Spectroscopy GUI.py

# Modules Needed

import os
import cv2

import math
import numpy as np

import tkinter as tk
import tkinter.font as tkFont
from tkinter import messagebox

from matplotlib import colors
import matplotlib.image as img
import matplotlib.pyplot as plt
import matplotlib.patches as mpatches

# Main Code Starts Here

def capture():

    cap = cv2.VideoCapture(0)

    roi_selected = False
    
    while(True):

        ret, frame = cap.read()
        
        k = cv2.waitKey(1)
        
        if k & 0xFF == ord('s') and roi_selected == True:
            shape = cropped.shape
            r_dist = []
            b_dist = []
            g_dist = []
            i_dist = []
            for i in range(shape[1]):
                r_val = np.mean(cropped[:, i][:, 0])
                b_val = np.mean(cropped[:, i][:, 1])
                g_val = np.mean(cropped[:, i][:, 2])
                i_val = (r_val + b_val + g_val) / 3

                r_dist.append(r_val)
                g_dist.append(g_val)
                b_dist.append(b_val)
                i_dist.append(i_val)
            

        elif k & 0xFF == ord('r'):
            r = cv2.selectROI(frame)
            roi_selected = True
            
        elif k & 0xFF == ord('q'):
            break
        
        else:
            if roi_selected:
                cropped = frame[int(r[1]):int(r[1]+r[3]), int(r[0]):int(r[0]+r[2])]
                cv2.imshow('ROI', cropped)
            else:
                cv2.imshow('FRAME', frame)
        
    cap.release()
    cv2.destroyAllWindows()
    return i_dist


def normalise(spectrumIn):
    
    spectrumOut = []
    
    maxPoint = max(spectrumIn)
    
    for value in spectrumIn:
        spectrumOut.append(value/maxPoint)
    
    return spectrumOut

def transmittance(reference, sample):

    # Calculate Transmittance
    
    transmittance = []
    
    for i in range(len(sample)):
        if sample[i] == 0: # This 'If' Is To Avoid Division By Zero Error
            transmittance.append(0)

            # Conceptually Wrong, If Sample > Reference, Artificious Data Distortion Has Happened

        else:
            transmittance.append(sample[i]/reference[i])
            

    return transmittance # Returns Reflectance - Change From Here For The Main Driver Code

def absorbance(reference, sample):
        
    # Calculate Absorbance

    absorbance = []
        
    for i in range(len(sample)):
        if sample[i] == 0: # This 'If' Is To Avoid Division By Zero Error
            absorbance.append(0)
        else:
            absorbance.append(-math.log(sample[i]/reference[i],10)/5)
        
    return absorbance

def reflectance(reference, sample):
        
    # Calculate Reflectance

    reflectance = []
        
    for i in range(len(sample)):
        if sample[i] == 0: # This 'If' Is To Avoid Division By Zero Error
            reflectance.append(0)
        else:
            reflectance.append(1 - (sample[i]/reference[i]) + (-math.log(sample[i]/reference[i],10)/5) )
        
    return reflectance



pixel =      [115,  146,  193,  250,  312,  329,  404]
wavelength = [405.4,436.6,487.7,546.5,611.6,631.1,708]
reference = [0.022867116398281522, 0.022867116398281522, 0.01939870834350586, 0.019590424961513943, 0.019015266100565593, 0.015285412470499674, 0.012993472483423021, 0.010736390948295593, 0.009751642710632748, 0.010649246672789256, 0.011555566953288186, 0.014143802656067744, 0.017620927890141806, 0.018100232283274332, 0.017176488902833728, 0.013673213455412123, 0.011398699482282003, 0.010849680569436816, 0.010379093289375306, 0.010431379278500874, 0.010318091478612687, 0.010675388740168677, 0.0105359575814671, 0.011442275775803458, 0.010631819069385528, 0.010466241472297244, 0.010535958376195698, 0.011111123065153758, 0.011503279805183411, 0.010413953496350182, 0.009847502741548749, 0.00895861311091317, 0.009446631438202327, 0.010239663687017229, 0.010727679398324754, 0.010065367817878723, 0.00874074849817488, 0.007939004566934372, 0.007572991251945496, 0.008008721073468526, 0.008226583600044251, 0.00813072317176395, 0.0077124225431018404, 0.007407412065400018, 0.00753813087940216, 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# Main Driver Code

# Functionality


def absorbance_spectrun():

    global saveFilename
    
    # Plot Parameters

    patchLabels = ["Intensity"]
    plotColors = ["black"]

    title = "Absorbance Spectrum"

    # Capture The Reference Spectrum

    spectrum = capture()

