www.neuron.yale.edu

The web page referred to needs to be updated. The library is present in the x86_64 folder and will be automatically loaded if you launch nrniv in the
parent folder.

I need to reproduce the problem on my machine if possible. Can you send me (michael dot hines at yale dot edu) a zip file with all the needed hoc,ses,mod,py files that comprise the simulation? No guarantee that I'll succeed or that my diagnostic path will generalize, but I'll take notes on the proce...

I hope you are doing a sanity check when you have problems by printing some details. e.g print(seg.sec.name(), seg.x, seg.v, seg.Kv1.alphan) Anyway, one problem I see is that for seg in sec.allseg(): includes in the iteration sec(0) and sec(1) which are zero area nodes and do not contain Kv1. The li...

I see you have a def wrapper(alphan, betan, n, noise) but in your recording_callback = (wrapper, (seg.alphan_Kv1 , seg.betan_Kv1, seg.n_Kv1 , 0 )) the arguments to wrapper are just constant values computed at the time the recording_callback assignment statement is executed. In your mod file, alpahn ...

My opinion is that findnoiseterm should not be the callback but instead the callback should be a wrapper python function that for every instance of Kv1, the wrapper would call findnoiseterm and assign the return value into z1_Kv1 (which should be a regular RANGE variable instead of a POINTER.) If th...

Forgot to show the usage of the mod file... Note that the callback happens at the end of finitialize and at the beginning of a step. nrnivmodl beforestep_py.mod $ cat temp.py from neuron import h #enough model for the point process to have a home s = h.Section() # and for something interesting to ha...

I think that CVode.extra_scatter_gather is fine (in the after scatter direction) for your purpose because, since you are dealing with channel noise, you are most likely using only the fixed step method. In general we need to introduce something like Cvode.before_step(python_callback) which, for vari...

From a terminal which can run the specific conda environment, do you have a PYTHOPATH that mentions c:\nrn\lib\python ? If you launch python (in your specific conda environment and without such a PYTHONPATH) can you import sys sys.path.append("c:/nrn/lib/python") import neuron neuron.test(...

I was accessing a cell that is not associated with the rank it was made This wording puzzles me as I don't know anyway for a cell not to be associated with the rank it was made on. (although if you are using multisplit there may be parts of a cell that are on ranks that are different from the rank ...

XQuartz is one of those installations that requires one to logout and log back in in order to activate it.

A work around for now for readline problems is to try
nrn-7.8.1-2-gdfe33e60-osx-27-36-37-38-39.pkg
or
nrn-8.0.dev-239-g8f2aaaa9.w64-mingw-py-27-36-37-38-39-setup.exe
at
https://neuron.yale.edu/ftp/neuron/versions/alpha/
These use NEURON's internal readline sources.

Because of these perennial problems with readline when binary distributions are installed, we will be taking the tack during build of compiling a recent version of readline ourselves as a libreadline.a file along with ncurses and incorporating that into the libnrniv.dylib. I hope after that I'll nev...

Please try https://neuron.yale.edu/ftp/neuron/vers ... -setup.exe
If there are any difficulties that is the best place for me to resolve. I'm not experiencing any $N issue with that.

I would re-install software from xquartz.org. (After installing, logout and log back in). If that does not fix the issue, it may be a good idea to update the xcode command line tools and redo your mod files with nrnivmodl after removing the x86_64 folder. WIth regard to updating the xcode command li...

The issues mentioned by Ted have been fixed and are available with the current neuron-nightly wheel. Also neurondemo should work when the
neuron-nightly wheel is installed in a location for which the user does not have write permission (eg. sudo pip...).