www.neuron.yale.edu

I'm trying to reproduce Poirazi model experiments.

I chmod +x run files and run them with nrngui run.

I run into a complaint regarding all instances of
NEURON seems to complain about the use of ../../? Any idea what the issue may be?

Fixed. In all cases, I had not compiled my .mod files.

A common error.

By the way, I realize that the source code for the model you're studying has a very intricate directory structure, but for anyone else who reads this, it's generally best to try to avoid such complexity--makes code maintenance and debugging more difficult. Besides, biology is complex enough itself.

Ah, do you have a model you've seen is very well organized?

For starters, you might look at any in ModelDB that I have written.