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Excellent, everything is working perfectly now. Thanks so much, Ted!

Thanks, Ted, this sounds like exactly the tool I need. However, I am still running into a very basic problem (exposing my ignorance related to using the NEURON GUI). I assume that to use this Shape Name tool, I need to have created an instance of the model cell in question. I tried to do this by ope...

Thanks, Ted, that is really helpful. Here's the Python code I wrote to implement your pseudocode: from neuron import h h.load_file('pyr.hoc') cell = h.CA1_PC_cAC_sig() target_dist = 250 #um for sec in cell.apical: #'apical' is a SectionList defined in pyr.hoc # use distance function to determine dis...

I am working with a pyramidal cell in a recently published study by Ponzi et. al. ( https://modeldb.science/267686?tab=2&file=scanzres/pyr.hoc ). It is my first time working with morphometric data (defined in this file: https://modeldb.science/267686?tab=2&file=scanzres/morphology/oh140807_A...

Thanks, Ted, I really appreciate the thorough explanation. That all makes perfect sense, and my simulation is now running without issue. Thanks again.

I am trying to run a basic simulation using the cell defined in pyr.hoc from https://modeldb.science/267686?tab=2 . I would like to load the hoc file, then use Python to run the simulation. So far, I have the following code: from neuron import h h.load_file('pyr.hoc') cell = h.CA1_PC_cAC_sig() Iext ...

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...

I found the answer to my second question. In section 10.1.7.5 of The NEURON Book (describing the NET_RECEIVE block of a mod file), it states, "every event has an implicit argument called flag, the value of which is automatically 0 for an external event." It would still be very nice if some...

I am attempting to incorporate STDP in a network model, and I am starting with a two-neuron network in which I want to incorporate a very simple STDP model. Reading around, I see various references to a mod file for STDP written ages ago by Michael Hines (e.g., https://www.neuron.yale.edu/phpbb/view...

I am just starting out using artificial cells, so I found this post very helpful. In case anyone is interested, below is a very basic program that implements a version of Ted's pseudocode in Python. Note that I did not have to update intfire1.mod, as it appears to already have the code for calculati...

Thanks, Ted, that makes sense that this would be useful for the purposes of a GUI. Maybe Robert can help with the other question...

I decided I couldn't live with myself if I didn't try to implement the more acceptable approach you suggested (passing all variables as arguments, and then returning them). However, I'm running into some trouble with syntax. I can change spikehappened to the following: def spikehappened(tsp, count, ...

Okay, I guess I'll just be more careful in using SaveState. And this actually cleared up my other question, too. Thanks, Ted!

I am having a few issues using h.SaveState(). First, I've found that switching the order of recording vector statements results in the program crashing when trying to restore. Here is my code (which the BallandStick class from https://neuron.yale.edu/neuron/docs/ball-and-stick-model-part-1 ), which ...

Thanks, Ted, that worked like a charm! I hadn't thought to use global variables, and that is a perfectly acceptable solution for my purposes. Appreciate the help.