source: trunk/src/uvmat.m @ 523

Last change on this file since 523 was 523, checked in by sommeria, 9 years ago
File size: 210.8 KB
RevLine 
[387]1%'uvmat': function associated with the GUI 'uvmat.fig' for images and data field visualization
2%------------------------------------------------------------------------
3% function huvmat=uvmat(input)
4%
5%OUTPUT
6% huvmat=current handles of the GUI uvmat.fig
7%%
8%
9%INPUT:
10% input: input file name (if character chain), or input image matrix to
11% visualize, or Matlab structure representing  netcdf fields (with fields
12% ListVarName....)
13%
14%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15%  Copyright Joel Sommeria,  2008, LEGI / CNRS-UJF-INPG, joel.sommeria@legi.grenoble-inp.fr.
16%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17%     This open is part of the toolbox UVMAT.
18%
19%     UVMAT is free software; you can redistribute it and/or modify
20%     it under the terms of the GNU General Public License as published by
21%     the Free Software Foundation; either version 2 of the License, or
22%     (at your option) any later version.
23%
24%     UVMAT is distributed in the hope that it will be useful,
25%     but WITHOUT ANY WARRANTY; without even the implied warranty of
26%     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
27%     GNU General Public License (open UVMAT/COPYING.txt) for more details.
28%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
29%
[511]30% Information stored on the interface:(use 'Export/field in workspace' in
31% the menu bar of uvmat to retrieve it)
32%          .OpenParam: structure containing parameters defined when uvmat is opened
33%                       .PosColorbar: position (1x4 vector)of the colorbar (relative to the fig uvmat)
34%                       .PosSetObject: position of set_object
35%                       .PosGeometryCalib: size of set_object
36%                       .NbBuiltin: nbre of functions always displayed in transform_fct menu
37%          .Object: cell array of structures representing the current projection objects, as produced by 'set_object.m'={[]} by default
38%          .NewSeries: =0/1 flag telling whether a new field series has been opened
39%          .FileName_1: name of the current second field (used to detect a  constant field during file scanning)
40%          .FileType: current file type, as defined by the fct  get_file_type.m)
41%          .i1_series,.i2_series,.j1_series,.j1_series: series of i1,i2,j1,j2 indices detected in the input dir,set by  the fct find_file_series
42%          .MovieObject: current movie object
43%          .TimeUnit: unit for time
44%          .XmlData: cell array of 1 or 2 structures representing the xml files associated with the input fields (containing timing  and geometry calibration)
45%          .Field: cell array of 1 or 2 structures representing the current  input field(s)
46%          .PlotAxes: field structure representing the current field plotted  on the main axes  (used for mouse operations)
47%          .HistoAxes: idem for histogram axes
[387]48
49% %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%   DATA FLOW  (for run0_Callback) %%%%%%%%%%%%%%%%%%%%:
50%
[406]51%
52% 1) Input filenames are determined by MenuBrowse (first field), MenuBrowse_1
[512]53% (second field), or by the stored file name .FileName_1, or as an input of uvmat.
54% 2) These functions call 'uvmat/display_file_name.m' which detects the file series, and fills the file index boxes
55% 3) Then 'uvmat/update_rootinfo.m' Updates information about a new field series (indices to scan, timing, calibration from an xml file)
56% 4) Then fields are opened and visualised by the main sub-function 'uvmat/refresh_field.m'
57% The function first reads the name of the input file(s) (one or two) from the edit boxes  of the GUI
58% It then reads the input file(s) with the function read_field.m and perform the following list of operations:
[387]59%
[512]60%    %%%%%%%%  structure of uvmat/refresh_field.m %%%%%%%%
[387]61%
[512]62%           Main input open       second input open_1       
63%                    |                   | 
64%             read_field.m            read_field.m
65%                    |                   |
66%                 Field{1}            Field{2}               
67%                    |                   |                                 
68%                    --->transform fct<---             transform (e.g. phys.m) and combine input fields 
69%                            |                                   
70%                        (calc_tps.m)               calculate tps coefficients (for filter projection or spatial derivatives).
71%                            |
72%                       UvData.Field-------------->histogram
73%               _____________|____________
74%              |                          |                   
[515]75%        proj_field.m               proj_field.m       project the field on the projection objects (use calc_field.m)           
[512]76%              |                          |
77%         UvData.PlotAxes          ViewData.PlotAxes (on view_field)
78%              |                          |
79%       plot_field.m (uvmat)       plot_field.m (view_field)      plot the projected fields
80%
81%
[387]82%%%%%%%%%%%%%%    SCALARS: %%%%%%%%%%%%??%%%
83% scalars are displayed either as an image or countour plot, either as a color of
84% velocity vectors. The scalar values in the first case is represented by
85% UvData.Field.A, and by UvData.Field.C in the second case. The corresponding set of X
86% and Y coordinates are represented by UvData.Field.AX and UvData.Field.AY, and .X and
87% .Y for C (the same as velocity vectors). If A is a nxxny matrix (scalar
88% on a regtular grid), then .AX andf.AY contains only two elements, represneting the
89% coordinates of the four image corners. The scalar name is represented by
90% the strings .AName and/or .CName.
91% If the scalar exists in an input open (image or scalar stored under its
92% name in a netcdf open), it is directly read at the level of Field{1}or Field{2}.
93% Else only its name AName is recorded in Field{i}, and its field is then calculated
94%by the fuction calc_scal after the coordinate transform or after projection on an edit_object
95     
96% Properties attached to plotting figures (standard Matlab properties):
97%    'CurrentAxes'= gca or get(gcf,'CurrentAxes');
98%    'CurrentPoint'=get(gcf,'CurrentPoint'): figure coordinates of the point over which the mouse is positioned
99%    'CurrentCharacter'=get(gcf,'CurrentCharacter'): last character typed  over the figure where the mouse is positioned
100%    'WindowButtonMotionFcn': function permanently called by mouse motion over the figure
101%    'KeyPressFcn': function called by pressing a key on the key board
102%    'WindowButtonDownFcn':  function called by pressing the mouse over the  figure
103%    'WindowButtonUpFcn': function called by releasing  the mouse pressure over the  figure
104
105% Properties attached to plotting axes:
106%    'CurrentPoint'=get(gca,'CurrentPoint'); (standard Matlab) same as for the figure, but position in plot coordinates.
107%     AxeData:=get(gca,'UserData');
108%     AxeData.Drawing  = create: create a new object
109%                       = deform: modify an existing object by moving its defining create
110%                      = off: no current drawing action
111%                     = translate: translate an existing object
112%                    = calibration: move a calibration point
113%                    = CheckZoom: isolate a subregion for CheckZoom in=1 if an object is being currently drawn, 0 else (set to 0 by releasing mouse button)
114%            .CurrentOrigin: Origin of a curently drawn edit_object
115%            .CurrentLine: currently drawn menuline (A REVOIR)
116%            .CurrentObject: handle of the currently drawn edit_object
117%            .CurrentRectZoom: current rectangle used for CheckZoom
118
119% Properties attached to projection objects (create, menuline, menuplane...):
120%    'Tag'='proj_object': for all projection objects
121%    ObjectData.Type=...: style of projection object:
122%              .ProjMode
123%              .Coord: defines the position of the object
124%              .XMin,YMin....
125%              .XMax,YMax....
126%              .DX,DY,DZ
127%              .Phi, .Theta, .Psi : Euler angles
128%              .X,.Y,.U,.V.... : field data projected on the object
129%              .IndexObj: index in the list of UvData.Object
130           %during plotting
131%               .plotaxes: handles of the current axes used to plot the  result of field projection on the object
132%               .plothandle: vector of handle(s) of the object graphic represnetation in all the opened plotting axes
133% To each projection object #iobj, corresponds an axis
134% Object{iobj}.plotaxes and nbobj representation graphs  Object{iobj}.plothandles(:) (where nbobj is the
135% nbre of current objects opened in uvmat. Note that Object{iobj}.plothandles(iobj)=[] : an object is not represented in its own projection field;
136
137%------------------------------------------------------------------------
138%------------------------------------------------------------------------
[406]139%  I - MAIN FUNCTION uvmat
[387]140%------------------------------------------------------------------------
141%------------------------------------------------------------------------
142function varargout = uvmat(varargin)
143
144% Begin initialization code - DO NOT EDIT
145gui_Singleton = 1;
146gui_State = struct('gui_Name',          mfilename, ...
147                   'gui_Singleton',     gui_Singleton, ...
148                   'gui_OpeningFcn',    @uvmat_OpeningFcn, ...
149                   'gui_OutputFcn',     @uvmat_OutputFcn, ...
150                   'gui_LayoutFcn',     [], ...
151                   'gui_Callback',      []);
152if nargin && ischar(varargin{1})&& ~isempty(regexp(varargin{1},'_Callback','once'))
153    gui_State.gui_Callback = str2func(varargin{1});
154end
155
156if nargout
157    varargout{1:nargout} = gui_mainfcn(gui_State, varargin{:});
158else
159    gui_mainfcn(gui_State, varargin{:});
160end
161% End initialization code - DO NOT EDIT
162
163%------------------------------------------------------------------------
164% --- Executes just before the GUI uvmat is made visible.
165function uvmat_OpeningFcn(hObject, eventdata, handles, input )
166%------------------------------------------------------------------------
167
168%% Choose default command menuline output for uvmat (standard GUI)
169handles.output = hObject;
170
171%% Update handles structure (standard GUI)
172guidata(hObject, handles);
173
[507]174%% add the path to uvmat (useful if uvmat has been opened in the working directory and a working directory change occured)
175path_uvmat=fileparts(which('uvmat'));
176
[387]177%% set the position of colorbar and ancillary GUIs:
178set(hObject,'Units','Normalized')
179movegui(hObject,'center')
180UvData.OpenParam.PosColorbar=[0.805 0.022 0.019 0.445];
[511]181UvData.OpenParam.PosSetObject=[-0.05 -0.03 0.3 0.7]; %position for set_object
[517]182UvData.OpenParam.PosGeometryCalib=[0.95 -0.03 0.28 1 ];%position for geometry_calib (TO IMPROVE)
[511]183% UvData.OpenParam.CalSize=[0.28 1];
184% UvData.PlotAxes=[];%initiate the record of plotted field
185% UvData.axes2=[];
186% UvData.axes1=[];
[387]187AxeData.LimEditBox=1; %initialise AxeData
[511]188set(handles.PlotAxes,'UserData',AxeData)
[387]189
190%% set functions for the mouse and keyboard
191set(hObject,'KeyPressFcn',{'keyboard_callback',handles})%set keyboard action function
192set(hObject,'WindowButtonMotionFcn',{'mouse_motion',handles})%set mouse action functio
193set(hObject,'WindowButtonDownFcn',{'mouse_down'})%set mouse click action function
194set(hObject,'WindowButtonUpFcn',{'mouse_up',handles})
195set(hObject,'DeleteFcn',{@closefcn})%
196
[511]197%% initialisation
[508]198% set(handles.ListObject,'Value',1)% default: empty projection objectproj_field
199% set(handles.ListObject,'String',{''})
200% set(handles.ListObject_1,'Value',1)% default: empty projection objectproj_field
201% set(handles.ListObject_1,'String',{''})
[387]202set(handles.Fields,'Value',1)
203set(handles.Fields,'string',{''})
[511]204UvData.Object={[]};
[387]205
206%% TRANSFORM menu: builtin fcts
[515]207transform_menu={'';'sub_field';'phys';'phys_polar'};
[507]208UvData.OpenParam.NbBuiltin=numel(transform_menu); %number of functions
209transform_path=fullfile(path_uvmat,'transform_field');
210path_list{1}='';
[523]211for ilist=2:UvData.OpenParam.NbBuiltin
212path_list{ilist}=transform_path; % set transform_path to the path_list
213end
[387]214
[507]215%% load the list of previously browsed files in menus Open, Open_1 and transform_fct
[387]216 dir_perso=prefdir; % path to the directory .matlab for personal data
217 profil_perso=fullfile(dir_perso,'uvmat_perso.mat');% personal data file uvmauvmat_perso.mat' in .matlab
218 if exist(profil_perso,'file')
[507]219     h=load (profil_perso);
[523]220     if isfield(h,'MenuFile')% load the menu of previously opened files
[507]221         for ifile=1:min(length(h.MenuFile),5)
222             eval(['set(handles.MenuFile_' num2str(ifile) ',''Label'',h.MenuFile{ifile});'])
223             eval(['set(handles.MenuFile_' num2str(ifile) '_1,''Label'',h.MenuFile{ifile});'])
224         end
225     end
[523]226     if isfield(h,'transform_fct') && iscell(h.transform_fct) % load the menu of transform fct set by user
[387]227         for ilist=1:length(h.transform_fct);
228             if exist(h.transform_fct{ilist},'file')
[507]229                 [path,file]=fileparts(h.transform_fct{ilist});
230                 transform_menu=[transform_menu; {file}];
231                 path_list=[path_list; {path}];
[387]232             end
233         end
[507]234     end
[387]235 end
[523]236transform_menu=[transform_menu;{'more...'}];%append the option more.. to the menu
237set(handles.transform_fct,'String',transform_menu)% display the menu of transform fcts
238set(handles.transform_fct,'UserData',path_list)% store the corresponding list of path in UserData of uicontrol transform_fct
[507]239set(handles.path_transform,'String','')
240set(handles.path_transform,'UserData',[])
[387]241
242%% case of an input argument for uvmat
243testinputfield=0;
244inputfile=[];
245Field=[];
246if exist('input','var')
247    if ishandle(handles.UVMAT_title)
248        delete(handles.UVMAT_title)
249    end   
250    if isstruct(input)
251        if isfield(input,'InputFile')
252            inputfile=input.InputFile;
253        end
254        if isfield(input,'TimeIndex')
255            set(handles.i1,num2str(input.TimeIndex))
256        end
257        if isfield(input,'FieldsString')
258            UvData.FieldsString=input.FieldsString;
259        end
260    elseif ischar(input)% file name introduced as input
261           inputfile=input;
262    elseif isnumeric(input)%simple matrix introduced as input
263        sizinput=size(input);
264        if sizinput(1)<=1 || sizinput(2)<=1
265            msgbox_uvmat('ERROR','bad input for uvmat: file name, structure or numerical matrix accepted')
266            return
267        end
268        UvData.Field.ListVarName={'A','coord_y','coord_x'};
269        UvData.Field.VarDimName={{'coord_y','coord_x'},'cord_y','coord_x'};
270        UvData.Field.A=input;
271        UvData.Field.coord_x=[0.5 size(input,2)-0.5];
272        UvData.Field.coord_y=[size(input,1)-0.5 0.5];
273        testinputfield=1;
274    end
275else
[476]276    %% check the path and date of modification of all functions in uvmat
277    path_to_uvmat=which ('uvmat');% check the path detected for source file uvmat
278    [infomsg,date_str,svn_info]=check_files;%check the path of the functions called by uvmat.m   
279    date_str=['last modification: ' date_str];
280    if ishandle(handles.UVMAT_title)
281        set(handles.UVMAT_title,'String',...
282            [{'Copyright  LEGI UMR 5519 /CNRS-UJF-Grenoble INP, 2010'};...
283            {'GNU General Public License'};...
284            {path_to_uvmat};...
285            {date_str};...
286            infomsg]);
287    end
[387]288end
289set(handles.uvmat,'UserData',UvData)
290if ~isempty(inputfile)
291    %%%%% display the input field %%%%%%%
[406]292    display_file_name(handles,inputfile)
[387]293    %%%%%%%
294    testinputfield=1;
295end
296
297%% plot input field if exists
[515]298% if testinputfield
299%     %delete drawn objects
300%     hother=findobj(handles.PlotAxes,'Tag','proj_object');%find all the proj objects
301%     for iobj=1:length(hother)
302%         delete_object(hother(iobj))
303%     end 
304%     if isempty(inputfile)
305%         errormsg=refresh_field(handles,[],[],[],[],[],[],{Field});
306%         set(handles.MenuTools,'Enable','on')
307%         set(handles.OBJECT_txt,'Visible','on')
308%         set(handles.edit_object,'Visible','on')
309% %         set(handles.ListObject_1,'Visible','on')
310%         set(handles.frame_object,'Visible','on')
311%         if ~isempty(errormsg)
312%             msgbox_uvmat('ERROR',errormsg)
313%         end
314%     end
315% end
[387]316
317set_vec_col_bar(handles) %update the display of color code for vectors
318
319%------------------------------------------------------------------------
320% --- Outputs from this function are returned to the command menuline.
321function varargout = uvmat_OutputFcn(hObject, eventdata, handles)
322varargout{1} = handles.output;% the only output argument is the handle to the GUI figure
323
324%------------------------------------------------------------------------
[402]325% --- executed when closing uvmat: delete or desactivate the associated figures if exist
326function closefcn(gcbo,eventdata)
[387]327%------------------------------------------------------------------------
[402]328hh=findobj(allchild(0),'tag','view_field');
329if ~isempty(hh)
330    delete(hh)
331end
332hh=findobj(allchild(0),'tag','geometry_calib');
333if ~isempty(hh)
334    delete(hh)
335end
336hh=findobj(allchild(0),'tag','set_object');
337if ~isempty(hh)
338    hhh=findobj(hh,'tag','PLOT');
339    set(hhh,'enable','off')
340end
341
342%------------------------------------------------------------------------
343%------------------------------------------------------------------------
[387]344%  II - FUNCTIONS FOR INTRODUCING THE INPUT FILES
345% automatically sets the global properties when the rootfile name is introduced
346% then activate the view-field action if selected
347% it is activated either by clicking on the RootPath window or by the
348% browser
349%------------------------------------------------------------------------
350%------------------------------------------------------------------------
351% --- Executes on the menu Open/Browse...
