- Author:
- WeiweiAi <wai484@aucklanduni.ac.nz>
- Date:
- 2021-05-11 20:34:14+12:00
- Desc:
- Remove the irrelevant folders and files inherited from the original workspace
Remove the absolute paths in the *sim.py.
- Permanent Source URI:
- https://models.fieldml.org/workspace/64f/rawfile/4e9c4e3c1f9a91b6fcbe2c80d5205aa32ba7e240/sed-ml/originalFig16_plot.py
import numpy as np
import matplotlib.pyplot as plt
import pandas as pd
# The prefix of the saved output file name
prefilename = 'simFig13'
# Figure name
prefig = 'Fig16'
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
ax1 = fig.add_subplot(111)
lfontsize, labelfontsize = 12, 12 # legend, label fontsize
# Read original data
filename ='fig16_v.csv'
odata = pd.read_csv(filename)
vt = odata['x']
v = odata['Curve1']
filename ='fig16_g.csv'
odata = pd.read_csv(filename)
gt = odata['x']
g = odata['Curve1']
# Read simulation data from the files
V_initial = [-15]
x_name = 'outputs/time'
y_name = 'outputs/minus_V'
g_name = 'outputs/g'
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]
g_data = data[g_name]
T_data = data['parameters/T']
lns1 = ax1.plot(x_data, y_data, color=cycle[0], label = 'CellML model V @ %d mV, %0.1f ℃' % (iV_initial, T_data[1] ) )
lns2 = ax1.plot(vt, v, '.', color=cycle[0], label = 'HH model V @ %d mV, %0.1f ℃' % (iV_initial, T_data[1] ) )
ax2 = ax1.twinx()
lns3 = ax2.plot(x_data, g_data, color=cycle[1], label = 'CellML model g @ %d mV, %0.1f ℃' % (iV_initial, T_data[1] ) )
lns4 = ax2.plot(gt, g, '.', color=cycle[1], label = 'HH model g @ %d mV, %0.1f ℃' % (iV_initial, T_data[1] ) )
plt.tick_params(direction='in', axis='both')
# added these three lines
lns = lns1 + lns2 + lns3 + lns4
labs = [l.get_label() for l in lns]
ax1.legend(lns, labs, frameon=False, loc= 'best')
plt.xlabel ('time(ms)', fontsize= labelfontsize)
ax1.set_ylabel ('-V (mV)', fontsize= labelfontsize)
ax2.set_ylabel ('g (mS/$cm^2$)', fontsize= labelfontsize)
plt.xlim(0, 10)
plt.savefig(figfile)
plt.show()