- Author:
- WeiweiAi <wai484@aucklanduni.ac.nz>
- Date:
- 2022-07-28 12:05:55+12:00
- Desc:
- Fixed the link
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/8af/rawfile/1b1a07491a4d102536a3f7e25957ca2810d6ed76/Simulation/src/plotFig9.py
# importing modules
import sys as sys
import os
import pandas as pd
import matplotlib.pyplot as plt
# Getting the name of the directory where this file is present.
current = os.path.dirname(os.path.realpath(__file__)) # src
# Getting the parent directory name where the current directory is present.
parent = os.path.dirname(current) # Simulation
# Getting the grandparent directory name
gparent = os.path.dirname(parent) # RecruitmentSynchronization_SMCs
# The path where the plotExp.py is saved
mpath = gparent + '\\cellLib\\Scripts'
# appending a path
sys.path.append(mpath)
import plotExp
# The properties of traces
colors=plt.rcParams['axes.prop_cycle'].by_key()['color']
lines = ['-','--','-.',':']
markers = ['.',',','o','+','x','d']
# Figure file name and titles
figfiles=parent+'\\simFig9.png'
fig_title = 'Primary Fig 9'
plot_title =['20 mV','0 mV','-20 mV','-30 mV','-40 mV','-50 mV','-60 mV']
labels = ['CellML reference','CellML "perchlorrate"']
# Data source
dfilenames_p=['simFig9_p_0.csv','simFig9_p_1.csv','simFig9_p_2.csv','simFig9_p_3.csv','simFig9_p_4.csv','simFig9_p_5.csv','simFig9_p_6.csv']
dfilenames_r=['simFig9_r_0.csv','simFig9_r_1.csv','simFig9_r_2.csv','simFig9_r_3.csv','simFig9_r_4.csv','simFig9_r_5.csv','simFig9_r_6.csv']
dfolder_sim=parent+'\\simulatedData\\'
x_var_sim = 't'
y_var_sim = 'output_10/dQ'
x_label='t (ms)'
y_label= 'dQ/dt (/ms)'
# Build the traces
number_trace = 2
number_plot = 7
trace = [[0] * number_trace for i in range(number_plot)]
for plotid, y_file in enumerate(dfilenames_p):
ndata_p = pd.read_csv(dfolder_sim+dfilenames_p[plotid])
nx_data_p=ndata_p[x_var_sim].values
ny_data_p=ndata_p[y_var_sim].values
ndata_r = pd.read_csv(dfolder_sim+dfilenames_r[plotid])
nx_data_r=ndata_r[x_var_sim].values
ny_data_r=ndata_r[y_var_sim].values
trace[plotid][0]={'dataX': nx_data_r, 'dataY': ny_data_r, 'lname': labels[0], 'linestyle':lines[1], 'marker':None, 'linecolor':colors[0],'y2':False}
trace[plotid][1]={'dataX': nx_data_p, 'dataY': ny_data_p, 'lname': labels[1], 'linestyle':lines[0], 'marker':None, 'linecolor':colors[1],'y2':False}
# Build the plots
# maxH=8.75 inches, width 2.63-7.5
rows,cols = 4,2
left = 0.125 # the left side of the subplots of the figure,0.125
right = 0.9 # the right side of the subplots of the figure,0.9
bottom = 0.1 # the bottom of the subplots of the figure, 0.1
top = 0.9 # the top of the subplots of the figure 0.9
wspace = 0.5 # the amount of width reserved for space between subplots,
# expressed as a fraction of the average axis width, 0.2
hspace = 0.55 # the amount of height reserved for space between subplots,
# expressed as a fraction of the average axis height, 0.2
lgdfont, labelfont =10, 10
width, height= cols*3.5, rows*1.75
figs ={ 'width':width, 'height': height, 'rows': rows, 'cols': cols,'left':left,'bottom':bottom,'right':right,'top':top,'wspace': wspace,'hspace': hspace,'fig_title':fig_title,'title_y':1}
plots=[]
for id in range(7):
colid = id%2
rowid = id//2
if id == 0:
lgdshow = True
bbox_to_anchor = (1.2,1.35)
else:
lgdshow = False
bbox_to_anchor = None
if id==5 or id==6:
x_label='t (ms)'
else:
x_label=''
if id==0:
iplot={'rowid':rowid, 'colid':colid, 'xlabel': x_label, 'ylabel':y_label, 'twiny':False, 'ylabel2':y_label,'labelcolor':colors[1],
'lgdshow': lgdshow, 'lgdloc':'center', 'bbox_to_anchor':bbox_to_anchor,'lgdncol': 4, 'lgdfont':lgdfont, 'labelfont': labelfont,
'setxlim': False, 'xmin':0, 'xmax': 1, 'setylim': False,'ymin':0, 'ymax':1, 'grid': True, 'gridaxis': 'both', 'plot_title': plot_title[id],
'traces':trace[id]
}
else:
iplot={'rowid':rowid, 'colid':colid, 'xlabel': x_label, 'ylabel':y_label, 'twiny':False, 'ylabel2':y_label,'labelcolor':colors[1],
'lgdshow': lgdshow, 'lgdloc':'center', 'bbox_to_anchor':bbox_to_anchor,'lgdncol': 4, 'lgdfont':lgdfont, 'labelfont': labelfont,
'setxlim': False, 'xmin':0, 'xmax': 1, 'setylim': False,'ymin':0, 'ymax':1, 'grid': True, 'gridaxis': 'both', 'plot_title': plot_title[id],
'traces':trace[id]
}
plots.append(iplot)
ids = range(7)
subfigs={ids: plots for ids, plots in zip(ids, plots)}
fig,axs=plotExp.plotExp(figs,subfigs,figfiles)