352% search the files, recognize their type according to their name and fill the rootfile input windows
353function MenuBrowse_Callback(hObject, eventdata, handles)
354[RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes(handles);
[512]355%oldfile=[fullfile(RootPath,SubDir,RootFile) FileIndices FileExt];
356oldfile=fullfile(RootPath,SubDir);
[387]357if isempty(oldfile)||isequal(oldfile,'') %loads the previously stored file name and set it as default in the file_input box
358         dir_perso=prefdir;
359         profil_perso=fullfile(dir_perso,'uvmat_perso.mat');
360         if exist(profil_perso,'file')
361              h=load (profil_perso);
362             if isfield(h,'MenuFile_1')
363                  oldfile=h.MenuFile_1;
364             end
365         end
366end
[421]367[FileName, PathName] = uigetfile({'*.*','All Files(*.*)'},'Pick a file',oldfile);
[387]368fileinput=[PathName FileName];%complete file name
[503]369if ~exist(fileinput,'file')
[512]370    return %abandon if the browser is cancelled
[503]371end
[387]372
[503]373%% display the selected field and related information
[406]374display_file_name( handles,fileinput)
[387]375
376% -----------------------------------------------------------------------
377% --- Open again the file whose name has been recorded in MenuFile_1
378function MenuFile_1_Callback(hObject, eventdata, handles)
379%------------------------------------------------------------------------
380fileinput=get(handles.MenuFile_1,'Label');
[406]381display_file_name( handles,fileinput)
[387]382
383% -----------------------------------------------------------------------
384% --- Open again the file whose name has been recorded in MenuFile_2
385function MenuFile_2_Callback(hObject, eventdata, handles)
386%------------------------------------------------------------------------
387fileinput=get(handles.MenuFile_2,'Label');
[406]388display_file_name(handles,fileinput)
[387]389
390% -----------------------------------------------------------------------
391% --- Open again the file whose name has been recorded in MenuFile_3
392function MenuFile_3_Callback(hObject, eventdata, handles)
393%------------------------------------------------------------------------
394fileinput=get(handles.MenuFile_3,'Label');
[406]395display_file_name(handles,fileinput)
[387]396
397% -----------------------------------------------------------------------
398% --- Open again the file whose name has been recorded in MenuFile_4
399function MenuFile_4_Callback(hObject, eventdata, handles)
400%------------------------------------------------------------------------
401fileinput=get(handles.MenuFile_4,'Label');
[406]402display_file_name(handles,fileinput)
[387]403
404% -----------------------------------------------------------------------
405% --- Open again the file whose name has been recorded in MenuFile_5
406function MenuFile_5_Callback(hObject, eventdata, handles)
407%------------------------------------------------------------------------
408fileinput=get(handles.MenuFile_5,'Label');
[406]409display_file_name(handles,fileinput)
[387]410
[402]411%------------------------------------------------------------------------
412% --- Executes on the menu Open/Browse_1 for the second input field,
413%     search the files, recognize their type according to their name and fill the rootfile input windows
414function MenuBrowse_1_Callback(hObject, eventdata, handles)
415%------------------------------------------------------------------------
416RootPath=get(handles.RootPath,'String');
[421]417[FileName, PathName] = uigetfile({'*.*','All Files(*.*)'},'Pick a file',RootPath);
[402]418fileinput_1=[PathName FileName];%complete file name
[503]419if ~exist(fileinput_1,'file')
420    return %abandon of the browser is cancelled
421end
[402]422
423% refresh the current displayed field
424set(handles.SubField,'Value',1)
[406]425display_file_name(handles,fileinput_1,2)
[402]426
427%update list of recent files in the menubar
428MenuFile_1=fileinput_1;
429MenuFile_2=get(handles.MenuFile_1,'Label');
430MenuFile_3=get(handles.MenuFile_2,'Label');
431MenuFile_4=get(handles.MenuFile_3,'Label');
432MenuFile_5=get(handles.MenuFile_4,'Label');
433set(handles.MenuFile_1,'Label',MenuFile_1)
434set(handles.MenuFile_2,'Label',MenuFile_2)
435set(handles.MenuFile_3,'Label',MenuFile_3)
436set(handles.MenuFile_4,'Label',MenuFile_4)
437set(handles.MenuFile_5,'Label',MenuFile_5)
438set(handles.MenuFile_1_1,'Label',MenuFile_1)
439set(handles.MenuFile_2_1,'Label',MenuFile_2)
440set(handles.MenuFile_3_1,'Label',MenuFile_3)
441set(handles.MenuFile_4_1,'Label',MenuFile_4)
442set(handles.MenuFile_5_1,'Label',MenuFile_5)
443dir_perso=prefdir;
444profil_perso=fullfile(dir_perso,'uvmat_perso.mat');
445if exist(profil_perso,'file')
446    save (profil_perso,'MenuFile_1','MenuFile_2','MenuFile_3','MenuFile_4', 'MenuFile_5','-append'); %store the file names for future opening of uvmat
447else
448    txt=ver('MATLAB');
449    Release=txt.Release;
450    relnumb=str2double(Release(3:4));
451    if relnumb >= 14
452        save (profil_perso,'MenuFile_1','MenuFile_2','MenuFile_3','MenuFile_4', 'MenuFile_5','-V6'); %store the file names for future opening of uvmat
453    else
454        save (profil_perso,'MenuFile_1','MenuFile_2','MenuFile_3','MenuFile_4', 'MenuFile_5'); %store the file names for future opening of uvmat
455    end
456end
457
458% -----------------------------------------------------------------------
459% --- Open again as second field the file whose name has been recorded in MenuFile_1
460function MenuFile_1_1_Callback(hObject, eventdata, handles)
461% -----------------------------------------------------------------------
462fileinput_1=get(handles.MenuFile_1_1,'Label');
463set(handles.SubField,'Value',1)
[406]464display_file_name(handles,fileinput_1,2)
[402]465
466% -----------------------------------------------------------------------
467% --- Open again as second field the file whose name has been recorded in MenuFile_2
468function MenuFile_2_1_Callback(hObject, eventdata, handles)
469% -----------------------------------------------------------------------
470fileinput_1=get(handles.MenuFile_2_1,'Label');
471set(handles.SubField,'Value',1)
[406]472display_file_name(handles,fileinput_1,2)
[402]473
474% -----------------------------------------------------------------------
475% --- Open again as second field the file whose name has been recorded in MenuFile_3
476function MenuFile_3_1_Callback(hObject, eventdata, handles)
477% -----------------------------------------------------------------------
478fileinput_1=get(handles.MenuFile_3_1,'Label');
479set(handles.SubField,'Value',1)
[406]480display_file_name(handles,fileinput_1,2)
[402]481
482% -----------------------------------------------------------------------
483% --- Open again as second field the file whose name has been recorded in MenuFile_4
484function MenuFile_4_1_Callback(hObject, eventdata, handles)
485% -----------------------------------------------------------------------
486fileinput_1=get(handles.MenuFile_4_1,'Label');
487set(handles.SubField,'Value',1)
[406]488display_file_name(handles,fileinput_1,2)
[402]489
490% -----------------------------------------------------------------------
491% --- Open again as second field the file whose name has been recorded in MenuFile_5
492function MenuFile_5_1_Callback(hObject, eventdata, handles)
493% -----------------------------------------------------------------------
494fileinput_1=get(handles.MenuFile_5_1,'Label');
495set(handles.SubField,'Value',1)
[406]496display_file_name(handles,fileinput_1,2)
[402]497
498%------------------------------------------------------------------------
499% --- Called by action in RootPath edit box
500function RootPath_Callback(hObject,eventdata,handles)
501%------------------------------------------------------------------------
502% read the current input file name:
503[RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes(handles);
[456]504if ~exist(fullfile(RootPath,SubDir),'dir')
505    msgbox_uvmat('ERROR',['directory ' fullfile(RootPath,SubDir) ' does not exist'])
506    return
507end
[402]508% detect the file type, get the movie object if relevant, and look for the corresponding file series:
509[RootPath,SubDir,RootFile,i1_series,i2_series,j1_series,j2_series,tild,FileType,MovieObject]=find_file_series(fullfile(RootPath,SubDir),[RootFile FileIndices FileExt]);
510% initiate the input file series and refresh the current field view:
[406]511update_rootinfo(handles,i1_series,i2_series,j1_series,j2_series,FileType,MovieObject,1);
[402]512
513%-----------------------------------------------------------------------
514% --- Called by action in RootPath_1 edit box
515function RootPath_1_Callback(hObject,eventdata,handles)
516% -----------------------------------------------------------------------
517% update_rootinfo_1(hObject,eventdata,handles)
518[RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes_1(handles);
[456]519if ~exist(fullfile(RootPath,SubDir),'dir')
520    msgbox_uvmat('ERROR',['directory ' fullfile(RootPath,SubDir) ' does not exist'])
521    return
522end
[402]523% detect the file type, get the movie object if relevant, and look for the corresponding file series:
524[RootPath,SubDir,RootFile,i1_series,i2_series,j1_series,j2_series,tild,FileType,MovieObject]=find_file_series(fullfile(RootPath,SubDir),[RootFile FileIndices FileExt]);
525% initiate the input file series and refresh the current field view:
526update_rootinfo(handles,i1_series,i2_series,j1_series,j2_series,FileType,MovieObject,2);
527
528%------------------------------------------------------------------------
529% --- Called by action in RootFile edit box
530function SubDir_Callback(hObject, eventdata, handles)
531%------------------------------------------------------------------------
532%refresh the menu of input fields
533Fields_Callback(hObject, eventdata, handles);
534% refresh the current field view
535run0_Callback(hObject, eventdata, handles);
536
537%------------------------------------------------------------------------
538% --- Called by action in RootFile edit box
539function RootFile_Callback(hObject, eventdata, handles)
540%------------------------------------------------------------------------
541RootPath_Callback(hObject,eventdata,handles)
542
543%-----------------------------------------------------------------------
544% --- Called by action in RootFile_1 edit box
545function RootFile_1_Callback(hObject, eventdata, handles)
546% -----------------------------------------------------------------------
547RootPath_1_Callback(hObject,eventdata,handles)
548
549%------------------------------------------------------------------------
550% --- Called by action in FileIndex edit box
551function FileIndex_Callback(hObject, eventdata, handles)
552%------------------------------------------------------------------------
553[tild,tild,tild,i1,i2,j1,j2]=fileparts_uvmat(get(handles.FileIndex,'String'));
554set(handles.i1,'String',num2str(i1));
555set(handles.i2,'String',num2str(i2));
556set(handles.j1,'String',num2str(j1));
557set(handles.j2,'String',num2str(j2));
558
559% refresh the current field view
560run0_Callback(hObject, eventdata, handles)
561
562%------------------------------------------------------------------------
563% --- Called by action in FileIndex_1 edit box
564function FileIndex_1_Callback(hObject, eventdata, handles)
565%------------------------------------------------------------------------
566run0_Callback(hObject, eventdata, handles)
567
568%------------------------------------------------------------------------
569% --- Called by action in NomType edit box
570function NomType_Callback(hObject, eventdata, handles)
571%------------------------------------------------------------------------
572i1=str2num(get(handles.i1,'String'));
573i2=str2num(get(handles.i2,'String'));
574j1=str2num(get(handles.j1,'String'));
575j2=str2num(get(handles.j2,'String'));
576FileIndex=fullfile_uvmat('','','','',get(handles.NomType,'String'),i1,i2,j1,j2);
577set(handles.FileIndex,'String',FileIndex)
578% refresh the current settings and refresh the field view
579RootPath_Callback(hObject,eventdata,handles)
580
581%------------------------------------------------------------------------
582% --- Called by action in NomType edit box
583function NomType_1_Callback(hObject, eventdata, handles)
584%------------------------------------------------------------------------
585i1=str2num(get(handles.i1,'String'));
586i2=str2num(get(handles.i2,'String'));
587j1=str2num(get(handles.j1,'String'));
588j2=str2num(get(handles.j2,'String'));
589FileIndex=fullfile_uvmat('','','','',get(handles.NomType_1,'String'),i1,i2,j1,j2);
590set(handles.FileIndex_1,'String',FileIndex)
591% refresh the current settings and refresh the field view
592RootPath_1_Callback(hObject,eventdata,handles)
593
[387]594%------------------------------------------------------------------------
595% --- Fills the edit boxes RootPath, RootFile,NomType...from an input file name 'fileinput'
[406]596function display_file_name(handles,fileinput,index)
[387]597%------------------------------------------------------------------------
598%% look for the input file existence
599if ~exist(fileinput,'file')
600    msgbox_uvmat('ERROR',['input file ' fileinput  ' does not exist'])
601    return
602end
603
604%% set the mouse pointer to 'watch'
605set(handles.uvmat,'Pointer','watch')
606set(handles.RootPath,'BackgroundColor',[1 1 0])
607drawnow
608
[406]609%% define the relevant handles for the first field series (index=1) or the second file series (index=2)
[387]610if ~exist('index','var')
611    index=1;
612end
613if index==1
614    handles_RootPath=handles.RootPath;
615    handles_SubDir=handles.SubDir;
616    handles_RootFile=handles.RootFile;
617    handles_FileIndex=handles.FileIndex;
618    handles_NomType=handles.NomType;
619    handles_FileExt=handles.FileExt;
620elseif index==2
621    handles_RootPath=handles.RootPath_1;
622    handles_SubDir=handles.SubDir_1;
623    handles_RootFile=handles.RootFile_1;
624    handles_FileIndex=handles.FileIndex_1;
625    handles_NomType=handles.NomType_1;
626    handles_FileExt=handles.FileExt_1;
627    set(handles.RootPath_1,'Visible','on')
628    set(handles.RootFile_1,'Visible','on')
629    set(handles.SubDir_1,'Visible','on');
630    set(handles.FileIndex_1,'Visible','on');
631    set(handles.FileExt_1,'Visible','on');
632    set(handles.NomType_1,'Visible','on');
633end
634
635%% detect root name, nomenclature and indices in the input file name:
[398]636[FilePath,FileName,FileExt]=fileparts(fileinput);
[387]637% detect the file type, get the movie object if relevant, and look for the corresponding file series:
[398]638% the root name and indices may be corrected by including the first index i1 if a corresponding xml file exists
639[RootPath,SubDir,RootFile,i1_series,i2_series,j1_series,j2_series,NomType,FileType,MovieObject,i1,i2,j1,j2]=find_file_series(FilePath,[FileName FileExt]);
[387]640
641%% open the file or fill the GUI uvmat according to the detected file type
642switch FileType
643    case ''
644        msgbox_uvmat('ERROR','invalid input file type')
645    case 'txt'
646        edit(fileinput)
647    case 'figure'                           %display matlab figure
648        hfig=open(fileinput);
649        set(hfig,'WindowButtonMotionFcn','mouse_motion')%set mouse action functio
650        set(hfig,'WindowButtonUpFcn','mouse_up')%set mouse click action function
651        set(hfig,'WindowButtonUpFcn','mouse_down')%set mouse click action function
[503]652    case 'xml'                % edit xml files
[507]653        t=xmltree(fileinput);
[508]654        % the xml file marks a project or project link, open datatree_browser
[507]655        if strcmp(get(t,1,'name'),'Project')&& exist(regexprep(fileinput,'.xml$',''),'dir')
[503]656            datatree_browser(fileinput)
[508]657        else % other xml file, open the xml editor
[503]658            editxml(fileinput);
659        end
[508]660    case 'xls'% Excel file opended by editxml
[387]661        editxml(fileinput);
662    otherwise
663        set(handles_RootPath,'String',RootPath);
664        rootname=fullfile(RootPath,SubDir,RootFile);
665        set(handles_SubDir,'String',['/' SubDir]);
666        set(handles_RootFile,'String',['/' RootFile]); %display the separator
667        indices=fileinput(length(rootname)+1:end);
668        indices(end-length(FileExt)+1:end)=[]; %remove extension
669        set(handles_FileIndex,'String',indices);
670        set(handles_NomType,'String',NomType);
671        set(handles_FileExt,'String',FileExt);
672        if index==1
673            % fill file index counters if the first file series is opened
674            set(handles.i1,'String',num2str(i1));
675            set(handles.i2,'String',num2str(i2));
676            set(handles.j1,'String',num2stra(j1,NomType));
677            set(handles.j2,'String',num2stra(j2,NomType));
[515]678        else %read the current field index to synchronise with the first series
679            i1_s=str2num(get(handles.i1,'String'));
680            i2_0=str2num(get(handles.i2,'String'));
681            if ~isempty(i2_0)
682                i2_s=i2_0;
683            else
684               i2_s=i2;
685            end
686            j1_0=stra2num(get(handles.j1,'String'));
687            if ~isempty(j1_0)
688                j1_s=j1_0;
689            else
690                j1_s=j1;
691            end
692            j2_0=stra2num(get(handles.j2,'String'));
693            if ~isempty(j2_0)
694                j2_s=j2_0;
695            else
696                j2_s=j2;
697            end
[387]698        end
699       
700        % synchronise indices of the second  input file if it exists
701        if get(handles.SubField,'Value')==1% if the subfield button is activated, update the field numbers
702            Input=read_GUI(handles.InputFile);
703            if ~isfield(Input,'RootPath_1')||strcmp(Input.RootPath_1,'"')
704                Input.RootPath_1=Input.RootPath;
705            end
706            if ~isfield(Input,'SubDir_1')||strcmp(Input.SubDir_1,'"')
707                Input.SubDir_1=Input.SubDir;
708            end
709            if ~isfield(Input,'RootFile_1')||strcmp(Input.RootFile_1,'"')
710                Input.RootFile_1=Input.RootFile;
711            end
[405]712            if ~isfield(Input,'FileExt_1')||strcmp(Input.FileExt_1,'"')
713                Input.FileExt_1=Input.FileExt;
714            end
715            if ~isfield(Input,'NomType_1')||strcmp(Input.NomType_1,'"')
716                Input.NomType_1=Input.NomType;
717            end
[387]718            %updtate the indices of the second field series to correspond to the newly opened one
[515]719            FileName_1=fullfile_uvmat(Input.RootPath_1,Input.SubDir_1,Input.RootFile_1,Input.FileExt_1,Input.NomType_1,i1_s,i2_s,j1_s,j2_s);
[387]720            if exist(FileName_1,'file')
[515]721                FileIndex_1=fullfile_uvmat('','','','',Input.NomType_1,i1_s,i2_s,j1_s,j2_s);
722            else
[387]723                FileIndex_1=fullfile_uvmat('','','','',Input.NomType_1,i1,i2,j1,j2);
[408]724                msgbox_uvmat('WARNING','unable to synchronise the indices of the two series')
[387]725            end
[515]726            set(handles.FileIndex_1,'String',FileIndex_1)
[387]727        end
728       
729        %enable other menus
730        set(handles.MenuOpen_1,'Enable','on')
731        set(handles.MenuFile_1_1,'Enable','on')
732        set(handles.MenuFile_2_1,'Enable','on')
733        set(handles.MenuFile_3_1,'Enable','on')
734        set(handles.MenuFile_4_1,'Enable','on')
735        set(handles.MenuFile_5_1,'Enable','on')
736        set(handles.MenuExport,'Enable','on')
737        set(handles.MenuExportFigure,'Enable','on')
738        set(handles.MenuExportMovie,'Enable','on')
739        set(handles.MenuTools,'Enable','on')
[503]740
[387]741        % initiate input file series and refresh the current field view:     
742        update_rootinfo(handles,i1_series,i2_series,j1_series,j2_series,FileType,MovieObject,index);
743
744end
745
[503]746%% update list of recent files in the menubar and save it for future opening
747MenuFile=[{get(handles.MenuFile_1,'Label')};{get(handles.MenuFile_2,'Label')};...
