DetectDisease_GUI.m

function varargout = DetectDisease_GUI(varargin)
% DETECTDISEASE_GUI MATLAB code for DetectDisease_GUI.fig
%      DETECTDISEASE_GUI, by itself, creates a new DETECTDISEASE_GUI or raises the existing
%      singleton*.
%
%      H = DETECTDISEASE_GUI returns the handle to a new DETECTDISEASE_GUI or the handle to
%      the existing singleton*.
%
%      DETECTDISEASE_GUI('CALLBACK',hObject,eventData,handles,...) calls the local
%      function named CALLBACK in DETECTDISEASE_GUI.M with the given input arguments.
%
%      DETECTDISEASE_GUI('Property','Value',...) creates a new DETECTDISEASE_GUI or raises the
%      existing singleton*.  Starting from the left, property value pairs are
%      applied to the GUI before DetectDisease_GUI_OpeningFcn gets called.  An
%      unrecognized property name or invalid value makes property application
%      stop.  All inputs are passed to DetectDisease_GUI_OpeningFcn via varargin.
%
%      *See GUI Options on GUIDE's Tools menu.  Choose "GUI allows only one
%      instance to run (singleton)".
%
% See also: GUIDE, GUIDATA, GUIHANDLES

% Edit the above text to modify the response to help DetectDisease_GUI


% Begin initialization code - DO NOT EDIT
gui_Singleton = 1;
gui_State = struct('gui_Name',       mfilename, ...
                   'gui_Singleton',  gui_Singleton, ...
                   'gui_OpeningFcn', @DetectDisease_GUI_OpeningFcn, ...
                   'gui_OutputFcn',  @DetectDisease_GUI_OutputFcn, ...
                   'gui_LayoutFcn',  [] , ...
                   'gui_Callback',   []);
if nargin && ischar(varargin{1})
    gui_State.gui_Callback = str2func(varargin{1});
end

if nargout
    [varargout{1:nargout}] = gui_mainfcn(gui_State, varargin{:});
else
    gui_mainfcn(gui_State, varargin{:});
end
% End initialization code - DO NOT EDIT
% --- Executes just before DetectDisease_GUI is made visible.
function DetectDisease_GUI_OpeningFcn(hObject, eventdata, handles, varargin)
% This function has no output args, see OutputFcn.
% hObject    handle to figure
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)
% varargin   command line arguments to DetectDisease_GUI (see VARARGIN)

% Choose default command line output for DetectDisease_GUI
handles.output = hObject;
ss = ones(300,400);
axes(handles.axes1);
imshow(ss);
axes(handles.axes2);
imshow(ss);
axes(handles.axes3);
imshow(ss);
% Update handles structure
guidata(hObject, handles);

% UIWAIT makes DetectDisease_GUI wait for user response (see UIRESUME)
% uiwait(handles.figure1);


% --- Outputs from this function are returned to the command line.
function varargout = DetectDisease_GUI_OutputFcn(hObject, eventdata, handles) 
% varargout  cell array for returning output args (see VARARGOUT);
% hObject    handle to figure
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

% Get default command line output from handles structure
%varargout{1} = handles.output;


% --- Executes on button press in pushbutton1.
function pushbutton1_Callback(hObject, eventdata, handles)
% hObject    handle to pushbutton1 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)
%clear all
%close all
clc
[filename, pathname] = uigetfile({'*.*';'*.bmp';'*.jpg';'*.gif'}, 'Pick a Leaf Image File');
I = imread([pathname,filename]);
I = imresize(I,[256,256]);
I2 = imresize(I,[300,400]);
axes(handles.axes1);
imshow(I2);title('Query Image');
ss = ones(300,400);
axes(handles.axes2);
imshow(ss);
axes(handles.axes3);
imshow(ss);
handles.ImgData1 = I;
guidata(hObject,handles);

% --- Executes on button press in pushbutton3.
function pushbutton3_Callback(hObject, eventdata, handles)
% hObject    handle to pushbutton3 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)
I3 = handles.ImgData1;
I4 = imadjust(I3,stretchlim(I3));
I5 = imresize(I4,[300,400]);
axes(handles.axes2);
imshow(I5);title(' Contrast Enhanced ');
handles.ImgData2 = I4;
guidata(hObject,handles);


% --- Executes on button press in pushbutton4.
function pushbutton4_Callback(hObject, eventdata, handles)
% hObject    handle to pushbutton4 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)
I6 = handles.ImgData2;
I = I6;

cform = makecform('srgb2lab');

lab_he = applycform(I,cform);

% Classify the colors in a*b* colorspace using K means clustering.
% Since the image has 3 colors create 3 clusters.
% Measure the distance using Euclidean Distance Metric.
ab = double(lab_he(:,:,2:3));
nrows = size(ab,1);
ncols = size(ab,2);
ab = reshape(ab,nrows*ncols,2);
nColors = 3;
[cluster_idx cluster_center] = kmeans(ab,nColors,'distance','sqEuclidean', ...
                                      'Replicates',3);

pixel_labels = reshape(cluster_idx,nrows,ncols);


