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98 lines
2.8 KiB
98 lines
2.8 KiB
2 years ago
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"""
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test_simple_synapses
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Test synapses between cell types.
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Usage:
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python test_synapses.py <pre_celltype> <post_celltype>
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Supported cell types: sgc, bushy, tstellate, dstellate, tuberculoventral, pyramidal
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"""
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import sys
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import pyqtgraph as pg
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from cnmodel.protocols.simple_synapse_test import SimpleSynapseTest
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from cnmodel import cells
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from cnmodel.synapses import Synapse
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def runtest():
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if len(sys.argv) < 3:
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print("Usage: python test_synapses.py <pre_celltype> <post_celltype>")
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print(
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" Supported cell types: sgc, bushy, tstellate, dstellate, tuberculoventral, pyramidal"
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)
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sys.exit(1)
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convergence = {
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"sgc": {
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"bushy": 1,
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"tstellate": 6,
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"dstellate": 10,
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"dstellate_eager": 10,
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"tuberculoventral": 6,
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"pyramidal": 5,
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},
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"dstellate": {
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"bushy": 10,
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"tstellate": 15,
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"dstellate": 5,
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"tuberculoventral": 10,
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"pyramidal": 10,
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},
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"tuberculoventral": {
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"bushy": 6,
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"tstellate": 3,
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"dstellate": 0,
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"tuberculoventral": 2,
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"pyramidal": 10,
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},
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}
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c = []
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for cellType in sys.argv[1:3]:
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if cellType == "sgc":
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cell = cells.SGC.create()
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elif cellType == "tstellate":
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cell = cells.TStellate.create(debug=True, ttx=False)
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elif (
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cellType == "dstellate"
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): # Type I-II Rothman model, similiar excitability (Xie/Manis, unpublished)
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cell = cells.DStellate.create(model="RM03", debug=True, ttx=False)
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elif cellType == "dstellate_eager": # From Eager et al.
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cell = cells.DStellate.create(model="Eager", debug=True, ttx=False)
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elif cellType == "bushy":
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cell = cells.Bushy.create(debug=True, ttx=True)
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elif cellType == "tuberculoventral":
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cell = cells.Tuberculoventral.create(debug=True, ttx=False)
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elif cellType == "pyramidal":
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cell = cells.Pyramidal.create(debug=True, ttx=False)
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else:
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raise ValueError("Unknown cell type '%s'" % cellType)
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c.append(cell)
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preCell, postCell = c
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nTerminals = convergence.get(sys.argv[1], {}).get(sys.argv[2], None)
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if nTerminals is None:
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nTerminals = 1
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print(
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"Warning: Unknown convergence for %s => %s, assuming %d"
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% (sys.argv[1], sys.argv[2], nTerminals)
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)
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if sys.argv[1:3] == ["sgc", "bushy"]:
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niter = 1
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else:
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niter = 20
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st = SimpleSynapseTest()
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st.run(preCell.soma, postCell.soma, iterations=niter)
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st.show()
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return st # keep in memory
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if __name__ == "__main__":
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r = runtest()
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print("runtest done")
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if sys.flags.interactive == 0:
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pg.QtGui.QApplication.exec_()
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