748    {get(handles.MenuFile_3,'Label')};{get(handles.MenuFile_4,'Label')};{get(handles.MenuFile_5,'Label')}];
749str_find=strcmp(fileinput,MenuFile);
750if isempty(find(str_find,1))
751    MenuFile=[{fileinput};MenuFile];%insert the current file if not already in the list
752end
753for ifile=1:min(length(MenuFile),5)
754    eval(['set(handles.MenuFile_' num2str(ifile) ',''Label'',MenuFile{ifile});'])
755    eval(['set(handles.MenuFile_' num2str(ifile) '_1,''Label'',MenuFile{ifile});'])
756end
757dir_perso=prefdir;
758profil_perso=fullfile(dir_perso,'uvmat_perso.mat');
759if exist(profil_perso,'file')
760    save (profil_perso,'MenuFile','-append'); %store the file names for future opening of uvmat
761else
762    save (profil_perso,'MenuFile','-V6'); %store the file names for future opening of uvmat
763end
764
[387]765%% set back the mouse pointer to arrow
766set(handles.uvmat,'Pointer','arrow')
767
768
769%------------------------------------------------------------------------
770% --- Update information about a new field series (indices to scan, timing,
771%     calibration from an xml file, then refresh current plots
[515]772
[397]773function update_rootinfo(handles,i1_series,i2_series,j1_series,j2_series,FileType,VideoObject,index)
[387]774%------------------------------------------------------------------------
775%% define the relevant handles depending on the index (1=first file series, 2= second file series)
776if ~exist('index','var')
777    index=1;
778end
779if index==1
780    handles_RootPath=handles.RootPath;
781    handles_Fields=handles.Fields;
782elseif index==2
783    handles_RootPath=handles.RootPath_1;
784    handles_Fields=handles.Fields_1;
785end
786
787set(handles_RootPath,'BackgroundColor',[1 1 0])
788drawnow
789set(handles.Fields,'UserData',[])% reinialize data from uvmat opening
790UvData=get(handles.uvmat,'UserData');%huvmat=handles of the uvmat interface
791UvData.NewSeries=1; %flag for run0: begin a new series
[511]792UvData.FileName_1='';% name of the current second field (used to detect a  constant field during file scanning)
[387]793UvData.FileType{index}=FileType;
794UvData.i1_series{index}=i1_series;
795UvData.i2_series{index}=i2_series;
796UvData.j1_series{index}=j1_series;
797UvData.j2_series{index}=j2_series;
798set(handles.FixVelType,'Value',0); %desactivate fixed veltype
799if index==1
800    [RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes(handles);
801else
802    [RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes_1(handles);
803end
804FileName=[fullfile(RootPath,SubDir,RootFile) FileIndices FileExt];
805FileBase=fullfile(RootPath,RootFile);
806if ~exist(FileName,'file')
807   msgbox_uvmat('ERROR',['input file ' FileName ' not found']);
808    return
809end
810
811%% read timing and total frame number from the current file (movie files) !! may be overrid by xml file
812XmlData.Time=[];%default
813XmlData.GeometryCalib=[];%default
[494]814TimeUnit='';%default
815Time=[];
[387]816testima=0; %test for image input
817imainfo=[];
818ColorType='falsecolor'; %default
[397]819hhh=[];
820UvData.MovieObject{index}=VideoObject;
821if ~isempty(VideoObject)
822    imainfo=get(VideoObject);
[387]823    testima=1;
824    TimeUnit='s';
[494]825    if isempty(j1_series); %frame index along i
826        Time=(0:1/imainfo.FrameRate:(imainfo.NumberOfFrames)/imainfo.FrameRate)';
827    else
828    Time=ones(size(i1_series,1),1)*(0:1/imainfo.FrameRate:(imainfo.NumberOfFrames)/imainfo.FrameRate);
829    end
[484]830    %nbfield=imainfo.NumberOfFrames;
[397]831    set(handles.Dt_txt,'String',['Dt=' num2str(1000/imainfo.FrameRate) 'ms']);%display the elementary time interval in millisec
832    ColorType='truecolor';
[387]833elseif ~isempty(FileExt(2:end))&&(~isempty(imformats(FileExt(2:end))) || isequal(FileExt,'.vol'))%&& isequal(NomType,'*')% multi-frame image
834    testima=1;
835    if ~isequal(SubDir,'')
[397]836        RootFile=get(handles.RootFile,'String');
[387]837        imainfo=imfinfo([fullfile(RootPath,SubDir,RootFile) FileIndices FileExt]);
838    else
839        imainfo=imfinfo([FileBase FileIndices FileExt]);
840    end
841    ColorType=imainfo.ColorType;%='truecolor' for color images
842    if length(imainfo) >1 %case of image with multiple frames
[484]843       % nbfield=length(imainfo);
844       % nbfield_j=1;
[397]845    end
[387]846end
847if isfield(imainfo,'Width') && isfield(imainfo,'Height')
848    if length(imainfo)>1
849        set(handles.num_Npx,'String',num2str(imainfo(1).Width));%fills nbre of pixels x box
850        set(handles.num_Npy,'String',num2str(imainfo(1).Height));%fills nbre of pixels x box
851    else
852        set(handles.num_Npx,'String',num2str(imainfo.Width));%fills nbre of pixels x box
853        set(handles.num_Npy,'String',num2str(imainfo.Height));%fills nbre of pixels x box
854    end
855else
856    set(handles.num_Npx,'String','');%fills nbre of pixels x box
857    set(handles.num_Npy,'String','');%fills nbre of pixels x box
858end
859set(handles.CheckBW,'Value',strcmp(ColorType,'grayscale'))% select handles.CheckBW if grayscale image
860
861%% read parameters (time, geometric calibration..) from a documentation file (.xml advised)
[469]862XmlFileName=find_imadoc(RootPath,SubDir,RootFile,FileExt);
863[tild,tild,DocExt]=fileparts(XmlFileName);
[387]864warntext='';%default warning message
865NbSlice=1;%default
866set(handles.RootPath,'BackgroundColor',[1 1 1])
[469]867if ~isempty(XmlFileName)
[387]868    set(handles.view_xml,'Visible','on')
869    set(handles.view_xml,'BackgroundColor',[1 1 0])
870    set(handles.view_xml,'String','view .xml')
871    drawnow
[469]872    [XmlDataRead,warntext]=imadoc2struct(XmlFileName);
[387]873    if ~isempty(warntext)
[456]874        msgbox_uvmat('WARNING',warntext)
[387]875    end
[456]876    if isempty(XmlDataRead)
877        set(handles.view_xml,'Visible','off')
878    else
879        set(handles.view_xml,'String',['view ' DocExt])   
880        XmlData=XmlDataRead;
881        if isfield(XmlData,'TimeUnit')
882            if isfield(XmlData,'TimeUnit')&& ~isempty(XmlData.TimeUnit)
883                TimeUnit=XmlData.TimeUnit;
884            end
[387]885        end
[456]886        set(handles.view_xml,'BackgroundColor',[1 1 1])
887        drawnow
888        if isfield(XmlData, 'GeometryCalib') && ~isempty(XmlData.GeometryCalib)
889            if isfield(XmlData.GeometryCalib,'VolumeScan') && isequal(XmlData.GeometryCalib.VolumeScan,'y')
[497]890                set (handles.num_NbSlice,'String','volume')
[456]891            end
892            hgeometry_calib=findobj('tag','geometry_calib');
893            if ~isempty(hgeometry_calib)
894                GUserData=get(hgeometry_calib,'UserData');
[469]895                if ~(isfield(GUserData,'XmlInputFile') && strcmp(GUserData.XmlInputFile,XmlFileName))
[456]896                    answer=msgbox_uvmat('INPUT_Y-N','replace the display of geometry_calib with the new input data?');
897                    if strcmp(answer,'Yes')
[469]898                        geometry_calib(XmlFileName);%diplay the new calibration points and parameters in geometry_calib
[456]899                    end
[387]900                end
901            end
902        end
[441]903    end
[387]904end
[494]905if ~(isfield(XmlData,'Time')&& ~isempty(XmlData.Time))
906    XmlData.Time=Time; %time set by video
907end
[387]908
909%% store last index in handles.lat_i and .last_j
[496]910nbfield=max(max(max(i2_series)));
[387]911if isempty(nbfield)
[496]912    nbfield=max(max(max(i1_series)));
[387]913end
[496]914nbfield_j=max(max(max(j2_series)));
[387]915if isempty(nbfield_j)
[496]916    nbfield_j=max(max(max(j2_series)));
[387]917end
918if ~isempty(XmlData.Time)
919    %transform .Time to a column vector if it is a line vector the nomenclature uses a single index
[441]920    if isequal(size(XmlData.Time,1),1)
[387]921        NomType=get(handles.NomType,'String');
[456]922        XmlData.Time=(XmlData.Time)';
[387]923    end
924end
925last_i_cell=get(handles.last_i,'String');
926if isempty(nbfield)
927    last_i_cell{1}='';
928else
929    last_i_cell{1}=num2str(nbfield);
930end
931set(handles.last_i,'String',last_i_cell)
932last_j_cell=get(handles.last_j,'String');
933if isempty(nbfield_j)
934     last_j_cell{1}='';
935else
936     last_j_cell{1}=num2str(nbfield_j);
937end
938set(handles.last_j,'String',last_j_cell);
939
940%% store geometric calibration in UvData
941if isfield(XmlData,'GeometryCalib')
942    GeometryCalib=XmlData.GeometryCalib;
943    if isempty(GeometryCalib)
944        set(handles.pxcm,'String','')
945        set(handles.pycm,'String','')
946        set(handles.transform_fct,'Value',1); %  no transform by default
947    else
948        if (isfield(GeometryCalib,'R')&& ~isequal(GeometryCalib.R(2,1),0) && ~isequal(GeometryCalib.R(1,2),0)) ||...
949            (isfield(GeometryCalib,'kappa1')&& ~isequal(GeometryCalib.kappa1,0))
950            set(handles.pxcm,'String','var')
951            set(handles.pycm,'String','var')
952        elseif isfield(GeometryCalib,'fx_fy')
953            pixcmx=GeometryCalib.fx_fy(1);%*GeometryCalib.R(1,1)*GeometryCalib.sx/(GeometryCalib.Tz*GeometryCalib.dpx);
954            pixcmy=GeometryCalib.fx_fy(2);%*GeometryCalib.R(2,2)/(GeometryCalib.Tz*GeometryCalib.dpy);
955            set(handles.pxcm,'String',num2str(pixcmx))
956            set(handles.pycm,'String',num2str(pixcmy))
957        end
958        if ~get(handles.CheckFixLimits,'Value')
[515]959            set(handles.transform_fct,'Value',3); % phys transform by default if fixedLimits is off
[387]960        end
[508]961        if isfield(GeometryCalib,'SliceCoord')           
[387]962           siz=size(GeometryCalib.SliceCoord);
963           if siz(1)>1
964               NbSlice=siz(1);
965               set(handles.slices,'Visible','on')
966               set(handles.slices,'Value',1)
967           end
968           if isfield(GeometryCalib,'VolumeScan') && isequal(GeometryCalib.VolumeScan,'y')
[497]969               set(handles.num_NbSlice,'String','volume')
[387]970           else
[497]971               set(handles.num_NbSlice,'String',num2str(NbSlice))
[387]972           end
973           slices_Callback([],[], handles)
974        end           
975    end
976end
977
978%% update the data attached to the uvmat interface
979if ~isempty(TimeUnit)
980    set(handles.time_txt,'String',['time (' TimeUnit ')'])
981end
982UvData.TimeUnit=TimeUnit;
983UvData.XmlData{index}=XmlData;
984UvData.NewSeries=1;
985% UvData.MovieObject=MovieObject;
986
987%display warning message
988if ~isequal(warntext,'')
989    msgbox_uvmat('WARNING',warntext);
990end
991
992%% set default options in menu 'Fields'
[517]993switch FileType
994    case {'civx','civdata'}
995            [FieldList,ColorList]=calc_field;
996            set(handles_Fields,'String',[{'image'};FieldList;{'get_field...'}]);%standard menu for civx data
997            set(handles_Fields,'Value',2) % set menu to 'velocity
998          %  col_vec=FieldList;
999           % col_vec(1)=[];%remove 'velocity' option for vector color (must be a scalar)
1000           set(handles.ColorScalar,'Value',1)
1001            set(handles.ColorScalar,'String',ColorList)
[521]1002            set(handles.Vectors,'Visible','on')
[517]1003            set(handles.Coord_x,'Value',1);
1004           set(handles.Coord_x,'String',{'X'});
1005           set(handles.Coord_y,'Value',1);
1006           set(handles.Coord_y,'String',{'Y'});
1007    case 'netcdf'
[387]1008        set(handles_Fields,'Value',1)
1009        set(handles_Fields,'String',{'get_field...'})
[517]1010        hget_field=get_field(FileName);
1011        hhget_field=guidata(hget_field);
1012        get_field('RUN_Callback',hhget_field.RUN,[],hhget_field);
1013%             set(handles_Fields,'Value',1) % set menu to 'get_field...
1014%             set(handles_Fields,'String',{'get_field...'})
1015%             col_vec={'get_field...'};
1016%
1017%         set(handles.ColorScalar,'String',col_vec)
1018    otherwise
1019        set(handles_Fields,'Value',1) % set menu to 'image'
1020        set(handles_Fields,'String',{'image'})
1021                    set(handles.Coord_x,'Value',1);
1022           set(handles.Coord_x,'String',{'AX'});
1023           set(handles.Coord_y,'Value',1);
1024           set(handles.Coord_y,'String',{'AY'});
[387]1025end
1026set(handles.uvmat,'UserData',UvData)
1027
1028%% set index navigation options and refresh plots
1029scan_option='i';%default
1030state_j='off'; %default
1031if index==2
1032    if get(handles.scan_j,'Value')
[494]1033        scan_option='j'; %keep the scan option for the second file series
[387]1034    end
1035    if strcmp(get(handles.j1,'Visible'),'on')
1036        state_j='on';
1037    end
1038end
[515]1039[ref_j,ref_i]=find(squeeze(i1_series(1,:,:)));
[387]1040if ~isempty(j1_series)
1041        state_j='on';
[494]1042        if index==1
[515]1043            if isequal(ref_i,ref_i(1)*ones(size(ref_j)))% if ref_i is always equal to its first value
[494]1044                scan_option='j'; %scan j indext               
1045            end
1046        end
[387]1047end
1048if isequal(scan_option,'i')
[494]1049    diff_ref_i=diff(ref_i,1);
1050    if isempty(diff_ref_i)
1051        diff_ref_i=1;
1052    end
1053    if isequal (diff_ref_i,diff_ref_i(1)*ones(size(diff_ref_i)))
[511]1054        set(handles.num_IndexIncrement,'String',num2str(diff_ref_i(1)))
[494]1055    end
[387]1056     set(handles.scan_i,'Value',1)
1057     scan_i_Callback([],[], handles);
1058else
[494]1059    diff_ref_j=diff(ref_j);
1060    if isempty(diff_ref_j)
1061        diff_ref_j=1;
1062    end
1063    if isequal (diff_ref_j,diff_ref_j(1)*ones(size(diff_ref_j)))
[511]1064        set(handles.num_IndexIncrement,'String',num2str(diff_ref_j(1)))
[494]1065    end
[387]1066     set(handles.scan_j,'Value',1)
1067     scan_j_Callback([],[], handles);
1068end
1069set(handles.scan_j,'Visible',state_j)
1070set(handles.j1,'Visible',state_j)
1071set(handles.j2,'Visible',state_j)
1072set(handles.last_j,'Visible',state_j);
1073set(handles.frame_j,'Visible',state_j);
1074set(handles.j_text,'Visible',state_j);
1075if ~isempty(i2_series)||~isempty(j2_series)
1076    set(handles.CheckFixPair,'Visible','on')
1077elseif index==1
1078    set(handles.CheckFixPair,'Visible','off')
1079end
1080
[508]1081%% apply the effect of the transform fct and view the field 
[515]1082transform=get(handles.path_transform,'UserData');
1083if index==2 && (~isa(transform,'function_handle')||nargin(transform)<3)
1084    set(handles.transform_fct,'value',2); % set transform to sub_field if the current fct doe not accept two input fields
1085end
[508]1086transform_fct_Callback([],[],handles)
[387]1087mask_test=get(handles.CheckMask,'value');
1088if mask_test
1089    MaskData=get(handles.CheckMask,'UserData');
1090    if isfield(MaskData,'maskhandle') && ishandle(MaskData.maskhandle)
1091          delete(MaskData.maskhandle)    %delete old mask
1092    end
1093    CheckMask_Callback([],[],handles)
1094end
1095
1096%------------------------------------------------------------------------
1097% --- switch file index scanning options scan_i and scan_j in an exclusive way
1098function scan_i_Callback(hObject, eventdata, handles)
1099%------------------------------------------------------------------------
1100if get(handles.scan_i,'Value')==1
1101    set(handles.scan_i,'BackgroundColor',[1 1 0])
1102    set(handles.scan_j,'Value',0)
1103else
1104    set(handles.scan_i,'BackgroundColor',[0.831 0.816 0.784])
1105    set(handles.scan_j,'Value',1)
1106end
1107scan_j_Callback(hObject, eventdata, handles)
1108
1109%------------------------------------------------------------------------
1110% --- switch file index scanning options scan_i and scan_j in an exclusive way
1111function scan_j_Callback(hObject, eventdata, handles)
1112%------------------------------------------------------------------------
1113if get(handles.scan_j,'Value')==1
1114    set(handles.scan_j,'BackgroundColor',[1 1 0])
1115    set(handles.scan_i,'Value',0)
1116    set(handles.scan_i,'BackgroundColor',[0.831 0.816 0.784])
1117%     NomType=get(handles.NomType,'String');
1118%     switch NomType
1119%     case {'_1_1-2','#_ab','%3dab'},% pair with j index
1120%         set(handles.CheckFixPair,'Visible','on')% option fixed pair on/off made visible (choice of avaible pair with buttons + and - if ='off')
1121%     otherwise
1122%         set(handles.CheckFixPair,'Visible','off')
1123%     end
1124else
1125    set(handles.scan_j,'BackgroundColor',[0.831 0.816 0.784])
1126    set(handles.scan_i,'Value',1)
1127    set(handles.scan_i,'BackgroundColor',[1 1 0])
1128    set(handles.CheckFixPair,'Visible','off')
1129end
1130
1131%------------------------------------------------------------------------
1132function i1_Callback(hObject, eventdata, handles)
1133%------------------------------------------------------------------------
[515]1134update_ij(handles,1)
[387]1135
1136%------------------------------------------------------------------------
1137function i2_Callback(hObject, eventdata, handles)
1138%------------------------------------------------------------------------
[515]1139update_ij(handles,2)
[387]1140
1141%------------------------------------------------------------------------
1142function j1_Callback(hObject, eventdata, handles)
1143%------------------------------------------------------------------------
[515]1144update_ij(handles,3)
[387]1145
1146%------------------------------------------------------------------------
1147function j2_Callback(hObject, eventdata, handles)
1148%------------------------------------------------------------------------
[515]1149update_ij(handles,4)
[387]1150
1151%------------------------------------------------------------------------
[515]1152%--- update the index display after action on edit boxes i1, i2, j1 or j2
1153function update_ij(handles,index_rank)
1154NomType=get(handles.NomType,'String');
1155indices=get(handles.FileIndex,'String');
1156[tild,tild,tild,i1,i2,j1,j2]=fileparts_uvmat(indices);% the indices for the second series taken from FileIndex
1157switch index_rank
1158    case 1
1159        indices=fullfile_uvmat('','','','',NomType,stra2num(get(handles.i1,'String')),i2,j1,j2);
1160        set(handles.i1,'BackgroundColor',[0.7 0.7 0.7])% mark the edit box in grey, then RUN0 will mark it in white for confirmation
1161    case 2
1162        indices=fullfile_uvmat('','','','',NomType,i1,stra2num(get(handles.i2,'String')),j1,j2);
1163        set(handles.i2,'BackgroundColor',[0.7 0.7 0.7])% mark the edit box in grey, then RUN0 will mark it in white for confirmation
1164    case 3
1165        indices=fullfile_uvmat('','','','',NomType,i1,i2,stra2num(get(handles.j1,'String')),j2);
1166        set(handles.j1,'BackgroundColor',[0.7 0.7 0.7])% mark the edit box in grey, then RUN0 will mark it in white for confirmation
1167    case 4
1168        indices=fullfile_uvmat('','','','',NomType,i1,i2,j1,stra2num(get(handles.j2,'String')));
1169        set(handles.j2,'BackgroundColor',[0.7 0.7 0.7])% mark the edit box in grey, then RUN0 will mark it in white for confirmation
1170end
1171set(handles.FileIndex,'String',indices)
1172set(handles.FileIndex,'BackgroundColor',[0.7 0.7 0.7])% mark the edit box in grey, then RUN0 will mark it in white for confirmation
1173% update the second index if relevant
1174if strcmp(get(handles.FileIndex_1,'Visible'),'on')
1175    NomType_1=get(handles.NomType_1,'String');
1176    indices_1=get(handles.FileIndex_1,'String');
1177    [tild,tild,tild,i1_1,i2_1,j1_1,j2_1]=fileparts_uvmat(indices_1);% the indices for the second series taken from FileIndex_1
1178    switch index_rank
1179        case 1
1180            indices_1=fullfile_uvmat('','','','',NomType_1,stra2num(get(handles.i1,'String')),i2_1,j1_1,j2_1);
1181        case 2
1182            indices_1=fullfile_uvmat('','','','',NomType_1,i1_1,stra2num(get(handles.i2,'String')),j1_1,j2_1);
1183        case 3
1184            indices_1=fullfile_uvmat('','','','',NomType_1,i1_1,i2_1,stra2num(get(handles.j1,'String')),j2_1);
1185        case 4
1186            indices_1=fullfile_uvmat('','','','',NomType_1,i1_1,i2_1,j1_1,stra2num(get(handles.j2,'String')));
1187    end
1188    set(handles.FileIndex_1,'String',indices_1)
1189    set(handles.FileIndex_1,'BackgroundColor',[0.7 0.7 0.7])% mark the edit box in grey, then RUN0 will mark it in white for confirmation
1190end
1191   
1192%------------------------------------------------------------------------
1193
1194%------------------------------------------------------------------------
[387]1195function slices_Callback(hObject, eventdata, handles)
1196%------------------------------------------------------------------------
1197if get(handles.slices,'Value')==1
1198    set(handles.slices,'BackgroundColor',[1 1 0])
[497]1199    set(handles.num_NbSlice,'Visible','on')
[387]1200    set(handles.z_text,'Visible','on')
1201    set(handles.z_index,'Visible','on')
[497]1202    num_NbSlice_Callback(hObject, eventdata, handles)
[387]1203else
[497]1204    set(handles.num_NbSlice,'Visible','off')
[387]1205    set(handles.slices,'BackgroundColor',[0.7 0.7 0.7])
1206    set(handles.z_text,'Visible','off')
1207    set(handles.z_index,'Visible','off')
1208    set(handles.masklevel,'Value',1)
1209    set(handles.masklevel,'String',{'1'})
1210end
1211
1212%------------------------------------------------------------------------
[497]1213function num_NbSlice_Callback(hObject, eventdata, handles)
[387]1214%------------------------------------------------------------------------
[497]1215nb_slice_str=get(handles.num_NbSlice,'String');
[387]1216if isequal(nb_slice_str,'volume')
1217    num=stra2num(get(handles.j1,'String'));
1218    last_j=get(handles.last_j,'String');
1219    nbslice=str2double(last_j{1});
1220else
1221    num=str2double(get(handles.i1,'String'));
[497]1222    nbslice=str2double(get(handles.num_NbSlice,'String'));
[387]1223end
1224z=mod(num-1,nbslice)+1;
1225set(handles.z_index,'String',num2str(z))
1226for ilist=1:nbslice
1227    list_index{ilist,1}=num2str(ilist);
1228end   
1229set(handles.masklevel,'String',list_index)
1230set(handles.masklevel,'Value',z)
1231
1232%------------------------------------------------------------------------
1233% --- Executes on button press in view_xml.
