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97 lines
2.8 KiB
97 lines
2.8 KiB
2 years ago
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"""
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Test generating a series of EPSPs in a bushy cell in response to tone pip.
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This script:
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1. Creates one SGC and one bushy cell.
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2. Connects the two cells with a synapse.
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3. Specifies a tone pip input to the SGC cell.
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4. Records the bushy cell Vm.
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The auditory nerve spike train is generated automatically by the DummySGC class
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using the tone pip. For lower-level access to the auditory nerve model, see the
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test_an_model.py and test_sound_stim.py examples.
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The simulator that is run depends on what is available and how the script is called.
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python examples/test_sgc_input.py [cochlea | matlab] will try to use the specified
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simulator. If no simulator is specified, it will try to use cochlea or matlab, in
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that order.
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"""
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import sys
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import numpy as np
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import pyqtgraph as pg
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from neuron import h
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from cnmodel.protocols import Protocol
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from cnmodel import cells
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from cnmodel.util import sound
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from cnmodel.util import custom_init
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class SGCInputTest(Protocol):
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def run(self, temp=34.0, dt=0.025, seed=575982035, simulator=None):
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preCell = cells.DummySGC(cf=4000, sr=2)
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postCell = cells.Bushy.create()
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synapse = preCell.connect(postCell)
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self.pre_cell = preCell
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self.post_cell = postCell
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self.synapse = synapse
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self.stim = sound.TonePip(
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rate=100e3,
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duration=0.1,
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f0=4000,
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dbspl=80,
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ramp_duration=2.5e-3,
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pip_duration=0.04,
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pip_start=[0.02],
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)
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preCell.set_sound_stim(self.stim, seed=seed, simulator=simulator)
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self["vm"] = postCell.soma(0.5)._ref_v
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# self['prevm'] = preCell.soma(0.5)._ref_v
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for i in range(30):
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self["xmtr%d" % i] = synapse.terminal.relsite._ref_XMTR[i]
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synapse.terminal.relsite.Dep_Flag = False
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self["t"] = h._ref_t
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h.tstop = 100.0 # duration of a run
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h.celsius = temp
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h.dt = dt
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custom_init()
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h.run()
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def show(self):
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self.win = pg.GraphicsWindow()
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p1 = self.win.addPlot(title="Bushy Vm")
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p1.plot(self["t"], self["vm"])
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p2 = self.win.addPlot(title="xmtr", row=1, col=0)
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for i in range(30):
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p2.plot(self["t"], self["xmtr%d" % i], pen=(i, 15))
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p2.setXLink(p1)
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p3 = self.win.addPlot(title="AN spikes", row=2, col=0)
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vt = pg.VTickGroup(self.pre_cell._spiketrain)
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p3.addItem(vt)
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p3.setXLink(p1)
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p4 = self.win.addPlot(title="stim", row=3, col=0)
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p4.plot(self.stim.time * 1000, self.stim.sound)
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p4.setXLink(p1)
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self.win.show()
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if __name__ == "__main__":
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simulator = None
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if len(sys.argv) > 1:
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simulator = sys.argv[1]
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prot = SGCInputTest()
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prot.run(simulator=simulator)
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prot.show()
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if sys.flags.interactive == 0:
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pg.QtGui.QApplication.exec_()
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