www.neuron.yale.edu

Thanks Ted. A colleague has recordings from neurons of this type that show the presence of an unexpected receptor type. I decided to leverage available anatomical data to probe the effects of hypothetical receptor location and morphology on signal processing. Plus, like you said, pretty pictures. I'...

Hi Ted, thanks for your reply and detailed answers. I found that repo too, and I was getting started trying to design my own converter when I found it. nml2swc.py makes some assumptions about the NML format that appear to no longer hold for current Webknossos, and the results weren't useful for Impo...

Hello everyone, I'm working on converting some NML files created in Webknossos into a format that I can import into NEURON. I did not find any ready-made solutions that seemed to give me what I need, so I'm working on my own solution. My starting approach has been to try to convert to SWC format and...

Hello, I'm getting back into Neuron after a few years' hiatus...this time teaching myself Python in the process. I'm generally picking things up well, but I'm banging my head against graphing variables using the IV interface from python. I apologize--I wouldn't have created a forum topic if I'd had ...

I am bumping this thread because I have a similar problem as the user in the first post. I have a network with plasticity, and I would like to put it through a series of training events and test it between each training session. Thinking that the savestate class would work perfectly for this, I set ...

Alright, I'm having an issue that I have asked Ferlin support about, but I'm going to post it here in case you know something: When I do an mpirun on an interactive node (say, using spattach -i -p3), a fair amount of the time, I get a message like this: rsh: connect(a11c11n13 [193.11.170.105]): No r...

I need to contact Ferlin support anyway for a couple of Ferlin-related things, so I'll ask about that error message. I suspect it's related to abnormal termination of the job after the script runs. You and Ted continue to astound me with how thoroughly you maintain and support Neuron. Thanks again f...

Ok, wow! Your instructions have been immensely helpful so far. Neuron has been successfully installed and I can run nrniv on single nodes as well as run mpi jobs on an interactive node (I'm still figuring out the "esubmit" procedure, but I will talk to ferlin support for that). One issue I...

...yes, using the wrong directory would be an issue. I've had issues with iv as well as Neuron, and while I have mostly given up on iv, I seem to have pasted the wrong make output here. I've pasted the results for the make of Neuron below. Also, I am trying to install Neuron on Ferlin and not Lindgr...

Hello, I've been banging my head against this problem for a couple of days now, and I'm not sure how to proceed. Disclaimer: I'm very much a novice in this. I've been following the instructions for downloading and installing Neuron on a supercluster to which we just recently gained access. When tryi...

Hello, I've been trying to get some model optimization going in parallel neuron. This involves, among other things, the ability to pass numbers between nodes to set model parameters and to compare fitness scores for different parameter sets. As a starting point, the code below is built to generate a...

The new version is extrapolating future values of the output variable from its two most recently calculated values. This is equivalent to the forward Euler method, which becomes unstable if the time step is too large. As far as the abrupt jump of the output variable that occurs at each sampling tim...

I just sent you an e-mail with the files in a zip called "BugTest.zip."

I forgot to mention my OS and version, though: I'm using Windows Vista Home SP1 with NEURON v7.1; however, I had the exact problem on Windows XP SP3 as well with the same files.

Thanks again!

I've implemented this into my simulation routine, and it works well. However, in the process I've had to completely scrap using cvode, because the net_send interval and the time-step optimization routine fight each other and really slow the simulation down in order to land on the right point in time...

Hello again, Today I spent six hours debugging a pair of .mod files. Functionally they were identical with different parameters, but one calculates numbers correctly and the other doesn't. In the process of debugging, I got to the point where these mod files were completely identical, character by c...