1234function view_xml_Callback(hObject, eventdata, handles)
1235%------------------------------------------------------------------------
1236%[FileName,RootPath,FileBase,FileIndices,FileExt]=read_file_boxes(handles);
1237 [RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes(handles);
1238FileBase=fullfile(RootPath,RootFile);
1239option=get(handles.view_xml,'String');
1240if isequal(option,'view .xml')
[494]1241    FileXml=fullfile(RootPath,[SubDir '.xml']);
1242    if ~exist(FileXml,'file')% case of civ files , removes the extension for subdir
1243        FileXml=fullfile(RootPath,[regexprep(SubDir,'\..+$','') '.xml']);
1244    end
[387]1245    heditxml=editxml(FileXml);
1246end
1247
1248%------------------------------------------------------------------------
1249% --- Executes on button press in CheckMask.
1250function CheckMask_Callback(hObject, eventdata, handles)
1251%------------------------------------------------------------------------
1252%case of view mask selection
1253if isequal(get(handles.CheckMask,'Value'),1)
1254     [RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes(handles);
1255     FileBase=fullfile(RootPath,RootFile);
1256    num_i1=stra2num(get(handles.i1,'String'));
1257    num_j1=stra2num(get(handles.j1,'String'));
1258    currentdir=pwd; 
1259    cd(RootPath);
1260    maskfiles=dir('*_*mask_*.png');%look for a mask file
1261    cd(currentdir);%come back to the working directory
1262    mdetect=0;
1263    if ~isempty(maskfiles)
1264        for ilist=1:length(maskfiles)
1265            maskname=maskfiles(ilist).name;% take the first mask file in the list
1266            [tild,tild,tild,tild,tild,tild,tild,MaskExt,Mask_NomType{ilist}]=fileparts_uvmat(maskname);
1267             [tild,Name]=fileparts(maskname);
1268            Namedouble=double(Name);
1269            val=(48>Namedouble)|(Namedouble>57);% select the non-numerical characters
1270            ind_mask=findstr('mask',Name);
1271            i=ind_mask-1;
1272            while val(i)==0 && i>0
1273                i=i-1;
1274            end
1275            nbmask_str=str2num(Name(i+1:ind_mask-1));
1276            if ~isempty(nbmask_str)
1277                nbslice(ilist)=nbmask_str; % number of different masks (slices)
1278            end
1279        end
1280        if isequal(min(nbslice),max(nbslice))
1281            nbslice=nbslice(1);
1282        else
1283            msgbox_uvmat('ERROR','several inconsistent mask sets coexist in the current image directory')
1284            return
1285        end
1286        if ~isempty(nbslice) && Name(i)=='_'
1287            Mask.Base=[FileBase Name(i:ind_mask+3)];
1288            Mask.NbSlice=nbslice;
1289            num_i1=mod(num_i1-1,nbslice)+1;
1290            Mask.NomType=regexprep(Mask_NomType{1},'0','');%remove '0' in nom type for masks
1291            [RootPath,RootFile]=fileparts(Mask.Base);
1292            maskname=fullfile_uvmat(RootPath,'',RootFile,'.png',Mask.NomType,num_i1,[],num_j1);
1293            %maskname=name_generator(Mask.Base,num_i1,num_j1,'.png',Mask.NomType);%
1294            mdetect=exist(maskname,'file');
1295            if mdetect
[497]1296                set(handles.num_NbSlice,'String',Name(i+1:ind_mask-1));
1297                set(handles.num_NbSlice,'BackgroundColor',[1 1 0])
[387]1298                set(handles.CheckMask,'UserData',Mask);
1299                set(handles.CheckMask,'BackgroundColor',[1 1 0])
1300                if nbslice > 1
1301                    set(handles.slices,'value',1)
1302                    slices_Callback(hObject, eventdata, handles)
1303                end
1304            end
1305        end
1306    end
1307    errormsg=[];%default
1308    if mdetect==0
1309        [FileName, PathName, filterindex] = uigetfile( ...
1310            {'*.png', ' (*.png)';
1311            '*.png',  '.png files '; ...
1312            '*.*', 'All Files (*.*)'}, ...
1313            'Pick a mask file *.png',FileBase);
1314        maskname=fullfile(PathName,FileName);
1315        if ~exist(maskname,'file')
1316            errormsg='no file browsed';
1317        end
[444]1318        [RootDir,SubDir,RootFile,tild,tild,tild,tild,tild,Mask.NomType]=fileparts_uvmat(maskname);
1319        Mask.Base=fullfile(RootDir,SubDir,RootFile);
[387]1320        Mask.NbSlice=1;
1321        set(handles.CheckMask,'UserData',Mask);
1322        set(handles.CheckMask,'BackgroundColor',[1 1 0])
1323    end
1324    if isempty(errormsg)
1325        errormsg=update_mask(handles,num_i1,num_j1);
1326    end
1327    if ~isempty(errormsg)
1328            set(handles.CheckMask,'Value',0)
1329            set(handles.CheckMask,'BackgroundColor',[0.7 0.7 0.7])
1330     end
1331else % desactivate mask display
1332    MaskData=get(handles.CheckMask,'UserData');
1333    if isfield(MaskData,'maskhandle') && ishandle(MaskData.maskhandle)
1334          delete(MaskData.maskhandle)   
1335    end
1336    set(handles.CheckMask,'UserData',[])   
1337    UvData=get(handles.uvmat,'UserData');
1338    if isfield(UvData,'MaskName')
1339        UvData=rmfield(UvData,'MaskName');
1340        set(handles.uvmat,'UserData',UvData)
1341    end
1342    set(handles.CheckMask,'BackgroundColor',[0.7 0.7 0.7])
1343end
1344
1345%------------------------------------------------------------------------
1346function errormsg=update_mask(handles,num_i1,num_j1)
1347%------------------------------------------------------------------------
1348errormsg=[];%default
1349MaskData=get(handles.CheckMask,'UserData');
1350if isfield(MaskData,'maskhandle')&& ishandle(MaskData.maskhandle)
1351    uistack(MaskData.maskhandle,'top');
1352end
1353num_i1_mask=mod(num_i1-1,MaskData.NbSlice)+1;
1354[RootPath,RootFile]=fileparts(MaskData.Base);
1355MaskName=fullfile_uvmat(RootPath,'',RootFile,'.png',MaskData.NomType,num_i1_mask,[],num_j1);
1356UvData=get(handles.uvmat,'UserData');
1357%update mask image if the mask is new
1358if ~ (isfield(UvData,'MaskName') && isequal(UvData.MaskName,MaskName))
1359    UvData.MaskName=MaskName; %update the recorded name on UvData
1360    set(handles.uvmat,'UserData',UvData);
1361    if ~exist(MaskName,'file')
1362        if isfield(MaskData,'maskhandle')&& ishandle(MaskData.maskhandle)
1363            delete(MaskData.maskhandle)   
1364        end
1365    else
1366        %read mask image
1367        Mask.AName='image';
1368        Mask.A=imread(MaskName);
1369        npxy=size(Mask.A);
1370        test_error=0;
1371        if length(npxy)>2
1372            errormsg=[MaskName ' is not a grey scale image'];
1373            return
1374        elseif ~isa(Mask.A,'uint8')
1375            errormsg=[MaskName ' is not a 8 bit grey level image'];
1376            return
1377        end
1378        Mask.AX=[0.5 npxy(2)-0.5];
1379        Mask.AY=[npxy(1)-0.5 0.5 ];
1380        Mask.CoordUnit='pixel';
1381        if isequal(get(handles.slices,'Value'),1)
[497]1382           NbSlice=str2num(get(handles.num_NbSlice,'String'));
[387]1383           num_i1=str2num(get(handles.i1,'String'));
1384           Mask.ZIndex=mod(num_i1-1,NbSlice)+1;
1385        end
1386        %px to phys or other transform on field
1387         menu_transform=get(handles.transform_fct,'String');
1388        choice_value=get(handles.transform_fct,'Value');
1389        transform_name=menu_transform{choice_value};%name of the transform fct  given by the menu 'transform_fct'
1390        transform_list=get(handles.transform_fct,'UserData');
1391        transform=transform_list{choice_value};
1392        if  ~isequal(transform_name,'') && ~isequal(transform_name,'px')
1393            if isfield(UvData,'XmlData') && isfield(UvData.XmlData{1},'GeometryCalib')%use geometry calib recorded from the ImaDoc xml file as first priority
1394                Calib=UvData.XmlData{1}.GeometryCalib;
1395                Mask=transform(Mask,UvData.XmlData{1});
1396            end
1397        end
1398        flagmask=Mask.A < 200;
1399       
1400        %make brown color image
1401        imflag(:,:,1)=0.9*flagmask;
1402        imflag(:,:,2)=0.7*flagmask;
1403        imflag(:,:,3)=zeros(size(flagmask));
1404       
1405        %update mask image
1406        hmask=[]; %default
1407        if isfield(MaskData,'maskhandle')&& ishandle(MaskData.maskhandle)
1408            hmask=MaskData.maskhandle;
1409        end
1410        if ~isempty(hmask)
1411            set(hmask,'CData',imflag)   
1412            set(hmask,'AlphaData',flagmask*0.6)
1413            set(hmask,'XData',Mask.AX);
1414            set(hmask,'YData',Mask.AY);
1415%             uistack(hmask,'top')
1416        else
[511]1417            axes(handles.PlotAxes)
[387]1418            hold on   
[452]1419            size(flagmask)
1420           % MaskData.maskhandle=image(Mask.AX,Mask.AY,imflag,'Tag','mask','HitTest','off','AlphaData',0.6*flagmask);
1421            MaskData.maskhandle=image(Mask.AX,Mask.AY,imflag,'Tag','mask','HitTest','off','AlphaData',0.6*ones(size(flagmask)));
[387]1422%             set(MaskData.maskhandle,'AlphaData',0.6*flagmask)
1423            set(handles.CheckMask,'UserData',MaskData)
1424        end
1425    end
1426end
1427
1428%------------------------------------------------------------------------
1429%------------------------------------------------------------------------
1430% III - MAIN REFRESH FUNCTIONS : 'FRAME PLOT'
1431%------------------------------------------------------------------------
1432
1433%------------------------------------------------------------------------
1434% --- Executes on button press in runplus: make one step forward and call
1435% --- run0. The step forward is along the fields series 1 or 2 depending on
1436% --- the scan_i and scan_j check box (exclusive each other)
1437function runplus_Callback(hObject, eventdata, handles)
1438%------------------------------------------------------------------------
1439set(handles.runplus,'BackgroundColor',[1 1 0])%paint the command button in yellow
1440drawnow
1441%TODO: introduce the option: increment ='*' to move to the next available view
[511]1442increment=str2num(get(handles.num_IndexIncrement,'String')); %get the field increment d
[387]1443% if isnan(increment)
[511]1444%     set(handles.num_IndexIncrement,'String','1')%default value
[387]1445%     increment=1;
1446% end
1447errormsg=runpm(hObject,eventdata,handles,increment);
1448if ~isempty(errormsg)
1449    msgbox_uvmat('ERROR',errormsg);
1450end
1451set(handles.runplus,'BackgroundColor',[1 0 0])%paint the command button back to red
1452
1453%------------------------------------------------------------------------
1454% --- Executes on button press in runmin: make one step backward and call
1455% --- run0. The step backward is along the fields series 1 or 2 depending on
1456% --- the scan_i and scan_j check box (exclusive each other)
1457function runmin_Callback(hObject, eventdata, handles)
1458%------------------------------------------------------------------------
1459set(handles.runmin,'BackgroundColor',[1 1 0])%paint the command button in yellow
1460drawnow
[511]1461increment=-str2num(get(handles.num_IndexIncrement,'String')); %get the field increment d
[387]1462% if isnan(increment)
[511]1463%     set(handles.num_IndexIncrement,'String','1')%default value
[387]1464%     increment=1;
1465% end
1466errormsg=runpm(hObject,eventdata,handles,increment);
1467if ~isempty(errormsg)
1468    msgbox_uvmat('ERROR',errormsg);
1469end
1470set(handles.runmin,'BackgroundColor',[1 0 0])%paint the command button back to red
1471
1472%------------------------------------------------------------------------
1473% -- Executes on button press in Movie: make a series of +> steps
1474function Movie_Callback(hObject, eventdata, handles)
1475%------------------------------------------------------------------------
1476set(handles.Movie,'BackgroundColor',[1 1 0])%paint the command button in yellow
1477drawnow
[511]1478increment=str2num(get(handles.num_IndexIncrement,'String')); %get the field increment d
[387]1479% if isnan(increment)
[511]1480%     set(handles.num_IndexIncrement,'String','1')%default value
[387]1481%     increment=1;
1482% end
1483set(handles.STOP,'Visible','on')
1484set(handles.speed,'Visible','on')
1485set(handles.speed_txt,'Visible','on')
1486set(handles.Movie,'BusyAction','queue')
1487UvData=get(handles.uvmat,'UserData');
1488
[435]1489while get(handles.Movie,'Value')==1 && get(handles.speed,'Value')~=0 && isequal(get(handles.Movie,'BusyAction'),'queue') % enable STOP command
[387]1490        errormsg=runpm(hObject,eventdata,handles,increment);
1491        if ~isempty(errormsg)
1492            set(handles.Movie,'BackgroundColor',[1 0 0])%paint the command buttonback to red
1493            return
1494        end
1495        pause(1.02-get(handles.speed,'Value'))% wait for next image
1496end
1497if isfield(UvData,'aviobj') && ~isempty( UvData.aviobj),
1498    UvData.aviobj=close(UvData.aviobj);
1499   set(handles.uvmat,'UserData',UvData);
1500end
1501set(handles.Movie,'BackgroundColor',[1 0 0])%paint the command buttonback to red
1502
1503%------------------------------------------------------------------------
1504% -- Executes on button press in Movie: make a series of <- steps
1505function MovieBackward_Callback(hObject, eventdata, handles)
1506%------------------------------------------------------------------------
1507set(handles.MovieBackward,'BackgroundColor',[1 1 0])%paint the command button in yellow
1508drawnow
[511]1509increment=-str2num(get(handles.num_IndexIncrement,'String')); %get the field increment d
[387]1510set(handles.STOP,'Visible','on')
1511set(handles.speed,'Visible','on')
1512set(handles.speed_txt,'Visible','on')
1513set(handles.MovieBackward,'BusyAction','queue')
1514UvData=get(handles.uvmat,'UserData');
1515
[435]1516while get(handles.MovieBackward,'Value')==1 && get(handles.speed,'Value')~=0 && isequal(get(handles.MovieBackward,'BusyAction'),'queue') % enable STOP command
[387]1517        errormsg=runpm(hObject,eventdata,handles,increment);
1518        if ~isempty(errormsg)
1519            set(handles.MovieBackward,'BackgroundColor',[1 0 0])%paint the command buttonback to red
1520            return
1521        end
1522        pause(1.02-get(handles.speed,'Value'))% wait for next image
1523end
1524if isfield(UvData,'aviobj') && ~isempty( UvData.aviobj),
1525    UvData.aviobj=close(UvData.aviobj);
1526   set(handles.uvmat,'UserData',UvData);
1527end
1528set(handles.MovieBackward,'BackgroundColor',[1 0 0])%paint the command buttonback to red
1529
1530%------------------------------------------------------------------------
1531function STOP_Callback(hObject, eventdata, handles)
1532%------------------------------------------------------------------------
1533set(handles.movie_pair,'BusyAction','Cancel')
1534set(handles.movie_pair,'value',0)
1535set(handles.Movie,'BusyAction','Cancel')
1536set(handles.MovieBackward,'BusyAction','Cancel')
1537set(handles.MenuExportMovie,'BusyAction','Cancel')
1538set(handles.movie_pair,'BackgroundColor',[1 0 0])%paint the command buttonback to red
1539set(handles.Movie,'BackgroundColor',[1 0 0])%paint the command buttonback to red
1540set(handles.MovieBackward,'BackgroundColor',[1 0 0])%paint the command buttonback to red
1541
1542%------------------------------------------------------------------------
1543% --- function activated by runplus and run minus
1544function errormsg=runpm(hObject,eventdata,handles,increment)
1545%------------------------------------------------------------------------
1546errormsg='';%default
1547%% check for movie pair status
1548movie_status=get(handles.movie_pair,'Value');
1549if isequal(movie_status,1)
1550    STOP_Callback(hObject, eventdata, handles)%interrupt movie pair if active
1551end
1552
1553%% read the current input file name(s) and field indices
1554InputFile=read_GUI(handles.InputFile);
1555InputFile.RootFile=regexprep(InputFile.RootFile,'^[\\/]|[\\/]$','');%suppress possible / or \ separator at the beginning or the end of the string
1556InputFile.SubDir=regexprep(InputFile.SubDir,'^[\\/]|[\\/]$','');%suppress possible / or \ separator at the beginning or the end of the string
1557FileExt=InputFile.FileExt;
1558NomType=get(handles.NomType,'String');
1559i1=str2num(get(handles.i1,'String'));%read the field indices (for movie, it is not given by the file name)
1560i2=[];%default
1561if strcmp(get(handles.i2,'Visible'),'on')
1562    i2=str2num(get(handles.i2,'String'));
1563end
1564j1=[];
1565if strcmp(get(handles.j1,'Visible'),'on')
1566    j1=stra2num(get(handles.j1,'String'));
1567end
1568j2=j1;
1569if strcmp(get(handles.j2,'Visible'),'on')
1570    j2=stra2num(get(handles.j2,'String'));
1571end
1572sub_value= get(handles.SubField,'Value');
1573if sub_value % a second input file has been entered
[428]1574     [InputFile.RootPath_1,InputFile.SubDir_1,InputFile.RootFile_1,InputFile.FileIndex_1,InputFile.FileExt_1,InputFile.NomType_1]=read_file_boxes_1(handles);   
[515]1575    [tild,tild,tild,i1_1,i2_1,j1_1,j2_1]=fileparts_uvmat(InputFile.FileIndex_1);% the indices for the second series taken from FileIndex_1
[387]1576else
1577    filename_1=[];
1578end   
1579
1580%% increment (or decrement) the field indices and update the input filename(s)
1581if isempty(increment)
1582    set(handles.CheckFixPair,'Value',0)
1583end
1584CheckFixPair=get(handles.CheckFixPair,'Value')||(isempty(i2)&&isempty(j2));
[427]1585
1586% the pair i1-i2 or j1-j2 is imposed (check box CheckFixPair selected)
[387]1587if CheckFixPair
1588    if get(handles.scan_i,'Value')==1% case of scanning along index i
1589        i1=i1+increment;
1590        i2=i2+increment;
1591        if sub_value
1592            i1_1=i1_1+increment;
1593            i2_1=i2_1+increment;
1594        end
[515]1595       
[387]1596    else % case of scanning along index j (burst numbers)
1597        j1=j1+increment;
1598        j2=j2+increment;
1599        if sub_value
1600            j1_1=j1_1+increment;
1601            j2_1=j2_1+increment;
1602        end
1603    end
[427]1604   
[511]1605% the pair i1-i2 or j1-j2 is free (check box CheckFixPair not selected): the list of existing indices recorded in UvData is used
[387]1606else
1607    UvData=get(handles.uvmat,'UserData');
1608    ref_i=i1;
1609    if ~isempty(i2)
[427]1610        ref_i=floor((i1+i2)/2);% current reference index i
[387]1611    end
1612    ref_j=1;
1613    if ~isempty(j1)
1614        ref_j=j1;
1615        if ~isempty(j2)
[427]1616            ref_j=floor((j1+j2)/2);% current reference index j
[387]1617        end
1618    end
1619    if ~isempty(increment)
1620        if get(handles.scan_i,'Value')==1% case of scanning along index i
