SimNIBS: Not able to use "run_simnibs" command from bash

Software Support
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1

Summary

Hi all, I’m trying to use the ‘run_simnibs’ command from bash, but I’m running error:

Running this command:

run_simnibs example.mat

Returns this output:

/bin/bash: run_simnibs: command not found

I’ve activated a conda environment where simnibs is installed. This is apparent since I’m able to use certain simnibs command from my command line, such as ‘simnibs_gui’.

I’ve also added the Linux libraries to my LD_LIBRARY_PATH, but this doesn’t fix the issue:

export LD_LIBRARY_PATH=<redacted>/simnibs4_env/lib/python3.9/site-packages/simnibs/external/lib/linux:$LD_LIBRARY_PATH

edit: I’ve been able to run it from the command line in the past using this environment and LD_LIBRARY_PATH.

Anyone have any experience with errors like this? Thank you!
Shane

2

Hi @swwalsh1,

I’m not familiar with this package, but from looking at the GitHub I cannot find evidence that run_simnibs is a command meant to be run directly on the CLI.

Best,
Steven

3

Hi Steven,

Thanks for your reply. I’ve been able to run it from the command line in the past using this environment and LD_LIBRARY_PATH, I’m not sure what broke.

Best,
Shane

4

Hi @swwalsh1,

Executables should usually go in $PATH not LD_LIBRARY_PATH. If you find the executable in the GitHub repo you can just explicitly add it to your path.

Best,
Steven