www.neuron.yale.edu

The problem is that nrnpyenv.sh cannot figure out the location of the shared python library. (I can't remember how the neuron wheel was configured but assume it was with NRN_ENABLE_DYNAMIC_PYTHON=ON. Please check with nrniv nrnversion(6) ) If that really is the case, then a correct value for the NRN...

If you are happy with launching python instead of nrniv, then fine and we can consider the issue closed. If you do wish to resolve the nrniv -python issue then I'm happy to help lead you through the diagnosis and hopefully a solution. To start, I'll need to know the complete output of the above comm...

Hmmm. Maybe anaconda does now have an M1 version.
https://www.anaconda.com/blog/new-relea ... porting-m1
But it is surprising that the filename of the download is Anaconda3-2022.05-MacOSX-x86_64.pkg. so I guess I'm skeptical that that is a universal2 installer.

Please see https://nrn.readthedocs.io/en/latest/install/install_instructions.html#mac-os with special attention to the information that begins Universal2 installers generally “just work” on either an x86_64 or arm64 architecture. Your problem is that nrniv is a universal program that starts up by de...

On Aug 25, 2021 the master was modified so that on the Mac, X11 is looked for at /usr/X11 instead of in /opt/homebrew. I see that version 8.1.0
and more recent versions contain this fix.

One of the problems with POINTER for implementing gap junctions is that it can't work for parallel MPI simulations where the source may be on a different machine than the target. And for multiple threads, it's more difficult to avoid race conditions. So for connecting pieces of a model together with...

Thank you for sending me the zip file with the code. In getting back into context, I did notice above that Could not find module 'C:\Users\jdami\Documents\Year 4\Lazzi\... Could you rerun after modifying the location of your files so that you eliminate the space in "Year 4". Changing to &q...

There are a number of ways that can happen ranging from double precision round off error differences in the pow function for mac and windows that then slowly accumulates in a chaotic model til a spiketime difference becomes apparent; to user error in handling randomness in mpi runs. The most robust ...

y cannot be the name of a STATE as that automatically declares y0 for the initial value. Unfortunately y0() is the Bessel function of the first order and is declared in math.h.

Running the model requires the 8.swc file. Please send that to michael.hines@yale.edu as a an attachment. Or zip file if there are are other files needed to run the model.

https://github.com/chlubba/PyPNS/pull/6 has been merged to master. The expectation is that all versions of NEURON will now produce the same results modulo nondeterministic use of random variables.

When I use NEURON-8.1.0 with python3.9 on my linux desktop and install PyPNS from github and run python -i test.py I get (pypns-39) hines@hines-t7500:~/tmp/pypns$ python -i test.py 1 Creating axon 0 Myelinated fiber diameter: [0.97982345] Number of segments for myelinated axon: 2208 Starting simulat...

Yes, I got this message but for version 8.0. NEURON -- VERSION 7.6.7-3-gef035d9b 7.6 (ef035d9b) 2019-04-28 That confuses me.I can't reconcile the "version 8.0" with the 7.6.7 banner. Anyway, I suppose it is potentially possible for me to rebuild a version of 7.6.7 that has a python 3.8 in...

https://neuron.yale.edu/ftp/neuron/versions/v7.6/7.6.7/

i.e. nrn-7.6.7.w64-mingw-py-37-36-35-27-setup.exe

Sorry, it was staring me in the face the whole time. That installer does not have an interface dll for Python3.8

When you temporarily installed the most recent version of NEURON, were you able to successfully launch
nrniv -python
from a command prompt?