[427]1621            ref_i=ref_i+increment;% increment the current reference index i
[387]1622        else % case of scanning along index j (burst numbers)
[427]1623            ref_j=ref_j+increment;% increment the current reference index j if scan_j option is used
[387]1624        end
[388]1625    else % free increment
[511]1626        runaction=get(gcbo,'tag');
1627        if strcmp(runaction,'runplus')||strcmp(runaction,'Movie')% if runplus or movie is activated
[387]1628            step=1;
1629        else
1630            step=-1;
1631        end
1632        if get(handles.scan_i,'Value')==1% case of scanning along index i
1633            ref_i=ref_i+step;
[512]1634            while ref_i>=0  && size(UvData.i1_series{1},3)>=ref_i+1 && UvData.i1_series{1}(1,ref_j+1,ref_i+1)==0
[387]1635                ref_i=ref_i+step;
1636            end
1637        else % case of scanning along index j (burst numbers)
1638            ref_j=ref_j+step;
[512]1639            while ref_j>=0  && size(UvData.i1_series{1},2)>=ref_j+1 && UvData.i1_series{1}(1,ref_j+1,ref_i+1)==0
[387]1640                ref_j=ref_j+step;
1641            end
1642        end
1643    end
1644    if ref_i<0
1645        errormsg='minimum i index reached';
1646    elseif ref_j<0
1647        errormsg='minimum j index reached';
[512]1648    elseif ref_i+1>size(UvData.i1_series{1},3)
[511]1649        errormsg='maximum i index reached (reload the input file to update the index bound)';
[387]1650    elseif ref_j+1>size(UvData.i1_series{1},2)
[511]1651        errormsg='maximum j index reached (reload the input file to update the index bound)';
[387]1652    end
[511]1653    if ~isempty(errormsg),return,end
[512]1654    siz=size(UvData.i1_series{1});
[515]1655    ref_indices=ref_i*siz(1)*siz(2)+ref_j*siz(1)+1:ref_i*siz(1)*siz(2)+(ref_j+1)*siz(1);
[512]1656    i1_subseries=UvData.i1_series{1}(ref_indices);
1657    ref_indices=ref_indices(i1_subseries>0);
1658    if isempty(ref_indices)% case of pairs (free index i)
[515]1659        ref_indices=ref_i*siz(1)*siz(2)+1:(ref_i+1)*siz(1)*siz(2);
[512]1660        i1_subseries=UvData.i1_series{1}(ref_indices);
1661        ref_indices=ref_indices(i1_subseries>0);
[511]1662    end
[512]1663    if isempty(ref_indices),errormsg='no next frame: set num_IndexIncrement =''*'' to reach the next existing file';return
[387]1664    end
[512]1665    i1=UvData.i1_series{1}(ref_indices(end));
[387]1666    if ~isempty(UvData.i2_series{1})
[512]1667        i2=UvData.i2_series{1}(ref_indices(end));
[387]1668    end
1669    if ~isempty(UvData.j1_series{1})
[512]1670        j1=UvData.j1_series{1}(ref_indices(end));
[387]1671    end
1672    if ~isempty(UvData.j2_series{1})
[512]1673        j2=UvData.j2_series{1}(ref_indices(end));
[515]1674    end
1675   
1676    % case of a second file series
1677    if sub_value
1678        ref_i_1=i1_1;
1679        if ~isempty(i2_1)
1680            ref_i_1=floor((i1_1+i2_1)/2);% current reference index i
1681        end
1682        ref_j_1=1;
1683        if ~isempty(j1_1)
1684            ref_j_1=j1_1;
1685            if ~isempty(j2_1)
1686                ref_j_1=floor((j1_1+j2_1)/2);% current reference index j
1687            end
1688        end
1689        if ~isempty(increment)
1690            if get(handles.scan_i,'Value')==1% case of scanning along index i
1691                ref_i_1=ref_i_1+increment;% increment the current reference index i
1692            else % case of scanning along index j (burst numbers)
1693                ref_j_1=ref_j_1+increment;% increment the current reference index j if scan_j option is used
1694            end
1695        else % free increment, synchronise the ref indices with the first series
1696            ref_i_1=ref_i;
1697            ref_j_1=ref_j;
1698        end
1699        if numel(UvData.i1_series)==1
1700            UvData.i1_series{2}=UvData.i1_series{1};
1701            UvData.j1_series{2}=UvData.j1_series{1};
1702            UvData.i2_series{2}=UvData.i2_series{1};
1703            UvData.j2_series{2}=UvData.j2_series{1};
1704        end
1705        if ref_i_1<0
1706            errormsg='minimum i index reached';
1707        elseif ref_j_1<0
1708            errormsg='minimum j index reached';
1709        elseif ref_i_1+1>size(UvData.i1_series{2},3)
1710            errormsg='maximum i index reached for the second series (reload the input file to update the index bound)';
1711        elseif ref_j_1+1>size(UvData.i1_series{2},2)
1712            errormsg='maximum j index reached for the second series(reload the input file to update the index bound)';
1713        end
1714        if ~isempty(errormsg),return,end
1715        siz=size(UvData.i1_series{2});
1716        ref_indices=ref_i_1*siz(1)*siz(2)+ref_j_1*siz(1)+1:ref_i_1*siz(1)*siz(2)+(ref_j_1+1)*siz(1);
1717        i1_subseries=UvData.i1_series{2}(ref_indices);
1718        ref_indices=ref_indices(i1_subseries>0);
1719        if isempty(ref_indices)% case of pairs (free index i)
1720            ref_indices=ref_i_1*siz(1)*siz(2)+1:(ref_i_1+1)*siz(1)*siz(2);
1721            i1_subseries=UvData.i1_series{2}(ref_indices);
1722            ref_indices=ref_indices(i1_subseries>0);
1723        end
1724        i1_1=UvData.i1_series{2}(ref_indices(end));
[427]1725        if ~isempty(UvData.i2_series{2})
[515]1726            i2_1=UvData.i2_series{2}(ref_indices(end));
[427]1727        end
1728        if ~isempty(UvData.j1_series{2})
[515]1729            j1_1=UvData.j1_series{2}(ref_indices(end));
[427]1730        end
1731        if ~isempty(UvData.j2_series{2})
[515]1732            j2_1=UvData.j2_series{1}(ref_indices(end));
1733        end   
1734    else% the second series (if needed) is the same file as the first
1735        i1_1=i1;
1736        i2_1=i2;
1737        j1_1=j1;
1738        j2_1=j2;
[387]1739    end
1740end
1741filename=fullfile_uvmat(InputFile.RootPath,InputFile.SubDir,InputFile.RootFile,FileExt,NomType,i1,i2,j1,j2);
1742if sub_value
[428]1743    filename_1=fullfile_uvmat(InputFile.RootPath_1,InputFile.SubDir_1,InputFile.RootFile_1,InputFile.FileExt_1,InputFile.NomType_1,i1_1,i2_1,j1_1,j2_1);
[387]1744end
1745
1746%% refresh plots
[515]1747errormsg=refresh_field(handles,filename,filename_1,i1,i2,j1,j2,i1_1,i2_1,j1_1,j2_1);
[387]1748
1749%% update the index counters if the index move is successfull
1750if isempty(errormsg)
1751    set(handles.i1,'String',num2stra(i1,NomType,1));
1752    if isequal(i2,i1)
1753        set(handles.i2,'String','');
1754    else
1755        set(handles.i2,'String',num2stra(i2,NomType,1));
1756    end
1757    set(handles.j1,'String',num2stra(j1,NomType,2));
1758    if isequal(j2,j1)
1759        set(handles.j2,'String','');
1760    else
1761        set(handles.j2,'String',num2stra(j2,NomType,2));
1762    end
1763    indices=fullfile_uvmat('','','','',NomType,i1,i2,j1,j2);
1764    set(handles.FileIndex,'String',indices);
1765    if ~isempty(filename_1)
[428]1766        indices_1=fullfile_uvmat('','','','',InputFile.NomType_1,i1_1,i2_1,j1_1,j2_1);
[387]1767        set(handles.FileIndex_1,'String',indices_1);
1768    end
1769    if isequal(movie_status,1)
1770        set(handles.movie_pair,'Value',1)
1771        movie_pair_Callback(hObject, eventdata, handles); %reactivate moviepair if it was activated
1772    end
1773end
1774
1775%------------------------------------------------------------------------
1776% --- Executes on button press in movie_pair: create an alternating movie with two view
1777function movie_pair_Callback(hObject, eventdata, handles)
1778%------------------------------------------------------------------------
1779%% stop movie action if the movie_pair button is off
1780if ~get(handles.movie_pair,'value')
1781    set(handles.movie_pair,'BusyAction','Cancel')%stop movie pair if button is 'off'
1782    set(handles.i2,'String','')
1783    set(handles.j2,'String','')
1784    return
1785else
1786    set(handles.movie_pair,'BusyAction','queue')
1787end
1788
1789%% initialisation
1790set(handles.movie_pair,'BackgroundColor',[1 1 0])%paint the command button in yellow
1791drawnow
1792list_fields=get(handles.Fields,'String');% list menu fields
1793index_fields=get(handles.Fields,'Value');% selected string index
1794FieldName=list_fields{index_fields}; % selected field
1795UvData=get(handles.uvmat,'UserData');
1796if isequal(FieldName,'image')
[512]1797    index=1;
[387]1798    [RootPath,SubDir,RootFile,FileIndices,Ext]=read_file_boxes(handles);
1799    NomType=get(handles.NomType,'String');
1800else
1801    list_fields=get(handles.Fields_1,'String');% list menu fields
1802    index_fields=get(handles.Fields_1,'Value');% selected string index
1803    FieldName=list_fields{index_fields}; % selected field
1804    if isequal(FieldName,'image')
[512]1805        index=2;
[387]1806        [RootPath,tild,RootFile,FileIndex_1,Ext,NomType]=read_file_boxes_1(handles);
1807    else
1808        msgbox_uvmat('ERROR','an image or movie must be first introduced as input')
1809        set(handles.movie_pair,'BackgroundColor',[1 0 0])%paint the command button in red
1810        set(handles.movie_pair,'Value',0)
1811        return
1812    end
1813end
1814num_i1=str2num(get(handles.i1,'String'));
1815num_j1=stra2num(get(handles.j1,'String'));
1816num_i2=str2num(get(handles.i2,'String'));
1817num_j2=stra2num(get(handles.j2,'String'));
1818if isempty(num_j2)
1819    if isempty(num_i2)   
1820        msgbox_uvmat('ERROR', 'a second image index i2 or j2 is needed to show the pair as a movie')
1821        set(handles.movie_pair,'BackgroundColor',[1 0 0])%paint the command button in red
1822         set(handles.movie_pair,'Value',0)
1823        return
1824    else
1825        num_j2=num_j1;%repeat the index i1 by default
1826    end
1827end
1828if isempty(num_i2)
1829    num_i2=num_i1;%repeat the index i1 by default
1830end
[439]1831imaname_1=fullfile_uvmat(RootPath,SubDir,RootFile,Ext,NomType,num_i2,[],num_j2);
[512]1832if strcmp(NomType,'*')
1833    num_frame=num_i2;
1834else
1835    num_frame=num_j2;
1836end
[387]1837if ~exist(imaname_1,'file')
1838      msgbox_uvmat('ERROR',['second input open (-)  ' imaname_1 ' not found']);
1839      set(handles.movie_pair,'BackgroundColor',[1 0 0])%paint the command button in red
1840       set(handles.movie_pair,'Value',0)
1841      return
1842end
1843
[512]1844%% get the first image
1845%Field.AName='image';
1846if index==1
1847    Field_a=UvData.Field;% movie on the second field
[387]1848else
[512]1849    Field_a=UvData.Field_1;% movie on the first field
[387]1850end
1851
[512]1852%% read the second image
1853MovieObject=[];
1854if numel(UvData.MovieObject)>=index
1855    MovieObject=UvData.MovieObject{index};
[387]1856end
[512]1857[Field_b,ParamOut,errormsg] = read_field(imaname_1,UvData.FileType{index},MovieObject,num_frame)
1858% Field_b.AX=Field_a.AX;
1859% Field_b.AY=Field_a.AY;
1860% % z index
1861% nbslice=str2double(get(handles.num_NbSlice,'String'));
1862% if ~isempty(nbslice)
1863%     Field_b.ZIndex=mod(num_i2-1,nbslice)+1;
1864% end
1865% Field_b.CoordUnit='pixel';
1866%
1867% %% determine the input file type
1868% if (test_1 && isfield(UvData,'MovieObject')&& numel(UvData.MovieObject>=2))||(~test_1 && ~isempty(UvData.MovieObject{1}))
1869%     FileType='movie';
1870% elseif isequal(lower(Ext),'.avi')
1871%     FileType='avi';
1872% elseif isequal(lower(Ext),'.vol')
1873%     FileType='vol';
1874% else
1875%    form=imformats(Ext(2:end));
1876%    if ~isempty(form)% if the extension corresponds to an image format recognized by Matlab
1877%        if isequal(NomType,'*');
1878%            FileType='multimage';
1879%        else
1880%            FileType='image';
1881%        end
1882%    end
1883% end
1884% switch FileType
1885%         case 'movie'
1886%             if test_1
1887%                 Field_b.A=read(UvData.MovieObject{2},num_i2);
1888%             else
1889%                 Field_b.A=read(UvData.MovieObject{1},num_i2);
1890%             end
1891%         case 'avi'
1892%             mov=aviread(imaname_1,num_i2);
1893%             Field_b.A=frame2im(mov(1));
1894%         case 'vol'
1895%             Field_b.A=imread(imaname_1);
1896%         case 'multimage'
1897%             Field_b.A=imread(imaname_1,num_i2);
1898%         case 'image'
1899%             Field_b.A=imread(imaname_1);
1900% end
1901% if get(handles.slices,'Value')
1902%     Field.ZIndex=str2double(get(handles.z_index,'String'));
1903% end
[387]1904
1905%px to phys or other transform on field
[512]1906% menu_transform=get(handles.transform_fct,'String');
1907% choice_value=get(handles.transform_fct,'Value');
1908% transform_name=menu_transform{choice_value};%name of the transform fct  given by the menu 'transform_fct'
1909% transform_list=get(handles.transform_fct,'UserData');
1910transform=get(handles.path_transform,'UserData');
1911if  ~isempty(transform)
1912    if isfield(UvData,'XmlData') && numel(UvData.XmlData)>=index %use geometry calib recorded from the ImaDoc xml file as first priority
1913        if index==2
1914        Field_a=transform(Field_a,UvData.XmlData{index});%the first field has been stored without transform
1915        end
1916        Field_b=transform(Field_b,UvData.XmlData{index});
[387]1917    end
1918end
1919
1920 % make movie until movie speed is set to 0 or STOP is activated
[511]1921hima=findobj(handles.PlotAxes,'Tag','ima');% %handles.PlotAxes =main plotting window (A GENERALISER)
[387]1922set(handles.STOP,'Visible','on')
1923set(handles.speed,'Visible','on')
1924set(handles.speed_txt,'Visible','on')
1925while get(handles.speed,'Value')~=0 && isequal(get(handles.movie_pair,'BusyAction'),'queue')%isequal(get(handles.run0,'BusyAction'),'queue'); % enable STOP command
1926    % read and plot the series of images in non erase mode
1927    set(hima,'CData',Field_b.A);
1928    pause(1.02-get(handles.speed,'Value'));% wait for next image
1929    set(hima,'CData',Field_a.A);
1930    pause(1.02-get(handles.speed,'Value'));% wait for next image
1931end
1932set(handles.movie_pair,'BackgroundColor',[1 0 0])%paint the command button in red
1933 set(handles.movie_pair,'Value',0)
1934
1935%------------------------------------------------------------------------
1936% --- Executes on button press in run0.
1937function run0_Callback(hObject, eventdata, handles)
1938%------------------------------------------------------------------------
1939set(handles.run0,'BackgroundColor',[1 1 0])%paint the command button in yellow
1940drawnow
[515]1941[RootPath,SubDir,RootFile,FileIndex,FileExt]=read_file_boxes(handles);
1942filename=[fullfile(RootPath,SubDir,RootFile) FileIndex FileExt];
1943filename_1='';%default
1944FileIndex_1='';
[387]1945if get(handles.SubField,'Value')
[515]1946    [RootPath_1,SubDir_1,RootFile_1,FileIndex_1,FileExt_1]=read_file_boxes_1(handles);
1947    filename_1=[fullfile(RootPath_1,SubDir_1,RootFile_1) FileIndex_1 FileExt_1];
[387]1948end
1949num_i1=stra2num(get(handles.i1,'String'));
1950num_i2=stra2num(get(handles.i2,'String'));
1951num_j1=stra2num(get(handles.j1,'String'));
1952num_j2=stra2num(get(handles.j2,'String'));
[515]1953[tild,tild,tild,i1_1,i2_1,j1_1,j2_1]=fileparts_uvmat(FileIndex_1);
[387]1954
[515]1955errormsg=refresh_field(handles,filename,filename_1,num_i1,num_i2,num_j1,num_j2,i1_1,i2_1,j1_1,j2_1);
[387]1956
1957if ~isempty(errormsg)
1958      msgbox_uvmat('ERROR',errormsg);
1959else
1960    set(handles.i1,'BackgroundColor',[1 1 1])
1961    set(handles.i2,'BackgroundColor',[1 1 1])
1962    set(handles.j1,'BackgroundColor',[1 1 1])
1963    set(handles.j2,'BackgroundColor',[1 1 1])
1964    set(handles.FileIndex,'BackgroundColor',[1 1 1])
1965    set(handles.FileIndex_1,'BackgroundColor',[1 1 1])
1966end   
1967set(handles.run0,'BackgroundColor',[1 0 0])
1968
1969
1970%------------------------------------------------------------------------
1971% --- read the input files and refresh all the plots, including projection.
1972% OUTPUT:
1973%  errormsg: error message char string  =[] by default
1974% INPUT:
1975% filename: first input file (=[] in the absence of input file)
1976% filename_1: second input file (=[] in the asbsenc of secodn input file)
1977% num_i1,num_i2,num_j1,num_j2; frame indices
1978% Field: structure describing an optional input field (then replace the input file)
[397]1979
[515]1980function errormsg=refresh_field(handles,FileName,FileName_1,num_i1,num_i2,num_j1,num_j2,i1_1,i2_1,j1_1,j2_1)
[387]1981%------------------------------------------------------------------------
1982
1983%% initialisation
1984abstime=[];
1985abstime_1=[];
1986dt=[];
1987if ~exist('Field','var')
1988    Field={};
1989end
1990UvData=get(handles.uvmat,'UserData');
1991if ishandle(handles.UVMAT_title) %remove title panel on uvmat
1992    delete(handles.UVMAT_title)
1993end
1994
1995%% determine the main input file information for action
[450]1996if ~exist(FileName,'file')
1997    errormsg=['input file ' FileName ' does not exist'];
[387]1998    return
1999end
2000NomType=get(handles.NomType,'String');
[494]2001NomType_1='';
2002if strcmp(get(handles.NomType_1,'Visible'),'on')
2003    NomType_1=get(handles.NomType_1,'String');
2004end
[387]2005%update the z position index
[497]2006nbslice_str=get(handles.num_NbSlice,'String');
[387]2007if isequal(nbslice_str,'volume')%NOT USED
2008    z_index=num_j1;
2009    set(handles.z_index,'String',num2str(z_index))
2010else
2011    nbslice=str2num(nbslice_str);
2012    z_index=mod(num_i1-1,nbslice)+1;
2013    set(handles.z_index,'String',num2str(z_index))
2014end
2015% refresh menu for save_mask if relevant
2016masknumber=get(handles.masklevel,'String');
2017if length(masknumber)>=z_index
2018    set(handles.masklevel,'Value',z_index)
2019end
2020
[515]2021%% test for need of tps
2022check_proj_tps=0;
2023if  (strcmp(UvData.FileType{1},'civdata')||strcmp(UvData.FileType{1},'civx'))
2024    for iobj=1:numel(UvData.Object)
2025        if isfield(UvData.Object{iobj},'ProjMode')&& strcmp(UvData.Object{iobj}.ProjMode,'filter')
2026            check_proj_tps=1;
2027            break
2028        end
2029    end
2030end
2031
[507]2032%% read the first input field
[421]2033ParamIn.ColorVar='';%default variable name for vector color
[445]2034frame_index=1;%default
[507]2035% if ~isempty(FileName)
2036FieldName='';%default
2037VelType='';%default
[404]2038%     FileType=UvData.FileType{1};
[507]2039switch UvData.FileType{1}
2040    case {'civx','civdata','netcdf'};
2041        list_fields=get(handles.Fields,'String');% list menu fields
2042        FieldName= list_fields{get(handles.Fields,'Value')}; % selected field
2043        if ~strcmp(FieldName,'get_field...')
