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Nanopore-tools/MergedIVs.py
820e9a946792Development-of-Analysis…

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MergedIVs.py
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import numpy as np
import scipy
import scipy.signal as sig
import UsefulFunctions as uf
import pyqtgraph as pg
import os
import matplotlib.pyplot as plt
from matplotlib.backends.backend_pdf import PdfPages
from tkinter import Tk
from tkinter.filedialog import askopenfilenames
from matplotlib.font_manager import FontProperties
fontP = FontProperties()
fontP.set_size('small')
props = dict(boxstyle='round', facecolor='wheat', alpha=0.5)
Tk().withdraw()
os.system('''/usr/bin/osascript -e 'tell app "Finder" to set frontmost of process "python" to true' ''')
#filenames = ['/Volumes/backup/2017/Michael/Axopatch/20170512/10mMKClInFlowCellORingPore1mm.dat']
filenames = ['/Volumes/Michael/Axopatch_DR/20171025/03A_GroundOnTrans_OvernightAfterChimeraMeasurements_IV.dat',
'/Volumes/Michael/Axopatch_DR/20171025/03A_AfterWash_1MKClpH7_GroundToTrans_IV_2.dat',
'/Volumes/Michael/Axopatch_DR/20171025/03A_AfterWash_1MKClpH115_GroundToTrans_IV_2.dat',
'/Volumes/Michael/Axopatch_DR/20171025/03A_AfterWash_1MKClpH7_GroundToTrans_500mV_IV_6.dat',
'/Volumes/Michael/Axopatch_DR/20171025/03A_AfterWash_1MKClpH341_GroundToTrans_500mV_IV_3.dat',
'/Volumes/Michael/Axopatch_DR/20171025/03A_AfterWash_1MKClpH7_GroundToTrans_500mV_IV_7.dat']
labels = ['1) After Poly-D-Lysine, pH7',
'2) 1M KCl, pH 7',
'3) 1M KCl, pH 11',
'4) 1M KCl, pH 7',
'5) 1M KCl, pH 3'
'6) 1M KCl, pH 7']
expname = 'All'
filenames = askopenfilenames() # show an "Open" dialog box and return the path to the selected file
figIV = plt.figure(2)
ax1IV = figIV.add_subplot(111)
for filename in filenames:
print(filename)
#Make Dir to save images
output = uf.OpenFile(filename)
directory = (str(os.path.split(filename)[0]) + os.sep + expname + '_SavedImages')
if not os.path.exists(directory):
os.makedirs(directory)
AllData = uf.MakeIVData(output, delay = 2)
if AllData == 0:
print('!!!! No Sweep in: ' + filename)
continue
#Plot Considered Part
#figExtracteParts = plt.figure(1)
#ax1 = figExtracteParts.add_subplot(211)
#ax2 = figExtracteParts.add_subplot(212, sharex=ax1)
#(ax1, ax2) = uf.PlotExtractedPart(output, AllData, current = 'i1', unit=1e9, axis = ax1, axis2=ax2)
#plt.show()
#figExtracteParts.savefig(directory + os.sep + 'PlotExtracted_' + str(os.path.split(filename)[1])[:-4] + '.eps')
#figExtracteParts.savefig(directory + os.sep + 'PlotExtracted_' + str(os.path.split(filename)[1])[:-4] + '.png', dpi=150)
# Plot IV
if output['graphene']:
figIV2 = plt.figure(3)
ax2IV = figIV2.add_subplot(111)
ax2IV = uf.PlotIV(output, AllData, current='i2', unit=1e9, axis=ax2IV, WithFit=1)
figIV2.tight_layout()
figIV2.savefig(directory + os.sep + str(os.path.split(filename)[1]) + '_IV_i2.png', dpi=150)
figIV2.savefig(directory + os.sep + str(os.path.split(filename)[1]) + '_IV_i2.eps')
figIV2.clear()
ax1IV = uf.PlotIV(output, AllData, current = 'i1', unit=1e9, axis = ax1IV, WithFit = 0)
figIV.tight_layout()
#Save Figures
ax1IV.legend()
ax1IV.
figIV.savefig(directory + os.sep + str(os.path.split(filename)[1]) + 'Merged_IV_i1.png', dpi=300)
figIV.savefig(directory + os.sep + str(os.path.split(filename)[1]) + 'Merged_IV_i1.eps')
figIV.clear()
# print(AllData['i2']['YorkFitValues']['Yintercept'])
#plt.show()
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