- Author:
- WeiweiAi <wai484@aucklanduni.ac.nz>
- Date:
- 2022-03-31 10:48:40+13:00
- Desc:
- Add open channel IV of HH models; Add simulation and plot python scripts
- Permanent Source URI:
- https://models.cellml.org/workspace/64f/rawfile/ab2962b8796666ad9938a2577611c954f006b5fd/sed-ml/originalFig21_plot.py
import numpy as np
import matplotlib.pyplot as plt
import pandas as pd
# The prefix of the saved output file name
prefilename = 'simFig21'
# Figure name
prefig = 'Fig21'
figfile = 'original%s.png' % prefig
# Set figure dimension (width, height) in inches.
fw, fh = 6, 6
fig = plt.figure(figsize=(fw,fh))
# This gives list with the colors from the cycle, which you can use to iterate over.
cycle = plt.rcParams['axes.prop_cycle'].by_key()['color']
# Set subplots
subpRow, subpCol = 1, 1
ax = fig.add_subplot(111)
lfontsize, labelfontsize = 12, 12 # legend, label fontsize
# For read data from the simulation output files
V_initial = [10, -7, -6, -5, -2]
x_name = 'outputs/time'
y_name ='outputs/minus_V'
rol=int(10*100)
for i, iV_initial in enumerate(V_initial):
filename ='%s_(%d)mV.csv' % (prefilename, iV_initial)
data = pd.read_csv(filename)
x_data = data[x_name][0:rol]
y_data = data[y_name][0:rol]
T_data = data['parameters/T']
ax.plot(x_data, y_data, color=cycle[i], label = 'CellML @ %d mV' % (iV_initial) )
filename = 'fig21_(%d).csv' % iV_initial
odata = pd.read_csv(filename)
ox_data = odata['x']
oy_data = odata['Curve1']
ax.plot(ox_data, oy_data, '.', color=cycle[i], label = 'HH @ %d mV' % (iV_initial ) )
ax.tick_params(direction='in', axis='both')
ax.legend(loc = 'upper right', fontsize=lfontsize, frameon=False)
ax.set_xlabel ('time (ms)', fontsize= labelfontsize)
ax.set_ylabel ('-V (mV)', fontsize= labelfontsize)
plt.ylim([-11, 20])
ax.set_title('%s in the primary publication' % (prefig))
plt.grid(True,linestyle='-.')
plt.axhline(y=0.0, color="black", linestyle="--")
plt.savefig(figfile)
plt.show()