    # Getting The Absorbance Spectrum

    absorbances = []
    absorbances.append(normalise(absorbance(reference, spectrum)))

    # Fiding Out The Cofficients Of The Polynomial

    params = np.polyfit(pixel, wavelength, 3)

    # return p = np.poly1d(range) - This Returns The Polynomial

    # Solving The Polynomial For Every Pixel
    # Assigning To Every Pixel Its Corresponding Wavelength

    nmAxis = []
    for i in range(len(spectrum)):
        v1 = params[0]*float(i**3)
        v2 = params[1]*float(i**2)
        v3 = params[2]*float(i**1)
        v4 = params[3]*float(i**0)
        nmAxis.append(v1+v2+v3+v4)

    # NOTE: This Operation Is Not Needed As The Polynomial Is Already A Function

    # nmAxis = np.poly1d(len(spectrum))
    # print(len(patchLabels), len(spectraToPlot))

    if len(patchLabels) < len(absorbances):
        patchLabels.append([""]*(len(absorbances)-len(patchLabels)))

    if len(plotColors) < len(absorbances):
        plotColors = []
        for i in range(len(absorbances)):
            plotColors.append(colors[i])

    patches = []
    for i in range(len(patchLabels)):
        patches.append(mpatches.Patch(color=plotColors[i], label=patchLabels[i]))

    colorCounter = 0
    for spectrum in absorbances:
        plt.plot(nmAxis, spectrum, color = plotColors[colorCounter])
        colorCounter += 1

    plt.title(title)
    plt.legend(handles=patches)
    plt.xlim(300, 800)
    plt.ylim(0, 5)
    plt.xlabel('Wavelegth (nm)')
    plt.ylabel('Absorbance')

    plt.savefig(saveFilename)
    plt.show()

def transmittance_spectrun():

    global saveFilename

    # Plot Parameters

    patchLabels = ["Intensity"]
    plotColors = ["black"]

    title = "Transmittance Spectrum"

    # Capture The Reference Spectrum

    spectrum = capture()

    transmittances = []
    transmittances.append(normalise(transmittance(reference, spectrum)))

    # Fiding Out The Cofficients Of The Polynomial

    params = np.polyfit(pixel, wavelength, 3)

    # return p = np.poly1d(range) - This Returns The Polynomial

    # Solving The Polynomial For Every Pixel
    # Assigning To Every Pixel Its Corresponding Wavelength

    nmAxis = []
    for i in range(len(spectrum)):
        v1 = params[0]*float(i**3)
        v2 = params[1]*float(i**2)
        v3 = params[2]*float(i**1)
        v4 = params[3]*float(i**0)
        nmAxis.append(v1+v2+v3+v4)

    # NOTE: This Operation Is Not Needed As The Polynomial Is Already A Function

    # nmAxis = np.poly1d(len(spectrum))
    # print(len(patchLabels), len(spectraToPlot))

    if len(patchLabels) < len(transmittances):
        patchLabels.append([""]*(len(transmittances)-len(patchLabels)))

    if len(plotColors) < len(transmittances):
        plotColors = []
        for i in range(len(transmittances)):
            plotColors.append(colors[i])

    patches = []
    for i in range(len(patchLabels)):
        patches.append(mpatches.Patch(color=plotColors[i], label=patchLabels[i]))

    colorCounter = 0
    for spectrum in transmittances:
        plt.plot(nmAxis, spectrum, color = plotColors[colorCounter])
        colorCounter += 1

    plt.title(title)
    plt.legend(handles=patches)
    plt.xlim(300, 800)
    plt.ylim(0, 5)
    plt.xlabel('Wavelegth (nm)')
    plt.ylabel('Transmittance')

    plt.savefig(saveFilename)
    plt.show()

def reflectance_spectrun():

    global saveFilename

    # Plot Parameters

    patchLabels = ["Intensity"]
    plotColors = ["black"]

    title = "Reflectance Spectrum"

    # Capture The Reference Spectrum

    spectrum = capture()

    reflectances = []
    reflectances.append(normalise(reflectance(reference, spectrum)))

    # Fiding Out The Cofficients Of The Polynomial

    params = np.polyfit(pixel, wavelength, 3)

    # return p = np.poly1d(range) - This Returns The Polynomial

    # Solving The Polynomial For Every Pixel
    # Assigning To Every Pixel Its Corresponding Wavelength

    nmAxis = []
    for i in range(len(spectrum)):
        v1 = params[0]*float(i**3)
        v2 = params[1]*float(i**2)
        v3 = params[2]*float(i**1)
        v4 = params[3]*float(i**0)
        nmAxis.append(v1+v2+v3+v4)

