www.neuron.yale.edu

Perhaps you have not installed the xcode command line tools. From a Terminal, type xcode-select --install and see if that fixes the problem. Although I'm curious about why you had a import error when importing neuron after a package install. No need to pursue that now since your pip install fixed th...

Problem is fixed. Please install the pkg file at
https://github.com/neuronsimulator/nrn/ ... s/tag/8.1a

Have to admit I'm stuck. See: https://github.com/neuronsimulator/nrn/issues/1708 I can see the Terminal via the Finder in /Applications/Utilities But from a Terminal hines@Michaels-MacBook-Pro-2 ~ % ls -al /Applications/Utilities total 0 drwxr-xr-x 4 root wheel 128 Mar 16 18:45 . drwxrwxr-x 18 root ...

I just upgraded to 12.3 and am experiencing the same issue when double clicking the nrngui or neurondemo icon. I'll try to diagnose and fix this. Meanwhile, a possible work around is to manually start a terminal window and launch neurondemo or nrngui from there by typing those names into the termina...

The ctest -VV command could not find tests. I'm not seeing a problem with that (when launched from the build folder). It verbosely executed all tests. Not sure what went wrong in your case. Please copy the error message here. test_bbss.py produced errors about HocObject no attribute 'Follower'. Cha...

What is the NEURON version you are using and what is the launch command you use to experience the problem. Also what version do you see when you start a bash terminal and run gcc -v I'll see if I can reproduce the issue on a bare machine. Maybe the NEURON installer is missing a file needed to compil...

INTEL MKL ERROR I don't have an answer to that problem. I suspect that launching your Python sets up a more elaborate environment for finding modules and libraries than launching nrniv is able to do just from PYTHONHOME and dynamically loading the Python library. I had forgotten to ask what is outp...

Ok. So NEURON without Python seems to be working correctly. If that is sufficient functionality for you, we can close the issue. However, if you do wish to combine the functionality of Python and NEURON, we can continue the diagnosis. The next step would be to launch python and see if you can import...

lipo -arches /Applications/NEURON/bin/nrniv Sorry about the typo. I meant lipo -archs /Applications/NEURON/bin/nrniv But no matter, from your other comments, I already know it will be x86_64 and not arm64. To see if your installation of Python or NEURON or the combination is to blame, try executing...

Please drag the /Applications/NEURON folder to the trash to uninistall and install the file https://github.com/neuronsimulator/nrn/releases/download/8.0a/nrn-8.0a-690-g3ddaecc21-osx-arm64-py-38-39.pkg 1) This will look under /opt/X11 for the xquartz libraries instead of /opt/homebrew/opt/libx11. 2) ...

I asked that you launch idraw. Also I wondered if you had made the symbolic link and so asked for what was printed by ls -l /opt/homebrew/opt/libx11/lib/libX11.6.dylib But no matter, I think it is necessary that I create a new installer where idraw and nrniv look in /opt/X11/lib for the X11 library....

Look at the output of otool -L /Applications/NEURON/bin/idraw and note the location it expects to find libX11.6.dylib On my machine that is /opt/homebrew/opt/libx11/lib/libX11.6.dylib Also is that the error generated in the terminal that is popped up when you launch /Applications/NEURON/bin/idraw On...

This may take a few back and forth questions/answers. From a terminal window, what is the output of

which nrniv
lipo -arches /Applications/NEURON/bin/nrniv
/Applications/NEURON/bin/nrniv -nopython

I believe the problem is that the NEURON installation attempts to find libX11.dylib in /opt/homebrew/opt/libx11/lib/libX11.6.dylib If you try to launch /Applications/NEURON/idraw, I expect you will see the error: dyld: Library not loaded: /opt/homebrew/opt/libx11/lib/libX11.6.dylib Do you happen to ...

I've summarized the issue at https://github.com/neuronsimulator/nrn/issues/1497