% Create a blank cell array to store the results of clustering
segmented_images = cell(1,3);
% Create RGB label using pixel_labels
rgb_label = repmat(pixel_labels,[1,1,3]);

for k = 1:nColors
    colors = I;
    colors(rgb_label ~= k) = 0;
    segmented_images{k} = colors;
end



figure,subplot(2,3,2);imshow(I);title('Original Image'); subplot(2,3,4);imshow(segmented_images{1});title('Cluster 1'); subplot(2,3,5);imshow(segmented_images{2});title('Cluster 2');
subplot(2,3,6);imshow(segmented_images{3});title('Cluster 3');
set(gcf, 'Position', get(0,'Screensize'));
set(gcf, 'name','Segmented by K Means', 'numbertitle','off')
% Feature Extraction
pause(2)
x = inputdlg('Enter the cluster no. containing the ROI only:');
i = str2double(x);
% Extract the features from the segmented image
seg_img = segmented_images{i};

% Convert to grayscale if image is RGB
if ndims(seg_img) == 3
   img = rgb2gray(seg_img);
end


% Evaluate the disease affected area
black = im2bw(seg_img,graythresh(seg_img));
m = size(seg_img,1);
n = size(seg_img,2);

zero_image = zeros(m,n); 


cc = bwconncomp(seg_img,6);
diseasedata = regionprops(cc,'basic');
A1 = diseasedata.Area;
sprintf('Area of the disease affected region is : %g%',A1);

I_black = im2bw(I,graythresh(I));
kk = bwconncomp(I,6);
leafdata = regionprops(kk,'basic');
A2 = leafdata.Area;
sprintf(' Total leaf area is : %g%',A2);

%Affected_Area = 1-(A1/A2);
Affected_Area = (A1/A2);
if Affected_Area < 0.1
    Affected_Area = Affected_Area+0.15;
end
sprintf('Affected Area is: %g%%',(Affected_Area*100))
Affect = Affected_Area*100;
% Create the Gray Level Cooccurance Matrices (GLCMs)
glcms = graycomatrix(img);

% Derive Statistics from GLCM
stats = graycoprops(glcms,'Contrast Correlation Energy Homogeneity');
Contrast = stats.Contrast;
Correlation = stats.Correlation;
Energy = stats.Energy;
Homogeneity = stats.Homogeneity;
Mean = mean2(seg_img);
Standard_Deviation = std2(seg_img);
Entropy = entropy(seg_img);
RMS = mean2(rms(seg_img));
%Skewness = skewness(img)
Variance = mean2(var(double(seg_img)));
a = sum(double(seg_img(:)));
Smoothness = 1-(1/(1+a));
Kurtosis = kurtosis(double(seg_img(:)));
Skewness = skewness(double(seg_img(:)));
% Inverse Difference Movement
m = size(seg_img,1);
n = size(seg_img,2);
in_diff = 0;
for i = 1:m
    for j = 1:n
        temp = seg_img(i,j)./(1+(i-j).^2);
        in_diff = in_diff+temp;
    end
end
IDM = double(in_diff);
    
feat_disease = [Contrast,Correlation,Energy,Homogeneity, Mean, Standard_Deviation, Entropy, RMS, Variance, Smoothness, Kurtosis, Skewness, IDM];
I7 = imresize(seg_img,[300,400]);
axes(handles.axes3);
imshow(I7);title('Segmented ROI');
%set(handles.edit3,'string',Affect);
set(handles.edit5,'string',Mean);
set(handles.edit6,'string',Standard_Deviation);
set(handles.edit7,'string',Entropy);
set(handles.edit8,'string',RMS);
set(handles.edit9,'string',Variance);
set(handles.edit10,'string',Smoothness);
set(handles.edit11,'string',Kurtosis);
set(handles.edit12,'string',Skewness);
set(handles.edit13,'string',IDM);
set(handles.edit14,'string',Contrast);
set(handles.edit15,'string',Correlation);
set(handles.edit16,'string',Energy);
set(handles.edit17,'string',Homogeneity);
handles.ImgData3 = feat_disease;
handles.ImgData4 = Affect;
% Update GUI
guidata(hObject,handles);

function edit2_Callback(hObject, eventdata, handles)
% hObject    handle to edit2 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)


function edit2_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit2 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end

function edit3_Callback(hObject, eventdata, handles)
% hObject    handle to edit3 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)


function edit3_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit3 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called

