> python Python 2.7.5 |Anaconda 1.7.0 (x86_64)| (default, Jun 28 2013, 22:20:13) [GCC 4.0.1 (Apple Inc. build 5493)] on darwin Type "help", "copyright", "credits" or "license&qu...

Hi Mike, No compiled files in that directory. I found my previous post about this here: https://www.neuron.yale.edu/phpBB/viewtopic.php?f=4&t=2957&p=12112&hilit=libreadline#p12112 The current status is that I can run "import neuron" only if I'm calling python in the directory t...

I was too quick! The tarball linked above does not work. Pulling the latest code from mercurial does. So start with hg clone http://www.neuron.yale.edu/hg/neuron/nrn I still have one more error because afterwards, if I start python and run "import neuron", the readline library cannot be fo...

Thanks for the prompt reply. Unfortunately, I still get the same error, and, I still need the compiler flags. (If not, compilation crashes even earlier) So I unpack the latest tarball you linked above, run ./build.sh, then ./configure ./configure --prefix=`pwd` --with-iv=/Users/btorb/local/neuron/iv...

Is there any solution to this problem? I get the same error: Rand::Rand(unsigned long seed = 0, int size = 55, Object* obj = nil) { ^ ~ ./random1.h:11:3: note: previous declaration is here Rand(unsigned long seed, int size, Object*); ^ ivocrand.cpp:202:3: warning: delete called on 'Random' that is a...

Oops. Forgot that one. But now I run into another problem. Typically mac osx in my opinion: ImportError: dlopen(/Users/btorb/local/lib/python2.7/site-packages/neuron/hoc.so, 2): Library not loaded: libreadline.6.2.dylib At this point I compile without any LDFLAGS. Now nrniv works, but I cannot load ...

Sorry to enter this discussion but the topic seemed most relevant. I don't even get to the stage of compiling on Maverick (10.9). "-bash: ./configure: No such file or directory" I did install xcode and afterwards the command-line-tool (late cotober 2013). So I'm not sure what is going on (...

Hi Ted, so, in short the answer is that we have to use the Impedance tool included and toggle the "full" computation of the impedance compute(loc,1) ? If I understand the explanation in the programmers manual correctly the toggle has to be used when the membrane contains voltage-gated cond...

Hi, I just noticed something annoying while setting the threshold of a NetCon in PyNRN. def _initRecordingSpikes(self): self.SpikesRec = h.Vector() self.nc = h.NetCon(self.soma(0.5)._ref_v,None,sec=self.soma,threshold=-10) self.nc.record(self.SpikesRec) With the above code the netcon threshold will ...

A tempest in a teapot. thanks to the alertness of Mike and Ted it was found that a time-constant was missing a factor in one of the files.

I stumbled upon some issue related to the way of integration in NEURON and don't exactly know what's going behind the scenes. I made a simple one-compartmental model that has one current (some fast K current) and simulated this model both in NEURON and in brian (as well as, actually, analytically in...

Hi, Is there a way to "reset" NEURON? In Nest there is a ResetKernel() method. Since i experience some issues with the scope of NEURON in Python, it would be nice to see such a method. Did i overlook it until now? Or, is there a python way of completely reloading the NEURON module during e...

tried some things for the last hour, wrote a post a minute ago and now i found the answer:

h.<globalname>_<mechname> = <value>

Hi, A quick question: how do you access a NMODL GLOBAL parameter in python.

In hoc (and h("")) you can do:
<global_name>_<process_name>=<value>
for instance gnabar_hh = 0.12

What is the pythonic way of doing this?

shhong and wvangeit came up with this solution which seems to work. (which works for the latest development code downloaded with mercurial) ./build.sh at this point, automake fails to create the "config.sub" and "config.guess". copy these two files from either the downloadable ta...