2044            if get(handles.FixVelType,'Value')
2045                VelTypeList=get(handles.VelType,'String');
2046                VelType=VelTypeList{get(handles.VelType,'Value')};
[387]2047            end
[507]2048        end
[517]2049        if ~isempty(regexp(FieldName,'^vec('))
[507]2050            list_code=get(handles.ColorCode,'String');% list menu fields
2051            index_code=get(handles.ColorCode,'Value');% selected string index
2052            if  ~strcmp(list_code{index_code},'black') &&  ~strcmp(list_code{index_code},'white')
2053                list_code=get(handles.ColorScalar,'String');% list menu fields
2054                index_code=get(handles.ColorScalar,'Value');% selected string index
2055                ParamIn.ColorVar= list_code{index_code}; % selected field
[387]2056            end
[507]2057        end
2058    case {'video','mmreader'}
2059        ParamIn=UvData.MovieObject{1};     
2060        if ~strcmp(NomType,'*')
2061            frame_index=num_j1;%frame index for movies or multimage
2062        else
2063            frame_index=num_i1;
2064        end
2065    case 'multimage'
2066        if ~strcmp(NomType,'*')
2067            frame_index=num_j1;%frame index for movies or multimage
2068        else
2069            frame_index=num_i1;
2070        end
2071    case 'vol' %TODO: update
2072        if isfield(UvData.XmlData,'Npy') && isfield(UvData.XmlData,'Npx')
2073            ParamIn.Npy=UvData.XmlData.Npy;
2074            ParamIn.Npx=UvData.XmlData.Npx;
2075        else           
2076            errormsg='Npx and Npy need to be defined in the xml file for volume images .vol';
2077            return
2078        end
[387]2079end
[507]2080if isstruct (ParamIn)
[517]2081    ParamIn.FieldName=FieldName;
2082    ParamIn.VelType=VelType;
2083    XNameMenu=get(handles.Coord_x,'String');
2084    ParamIn.CoordName=XNameMenu{get(handles.Coord_x,'Value')};
2085    YNameMenu=get(handles.Coord_y,'String');
2086    ParamIn.CoordName={ParamIn.CoordName, YNameMenu{get(handles.Coord_y,'Value')}};
[507]2087end
[517]2088check_tps = 0;         
[515]2089if strcmp(UvData.FileType{1},'civdata')&&~strcmp(ParamIn.FieldName,'velocity')&&~strcmp(ParamIn.FieldName,'get_field...')
2090       check_tps=1;%tps needed to get the requested field
2091end
[507]2092[Field{1},ParamOut,errormsg] = read_field(FileName,UvData.FileType{1},ParamIn,frame_index);
2093if ~isempty(errormsg)
[521]2094    errormsg=['uvmat/refresh_field/read_field: ' FileName ': ' errormsg];
[507]2095    return
2096end 
2097if isfield(ParamOut,'Npx')&& isfield(ParamOut,'Npy')
2098    set(handles.num_Npx,'String',num2str(ParamOut.Npx));% display image size on the interface
2099    set(handles.num_Npy,'String',num2str(ParamOut.Npy));
2100end
2101if isfield(ParamOut,'TimeIndex')% case of time obtained from get_field
2102    set(handles.i1,'String',num2str(ParamOut.TimeIndex))
2103end
2104if isfield(ParamOut,'TimeValue')
2105    Field{1}.Time=ParamOut.TimeValue;% case of time obtained from get_field
2106end
2107Field{1}.ZIndex=z_index; %used for multiplane 3D calibration
2108% end
[387]2109
[450]2110%% choose and read a second field FileName_1 if defined
[387]2111VelType_1=[];%default
2112FieldName_1=[];
[496]2113ParamIn_1=[];
[387]2114ParamOut_1=[];
[445]2115frame_index_1=1;
[450]2116if ~isempty(FileName_1)
2117    if ~exist(FileName_1,'file')
2118        errormsg=['second file ' FileName_1 ' does not exist'];
[387]2119        return
2120    end
[450]2121    Name=FileName_1;
[404]2122    switch UvData.FileType{2}
[387]2123        case {'civx','civdata','netcdf'};
2124            list_fields=get(handles.Fields_1,'String');% list menu fields
[520]2125            if ischar(list_fields),list_fields={list_fields};end
[389]2126            FieldName_1= list_fields{get(handles.Fields_1,'Value')}; % selected field
[387]2127            if ~strcmp(FieldName,'get_field...')
[389]2128                if get(handles.FixVelType,'Value')
2129                    VelTypeList=get(handles.VelType_1,'String');
2130                    VelType_1=VelTypeList{get(handles.VelType_1,'Value')};% read the velocity type.
[387]2131                end
2132            end
[405]2133            if strcmp(FieldName_1,'velocity')&& strcmp(get(handles.ColorCode,'Visible'),'on')
2134                list_code=get(handles.ColorCode,'String');% list menu fields
2135                index_code=get(handles.ColorCode,'Value');% selected string index
[387]2136                if  ~strcmp(list_code{index_code},'black') &&  ~strcmp(list_code{index_code},'white')
[405]2137                    list_code=get(handles.ColorScalar,'String');% list menu fields
2138                    index_code=get(handles.ColorScalar,'Value');% selected string index
2139                    ParamIn_1.ColorVar= list_code{index_code}; % selected field for vector color display                 
[387]2140                end
2141            end
[435]2142        case {'video','mmreader'}
[450]2143            ParamIn_1=UvData.MovieObject{2};
[445]2144                        if ~strcmp(NomType_1,'*')
[515]2145                frame_index_1=j1_1;%frame index for movies or multimage
[445]2146            else
[515]2147                frame_index_1=i1_1;
[445]2148            end 
2149         case 'multimage'
2150            if ~strcmp(NomType_1,'*')
[515]2151                frame_index_1=j1_1;%frame index for movies or multimage
[445]2152            else
[515]2153                frame_index_1=i1_1;
[445]2154            end   
[387]2155        case 'vol' %TODO: update
2156            if isfield(UvData.XmlData,'Npy') && isfield(UvData.XmlData,'Npx')
[405]2157                ParamIn_1.Npy=UvData.XmlData.Npy;
2158                ParamIn_1.Npx=UvData.XmlData.Npx;
[387]2159            else
2160                errormsg='Npx and Npy need to be defined in the xml file for volume images .vol';
2161                return
2162            end
2163    end
[428]2164    if isequal(get(handles.NomType_1,'Visible'),'on')
[387]2165    NomType_1=get(handles.NomType_1,'String');
[428]2166    else
2167        NomType_1=get(handles.NomType,'String');
2168    end
[387]2169    test_keepdata_1=0;% test for keeping the previous stored data if the input files are unchanged
[515]2170    if ~isequal(NomType_1,'*')&& isfield(UvData,'FileName_1')
2171           test_keepdata_1= strcmp(FileName_1,UvData.FileName_1) ;%&& strcmp(FieldName_1,UvData.FieldName_1);
[387]2172    end
2173    if test_keepdata_1
[389]2174        Field{2}=UvData.Field_1;% keep the stored field
[427]2175        ParamOut_1=UvData.ParamOut_1;
[387]2176    else
[496]2177        if isempty(ParamIn_1) || isstruct(ParamIn_1)
[405]2178        ParamIn_1.FieldName=FieldName_1;
2179        ParamIn_1.VelType=VelType_1;
2180        ParamIn_1.GUIName='get_field_1';
[515]2181        end 
[445]2182        [Field{2},ParamOut_1,errormsg] = read_field(Name,UvData.FileType{2},ParamIn_1,frame_index_1);
[387]2183        if ~isempty(errormsg)
[450]2184            errormsg=['error in reading ' FieldName_1 ' in ' FileName_1 ': ' errormsg];
[387]2185            return
2186        end
[515]2187        if isstruct(ParamOut_1)&&~strcmp(ParamOut_1.FieldName,'get_field...')&& (strcmp(UvData.FileType{2},'civdata')||strcmp(UvData.FileType{2},'civx'))...
2188                &&~strcmp(ParamOut_1.FieldName,'velocity') && ~strcmp(ParamOut_1.FieldName,'get_field...')
2189            if ~check_proj_tps
2190             %   Field{2}=calc_field([{ParamOut_1.FieldName} {ParamOut_1.ColorVar}],Field{2});
2191            end
2192        end
[387]2193    end
[507]2194    Field{2}.ZIndex=z_index;%used for multi-plane 3D calibration
[387]2195end
2196
2197%% update uvmat interface
2198if isfield(ParamOut,'Npx')
2199    set(handles.num_Npx,'String',num2str(ParamOut.Npx));% display image size on the interface
2200    set(handles.num_Npy,'String',num2str(ParamOut.Npy));
2201elseif isfield(ParamOut_1,'Npx')
2202    set(handles.num_Npx,'String',num2str(ParamOut_1.Npx));% display image size on the interface
2203    set(handles.num_Npy,'String',num2str(ParamOut_1.Npy));
2204end
2205
2206%% update the display menu for the first velocity type (first menuline)
2207test_veltype=0;
2208% if ~isequal(FileType,'netcdf')|| isequal(FieldName,'get_field...')
[404]2209if (strcmp(UvData.FileType{1},'civx')||strcmp(UvData.FileType{1},'civdata'))&& ~strcmp(FieldName,'get_field...')
[387]2210    test_veltype=1;
2211    set(handles.VelType,'Visible','on')
2212    set(handles.VelType_1,'Visible','on')
2213    set(handles.FixVelType,'Visible','on')
[404]2214    menu=set_veltype_display(ParamOut.CivStage,UvData.FileType{1});
[387]2215    index_menu=strcmp(ParamOut.VelType,menu);%look for VelType in  the menu
2216    index_val=find(index_menu,1);
2217    if isempty(index_val)
2218        index_val=1;
2219    end
2220    set(handles.VelType,'Value',index_val)
2221    if ~get(handles.SubField,'value')
2222        set(handles.VelType,'String',menu)
2223        set(handles.VelType_1,'Value',1)
2224        set(handles.VelType_1,'String',[{''};menu])
2225    end
2226else
2227    set(handles.VelType,'Visible','off')
2228end
[405]2229% display the Fields menu from the input file and pick the selected one:
[517]2230% if isstruct(ParamOut)
2231%     field_index=strcmp(ParamOut.FieldName,ParamOut.FieldList);
2232%     set(handles.Fields,'String',ParamOut.FieldList); %update the field menu
2233%     set(handles.Fields,'Value',find(field_index,1))
2234% end
[387]2235
2236%% update the display menu for the second velocity type (second menuline)
2237test_veltype_1=0;
[450]2238if isempty(FileName_1)
[517]2239%     set(handles.Fields_1,'Value',1); %update the field menu
2240%     if isstruct(ParamOut)
2241%     set(handles.Fields_1,'String',[{''};ParamOut.FieldList]); %update the field menu
2242%     end
[405]2243elseif ~test_keepdata_1
[404]2244    if (~strcmp(UvData.FileType{2},'netcdf')&&~strcmp(UvData.FileType{2},'civdata')&&~strcmp(UvData.FileType{2},'civx'))|| isequal(FieldName_1,'get_field...')
[387]2245        set(handles.VelType_1,'Visible','off')
[405]2246    else
[387]2247        test_veltype_1=1;
2248        set(handles.VelType_1,'Visible','on')
[515]2249        menu=set_veltype_display(ParamOut_1.CivStage,UvData.FileType{2});
[494]2250        index_menu=strcmp(ParamOut_1.VelType,menu);
2251        set(handles.VelType_1,'Value',1+find(index_menu,1))
2252        set(handles.VelType_1,'String',[{''};menu])
[387]2253    end
[405]2254    % update the second field menu: the same quantity
[494]2255    if isstruct(ParamOut_1)
[405]2256    set(handles.Fields_1,'String',[{''};ParamOut_1.FieldList]); %update the field menu
2257    % display the Fields menu from the input file and pick the selected one:
2258    field_index=strcmp(ParamOut_1.FieldName,ParamOut_1.FieldList);
2259    set(handles.Fields_1,'Value',find(field_index,1)+1) 
[494]2260    end
2261   
[387]2262end
2263if test_veltype||test_veltype_1
2264     set(handles.FixVelType,'Visible','on')
2265else
2266     set(handles.FixVelType,'Visible','off')
2267end
[405]2268
2269% field_index=strcmp(ParamOut_1.FieldName,ParamOut_1.FieldList);
2270% set(handles.Fields,'String',ParamOut.FieldList); %update the field menu
2271% set(handles.Fields,'Value',find(field_index,1))
[387]2272   
2273%% introduce w as background image by default for a new series (only for nbdim=2)
2274if ~isfield(UvData,'NewSeries')
2275    UvData.NewSeries=1;
2276end
2277%put W as background image by default if NbDim=2:
2278if  UvData.NewSeries && isequal(get(handles.SubField,'Value'),0) && isfield(Field{1},'W') && ~isempty(Field{1}.W) && ~isequal(Field{1}.NbDim,3);
2279        set(handles.SubField,'Value',1);
2280        set(handles.RootPath_1,'String','"')
2281        set(handles.RootFile_1,'String','"')
2282        set(handles.SubDir_1,'String','"');
2283         indices=fullfile_uvmat('','','','',NomType,num_i1,num_i2,num_j1,num_j2);
2284        set(handles.FileIndex_1,'String',indices)
2285        set(handles.FileExt_1,'String','"');
2286        set(handles.Fields_1,'Visible','on');
2287        set(handles.Fields_1,'Visible','on');
2288        set(handles.RootPath_1,'Visible','on')
2289        set(handles.RootFile_1,'Visible','on')
2290        set(handles.SubDir_1,'Visible','on');
2291        set(handles.FileIndex_1,'Visible','on');
2292        set(handles.FileExt_1,'Visible','on');
2293        set(handles.Fields_1,'Visible','on');
2294        Field{1}.AName='w';
2295end           
2296
[415]2297%% display time
2298testimedoc=0;
2299TimeUnit='';
2300if isfield(Field{1},'Time')
2301    abstime=Field{1}.Time;%time read from the netcdf input file
2302end
2303if numel(Field)==2 && isfield(Field{2},'Time')
2304    abstime_1=Field{2}.Time;%time read from the netcdf input file
2305end
2306if isfield(Field{1},'Dt')
2307    dt=Field{1}.Dt;%dt read from the netcdf input file
2308    if isfield(Field{1},'TimeUnit')
2309       TimeUnit=Field{1}.TimeUnit;
2310    end
2311elseif numel(Field)==2 && isfield(Field{2},'Dt')%dt obtained from the second field if not defined in the first
2312    dt=Field{2}.Dt;%dt read from the netcdf input file
2313    if isfield(Field{2},'TimeUnit')
2314       TimeUnit=Field{2}.TimeUnit;
2315    end
2316end
2317% time from xml file overset previous result
2318if isfield(UvData,'XmlData') && isfield(UvData.XmlData{1},'Time')
2319    if isempty(num_i2)||isnan(num_i2)
2320        num_i2=num_i1;
2321    end
2322    if isempty(num_j1)||isnan(num_j1)
2323        num_j1=1;
2324    end
2325    if isempty(num_j2)||isnan(num_j2)
2326        num_j2=num_j1;
2327    end
2328    siz=size(UvData.XmlData{1}.Time);
[446]2329    if ~isempty(num_i1)&& ~isempty(num_i2)&&siz(1)>=max(num_i1,num_i2) && siz(2)>=max(num_j1,num_j2)
[415]2330        abstime=(UvData.XmlData{1}.Time(num_i1,num_j1)+UvData.XmlData{1}.Time(num_i2,num_j2))/2;%overset the time read from files
2331        dt=(UvData.XmlData{1}.Time(num_i2,num_j2)-UvData.XmlData{1}.Time(num_i1,num_j1));
2332        Field{1}.Dt=dt;
2333        if isfield(UvData.XmlData{1},'TimeUnit')
2334            TimeUnit=UvData.XmlData{1}.TimeUnit;
2335        end
2336    end
2337    if numel(UvData.XmlData)==2
[515]2338        if isempty(i2_1)
2339            i2_1=num_i1;
[415]2340        end
[515]2341        if isempty(j1_1)
2342            j1_1=1;
[415]2343        end
[515]2344        if isempty(j2_1)
2345            j2_1=j1_1;
[415]2346        end
2347        siz=size(UvData.XmlData{2}.Time);
[515]2348        if ~isempty(i1_1) && siz(1)>=max(i1_1,i2_1) && siz(2)>=max(j1_1,j2_1)
2349            abstime_1=(UvData.XmlData{2}.Time(i1_1,j1_1)+UvData.XmlData{2}.Time(i2_1,j2_1))/2;%overset the time read from files
2350            Field{2}.Dt=(UvData.XmlData{2}.Time(i2_1,j2_1)-UvData.XmlData{2}.Time(i1_1,j1_1));
[415]2351        end
2352    end
2353end
2354if ~isequal(numel(abstime),1)
2355    abstime=[];
2356end
2357if ~isequal(numel(abstime_1),1)
2358      abstime_1=[];
2359end 
[456]2360set(handles.abs_time,'String',num2str(abstime,5))
2361set(handles.abs_time_1,'String',num2str(abstime_1,5))
[415]2362if isempty(dt)||isequal(dt,0)
2363    set(handles.Dt_txt,'String','')
2364else
2365    if  isempty(TimeUnit)
2366        set(handles.Dt_txt,'String',['Dt=' num2str(1000*dt,3) '  10^(-3)'] )
2367    else
2368        set(handles.Dt_txt,'String',['Dt=' num2str(1000*dt,3) '  m' TimeUnit] )
2369    end
2370end
2371
2372
[387]2373%% store the current open names, fields and vel types in uvmat interface
[450]2374UvData.FileName_1=FileName_1;
[512]2375UvData.ParamOut_1=ParamOut_1;
2376if numel(Field)==2
2377UvData.Field_1=Field{2}; %store the second field for possible use at next RUN
2378end
[387]2379
2380%% apply coordinate transform or other user fct
[507]2381transform=get(handles.path_transform,'UserData');
[515]2382if isempty(transform)
2383    UvData.Field=Field{1};
2384else
[507]2385    XmlData=[];%default
2386    XmlData_1=[];%default
2387    if isfield(UvData,'XmlData')%use geometry calib recorded from the ImaDoc xml file as first priority
2388        XmlData=UvData.XmlData{1};
2389        if numel(UvData.XmlData)==2
2390            XmlData_1=UvData.XmlData{2};
2391        end
[387]2392    end
[507]2393    transform=get(handles.path_transform,'UserData');
[512]2394    switch nargin(transform)
2395        case 4
2396            if length(Field)==2
2397                UvData.Field=transform(Field{1},XmlData,Field{2},XmlData_1);
2398            else
2399                UvData.Field=transform(Field{1},XmlData);
2400            end
2401        case 3
2402            if length(Field)==2
2403                UvData.Field=transform(Field{1},XmlData,Field{2});
2404            else
2405                UvData.Field=transform(Field{1},XmlData);
2406            end
2407        case 2
2408            UvData.Field=transform(Field{1},XmlData);
2409        case 1
2410            UvData.Field=transform(Field{1});
[387]2411    end
[507]2412end
[508]2413
[515]2414%% calculate tps coefficients if needed
2415UvData.Field=calc_tps(UvData.Field,check_proj_tps);
[387]2416
[434]2417%% analyse input field
[387]2418test_x=0;
2419test_z=0;% test for unstructured z coordinate
[434]2420[errormsg,ListDimName,DimValue,VarDimIndex]=check_field_structure(UvData.Field);% check the input field structure
[387]2421if ~isempty(errormsg)
[434]2422    errormsg=['error in uvmat/refresh_field/check_field_structure: ' errormsg];% display error
[387]2423    return
2424end
[512]2425[CellVarIndex,NbDim,VarType,errormsg]=find_field_cells(UvData.Field);% analyse  the input field structure
[387]2426if ~isempty(errormsg)
[512]2427    errormsg=['error in uvmat/refresh_field/find_field_cells: ' errormsg];% display error
[387]2428    return
2429end
[421]2430[NbDim,imax]=max(NbDim);% spatial dimension of the input field
[387]2431if isfield(UvData.Field,'NbDim')
2432    NbDim=UvData.Field.NbDim;% deal with plane fields containing z coordinates
2433end
[434]2434
2435%% get bounds and mesh (needed for mouse action and to open set_object)
[435]2436if NbDim>1
2437    XName=''; %default
2438    YName='';
2439    %unstructured coordinates
2440    if ~isempty(VarType{imax}.coord_x)&&~isempty(VarType{imax}.coord_y)
2441        XName=UvData.Field.ListVarName{VarType{imax}.coord_x};
[434]2442        YName=UvData.Field.ListVarName{VarType{imax}.coord_y};
2443        %nbvec=length(UvData.Field.(XName));%nbre of measurement points (e.g. vectors)
2444        test_x=1;%test for unstructured coordinates
2445        if ~isempty(VarType{imax}.coord_z)
2446            ZName=UvData.Field.ListVarName{VarType{imax}.coord_z};
2447        else
2448            NbDim=2;
2449        end
[435]2450        %structured coordinate
2451    elseif numel(VarType)>=imax && numel(VarType{imax}.coord)>=NbDim && VarType{imax}.coord(NbDim)>0
2452        XName=UvData.Field.ListVarName{VarType{imax}.coord(NbDim)};
2453        if NbDim> 1 && VarType{imax}.coord(NbDim-1)>0
2454            YName=UvData.Field.ListVarName{VarType{imax}.coord(NbDim-1)}; %structured coordinates
2455        end
2456        % VarIndex=CellVarIndex{imax}; % list of variable indices
2457        DimIndex=VarDimIndex{CellVarIndex{imax}(1)}; %list of dim indices for the variable
2458        nbpoints_x=DimValue(DimIndex(NbDim));
2459        XMax=nbpoints_x;%default
2460        XMin=1;%default
[387]2461    end
[435]2462   
2463    if NbDim==3
2464        if ~test_x
2465            ZName=UvData.Field.ListVarName{VarType{imax}.coord(1)};%structured coordinates in 3D
2466        end
2467        ZMax=max(UvData.Field.(ZName));
2468        ZMin=min(UvData.Field.(ZName));
2469        UvData.Field.ZMax=ZMax;
2470        UvData.Field.ZMin=ZMin;
2471        test_z=1;
2472        if isequal(ZMin,ZMax)%no z dependency
2473            NbDim=2;
2474            test_z=0;
2475        end
[387]2476    end
[435]2477    if ~isempty (XName)
2478        XMax=max(max(UvData.Field.(XName)));
2479        XMin=min(min(UvData.Field.(XName)));
2480        UvData.Field.NbDim=NbDim;
2481        UvData.Field.XMax=XMax;
2482        UvData.Field.XMin=XMin;
