Search found 70 matches

by Krishna Chaitanya
Tue Jan 22, 2019 11:56 am
Forum: Modeling networks
Topic: Calling python function from hoc statement
Replies: 1
Views: 548

Calling python function from hoc statement

Hi, I am trying to call python function in a class using hoc statements to redefine init block. It was pretty easy using hoc programming, but to do the same, in python, I used this approach. I have a MPI based network and in the prun block, I define def prun(self): if self.rank==0: print 'In the fun...
by Krishna Chaitanya
Tue Jan 22, 2019 11:46 am
Forum: Modeling networks
Topic: Setting celsius differently for two different neurons
Replies: 3
Views: 835

Re: Setting celsius differently for two different neurons

Thank you very much Ted. I was able to solve the problem by adjusting the q10 parameter in the mod files.
by Krishna Chaitanya
Wed Jan 09, 2019 4:06 pm
Forum: Modeling networks
Topic: Setting celsius differently for two different neurons
Replies: 3
Views: 835

Setting celsius differently for two different neurons

Hi, I have two different neuronal cell types, each with its own v_init and celsius. Is it possible to set these parameters independently? celsius and v_init are global variables. I tried changing mod files by inserting a local variable for celsius but it seems like there is a difference in spike tim...
by Krishna Chaitanya
Fri Nov 30, 2018 1:46 am
Forum: NetPyNE
Topic: Point process not located in a section
Replies: 4
Views: 1079

Re: Point process not located in a section

Hi,

I have sent an email with the cell template.

The template is for a detailed model. Is there a possibility to export cell positions from hdf5 and set it in the model? I have predefined cell positions in hdf5.

Kindly let me know.

Thank you.
by Krishna Chaitanya
Mon Nov 26, 2018 2:13 pm
Forum: NetPyNE
Topic: Multisplit Simulation
Replies: 1
Views: 667

Multisplit Simulation

Hi, I would like to know how multisplit can be used in NetPyNE. I have a cell template from ModelDB where the multisplit option is provided in a separate file by loading the template. In NetPyNE, I find that import cell function takes template file but how do I specify multisplit? Kindly let me know...
by Krishna Chaitanya
Fri Nov 23, 2018 10:37 am
Forum: NetPyNE
Topic: Point process not located in a section
Replies: 4
Views: 1079

Re: Point process not located in a section

Hello, Here's the script I used to simulate from netpyne import specs, sim # Network parameters netParams = specs.NetParams() # object of class NetParams to store the network parameters netParams.popParams['Izhi03a_pop'] = {'cellType': 'PYR', 'numCells': 100, 'cellModel': 'Izhike'} cellRule = netPar...
by Krishna Chaitanya
Tue Nov 20, 2018 6:35 am
Forum: NetPyNE
Topic: Point process not located in a section
Replies: 4
Views: 1079

Point process not located in a section

Hi, When I use integrate and fire model template in NetPyNE through importing class, and when I try to simulate it, I get an error "Point process not located in a section". This typically happens during association of gid to a pointer i.e., NetCon(pointer, None). However, I used to do the same in NE...
by Krishna Chaitanya
Fri Nov 16, 2018 5:43 pm
Forum: NetPyNE
Topic: NetPyNE UI
Replies: 1
Views: 765

NetPyNE UI

Hi,

I have recently installed netpyne and netpyne UI.

When I start the UI, it says on the browser that "Loading is taking longer than usual...". This message doesn't go at all. It keeps displaying.

Is there any workaround for this?

Thank you.
by Krishna Chaitanya
Tue Sep 25, 2018 11:36 am
Forum: Modeling networks
Topic: Configuring NetStim with Background Activity and Stimulus Input
Replies: 3
Views: 1078

Configuring NetStim with Background Activity and Stimulus Input

Hi, I have been trying to configure NetStim to fire background noise (poissonian) along with stimulus specific activity from 300 to 350 ms. The background activity frequency is 1 Hz and I want to do it for 100 NetStims. I have tried the noise parameter in NetStim but I couldn't get both background a...
by Krishna Chaitanya
Mon Jul 30, 2018 9:31 am
Forum: NetPyNE
Topic: Importing HDF5 data to NetPyNE
Replies: 1
Views: 1331

Importing HDF5 data to NetPyNE

Hi, I have started explore NetPyNE functionalities. I wanted to know if we can use import connectivity data from HDF5 file and use it in NetPyNE. The function 'ConnParams' showed an option of "Explicit list", but I couldn't figure out how we specify the gid of pre and post neurons in this case? My c...
by Krishna Chaitanya
Fri May 18, 2018 12:58 am
Forum: UNIX/Linux
Topic: Interviews Not Installing
Replies: 3
Views: 1495

Re: Interviews Not Installing

Hi, The problem seems to be with the downloaded files of nrn 7.4 and iv 19. I have used nrn 7.5 and iv 19, which worked without any problem. Is it possible to make a dedicated post for the packages required for installing NEURON for Linux and Windows? Because whenever I run into trouble I had to go ...
by Krishna Chaitanya
Thu May 17, 2018 10:17 am
Forum: UNIX/Linux
Topic: Interviews Not Installing
Replies: 3
Views: 1495

Interviews Not Installing

Hi, While installing NEURON on a linux system, the make command for interviews is failing (libtool: link: cannot find the library `../../lib/libUnidrawhines.la' or unhandled argument `../../lib/libUnidrawhines.la' Makefile:117: recipe for target 'idraw' failed) As instructed in earlier posts, I went...
by Krishna Chaitanya
Thu May 17, 2018 7:14 am
Forum: Parallel NEURON
Topic: Network Parallelization
Replies: 5
Views: 1151

Re: Network Parallelization

Hi, I am sorry for asking this question. I didn't understand the use of pc.gid_connect properly for connecting source and target. Now I could use it to connect neurons. When we run the network as 'python init.py' and as 'mpiexec -n 1 python -mpi init.py', should generate same number of spikes, right...
by Krishna Chaitanya
Mon May 14, 2018 4:42 pm
Forum: Parallel NEURON
Topic: Network Parallelization
Replies: 5
Views: 1151

Re: Network Parallelization

Hi Ted, Thank you for the reply. Is it possible to place source gids and Target gids on same host? I have a predetermined connection matrix. There is no problem in serial execution. But in parallel, I would have preferred a way where both source and Target gids exist on the same host. Thereby avoidi...