    # NOTE: This Operation Is Not Needed As The Polynomial Is Already A Function

    # nmAxis = np.poly1d(len(spectrum))
    # print(len(patchLabels), len(spectraToPlot))

    if len(patchLabels) < len(reflectances):
        patchLabels.append([""]*(len(reflectances)-len(patchLabels)))

    if len(plotColors) < len(reflectances):
        plotColors = []
        for i in range(len(reflectances)):
            plotColors.append(colors[i])

    patches = []
    for i in range(len(patchLabels)):
        patches.append(mpatches.Patch(color=plotColors[i], label=patchLabels[i]))

    colorCounter = 0
    for spectrum in reflectances:
        plt.plot(nmAxis, spectrum, color = plotColors[colorCounter])
        colorCounter += 1

    plt.title(title)
    plt.legend(handles=patches)
    plt.xlim(300, 800)
    plt.ylim(0, 5)
    plt.xlabel('Wavelegth (nm)')
    plt.ylabel('Reflectance')

    plt.savefig(saveFilename)
    plt.show()


# Tkinter Code

# Defining The Absorbance Button

def GButton_364_command():  
    absorbance_spectrun()

# Defining The Transmittance Button

def GButton_215_command():
    transmittance_spectrun()

# Defining The Reflectance Button

def GButton_597_command():
    reflectance_spectrun()

def generate_plot():

       # Enable The Buttons

    GButton_364.config(state="normal")
    GButton_215.config(state="normal")
    GButton_597.config(state="normal")

# Window Parameters

root = tk.Tk()
root.title("Spectroscopy")

width = 600
height = 500

screenwidth = root.winfo_screenwidth()
screenheight = root.winfo_screenheight()

alignstr = '%dx%d+%d+%d' % (width, height, (screenwidth - width) / 2, (screenheight - height) / 2)

root.geometry(alignstr)
root.resizable(width=False, height=False)

# Folder Check

folder_name = "Results"

# Checking If The Folder Exists, Otherwise Creating It

if not os.path.exists(folder_name):
    os.mkdir(folder_name)

ft = tkFont.Font(family='Consolas', size=10)

# Entry Parameters
entry = tk.Entry(root)

entry.place(x=150, y=90, width=300, height=30) 
ft = tkFont.Font(family='Consolas', size=10)

entry["font"] = ft
entry["justify"] = "center"

# File Saving Parameters

fname = str(entry.get())
saveFilename = os.path.join(folder_name, f"{fname}.png")

# File Saving Parameters
generate_button = tk.Button(root, text="Generate Plot", command=generate_plot, font=ft)
generate_button.place(x=150, y=130, width=300, height=30)


# Defining The Buttons

# Defining The Absorbance Button

GButton_364 = tk.Button(root, state="disabled")
    
ft = tkFont.Font(family='Consolas', size=10)

# Button Parameters

GButton_364["font"] = ft
GButton_364["fg"] = "#000000"
GButton_364["bg"] = "#f0f0f0"
GButton_364["justify"] = "center"
GButton_364["text"] = "Absorbance"
GButton_364["command"] = GButton_364_command

# Button Placement

GButton_364.place(x=150, y=250, width=300, height=50)

# Defining The Transmittance Button

GButton_215 = tk.Button(root, state="disabled")

ft = tkFont.Font(family='Consolas', size=10)

# Button Parameters

GButton_215["font"] = ft
GButton_215["fg"] = "#000000"
GButton_215["bg"] = "#f0f0f0"
GButton_215["justify"] = "center"
GButton_215["text"] = "Transmittance"
GButton_215["command"] = GButton_215_command

# Button Placement

GButton_215.place(x=150, y=310, width=300, height=50)

# Defining The Reflectance Button

GButton_597 = tk.Button(root, state="disabled")

ft = tkFont.Font(family='Consolas', size=10)
    
# Button Parameters

GButton_597["font"] = ft
GButton_597["fg"] = "#000000"
GButton_597["bg"] = "#f0f0f0"
GButton_597["justify"] = "center"
GButton_597["text"] = "Reflectance"
GButton_597["command"] = GButton_597_command

# Button Placement

GButton_597.place(x=150, y=370, width=300, height=50)

# Label Parameters


GLabel_525=tk.Label(root)
ft = tkFont.Font(family='Consolas',size=30)

GLabel_525["font"] = ft
GLabel_525["fg"] = "#333333"
GLabel_525["justify"] = "center"
GLabel_525["text"] = "SPECTROSCOPY"

# Label Placement

GLabel_525.place(x=150,y=40,width=300,height=30)


root.mainloop()