Nanopore-tools/PlotChimera.py
65e4816bf5eaDevelopment-of-Analysis…

PlotChimera.py
View Options

			#Input Stuff
			import MiscParameters as pm
			import numpy as np
			import Functions as f
			import os
			import matplotlib.pyplot as plt
			from tkinter import Tk
			from tkinter.filedialog import askopenfilenames
			from tkinter.filedialog import askopenfilename
			from matplotlib.font_manager import FontProperties
			fontP = FontProperties()
			fontP.set_size('small')
			pm.init(LoadFiles = 0)
			root = Tk()
			root.withdraw()
			os.system('''/usr/bin/osascript -e 'tell app "Finder" to set frontmost of process "python" to true' ''')

			# Load File, empty string prompts a pop.up window for file selection. Else a file-path can be given

			LP = 10e3

			root.update()
			filenames = askopenfilenames()
			root.destroy()

			for filename in filenames:
			print(filename)
			inp = f.OpenFile(filename, ChimeraLowPass=LP, approxImpulseResponse=True)
			folder = pm.OutputFolder
			file = os.sep + str(os.path.split(filename)[1][:-4])
			print('Number of samples in file: {}'.format(len(inp['i1'])))
			if not os.path.exists(folder):
			os.makedirs(folder)
			fig = plt.figure(1, figsize=(16, 5))
			ax = fig.add_subplot(111)
			ax.plot(np.arange(0, len(inp['i1'][100:]))/inp['samplerate'], inp['i1'][100:]*1e9)
			ax.set_ylabel('Current (nA)')
			ax.set_xlabel('Time (s)')
			#plt.show()
			fig.savefig('/Volumes/lben/lben-commun/2018 User Data/Publications/Ke-ssdsDNA/raw materials/raw chimera traces/'+ file+'.pdf', transparent=True)
			ax.clear()
			fig.clear()