Hello Hans,

This is the scripts with step_current_generator that can't generate spikes:

import numpy as np

import nest

import shelve

import matplotlib.pyplot as plt

nest.Install('hh_motor_neuron_module')

neuron=nest.Create('hh_motor_neuron_nestml',1) #{'I_e':1000})

scg1 = nest.Create("step_current_generator", 1, params={

"amplitude_times": [1000],

"amplitude_values": [2000],

})

mm1 = nest.Create("multimeter", 1, params={

"interval": .1,

"start": 0,

"stop": 1000,

"record_from": ["I"],

})

multimeter = nest.Create("multimeter", params={'record_from':['V_m'],'interval': .1})

spikerecorder = nest.Create("spike_recorder")

spike_times = nest.GetStatus(spikerecorder, keys='events')[0]['times']

nest.Connect(multimeter, neuron)

nest.Connect(neuron, spikerecorder)

nest.Connect(scg1, neuron)

nest.Connect(mm1, scg1)

sim_time = 1000.0 # Simulation time in milliseconds

dt = 0.1 # Simulation time step in milliseconds

nest.Simulate(sim_time)

fig, ax = plt.subplots(nrows=2)

ax[0].plot(multimeter.get("events")["times"], multimeter.get("events")["V_m"])

ax[1].plot(mm1.get("events")["times"], mm1.get("events")["I"])

ax[0].scatter(spike_times, np.zeros_like(spike_times), marker="d", c="orange", alpha=.8, zorder=99)

ax[0].set_ylabel("v [mV]")

ax[1].set_ylabel("I")

ax[-1].set_xlabel("Time [ms]")

fig.show()

plt.show(block=True)

this is the code with injecting I_e that generates asysnchronous outputs between spikes and AP:

import numpy as np

import nest

import shelve

import matplotlib.pyplot as plt

nest.Install('hh_motor_neuron_module')

neuron=nest.Create('hh_motor_neuron_nestml',1, {'I_e':2000})

multimeter = nest.Create("multimeter", params={'record_from':['V_m'],'interval': .1})

spikerecorder = nest.Create("spike_recorder")

spike_times = nest.GetStatus(spikerecorder, keys='events')[0]['times']

nest.Connect(multimeter, neuron)

nest.Connect(neuron, spikerecorder)

sim_time = 1000.0 # Simulation time in milliseconds

dt = 0.1 # Simulation time step in milliseconds

nest.Simulate(sim_time)

dmm = multimeter.get()

Vms = dmm["events"]["V_m"]

ts = dmm["events"]["times"]

plt.figure(1)

plt.plot(ts, Vms)

events = spikerecorder.get("events")

the .nestml neuron model is attached. however it is clear in 'hh_psc_alpha' model, too.

On Tuesday, August 22, 2023 at 03:33:35 PM GMT+2, Hans Ekkehard Plesser <hans.ekkehard.plesser@nmbu.no> wrote:

Hello Atiye,

Please post a script that reproduces the behavior you describe. Without it, it is impossible to provide good advice.

Best,

Hans Ekkehard

Prof. Dr. Hans Ekkehard Plesser

Department of Data Science

Faculty of Science and Technology

Norwegian University of Life Sciences

PO Box 5003, 1432 Aas, Norway

Phone +47 6723 1560

Email hans.ekkehard.plesser@nmbu.no

Home http://arken.nmbu.no/~plesser

From: atiye nejadebrahim <atiye.nejadebrahim@yahoo.com>
Date: Tuesday, 22 August 2023 at 14:12
To: NEST User Mailing List <users@nest-simulator.org>
Subject: [NEST Users] asynchronicity between spikes and firing pattern

Some people who received this message don't often get email from atiye.nejadebrahim@yahoo.com. Learn why this is important

Dear All,

I made a HH neuron model and I can get an action potential from it. but it seems there is a problem in spikes. Action potential shape show one spike, but spike recorder shows several spikes and there is not any synchronicity between them. can you help me why?

my second question is about spike generation, when I use I_e current for injecting current to the neuron, I can record spikes, but when I use step current generators, no spike shows. can you help me why?

Thank you for your consideration.

Best,

Atiyeh

Inline image

Dear All,

Thank you for your consideration.

Best,

Atiyeh

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