Location: Hodgkin & Huxley (1952) model @ bd02dedb491f / sed-ml / originalFig22_plot.py

Author:
WeiweiAi <wai484@aucklanduni.ac.nz>
Date:
2021-11-24 17:49:12+13:00
Desc:
Add BG params related scripts and matrix
Permanent Source URI:
http://models.cellml.org/workspace/64f/rawfile/bd02dedb491faf9960ccd23496c19ccd3e339db1/sed-ml/originalFig22_plot.py
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import numpy as np
import matplotlib.pyplot as plt
import pandas as pd

# The prefix of the saved output file name 
prefilename = 'simFig22'
# Figure name
prefig = 'Fig22'
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
# Read data from the files
V_initial = [30]
x_name = 'outputs/time'
y_name ='outputs/minus_V'

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]   
    y_data = data[y_name]
    T_data = data['parameters/T']
    ax.plot(x_data, y_data,  color=cycle[i], label = 'CellML @ %d mV, %0.1f ℃' % (iV_initial, T_data[1] ) )

    filename = 'fig22.csv'
    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, %0.1f ℃' % (iV_initial, T_data[1] ) )

    plt.tick_params(direction='in', axis='both')    
    ax.legend(loc = 'best', fontsize=lfontsize, frameon=False)
    ax.set_xlabel ('time(ms)', fontsize= labelfontsize)
    ax.set_ylabel ('-V (mV)', fontsize= labelfontsize)

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()