cviewer.m

Edge detection in microscopy images using curvelets

function varargout = cviewer(varargin)
% CVIEWER M-file for cviewer.fig
%      CVIEWER, by itself, creates a new CVIEWER or raises the existing
%      singleton*.
%
%      H = CVIEWER returns the handle to a new CVIEWER or the handle to
%      the existing singleton*.
%
%      CVIEWER('CALLBACK',hObject,eventData,handles,...) calls the local
%      function named CALLBACK in CVIEWER.M with the given input arguments.
%
%      CVIEWER('Property','Value',...) creates a new CVIEWER or raises the
%      existing singleton*.  Starting from the left, property value pairs are
%      applied to the GUI before cviewer_OpeningFcn gets called.  An
%      unrecognized property name or invalid value makes property application
%      stop.  All inputs are passed to cviewer_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 cviewer

% Last Modified by GUIDE v2.5 01-Jul-2008 20:36:17

% Begin initialization code - DO NOT EDIT
gui_Singleton = 1;
gui_State = struct('gui_Name',       mfilename, ...
                   'gui_Singleton',  gui_Singleton, ...
                   'gui_OpeningFcn', @cviewer_OpeningFcn, ...
                   'gui_OutputFcn',  @cviewer_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 cviewer is made visible.
function cviewer_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 cviewer (see VARARGIN)

% Choose default command line output for cviewer
handles.output = hObject;

% Set paths to curvelet functions
setpath;

% set some default values
handles.imdims = [256 256];
handles.Cmod = {};
handles.loadedim = zeros(handles.imdims);
handles.im = zeros(handles.imdims);
handles.fim = fftshift(fft2(handles.im));
handles.rim = zeros(handles.imdims);
handles.frim = fftshift(fft2(handles.rim));
handles.errim = handles.rim - handles.im;
handles.ferrim = handles.frim - handles.fim;
handles.C = fdct_wrapping(handles.im,0);
handles.stickyaxes = 0;
handles.lastdisptype = [1 1];
handles.curdirdata = struct('levels',[],'dirs',{},'values',{},'dothandle',[],'dotcoords',[]);
handles.lastpath = '';


% initialize the levels and dirs listboxes
handles = initlistboxes(handles.imdims, handles);

% Update handles structure
guidata(hObject, handles);



% UIWAIT makes cviewer wait for user response (see UIRESUME)
% uiwait(handles.cviewerfig);


% --- Outputs from this function are returned to the command line.
function varargout = cviewer_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 selection change in listbox_levels.
function listbox_levels_Callback(hObject, eventdata, handles)
% hObject    handle to listbox_levels (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

handles = reinitlistboxes(handles);
guidata(hObject, handles);

% if we view coefficients - plot directly
disptype_top = get(handles.displaymenu_top, 'Value');
disptype_bottom = get(handles.displaymenu_bottom, 'Value');
if any(disptype_top == [7 8]) || any(disptype_bottom == [7 8]),  % view coefficients in top or bottom
    displaydata(handles)
end


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

% Hint: listbox 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


% --- Executes on selection change in listbox_dirs.
function listbox_dirs_Callback(hObject, eventdata, handles)
% hObject    handle to listbox_dirs (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

nrdirs = length(get(hObject,'String'));
if get(handles.chk_symmetric,'Value') == get(handles.chk_symmetric,'Max') && ...
         nrdirs > 1,
    topitem = get(hObject, 'ListBoxTop');
    dirsel = get(hObject,'Value');
    dirsel = unique([dirsel mod(dirsel + nrdirs/2 - 1, nrdirs)+1]);
    set(hObject,'Value',dirsel)    
    set(hObject, 'ListBoxTop', topitem)
end

% if we view coefficients - plot directly
disptype_top = get(handles.displaymenu_top, 'Value');
disptype_bottom = get(handles.displaymenu_bottom, 'Value');
if any(disptype_top == [7 8]) || any(disptype_bottom == [7 8]),  % view coefficients in top or bottom
    displaydata(handles)
end


