from pynwb import NWBHDF5IO
import edyta_sim
from header import cell, pynwb_io
import numpy as np
def get_rebound_curves(out, key, ic_min, ic_max, ic_step, ic_holding, durs=[200, 500, 2000]):
ic_stim = np.arange(ic_min, ic_max+ic_step, ic_step)
for dur in durs:
recording = edyta_sim.sim_batch(cell,
ic_holding,
ic_stim,
ic_stim_delay=5000.0,
ic_stim_dur=dur,
tstop=(5000+max(durs)+4000),
vinit=-70.5)
for i, data in enumerate(recording):
out.write(((key+"_%g_%g")%(abs(ic_stim[i]), dur)),
data[0],
data[1],
("hold=%gnA,stim=%gnA,dur=%gms"%(ic_holding, ic_stim[i], dur)))
print ("done")
if __name__ == '__main__':
import os
import pickle
gmax_iM = cell.get_km()
gmax_iH = cell.get_h()
holding_current = {}
if os.path.exists('ic_70.5mv.pkl'):
with open('ic_70.5mv.pkl', 'rb') as fi:
holding_current = pickle.load(fi)
else:
holding_current['control'] = edyta_sim.get_holding_current(cell, -70.5)
for perc in [0, 0.5]:
cell.set_km(gmax_iM*perc, 50)
holding_current['km%g'%perc] = edyta_sim.get_holding_current(cell, -70.5)
cell.set_km(gmax_iM, 50)
for perc in [2, 3]:
cell.set_h(gmax_iH*perc)
holding_current['ih%g'%perc] = edyta_sim.get_holding_current(cell, -70.5)
cell.set_h(gmax_iH)
with open('ic_70.5mv.pkl', 'wb') as fo:
pickle.dump(holding_current, fo)
out = pynwb_io.My_NWB_Writer("rebound.nwb",
"rebound",
"simulation of the Edyta's experiments")
for key in holding_current.keys():
if key.startswith("km"):
perc = float(key[2:])
cell.set_km(gmax_iM*perc, 50)
elif key.startswith("ih"):
perc = float(key[2:])
cell.set_h(gmax_iH*perc)
get_rebound_curves(out, key, -0.05, -0.5, -0.05, holding_current[key])
cell.set_km(gmax_iM, 50)
cell.set_h(gmax_iH)
out.close()