cmoviemaker.m

Edge detection in microscopy images using curvelets

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

% Last Modified by GUIDE v2.5 28-Nov-2007 11:42:18

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

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

% set default values for handle structure
handles.filenames = {};
handles.pathname = '';
handles.lastsavefilename = '';
handles.lastsavepath = '';
handles.hfig = [];
handles.computeinfo = struct('xlim',[],'ylim',[],'invert',0,'thrshtype',1,'thrshval',0,'levels',[],'dirs',{{}});
handles.layout = [1 1];
handles.plotinfo = struct('type', {1}, 'pos', {1}, 'transform', {1}, 'value', {1}, 'colorbar', {1});

% Update handles structure
guidata(hObject, handles);

setpath;

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


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

[filename, pathname] = uigetfile('*.*','Select images',handles.pathname,'MultiSelect','on');
if ~(isequal(filename,0) || isequal(pathname,0)),
    if ischar(filename),
        handles.filenames = {filename};
    else
        handles.filenames = filename;
    end
    handles.pathname = pathname;
    
    % init filename listbox
    set(handles.listbox_images, 'String', handles.filenames);
    
    % show first image
    im1 = displayfile(1, handles);

    % initialize levels and dirs listboxes
    handles = initlistboxes(size(im1), handles);
    
    % save handles
    guidata(gcbo, handles);
end



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

nr = get(hObject, 'Value');
if nr > 0,
    im = displayfile(nr, handles);
    nlev = floor(log2(min(size(im)))) - 3;
    handles = reinitlistboxes(nlev, handles);
    guidata(hObject, handles);
end



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



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

str = get(hObject, 'String');
xlim = eval(str);
if (length(xlim) == 2 && xlim(2) > xlim(1) && xlim(1) >= 1) ...
        || isempty(xlim),
    handles.computeinfo.xlim = xlim;
    im = displaycurrentfile(handles);
    nlev = floor(log2(min(size(im)))) - 3;
    handles = reinitlistboxes(nlev, handles);
    guidata(hObject, handles)
else
    errordlg('Bad values for x-limits','CMovieMaker error')
end


% --- Executes during object creation, after setting all properties.
function edit_xlim_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit_xlim (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 edit_ylim_Callback(hObject, eventdata, handles)
% hObject    handle to edit_ylim (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

str = get(hObject, 'String');
ylim = eval(str);
if (length(ylim) == 2 && ylim(2) > ylim(1) && ylim(1) >= 1) ...
        || isempty(ylim),
    handles.computeinfo.ylim = ylim;
    im = displaycurrentfile(handles);
    nlev = floor(log2(min(size(im)))) - 3;
    handles = reinitlistboxes(nlev, handles);
    guidata(hObject, handles)
else
    errordlg('Bad values for y-limits','CMovieMaker error')
end


% --- Executes during object creation, after setting all properties.
function edit_ylim_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit_ylim (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 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.computeinfo.levels = get(handles.listbox_levels, 'Value');
nlev = length(get(handles.listbox_levels, 'String'));
handles = reinitlistboxes(nlev, handles);
guidata(hObject, handles);



% --- 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.checkbox_symmdirs,'Value') == get(handles.checkbox_symmdirs,'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

% update computeinfo
for k=handles.computeinfo.levels,
    if ismember(k, [1 length(get(handles.listbox_levels, 'String'))]),
        thisnrdirs = 1;
    else
        thisnrdirs = 16 * (2.^floor((k-1)/2));
    end
    step = round(thisnrdirs / nrdirs);
    dirs = 1:thisnrdirs;
    dirs = dirs(ismember(floor((dirs-1)/step) + 1, dirsel));
    handles.computeinfo.dirs{k} = dirs;
end
guidata(hObject, handles);



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

% Hint: get(hObject,'Value') returns toggle state of checkbox_symmdirs


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

curdir = pwd;
if ~isempty(handles.lastsavepath)
    cd(handles.lastsavepath);
end

[filename, pathname, index] = uiputfile({'*.avi', 'AVI files (*.avi)'}, 'Save movie as...', handles.lastsavefilename);
if index ==0,
   return; % user pressed cancel
end

handles.lastsavefilename = filename;
handles.lastsavepath = pathname;
cd(curdir);

if isempty(handles.hfig) || ~ishandle(handles.hfig),
    handles.hfig = figure;
    guidata(hObject, handles);
end

if get(handles.popup_thresh, 'Value') == 4,   % get threshold from first image
   handles = getthrshfromfirstimage(handles);
end

clear M;
for k=1:length(handles.filenames),
    hf = drawmovieframe(handles.hfig, fullfile(handles.pathname, handles.filenames{k}), ...
            handles.layout, handles.plotinfo, handles.computeinfo);
    pause(0.1);
    M(k) = getframe(hf);
end
movie2avi(M, fullfile(pathname, filename));




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

val = str2double(get(hObject, 'String'));
if isnan(val) || val <= 0,
    errordlg('Bad value for threshold/number of coefficients', 'CMovieMaker error');
    return;
end
handles.computeinfo.thrshval = val;
guidata(hObject, handles)




% --- Executes during object creation, after setting all properties.
function edit_thrshvalue_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit_thrshvalue (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 popup_thresh.
function popup_thresh_Callback(hObject, eventdata, handles)
% hObject    handle to popup_thresh (see GCBO)
% eventdata  reserved - to be defined in a future version of MATLAB
% handles    structure with handles and user data (see GUIDATA)

handles.computeinfo.thrshtype = get(hObject, 'Value');
guidata(hObject, handles)
edit_thrshvalue_Callback(handles.edit_thrshvalue, eventdata, handles);



% --- Executes during object creation, after setting all properties.
function popup_thresh_CreateFcn(hObject, eventdata, handles)
% hObject    handle to popup_thresh (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 edit_thrshdisp_Callback(hObject, eventdata, handles)
% hObject    handle to edit_thrshdisp (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 edit_thrshdisp_CreateFcn(hObject, eventdata, handles)
% hObject    handle to edit_thrshdisp (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


% ------------------------------
% custom helper functions
%