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

% Hint: listbox 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


% --- Executes on selection change in displaymenu_bottom.
function displaymenu_bottom_Callback(hObject, eventdata, handles)
% hObject    handle to displaymenu_bottom (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

dtype = get(handles.displaymenu_bottom,'Value');
handles.stickyaxes = (isphysspace(dtype) == isphysspace(handles.lastdisptype(2)));

showinaxis(handles.axes_bottom, dtype, 1, ...
    get(handles.plottype_menu_bottom,'Value'), handles.stickyaxes, handles);
handles.lastdisptype(2) = dtype;
guidata(hObject, handles);


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

% Hint: popupmenu 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


% --- Executes on selection change in displaymenu_top.
function displaymenu_top_Callback(hObject, eventdata, handles)
% hObject    handle to displaymenu_top (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

dtype = get(handles.displaymenu_top,'Value');
handles.stickyaxes = (isphysspace(dtype) == isphysspace(handles.lastdisptype(1)));

showinaxis(handles.axes_top, dtype, get(handles.menu_plot_curveletpos_top,'Value'), ...
    get(handles.plottype_menu_top,'Value'), handles.stickyaxes, handles);
handles.lastdisptype(1) = dtype;
guidata(hObject, handles);



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

% Hint: popupmenu 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 cmax = getlargestcoeff(C)

cmax = 0;
for j=1:length(C),
    for l = 1:length(C{j})
        cmax = max([cmax; abs(C{j}{l}(:))]);
    end
end


% --- Load image from file 
function loadimage(hObject, handles)
% hObject    handle to button_loadimage (see GCBO)
% handles    structure with handles and user data (see GUIDATA)

curdir = pwd;
if ~isempty(handles.lastpath)
    cd(handles.lastpath)
end
[filename, pathname]=uigetfile({'*' 'All files (*.*)'}, 'Open image');
if ~(isequal(filename,0) || isequal(pathname,0))
    [pstr,nm,ext,ver] = fileparts(fullfile(pathname,filename));
    if strcmp(ext,'.dcm')
        im = dicomread(fullfile(pathname,filename));
    elseif strcmp(ext,'.dat')
        im = load(fullfile(pathname,filename));
    else
        im = imread(fullfile(pathname,filename));
    end
    if (ndims(im) > 2),
        nzv = zeros(1,min(size(im,3),3));
        for k=1:min(size(im,3),3),
            nzv(k) = nnz(im(:,:,k));
        end
        [M,I] = max(nzv);
        im = im(:,:,I);
    end
    handles.loadedim = double(im);
    
    set(handles.cviewerfig, 'Name', ['CViewer - ' filename]);
    
    if get(handles.radio_showimage,'Value') == get(handles.radio_showimage,'Max'),
        handles.im = handles.loadedim;
        handles.C = fdct_wrapping(handles.im, 0);
        handles.fim = fftshift(fft2(handles.im));
     
        handles.lastpath = pathname;
        handles = reinitlistboxes(handles);
        handles.stickyaxes = 0;
        button_go_Callback(hObject, [], handles);  % do calculations
        handles = guidata(hObject);  % get new handles, since button_go_Callback() changes them
    end
end
guidata(hObject, handles)
cd(curdir);




function edit_thrsh_Callback(hObject, eventdata, handles)
% hObject    handle to edit_thrsh (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 edit_thrsh as text
%        str2double(get(hObject,'String')) returns contents of edit_thrsh as a double


% --- Executes during object creation, after setting all properties.
function edit_thrsh_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit_thrsh (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


% --- Executes on selection change in menu_thrshtype.
function menu_thrshtype_Callback(hObject, eventdata, handles)
% hObject    handle to menu_thrshtype (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

% Hints: contents = get(hObject,'String') returns menu_thrshtype contents as cell array
%        contents{get(hObject,'Value')} returns selected item from menu_thrshtype


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

% Hint: popupmenu 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


% --- Executes on selection change in menu_plot_curveletpos_top.
function menu_plot_curveletpos_top_Callback(hObject, eventdata, handles)
% hObject    handle to menu_plot_curveletpos_top (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

showinaxis(handles.axes_top, get(handles.displaymenu_top,'Value'), get(handles.menu_plot_curveletpos_top,'Value'), ...
    get(handles.plottype_menu_top,'Value'), 1, handles);


% --- Executes during object creation, after setting all properties.