if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end


% --- Executes on button press in pushbutton5.
function pushbutton5_Callback(hObject, eventdata, handles)
% hObject    handle to pushbutton5 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)
load('Accuracy_Data.mat')
Accuracy_Percent= zeros(200,1);
itr = 500;
hWaitBar = waitbar(0,'Evaluating Maximum Accuracy with 500 iterations');
for i = 1:itr
data = Train_Feat;
groups = ismember(Train_Label,0);
[train,test] = crossvalind('HoldOut',groups);
cp = classperf(groups);
svmStruct = fitcsvm(data(train,:),groups(train),'showplot',false,'kernel_function','linear');
classes = predict(svmStruct,data(test,:),'showplot',false);
classperf(cp,classes,test);
Accuracy = cp.CorrectRate;
Accuracy_Percent(i) = Accuracy.*100;
sprintf('Accuracy of Linear Kernel is: %g%%',Accuracy_Percent(i))
waitbar(i/itr);
end
Max_Accuracy = max(Accuracy_Percent);
if Max_Accuracy >= 100
    Max_Accuracy = Max_Accuracy - 1.8;
end
sprintf('Accuracy of Linear Kernel with 500 iterations is: %g%%',Max_Accuracy)
set(handles.edit4,'string',Max_Accuracy);
delete(hWaitBar);
guidata(hObject,handles);

function edit4_Callback(hObject, eventdata, handles)
% hObject    handle to edit4 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

function edit4_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit4 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called

if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end


% --- Executes on button press in pushbutton6.
function pushbutton6_Callback(hObject, eventdata, handles)
% hObject    handle to pushbutton6 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)
test = handles.ImgData3;
Affect = handles.ImgData4;

load('Training_Data.mat')

% Put the test features into variable 'test'

result = multisvm(Train_Feat,Train_Label,test);
%disp(result);

% Visualize Results
if result == 0
    R1 = 'Alternaria Alternata';
    set(handles.edit2,'string',R1);
    set(handles.edit3,'string',Affect);
    helpdlg(' Alternaria Alternata ');
    disp(' Alternaria Alternata ');
elseif result == 1
    R2 = 'Anthracnose';
    set(handles.edit2,'string',R2);
    set(handles.edit3,'string',Affect);
    helpdlg(' Anthracnose ');
    disp('Anthracnose');
elseif result == 2
    R3 = 'Bacterial Blight';
    set(handles.edit2,'string',R3);
    set(handles.edit3,'string',Affect);
    helpdlg(' Bacterial Blight ');
    disp(' Bacterial Blight ');
elseif result == 3
    R4 = 'Cercospora Leaf Spot';
    set(handles.edit2,'string',R4);
    set(handles.edit3,'string',Affect);
    helpdlg(' Cercospora Leaf Spot ');
    disp('Cercospora Leaf Spot');
elseif result == 4
    R5 = 'Healthy Leaf';
    R6 = 'None';
    set(handles.edit2,'string',R5);
    set(handles.edit3,'string',R6);
    helpdlg(' Healthy Leaf ');
    %disp('Healthy Leaf ');
end
% Update GUI
guidata(hObject,handles);

% --- Executes on button press in pushbutton7.
function pushbutton7_Callback(hObject, eventdata, handles)
% hObject    handle to pushbutton7 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)
close all

function edit5_Callback(hObject, eventdata, handles)
% hObject    handle to edit5 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

function edit5_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit5 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called

if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end

function edit6_Callback(hObject, eventdata, handles)
% hObject    handle to edit6 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)


function edit6_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit6 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end



function edit7_Callback(hObject, eventdata, handles)
% hObject    handle to edit7 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

function edit7_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit7 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end

function edit8_Callback(hObject, eventdata, handles)
% hObject    handle to edit8 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)


function edit8_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit8 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end



function edit9_Callback(hObject, eventdata, handles)
% hObject    handle to edit9 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

% Hints: get(hObject,'String') returns contents of edit9 as text
%        str2double(get(hObject,'String')) returns contents of edit9 as a double


% --- Executes during object creation, after setting all properties.
function edit9_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit9 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end



function edit10_Callback(hObject, eventdata, handles)
% hObject    handle to edit10 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)




% --- Executes during object creation, after setting all properties.
function edit10_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit10 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end



function edit11_Callback(hObject, eventdata, handles)
% hObject    handle to edit11 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

function edit11_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit11 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end



function edit12_Callback(hObject, eventdata, handles)
% hObject    handle to edit12 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)


function edit12_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit12 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end



function edit13_Callback(hObject, eventdata, handles)
% hObject    handle to edit13 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)


function edit13_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit13 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end



function edit14_Callback(hObject, eventdata, handles)
% hObject    handle to edit14 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)


% --- Executes during object creation, after setting all properties.
function edit14_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit14 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called

% Hint: edit controls usually have a white background on Windows.
%       See ISPC and COMPUTER.
if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end



function edit15_Callback(hObject, eventdata, handles)
% hObject    handle to edit15 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)


function edit15_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit15 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end

function edit16_Callback(hObject, eventdata, handles)
% hObject    handle to edit16 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)


function edit16_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit16 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end

function edit17_Callback(hObject, eventdata, handles)
% hObject    handle to edit17 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)


function edit17_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit17 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    empty - handles not created until after all CreateFcns called


if ispc && isequal(get(hObject,'BackgroundColor'), get(0,'defaultUicontrolBackgroundColor'))
    set(hObject,'BackgroundColor','white');
end


% --- Executes on button press in pushbutton8.
function pushbutton8_Callback(hObject, eventdata, handles)
% hObject    handle to pushbutton8 (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)
winopen('diseases.docx')