2483        if NbDim >1&& ~isempty(YName)
2484            YMax=max(max(UvData.Field.(YName)));
2485            YMin=min(min(UvData.Field.(YName)));
2486            UvData.Field.YMax=YMax;
2487            UvData.Field.YMin=YMin;
2488        end
2489        nbvec=length(UvData.Field.(XName));
2490        if test_x %unstructured coordinates
2491            if test_z
2492                UvData.Field.Mesh=((XMax-XMin)*(YMax-YMin)*(ZMax-ZMin))/nbvec;% volume per vector
2493                UvData.Field.Mesh=(UvData.Field.Mesh)^(1/3);
2494            else
2495                UvData.Field.Mesh=sqrt((XMax-XMin)*(YMax-YMin)/nbvec);%2D
2496            end
2497        end
2498    end
2499    % case of structured coordinates
[387]2500    if ~test_x
[435]2501        DX=(XMax-XMin)/(nbpoints_x-1);
2502        if NbDim >1
2503            nbpoints_y=DimValue(DimIndex(NbDim-1));
2504            if isempty(YName)% if the y coordinate is not expressed, it is taken as the matrix index
2505                DY=1;
2506                UvData.Field.YMax=nbpoints_y;
2507                UvData.Field.YMin=1;
2508            else
2509                DY=(YMax-YMin)/(nbpoints_y-1);
2510            end
[387]2511        end
[435]2512        if NbDim==3
2513            nbpoints_z=DimValue(DimIndex(1));
2514            DZ=(ZMax-ZMin)/(nbpoints_z-1);
2515            UvData.Field.Mesh=(DX*DY*DZ)^(1/3);
2516            UvData.Field.ZMax=ZMax;
2517            UvData.Field.ZMin=ZMin;
[421]2518        else
[435]2519            UvData.Field.Mesh=DX;%sqrt(DX*DY);
[387]2520        end
2521    end
[435]2522    % adjust the mesh to a value 1, 2 , 5 *10^n
2523    ord=10^(floor(log10(UvData.Field.Mesh)));%order of magnitude
2524    if UvData.Field.Mesh/ord>=5
2525        UvData.Field.Mesh=5*ord;
2526    elseif UvData.Field.Mesh/ord>=2
2527        UvData.Field.Mesh=2*ord;
[404]2528    else
[435]2529        UvData.Field.Mesh=ord;
[404]2530    end
[491]2531    % default projection plane
[511]2532    if isempty(UvData.Object{1})
[491]2533        UvData.Object{1}.Type='plane';%main plotting plane
2534        UvData.Object{1}.ProjMode='projection';%main plotting plane
2535        UvData.Object{1}.DisplayHandle.uvmat=[]; %plane not visible in uvmat
2536        UvData.Object{1}.DisplayHandle.view_field=[]; %plane not visible in uvmat
2537    end
[435]2538    %% 3D case (menuvolume)
2539    if NbDim==3% && UvData.NewSeries
2540        test_set_object=1;
2541        hset_object=findobj(allchild(0),'tag','set_object');% look for the set_object GUI
2542        ZBounds(1)=UvData.Field.ZMin; %minimum for the Z slider
2543        ZBounds(2)=UvData.Field.ZMax;%maximum for the Z slider
2544        if ~isempty(hset_object) %if set_object is detected
2545            delete(hset_object);% delete the GUI set_object if it does not fit
[387]2546        end
[435]2547        if test_set_object% reinitiate the GUI set_object
2548            delete_object(1);% delete the current projection object in the list UvData.Object, delete its graphic representations and update the list displayed in handles.ListObject and 2
2549            UvData.Object{1}.NbDim=NbDim;%test for 3D objects
2550            UvData.Object{1}.RangeZ=UvData.Field.Mesh;%main plotting plane
2551            UvData.Object{1}.Coord(1,3)=(UvData.Field.ZMin+UvData.Field.ZMax)/2;%section at a middle plane chosen
2552            UvData.Object{1}.Angle=[0 0 0];
2553            UvData.Object{1}.HandlesDisplay=plot(0,0,'Tag','proj_object');% A REVOIR
2554            UvData.Object{1}.Name='1-PLANE';
2555            UvData.Object{1}.enable_plot=1;
2556            set_object(UvData.Object{1},handles,ZBounds);
2557            set(handles.ListObject,'Value',1);
2558            set(handles.ListObject,'String',{'1-PLANE'});
2559            set(handles.edit_object,'Value',1)% put the plane in edit mode to enable the z cursor
2560            edit_object_Callback([],[], handles)
[387]2561        end
[435]2562        %multilevel case (single menuplane in a 3D space)
2563    elseif isfield(UvData,'Z')
2564        if isfield(UvData,'CoordType')&& isequal(UvData.CoordType,'phys') && isfield(UvData,'XmlData')
2565            XmlData=UvData.XmlData{1};
2566            if isfield(XmlData,'PlanePos')
2567                UvData.Object{1}.Coord=XmlData.PlanePos(UvData.ZIndex,:);
2568            end
2569            if isfield(XmlData,'PlaneAngle')
2570                siz=size(XmlData.PlaneAngle);
2571                indangle=min(siz(1),UvData.ZIndex);%take first angle if a single angle is defined (translating scanning)
2572                UvData.Object{1}.PlaneAngle=XmlData.PlaneAngle(indangle,:);
2573            end
2574        elseif isfield(UvData,'ZIndex')
2575            UvData.Object{1}.ZObject=UvData.ZIndex;
2576        end
[387]2577    end
2578end
[435]2579
[387]2580testnewseries=UvData.NewSeries;
2581UvData.NewSeries=0;% put to 0 the test for a new field series (set by RootPath_callback)
2582set(handles.uvmat,'UserData',UvData)
2583
2584%% reset the min and max of scalar if only the mask is displayed(TODO: check the need)
[405]2585% if isfield(UvData,'Mask')&& ~isfield(UvData,'A')
2586%     set(handles.num_MinA,'String','0')
2587%     set(handles.num_MaxA,'String','255')
2588% end
[387]2589
[434]2590%% usual 1D (x,y) plots
2591if NbDim<=1
2592    set(handles.Objects,'Visible','off')
2593    set(handles.ListObject_1_title,'Visible','off')
2594    set(handles.ListObject_1,'Visible','off')
[511]2595    [PlotType,PlotParamOut]=plot_field(UvData.Field,handles.PlotAxes,read_GUI(handles.uvmat));
[434]2596    write_plot_param(handles,PlotParamOut) %update the auto plot parameters
2597   
2598%% 2D or 3D fields are generally projected
[387]2599else
[434]2600    set(handles.Objects,'Visible','on')
2601    set(handles.ListObject_1_title,'Visible','on')
2602    set(handles.ListObject_1,'Visible','on')
2603   
2604    %% Plot the projections on the selected  projection objects
2605    % main projection object (uvmat display)
2606    list_object=get(handles.ListObject_1,'String');
2607    if isequal(list_object,{''})%refresh list of objects if the menu is empty
[508]2608        set(handles.ListObject,'Value',1)
2609        set(handles.ListObject,'String',{'plane'})
2610        UvData.Object{1}.Type='plane';%main plotting plane
2611        UvData.Object{1}.ProjMode='projection';%main plotting plane
2612        UvData.Object{1}.DisplayHandle.uvmat=[]; %plane not visible in uvmat
2613        UvData.Object{1}.DisplayHandle.view_field=[]; %plane not visible in uvmat
[434]2614        set(handles.ListObject_1,'Value',1)
[508]2615        set(handles.ListObject_1,'String',{'plane'})
[387]2616    end
[434]2617    IndexObj(1)=get(handles.ListObject_1,'Value');%selected projection object for main view
2618    if IndexObj(1)> numel(UvData.Object)
2619        IndexObj(1)=1;%select the first object if the selected one does not exist
2620        set(handles.ListObject_1,'Value',1)
[387]2621    end
[434]2622    IndexObj(2)=get(handles.ListObject,'Value');%selected projection object for main view
2623    if isequal(IndexObj(2),IndexObj(1))
2624        IndexObj(2)=[];
2625    end
2626    plot_handles{1}=handles;
2627    if isfield(UvData,'plotaxes')%case of movies
2628        haxes(1)=UvData.plotaxes;
2629    else
[511]2630        haxes(1)=handles.PlotAxes;
[434]2631    end
2632    PlotParam{1}=read_GUI(handles.uvmat);
2633    %default settings if vectors not visible
2634    if ~isfield(PlotParam{1},'Vectors')
2635        PlotParam{1}.Vectors.MaxVec=1;
2636        PlotParam{1}.Vectors.MinVec=0;
2637        PlotParam{1}.Vectors.CheckFixVecColor=1;
2638        PlotParam{1}.Vectors.ColCode1=0.33;
2639        PlotParam{1}.Vectors.ColCode2=0.66;
[517]2640        PlotParam{1}.Vectors.ColorScalar={''};
[434]2641        PlotParam{1}.Vectors.ColorCode= {'rgb'};
2642    end
2643    PosColorbar{1}=UvData.OpenParam.PosColorbar;%prescribe the colorbar position on the uvmat interface
2644   
2645    %% second projection object (view_field display)
2646    if length( IndexObj)>=2
2647        view_field_handle=findobj(allchild(0),'tag','view_field');%handles of the view_field GUI
2648        if ~isempty(view_field_handle)
2649            plot_handles{2}=guidata(view_field_handle);
[511]2650            haxes(2)=plot_handles{2}.PlotAxes;
[434]2651            PlotParam{2}=read_GUI(handles.uvmat);%read plotting parameters on the uvmat interface
2652            PosColorbar{2}='*'; %TODO: deal with colorbar position on view_field
[421]2653        end
[387]2654    end
[434]2655   
2656    %% loop on the projection objects: one or two
2657   
2658    for imap=1:numel(IndexObj)
2659        iobj=IndexObj(imap);
2660        [ObjectData,errormsg]=proj_field(UvData.Field,UvData.Object{iobj});% project field on the object
2661        if ~isempty(errormsg)
2662            return
[387]2663        end
[434]2664        if testnewseries
2665            PlotParam{imap}.Scalar.CheckBW=[]; %B/W option depends on the input field (image or scalar)
2666            if isfield(ObjectData,'CoordUnit')
2667                PlotParam{imap}.Coordinates.CheckFixAspectRatio=1;% set x and y scaling equal if CoordUnit is defined (common unit for x and y)
2668                PlotParam{imap}.Coordinates.AspectRatio=1; %set aspect ratio to 1
[387]2669            end
[434]2670        end
2671        %use of mask (TODO: check)
2672        if isfield(ObjectData,'NbDim') && isequal(ObjectData.NbDim,2) && isfield(ObjectData,'Mask') && isfield(ObjectData,'A')
2673            flag_mask=double(ObjectData.Mask>200);%=0 for masked regions
2674            AX=ObjectData.AX;%x coordiantes for the scalar field
2675            AY=ObjectData.AY;%y coordinates for the scalar field
2676            MaskX=ObjectData.MaskX;%x coordiantes for the mask
2677            MaskY=ObjectData.MaskY;%y coordiantes for the mask
2678            if ~isequal(MaskX,AX)||~isequal(MaskY,AY)
2679                nxy=size(flag_mask);
2680                sizpx=(ObjectData.MaskX(end)-ObjectData.MaskX(1))/(nxy(2)-1);%size of a mask pixel
2681                sizpy=(ObjectData.MaskY(1)-ObjectData.MaskY(end))/(nxy(1)-1);
2682                x_mask=ObjectData.MaskX(1):sizpx:ObjectData.MaskX(end); % pixel x coordinates for image display
2683                y_mask=ObjectData.MaskY(1):-sizpy:ObjectData.MaskY(end);% pixel x coordinates for image display
2684                %project on the positions of the scalar
2685                npxy=size(ObjectData.A);
2686                dxy(1)=(ObjectData.AY(end)-ObjectData.AY(1))/(npxy(1)-1);%grid mesh in y
2687                dxy(2)=(ObjectData.AX(end)-ObjectData.AX(1))/(npxy(2)-1);%grid mesh in x
2688                xi=ObjectData.AX(1):dxy(2):ObjectData.AX(end);
2689                yi=ObjectData.AY(1):dxy(1):ObjectData.AY(end);
2690                [XI,YI]=meshgrid(xi,yi);% creates the matrix of regular coordinates
2691                flag_mask = interp2(x_mask,y_mask,flag_mask,XI,YI);
2692            end
2693            AClass=class(ObjectData.A);
2694            ObjectData.A=flag_mask.*double(ObjectData.A);
2695            ObjectData.A=feval(AClass,ObjectData.A);
[387]2696            ind_off=[];
[434]2697            if isfield(ObjectData,'ListVarName')
2698                for ilist=1:length(ObjectData.ListVarName)
2699                    if isequal(ObjectData.ListVarName{ilist},'Mask')||isequal(ObjectData.ListVarName{ilist},'MaskX')||isequal(ObjectData.ListVarName{ilist},'MaskY')
2700                        ind_off=[ind_off ilist];
2701                    end
[387]2702                end
[434]2703                ObjectData.ListVarName(ind_off)=[];
2704                VarDimIndex(ind_off)=[];
2705                ind_off=[];
2706                for ilist=1:length(ListDimName)
2707                    if isequal(ListDimName{ilist},'MaskX') || isequal(ListDimName{ilist},'MaskY')
2708                        ind_off=[ind_off ilist];
2709                    end
2710                end
2711                ListDimName(ind_off)=[];
2712                DimValue(ind_off)=[];
[387]2713            end
2714        end
[434]2715        if ~isempty(ObjectData)
2716            PlotType='none'; %default
2717            if imap==2 && isempty(view_field_handle)
2718                view_field(ObjectData)
2719            else
2720                [PlotType,PlotParamOut]=plot_field(ObjectData,haxes(imap),PlotParam{imap},PosColorbar{imap});
2721                write_plot_param(plot_handles{imap},PlotParamOut) %update the auto plot parameters
2722                if isfield(Field,'Mesh')&&~isempty(Field.Mesh)
2723                    ObjectData.Mesh=Field.Mesh; % gives an estimated mesh size (useful for mouse action on the plot)
2724                end
[387]2725            end
2726        end
2727    end
[434]2728   
2729    %% update the mask
2730    if isequal(get(handles.CheckMask,'Value'),1)%if the mask option is on
2731        update_mask(handles,num_i1,num_i2);
2732    end
2733   
2734    %% prepare the menus of histograms and plot them (histogram of the whole volume in 3D case)
2735    menu_histo=(UvData.Field.ListVarName)';%list of field variables to be displayed for the menu of histogram display
2736    ind_skip=[];
2737    % nb_histo=1;
2738    Ustring='';
2739    Vstring='';
2740    % suppress coordinates from the histogram menu
2741    for ivar=1:numel(menu_histo)%l loop on field variables:
2742        if isfield(UvData.Field,'VarAttribute') && numel(UvData.Field.VarAttribute)>=ivar && isfield(UvData.Field.VarAttribute{ivar},'Role')
2743            Role=UvData.Field.VarAttribute{ivar}.Role;
2744            switch Role
2745                case {'coord_x','coord_y','coord_z','dimvar'}
2746                    ind_skip=[ind_skip ivar];
2747                case {'vector_x'}
2748                    Ustring=UvData.Field.ListVarName{ivar};
2749                    ind_skip=[ind_skip ivar];
2750                case {'vector_y'}
2751                    Vstring=UvData.Field.ListVarName{ivar};
2752                    ind_skip=[ind_skip ivar];
2753            end
[387]2754        end
[434]2755        DimCell=UvData.Field.VarDimName{ivar};
2756        DimName='';
2757        if ischar(DimCell)
2758            DimName=DimCell;
2759        elseif iscell(DimCell)&& numel(DimCell)==1
2760            DimName=DimCell{1};
2761        end
2762        if strcmp(DimName,menu_histo{ivar})
2763            ind_skip=[ind_skip ivar];
2764        end
[387]2765    end
[434]2766    menu_histo(ind_skip)=[];% remove skipped items
2767    if ~isempty(Ustring)
2768        menu_histo=[{[Ustring ',' Vstring]};menu_histo];% add U, V at the beginning if they exist
[387]2769    end
[434]2770   
2771    %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
2772    % display menus and plot histograms
2773    test_v=0;
2774    if ~isempty(menu_histo)
2775        set(handles.histo1_menu,'Value',1)
2776        set(handles.histo1_menu,'String',menu_histo)
2777        histo1_menu_Callback(handles.histo1_menu, [], handles)% plot first histogram
[387]2778    end
2779end
2780
[424]2781%------------------------------------------------------------------------
2782function histo1_menu_Callback(hObject, eventdata, handles)
2783%--------------------------------------------
2784%plot first histo
2785%huvmat=get(handles.histo1_menu,'parent');
2786histo_menu=get(handles.histo1_menu,'String');
2787histo_value=get(handles.histo1_menu,'Value');
2788FieldName=histo_menu{histo_value};
[511]2789% update_histo(handles.HistoAxes,handles.uvmat,FieldName)
[424]2790%
2791% %------------------------------------------------------------------------
2792% function histo2_menu_Callback(hObject, eventdata, handles)
2793% %------------------------------------------------------------------------
2794% %plot second histo
2795% %huvmat=get(handles.histo2_menu,'parent');
2796% histo_menu=get(handles.histo2_menu,'String');
2797% histo_value=get(handles.histo2_menu,'Value');
2798% FieldName=histo_menu{histo_value};
2799% update_histo(handles.histo_v,handles.uvmat,FieldName)
2800%
2801% %------------------------------------------------------------------------
2802% %read the field .Fieldname stored in UvData and plot its histogram
2803% function update_histo(haxes,huvmat,FieldName)
2804%------------------------------------------------------------------------
2805UvData=get(handles.uvmat,'UserData');
2806Field=UvData.Field;
2807r=regexp(FieldName,'(?<var1>.*)(?<sep>,)(?<var2>.*)','names');
2808FieldName_2='';
2809if ~isempty(r)
2810    FieldName=r.var1;
2811    FieldName_2=r.var2;
2812end
2813if ~isfield(UvData.Field,FieldName)
2814    msgbox_uvmat('ERROR',['no field  ' FieldName ' for histogram'])
2815    return
2816end
2817FieldHisto=Field.(FieldName);
2818if isfield(Field,'FF') && ~isempty(Field.FF) && isequal(size(Field.FF),size(FieldHisto))
2819    indsel=find(Field.FF==0);%find values marked as false
2820    if ~isempty(indsel)
2821        FieldHisto=FieldHisto(indsel);
2822        if ~isempty(FieldName_2)
2823            FieldHisto(:,:,2)=Field.(FieldName_2)(indsel);
2824        end
[387]2825    end
2826end
[424]2827if isempty(Field)
2828    msgbox_uvmat('ERROR',['empty field ' FieldName])
2829else
2830    nxy=size(FieldHisto);
2831    Amin=double(min(min(min(FieldHisto))));%min of field value
2832    Amax=double(max(max(max(FieldHisto))));%max of field value
2833    if isequal(Amin,Amax)
[511]2834        cla(handles.HistoAxes)
[424]2835    else
2836        Histo.ListVarName={FieldName,'histo'};
2837        if isfield(Field,'NbDim') && isequal(Field.NbDim,3)
2838            Histo.VarDimName={FieldName,FieldName}; %dimensions for the histogram
2839        else
2840            if numel(nxy)==2
2841                Histo.VarDimName={FieldName,FieldName}; %dimensions for the histogram
2842            else
2843                Histo.VarDimName={FieldName,{FieldName,'component'}}; %dimensions for the histogram
2844            end
2845        end
2846        %unit
2847        units=[]; %default
2848        for ivar=1:numel(Field.ListVarName)
2849            if strcmp(Field.ListVarName{ivar},FieldName)
2850                if isfield(Field,'VarAttribute') && numel(Field.VarAttribute)>=ivar && isfield(Field.VarAttribute{ivar},'units')
2851                    units=Field.VarAttribute{ivar}.units;
2852                    break
2853                end
2854            end
2855        end
2856        if ~isempty(units)
2857            Histo.VarAttribute{1}.units=units;
2858        end
2859        eval(['Histo.' FieldName '=linspace(Amin,Amax,50);'])%absissa values for histo
2860        if isfield(Field,'NbDim') && isequal(Field.NbDim,3)
2861            C=reshape(double(FieldHisto),1,[]);% reshape in a vector
2862            Histo.histo(:,1)=hist(C, Histo.(FieldName));  %calculate histogram
2863        else
2864            for col=1:size(FieldHisto,3)
2865                B=FieldHisto(:,:,col);
2866                C=reshape(double(B),1,nxy(1)*nxy(2));% reshape in a vector
2867                Histo.histo(:,col)=hist(C, Histo.(FieldName));  %calculate histogram
2868            end
2869        end
[511]2870        plot_field(Histo,handles.HistoAxes);
[426]2871        hlegend=legend;
2872        if isempty(FieldName_2)
2873        set(hlegend,'String',FieldName)
2874        else
2875            set(hlegend,'String',{FieldName;FieldName_2})
2876        end
[511]2877%         hh=get(handles.HistoAxes,'children');
[426]2878%         get(hh(1))
2879%         get(hh(2))
[424]2880    end
[387]2881end
2882
2883%-------------------------------------------------------------------
2884% --- translate coordinate to matrix index
2885%-------------------------------------------------------------------
2886function [indx,indy]=pos2ind(x0,rangx0,nxy)
2887indx=1+round((nxy(2)-1)*(x0-rangx0(1))/(rangx0(2)-rangx0(1)));% index x of pixel 
2888indy=1+round((nxy(1)-1)*(y12-rangy0(1))/(rangy0(2)-rangy0(1)));% index y of pixel
2889
[428]2890
[387]2891%-------------------------------------------------------------------
[428]2892% --- Executes on button press in 'CheckZoom'.
