Search found 16 matches

by bwjmbb17
Mon Oct 16, 2017 4:11 pm
Forum: NetPyNE
Topic: Issue running model with 20 cores or more
Replies: 7
Views: 10256

Re: Issue running model with 20 cores or more

That is okay, thank you for taking a look. I apologize that the LA_Template.py file was missing. It is now in the folder that I shared with you. I have not tried running it for a shorter amount of time but I will give it a try and see if that is the issue. I will also try and update to NEURON versio...
by bwjmbb17
Tue Oct 03, 2017 4:21 pm
Forum: NetPyNE
Topic: Issue running model with 20 cores or more
Replies: 7
Views: 10256

Re: Issue running model with 20 cores or more

Hi guys, I am still running into issue when I try to run more than 20 cores and in some cases the issue starts after 12 cores. I can run my programs fine with 12 but when I try to run 18 I get the same error. I have updated my code a little bit and have attached a link here: https://drive.google.com...
by bwjmbb17
Wed Aug 23, 2017 10:29 am
Forum: The GUI
Topic: Can I import channels into CellBuilder?
Replies: 2
Views: 10445

Re: Can I import channels into CellBuilder?

Thanks,
Brenyn
by bwjmbb17
Tue Aug 22, 2017 1:06 pm
Forum: The GUI
Topic: Can I import channels into CellBuilder?
Replies: 2
Views: 10445

Can I import channels into CellBuilder?

Hey guys, I am new to CellBuilder and I was curious if there was a way to import channels into the GUI so that I could have more channels than just pas, extracellular, and hh? The reason I am asking is that I want to try to automate the process of building a cell with as many compartments and channe...
by bwjmbb17
Tue Aug 22, 2017 12:59 pm
Forum: NetPyNE
Topic: Issue running model with 20 cores or more
Replies: 7
Views: 10256

Re: Issue running model with 20 cores or more

Here is the link to my code, this includes my main file - 100_Cell_LA.py, my template - LA_Template.py, my output file with error - results*.out, and my batch file used - batch_file.sh. https://drive.google.com/open?id=0B0cn-dhZx0_HTGdmSnJfVVROM2M The information about my machine is as follows: OS: ...
by bwjmbb17
Mon Aug 21, 2017 10:53 am
Forum: The GUI
Topic: Using CellBuilder without Using GUI
Replies: 2
Views: 6698

Re: Using CellBuilder without Using GUI

Thank you for your response. I will take a look into the threads you posted.
by bwjmbb17
Thu Aug 17, 2017 4:20 pm
Forum: The GUI
Topic: Using CellBuilder without Using GUI
Replies: 2
Views: 6698

Using CellBuilder without Using GUI

Hey guys, I am wondering if there is a way to use CellBuilder without using the GUI? I am wanting to build a template that uses the CellBuilder code but without having to go through the GUI, maybe just have a function that feeds all the necessary parameters to the CellBuilder code. Is this something...
by bwjmbb17
Tue Aug 08, 2017 1:56 pm
Forum: NetPyNE
Topic: Issue running model with 20 cores or more
Replies: 7
Views: 10256

Issue running model with 20 cores or more

I have an issue when running my model with more than 20 cores. I can run with 12 cores just fine but when I run with 20 I get this error when gathering data. Everything before Gathering data runs properly. Gathering data... terminate called after throwing an instance of 'std::bad_alloc' what(): std:...
by bwjmbb17
Wed Jun 21, 2017 1:09 pm
Forum: NetPyNE
Topic: AttributeError:'module' object has no attribute 'allSimData'
Replies: 3
Views: 9205

Re: AttributeError:'module' object has no attribute 'allSimD

Here is the updated code. If I run on more than 1 core it gives the same error. The main thing that has changed is the edition of trying to save the spike ids and spike times to a text file. from netpyne import specs, sim, analysis from random import randint # Varible Definitions simTime = 276000 to...
by bwjmbb17
Tue Jun 20, 2017 2:58 pm
Forum: NetPyNE
Topic: AttributeError:'module' object has no attribute 'allSimData'
Replies: 3
Views: 9205

AttributeError:'module' object has no attribute 'allSimData'

Hey all, I was wondering if anyone has run into the problem of trying to access the spiking data when running in parallel? This is the error that I am getting: spkid = sim.allSimData['spkid'] AttributeError: 'module' object has no attribute 'allSimData' When only running on one core it works fine bu...
by bwjmbb17
Tue Jun 20, 2017 1:47 pm
Forum: NetPyNE
Topic: How to set initial voltage of simulation
Replies: 6
Views: 11571

Re: How to set initial voltage of simulation

After searching the documentation I did actually find where to set the initial voltage of individual cells. I was trying to set it in the wrong location. Thank you for your help.
by bwjmbb17
Mon Jun 19, 2017 2:43 pm
Forum: NetPyNE
Topic: How to set initial voltage of simulation
Replies: 6
Views: 11571

How to set initial voltage of simulation

Hey all, I was trying to figure out how to set the initial voltage of a simulation. I believe this is the h.v_init variable in python. I tried using the simConfig.hParams command to change this but the initial voltage stayed at -65 mV. I tried these to lines of code: simConfig.hParams = {'v_init': -...
by bwjmbb17
Fri Jun 16, 2017 10:53 am
Forum: NetPyNE
Topic: Issue stimulating cells that I imported
Replies: 2
Views: 9157

Re: Issue stimulating cells that I imported

Thanks you. I should have caught that. Thanks for letting me know about the error checking, I may use that feature in the future.

Brenyn
by bwjmbb17
Thu Jun 15, 2017 4:58 pm
Forum: NetPyNE
Topic: Issue stimulating cells that I imported
Replies: 2
Views: 9157

Issue stimulating cells that I imported

Hey all, I am trying to recreate a model from hoc that is of the Lateral Amygdala. I am having a few issues that I would like to discuss with you. The first issue is that my model doesn't seem like the cells are being imported properly due to them not spiking when given an input, other than the PN_A...
by bwjmbb17
Tue May 02, 2017 5:07 pm
Forum: NEURON + Python
Topic: Python NEURON
Replies: 15
Views: 18457

Re: Python NEURON

I believe you need to have the python 2.7 version of anaconda installed for NEURON to work with python properly.

-bwjmbb17