Search found 12 matches

by LauraD
Wed Aug 07, 2019 5:42 pm
Forum: OS X
Topic: code is incompatible with this neuron version
Replies: 1
Views: 257

code is incompatible with this neuron version

Hello! I am currently getting this error message when trying to use an old mod file. What should I be trying to translate it to? Kind Regards, Laura loading membrane mechanisms from /Users/lauradovek/Documents/Viji Lab/vijinet_turbo/Neuron/Dentate/x86_64/.libs/libnrnmech.so Additional mechanisms fro...
by LauraD
Fri Dec 14, 2018 4:55 pm
Forum: Getting started
Topic: sectioning neuron based on distance from soma
Replies: 9
Views: 1753

Re: sectioning neuron based on distance from soma

I am working on a 3D Dentate Gyrus Granule Cell with 46 Dendrites. The model was pulled and adapted from Neurolucida so there hasn't been nseg previously defined since each dendrite is actually made up of a few dendrites. This could explain why my previous trials did not work. When I tested it, I di...
by LauraD
Thu Dec 13, 2018 2:19 pm
Forum: Getting started
Topic: sectioning neuron based on distance from soma
Replies: 9
Views: 1753

Re: sectioning neuron based on distance from soma

Something like this should work: soma distance() maxdist=0 // get maximum distance forall for(x,0) if (distance(x)>maxdist) maxdist=distance(x) // generate sectionlists objref prox, mid, dist prox = new SectionList() mid = new SectionList() dist = new SectionList() forall { if (distance(0.5)/maxdis...
by LauraD
Thu Dec 13, 2018 12:24 pm
Forum: Getting started
Topic: sectioning neuron based on distance from soma
Replies: 9
Views: 1753

Re: sectioning neuron based on distance from soma

If the goal is to have channel density vary gradually with distance, shouldn't channel density vary along the length of each section? In which case the distance should be measured from the proximal reference point (soma(0.5)) to the center of each segment, right? correct. And instead of three sets ...
by LauraD
Tue Dec 04, 2018 12:08 pm
Forum: Getting started
Topic: sectioning neuron based on distance from soma
Replies: 9
Views: 1753

Re: sectioning neuron based on distance from soma

Hello, I apologize, I realize now the question was vague. I will do my best to explain. 1. We want to apply parameters to different part of the neuron depending on how far away from the soma is. The goal is gradually have less channels the more we move away from the soma. The goal was to take the cl...
by LauraD
Fri Nov 30, 2018 5:52 pm
Forum: Getting started
Topic: sectioning neuron based on distance from soma
Replies: 9
Views: 1753

sectioning neuron based on distance from soma

Hello, I have a granule cell that was built and then imported to Neuron. Everything came out beautiful in the hoc code but now I want to section the neuron into thirds based on distance from the soma. I want to make a Proximal, Middle and Distal group so I can specify the channels on each. Is there ...
by LauraD
Thu Nov 01, 2018 3:45 pm
Forum: Getting started
Topic: Program functions between Mac and Windows
Replies: 3
Views: 1315

Re: Program functions between Mac and Windows

Hello Dr. Carnevale, On the Windows computer, we are running Neuron 7.4 64 bit. with windows 7 On the Macbook Pro I am running High Sierra version 10.13.6 with Neuron 7.6 The folder was transfered from one computer to the other and then recompiled. We have all the same mod files, ses files etc. Kind...
by LauraD
Wed Oct 31, 2018 3:05 pm
Forum: Getting started
Topic: compiling issues on Mac
Replies: 6
Views: 1741

Re: compiling issues on Mac

Yes, it now works! silly mistake.
Thank you Dr. Hines.
by LauraD
Wed Oct 31, 2018 3:04 pm
Forum: Getting started
Topic: Program functions between Mac and Windows
Replies: 3
Views: 1315

Program functions between Mac and Windows

Hello all, So we have a portion of the code attached below (couldn't fit the rest), that works both on a Mac and a Windows computer. However with, stim.amp = 0.2 it creates a spike surpassing threshold on the Windows computer but on the Mac we have to raise the amplitude to 0.4 in order to record a ...
by LauraD
Tue Oct 30, 2018 4:41 pm
Forum: Getting started
Topic: compiling issues on Mac
Replies: 6
Views: 1741

Re: compiling issues on Mac

Hello Dr. Hines, Yes that is exactly what I am getting, and yes the x86_64 folder is in the folder containing the mod file. Last login: Mon Oct 29 14:58:57 on ttys000 :~ lauradovek$ cd desktop :desktop lauradovek$ cd Neuron/Dentate :Dentate lauradovek$ nrniv NEURON -- VERSION 7.6.2-30-gd432e20 maste...
by LauraD
Fri Oct 26, 2018 8:00 pm
Forum: Getting started
Topic: compiling issues on Mac
Replies: 6
Views: 1741

Re: compiling issues on Mac

Dear Dr. Hines, Thank you for your prompt reply. I used the steps you recommended and the program is now able to open and show me the neuron that others had created. However I am still having trouble compiling. For example I am trying to compile the file: ccanl.mod This is the output when i drag the...
by LauraD
Thu Oct 25, 2018 5:59 pm
Forum: Getting started
Topic: compiling issues on Mac
Replies: 6
Views: 1741

compiling issues on Mac

Hello, I am new to Neuron and am working with several of the codes developed by Dr. Santhakumar's group (several in the DB!). They previously have used it on Windows and we tested that it still works. However I am working on a MacBook Pro OS version 10.13.6 I believe my current issue is that the com...