I'm having trouble installing NEURON 8.2 on Windows 11. I installed NEURON 8.2 using the installer from the website, then installed Anaconda. When I open Python and type from neuron import h, I get this:
Traceback (most recent call last):
File "c:\nrn\lib\python\neuron\__init__.py", line 135, in <module>
from . import hoc
ImportError: cannot import name 'hoc' from partially initialized module 'neuron' (most likely due to a circular import) (c:\nrn\lib\python\neuron\__init__.py)
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "c:\nrn\lib\python\neuron\__init__.py", line 137, in <module>
import neuron.hoc
ModuleNotFoundError: No module named 'neuron.hoc'
Python cannot import neuron library on Windows install
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Re: Python cannot import neuron library on Windows install
Uninstall NEURON, then reinstall it.
Re: Python cannot import neuron library on Windows install
Uninstalled, reinstalled, restarted...still the exact same error message.
Re: Python cannot import neuron library on Windows install
All right, finally got it working. I uninstalled both NEURON and Anaconda. I then re-installed them, but installed Anaconda first, and NEURON second. (Before, the order was reversed.) I'm not sure why, but the order of installation seemed to matter, at least in my case.
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Re: Python cannot import neuron library on Windows install
Thanks for the followup on that. I always adivse users to install Python first, then NEURON. The fact that you had to uninstall both, then install Python, and finally NEURON, doubtless contains a clue . . . if we're smart enough to figure out what it might be.
Re: Python cannot import neuron library on Windows install
Hi,
I am having the same issue with my Python/Windows installation:
I uninstalled everything, then installed Python (miniconda) and finally Neuron. But the error arised again.
Looking at the C:\nrn\lib\python\neuron folder, I noticed the following files:
But no 'cp312' file. However, I am using Python 3.12. Is it possible that the current version of Neuron is not meant to work with Python 3.12? (although under the Windows Subsystem for Linux it DOES run perfectly with Python 3.12).
What else can be happening? I took care of cleaning as much hidden folders and configuration files as I could before reinstalling everything.
I am having the same issue with my Python/Windows installation:
Code: Select all
from neuron import h
Traceback (most recent call last):
File c:\nrn\lib\python\neuron\__init__.py:135
from . import hoc
ImportError: cannot import name 'hoc' from partially initialized module 'neuron' (most likely due to a circular import) (c:\nrn\lib\python\neuron\__init__.py)
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
Cell In[1], line 1
from neuron import h
File c:\nrn\lib\python\neuron\__init__.py:137
import neuron.hoc
ModuleNotFoundError: No module named 'neuron.hoc'
Looking at the C:\nrn\lib\python\neuron folder, I noticed the following files:
Code: Select all
hoc.cp37-win_amd64.pyd
hoc.cp38-win_amd64.pyd
hoc.cp39-win_amd64.pyd
hoc.cp310-win_amd64.pyd
hoc.cp311-win_amd64.pyd
What else can be happening? I took care of cleaning as much hidden folders and configuration files as I could before reinstalling everything.
Re: Python cannot import neuron library on Windows install
I just had this issue crop up again as well. Good catch with the Python version number. Like you, with Python 3.12 I could not import neuron. But then I reverted to Python 3.9, and this solved the problem. Are you able to simply go back to an earlier Python version, at least until they update NEURON to handle Python 3.12?
Re: Python cannot import neuron library on Windows install
Yes, I thought about setting an environment with Python 3.11, but since I already have Python(3.12)+Neuron working under the WSL, it is kind of the same.
We'll have to wait for an update, I guess.
EDIT: in another computer I have Python 3.11 + Neuron working perfectly in Windows
We'll have to wait for an update, I guess.
EDIT: in another computer I have Python 3.11 + Neuron working perfectly in Windows
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Re: Python cannot import neuron library on Windows install
Can someone elaborate on why do we need conda and neuron.exe GUI installer to use NEURON on windows and in some particular order (first Conda then NEURON)?
I use "python venv" as environment manager, not conda and haven't been able to get neuron to work.
I use "python venv" as environment manager, not conda and haven't been able to get neuron to work.
Re: Python cannot import neuron library on Windows install
NEURON + python can work only if the python version is one of those listed in the name of the neuron installer. Presently the installer one gets from
https://nrn.readthedocs.io/en/latest/ or https://nrn.readthedocs.io/en/8.2.6/ is
https://github.com/neuronsimulator/nrn/ ... -setup.exe nrn-8.2.6.w64-mingw-py-38-39-310-311-312-setup.exe
However if one goes back a bit more to https://nrn.readthedocs.io/en/8.2.4/ then one sees
https://github.com/neuronsimulator/nrn/ ... -setup.exe nrn-8.2.4.w64-mingw-py-37-38-39-310-311-setup.exe
If you have lost track of the installer name, then, as indicated above, you can see the list of neuron+python interface libraries at c:/nrn/lib/python/neuron that begin and end with hoc.cp...win.amd64.pyd
It is not supposed to matter whether Anaconda Python or NEURON is installed first. The reason I expect it to work is because the neuron installer sets PYTHONPATH which allows python to find neuron for import. If this continues to be a problem (even though the hoc.cp...pyd interface file exists for your python version) then I'll need to work with you to diagnose and fix the problem.
https://nrn.readthedocs.io/en/latest/ or https://nrn.readthedocs.io/en/8.2.6/ is
https://github.com/neuronsimulator/nrn/ ... -setup.exe nrn-8.2.6.w64-mingw-py-38-39-310-311-312-setup.exe
However if one goes back a bit more to https://nrn.readthedocs.io/en/8.2.4/ then one sees
https://github.com/neuronsimulator/nrn/ ... -setup.exe nrn-8.2.4.w64-mingw-py-37-38-39-310-311-setup.exe
If you have lost track of the installer name, then, as indicated above, you can see the list of neuron+python interface libraries at c:/nrn/lib/python/neuron that begin and end with hoc.cp...win.amd64.pyd
It is not supposed to matter whether Anaconda Python or NEURON is installed first. The reason I expect it to work is because the neuron installer sets PYTHONPATH which allows python to find neuron for import. If this continues to be a problem (even though the hoc.cp...pyd interface file exists for your python version) then I'll need to work with you to diagnose and fix the problem.