2893%-------------------------------------------------------------------
2894function CheckZoom_Callback(hObject, eventdata, handles)
2895
2896if (get(handles.CheckZoom,'Value') == 1);
2897    set(handles.CheckZoom,'BackgroundColor',[1 1 0])
2898    set(handles.CheckFixLimits,'Value',1)% propose by default fixed limits for the plotting axes
2899    set(handles.CheckFixLimits,'BackgroundColor',[1 1 0])
2900else
2901    set(handles.CheckZoom,'BackgroundColor',[0.7 0.7 0.7])
2902end
2903
2904%-------------------------------------------------------------------
[387]2905% --- Executes on button press in 'CheckFixLimits'.
2906%-------------------------------------------------------------------
2907function CheckFixLimits_Callback(hObject, eventdata, handles)
2908test=get(handles.CheckFixLimits,'Value');
2909if test
2910    set(handles.CheckFixLimits,'BackgroundColor',[1 1 0])
2911else
2912    set(handles.CheckFixLimits,'BackgroundColor',[0.7 0.7 0.7])
2913    update_plot(handles);
2914end
2915
2916%-------------------------------------------------------------------
[428]2917% --- Executes on button press in CheckFixAspectRatio.
2918function CheckFixAspectRatio_Callback(hObject, eventdata, handles)
2919%-------------------------------------------------------------------
2920if get(handles.CheckFixAspectRatio,'Value')
2921    set(handles.CheckFixAspectRatio,'BackgroundColor',[1 1 0])
[387]2922    update_plot(handles);
2923else
[428]2924    set(handles.CheckFixAspectRatio,'BackgroundColor',[0.7 0.7 0.7])
[387]2925    update_plot(handles);
2926end
2927
2928%-------------------------------------------------------------------
[428]2929function num_AspectRatio_Callback(hObject, eventdata, handles)
[387]2930%-------------------------------------------------------------------
[428]2931set(handles.CheckFixAspectRatio,'Value',1)% select the fixed aspect ratio button
2932set(handles.CheckFixAspectRatio,'BackgroundColor',[1 1 0])% mark in yellow
2933update_plot(handles);
[387]2934%-------------------------------------------------------------------
2935
[428]2936%-------------------------------------------------------------------
[387]2937
[428]2938
2939
[387]2940%-------------------------------------------------------------------
2941%----Executes on button press in 'record': records the current flags of manual correction.
2942%-------------------------------------------------------------------
2943function record_Callback(hObject, eventdata, handles)
2944% [filebase,num_i1,num_j1,num_i2,num_j2,Ext,NomType,SubDir]=read_input_file(handles);
2945[RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes(handles);
[450]2946FileName=[fullfile(RootPath,SubDir,RootFile) FileIndices FileExt];
2947%FileName=read_file_boxes(handles);
2948[erread,message]=fileattrib(FileName);
[387]2949if ~isempty(message) && ~isequal(message.UserWrite,1)
[450]2950     msgbox_uvmat('ERROR',['no writting access to ' FileName])
[387]2951     return
2952end
2953test_civ2=isequal(get(handles.civ2,'BackgroundColor'),[1 1 0]);
2954test_civ1=isequal(get(handles.VelType,'BackgroundColor'),[1 1 0]);
2955if ~test_civ2 && ~test_civ1
2956    msgbox_uvmat('ERROR','manual correction only possible for CIV1 or CIV2 velocity fields')
2957end
2958if test_civ2
2959    nbname='nb_vectors2';
2960   flagname='vec2_FixFlag';
2961   attrname='fix2';
2962end
2963if test_civ1
2964    nbname='nb_vectors';
2965   flagname='vec_FixFlag';
2966   attrname='fix';
2967end
2968%write fix flags in the netcdf file
2969UvData=get(handles.uvmat,'UserData');
2970hhh=which('netcdf.open');% look for built-in matlab netcdf library
2971if ~isequal(hhh,'')% case of new builtin Matlab netcdf library
[450]2972    nc=netcdf.open(FileName,'NC_WRITE');
[387]2973    netcdf.reDef(nc);
2974    netcdf.putAtt(nc,netcdf.getConstant('NC_GLOBAL'),attrname,1);
2975    dimid = netcdf.inqDimID(nc,nbname);
2976    try
2977        varid = netcdf.inqVarID(nc,flagname);% look for already existing fixflag variable
2978    catch
2979        varid=netcdf.defVar(nc,flagname,'double',dimid);%create fixflag variable if it does not exist
2980    end
2981    netcdf.endDef(nc);
[511]2982    netcdf.putVar(nc,varid,UvData.PlotAxes.FF);
[387]2983    netcdf.close(nc); 
2984else %old netcdf library
[450]2985    netcdf_toolbox(FileName,AxeData,attrname,nbname,flagname)
[387]2986end
2987
2988%-------------------------------------------------------------------
2989%----Correct the netcdf file, using toolbox (old versions of Matlab).
2990%-------------------------------------------------------------------
[450]2991function netcdf_toolbox(FileName,AxeData,attrname,nbname,flagname)
2992nc=netcdf(FileName,'write'); %open netcdf file
[387]2993result=redef(nc);
2994eval(['nc.' attrname '=1;']);
2995theDim=nc(nbname) ;% get the number of velocity vectors
2996nb_vectors=size(theDim);
2997var_FixFlag=ncvar(flagname,nc);% var_FixFlag will be written as the netcdf variable vec_FixFlag
2998var_FixFlag(1:nb_vectors)=AxeData.FF;%
2999fin=close(nc);
3000
[428]3001%-------------------------------------------------------------------
[387]3002% --- Executes on button press in SubField
3003function SubField_Callback(hObject, eventdata, handles)
[428]3004%-------------------------------------------------------------------
[387]3005UvData=get(handles.uvmat,'UserData');
3006if get(handles.SubField,'Value')==0% if the subfield button is desactivated   
3007    set(handles.RootPath_1,'String','')
3008    set(handles.RootFile_1,'String','')
3009    set(handles.SubDir_1,'String','');
3010    set(handles.FileIndex_1,'String','');
3011    set(handles.FileExt_1,'String','');
3012    set(handles.RootPath_1,'Visible','off')
3013    set(handles.RootFile_1,'Visible','off')
3014    set(handles.SubDir_1,'Visible','off');
3015    set(handles.NomType_1,'Visible','off');
3016    set(handles.abs_time_1,'Visible','off')
3017    set(handles.FileIndex_1,'Visible','off');
3018    set(handles.FileExt_1,'Visible','off');
3019    set(handles.Fields_1,'Value',1);%set to blank state
3020    set(handles.VelType_1,'Value',1);%set to blank state
[428]3021    set(handles.num_Opacity,'String','')% desactivate opacity setting
[387]3022    if ~strcmp(get(handles.VelType,'Visible'),'on')
3023        set(handles.VelType_1,'Visible','off')
3024    end
3025    if isfield(UvData,'XmlData_1')
3026        UvData=rmfield(UvData,'XmlData_1');
3027    end
3028    set(handles.uvmat,'UserData',UvData);
[515]3029    transform_fct_list=get(handles.transform_fct,'String');
3030    transform_fct=transform_fct_list(get(handles.transform_fct,'Value'));
3031    if strcmp(transform_fct,'sub_field')
3032        set(handles.transform_fct,'Value',1)%suppress the sub_field transform
3033        transform_fct_Callback(hObject, eventdata, handles);
3034    else
3035        run0_Callback(hObject, eventdata, handles)
3036    end 
[387]3037else
3038    MenuBrowse_1_Callback(hObject, eventdata, handles)
3039end
3040
3041%------------------------------------------------------------------------
3042% --- read the data displayed for the input rootfile windows (new): TODO use read_GUI
3043
3044function [RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes(handles)
3045%------------------------------------------------------------------------
3046InputFile=read_GUI(handles.InputFile);
3047RootPath=InputFile.RootPath;
3048SubDir=regexprep(InputFile.SubDir,'/|\','');
3049RootFile=regexprep(InputFile.RootFile,'/|\','');
3050FileIndices=InputFile.FileIndex;
3051FileExt=InputFile.FileExt;
3052
3053
3054%------------------------------------------------------------------------
3055% ---- read the data displayed for the second input rootfile windows
3056function [RootPath_1,SubDir_1,RootFile_1,FileIndex_1,FileExt_1,NomType_1]=read_file_boxes_1(handles)
3057%------------------------------------------------------------------------
3058RootPath_1=get(handles.RootPath_1,'String'); % read the data from the file1_input window
3059if isequal(get(handles.RootPath_1,'Visible'),'off') || isequal(RootPath_1,'"')
3060    RootPath_1=get(handles.RootPath,'String');
3061end;
3062SubDir_1=get(handles.SubDir_1,'String');
3063if isequal(get(handles.SubDir_1,'Visible'),'off')|| isequal(SubDir_1,'"')
3064    SubDir_1=get(handles.SubDir,'String');
3065end
3066SubDir_1=regexprep(SubDir_1,'\<[\\/]|[\\/]\>','');%suppress possible / or \ separator at the beginning or the end of the string
3067RootFile_1=get(handles.RootFile_1,'String');
3068if isequal(get(handles.RootFile_1,'Visible'),'off') || isequal(RootFile_1,'"')
3069    RootFile_1=get(handles.RootFile,'String');
3070end
3071RootFile_1=regexprep(RootFile_1,'\<[\\/]|[\\/]\>','');%suppress possible / or \ separator at the beginning or the end of the string
3072FileIndex_1=get(handles.FileIndex_1,'String');
3073if isequal(get(handles.FileIndex_1,'Visible'),'off')|| isequal(FileIndex_1,'"')
3074    FileIndex_1=get(handles.FileIndex,'String');
3075end
3076FileExt_1=get(handles.FileExt_1,'String');
3077if isequal(get(handles.FileExt_1,'Visible'),'off') || isequal(FileExt_1,'"')
3078    FileExt_1=get(handles.FileExt,'String');%read FileExt by default
3079end
3080NomType_1=get(handles.NomType_1,'String');
3081if isequal(get(handles.NomType_1,'Visible'),'off') || isequal(NomType_1,'"')
3082    NomType_1=get(handles.NomType,'String');%read FileExt by default
3083end
3084%------------------------------------------------------------------------
3085% --- Executes on menu selection Fields
3086function Fields_Callback(hObject, eventdata, handles)
3087%------------------------------------------------------------------------
3088list_fields=get(handles.Fields,'String');% list menu fields
3089index_fields=get(handles.Fields,'Value');% selected string index
3090field= list_fields{index_fields(1)}; % selected string
3091if isequal(field,'get_field...')
3092    set(handles.FixVelType,'visible','off')
3093    set(handles.VelType,'visible','off')
3094    set(handles.VelType_1,'visible','off')
3095    [RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes(handles);
[450]3096    FileName=[fullfile(RootPath,SubDir,RootFile) FileIndices FileExt];
[387]3097    hget_field=findobj(allchild(0),'name','get_field');
3098    if ~isempty(hget_field)
3099        delete(hget_field)
3100    end
[450]3101    hget_field=get_field(FileName);
[517]3102%     set(hget_field,'Name','get_field')
3103%     hhget_field=guidata(hget_field);
3104%     set(hhget_field.list_fig,'Value',1)
3105%     set(hhget_field.list_fig,'String',{'uvmat'})
[507]3106  %  set(handles.transform_fct,'Value',1)% no transform by default
3107  %  set(handles.path_transform,'String','')
[517]3108    return %no further action
[387]3109end
[517]3110
[387]3111UvData=get(handles.uvmat,'UserData');
3112
3113%read the rootfile input display
3114[RootPath,SubDir,RootFile,FileIndices,FileExt]=read_file_boxes(handles);
3115FileName=[fullfile(RootPath,SubDir,RootFile) FileIndices FileExt];
3116[tild,tild,tild,i1,i2,j1,j2,tild,NomType]=fileparts_uvmat(['xxx' get(handles.FileIndex,'String') FileExt]);
3117if isequal(field,'image')
[494]3118    if  isfield(UvData.Field,'Civ2_ImageA')%get the corresponding input image in the netcdf file
3119        imagename=UvData.Field.Civ2_ImageA;
3120    elseif isfield(UvData.Field,'Civ1_ImageA')%
3121        imagename=UvData.Field.Civ1_ImageA;
3122    else
3123        SubDirBase=regexprep(SubDir,'\..*','');%take the root part of SubDir, before the first dot '.'
3124        imagename=fullfile_uvmat(RootPath,SubDirBase,RootFile,'.png',NomType,i1,[],j1,[]);
3125    end
[387]3126    if ~exist(imagename,'file')
3127        [FileName,PathName] = uigetfile( ...
3128            {'*.png;*.jpg;*.tif;*.avi;*.AVI;*.vol', ' (*.png, .tif, *.avi,*.vol)';
3129            '*.jpg',' jpeg image files'; ...
3130            '*.png','.png image files'; ...
3131            '*.tif','.tif image files'; ...
3132            '*.avi;*.AVI','.avi movie files'; ...
3133            '*.vol','.volume images (png)'; ...
3134            '*.*',  'All Files (*.*)'}, ...
3135            'Pick an image',imagename);   
3136        imagename=[PathName FileName];
3137    end
3138     % display the selected field and related information
[406]3139    display_file_name(handles,imagename)%display the image
[387]3140    return
3141else
3142    ext=get(handles.FileExt,'String');
3143    if ~isequal(ext,'.nc') %find the new NomType if the previous display was not already a netcdf file
3144        [FileName,PathName] = uigetfile( ...
3145            {'*.nc', ' (*.nc)';
3146            '*.nc',' netcdf files'; ...
3147            '*.*',  'All Files (*.*)'}, ...
3148            'Pick a netcdf file',FileBase);
[450]3149        FullFileName=[PathName FileName];
[387]3150        % display the selected field and related information
[450]3151        display_file_name( handles,FullFileName)
[387]3152        return
3153    end
3154end
3155indices=fullfile_uvmat('','','','',NomType,i1,i2,j1,j2);
3156set(handles.FileIndex,'String',indices)
3157% set(handles.NomType,'String',NomType)
3158
3159%common to Fields_1_Callback
[517]3160list_fields_1=get(handles.Fields_1,'String');% list menu fields
3161field_1='';
3162if ~isempty(list_fields_1)
3163field_1= list_fields_1{get(handles.Fields_1,'Value')}; % selected string
3164end
[387]3165if isequal(field,'image')||isequal(field_1,'image')
3166    set(handles.TitleNpx,'Visible','on')% visible npx,pxcm... buttons
3167    set(handles.TitleNpy,'Visible','on')
3168    set(handles.num_Npx,'Visible','on')
3169    set(handles.num_Npy,'Visible','on')
3170else
3171    set(handles.TitleNpx,'Visible','off')% visible npx,pxcm... buttons
3172    set(handles.TitleNpy,'Visible','off')
3173    set(handles.num_Npx,'Visible','off')
3174    set(handles.num_Npy,'Visible','off')
3175end
3176if ~(isfield(UvData,'NewSeries')&&isequal(UvData.NewSeries,1))
3177    run0_Callback(hObject, eventdata, handles)
3178end
3179
3180%---------------------------------------------------
3181% --- Executes on menu selection Fields
3182function Fields_1_Callback(hObject, eventdata, handles)
3183%-------------------------------------------------
3184%% read input data
3185check_new=~get(handles.SubField,'Value'); %check_new=1 if a second field was not previously entered
3186UvData=get(handles.uvmat,'UserData');
3187if check_new && isfield(UvData,'XmlData')
3188    UvData.XmlData{2}=UvData.XmlData{1};
3189end
[389]3190if isfield(UvData,'Field_1')
3191    UvData=rmfield(UvData,'Field_1');% remove the stored second field (a new one needs to be read)
3192end
[450]3193UvData.FileName_1='';% desactivate the use of a constant second file
[387]3194list_fields=get(handles.Fields,'String');% list menu fields
[405]3195field= list_fields{get(handles.Fields,'Value')}; % selected string
[387]3196list_fields=get(handles.Fields_1,'String');% list menu fields
[405]3197field_1= list_fields{get(handles.Fields_1,'Value')}; % selected string for the second field
3198if isempty(field_1)%||(numel(UvData.FileType)>=2 && strcmp(UvData.FileType{2},'image'))
[387]3199    set(handles.SubField,'Value',0)
3200    SubField_Callback(hObject, eventdata, handles)
[428]3201    return
[405]3202else
3203    set(handles.SubField,'Value',1)%state that a second field is now entered
[387]3204end
3205
3206%% read the rootfile input display
[405]3207[RootPath_1,SubDir_1,RootFile_1,FileIndex_1,FileExt_1]=read_file_boxes_1(handles);
[450]3208FileName_1=[fullfile(RootPath_1,SubDir_1,RootFile_1) FileIndex_1 FileExt_1];
[387]3209[tild,tild,tild,i1,i2,j1,j2]=fileparts_uvmat(get(handles.FileIndex,'String'));
3210switch field_1
3211    case 'get_field...'
3212        set_veltype_display(0) % no veltype display
3213        hget_field=findobj(allchild(0),'name','get_field_1');
3214        if ~isempty(hget_field)
3215            delete(hget_field)
3216        end
[450]3217        hget_field=get_field(FileName_1);
[387]3218        set(hget_field,'name','get_field_1')
3219        hhget_field=guidata(hget_field);
3220        set(hhget_field.list_fig,'Value',1)
3221        set(hhget_field.list_fig,'String',{'uvmat'})
[428]3222        if check_new
3223            UvData.FileType{2}=UvData.FileType{1};
3224            set(handles.FileIndex_1,'String',get(handles.FileIndex,'String'))
3225              set(handles.uvmat,'UserData',UvData)
3226        end
[387]3227    case 'image'
[494]3228        % get the image name corresponding to the current netcdf name (no unique correspondance)
3229        if  isfield(UvData.Field,'Civ2_ImageA')%get the corresponding input image in the netcdf file
3230            imagename=UvData.Field.Civ2_ImageA;
3231        elseif isfield(UvData.Field,'Civ1_ImageA')%
3232            imagename=UvData.Field.Civ1_ImageA;
3233        else
3234            SubDirBase=regexprep(SubDir_1,'\..*','');%take the root part of SubDir, before the first dot '.'
3235            imagename=fullfile_uvmat(RootPath_1,SubDirBase,RootFile_1,'.png',get(handles.NomType,'String'),i1,[],j1);
3236        end
[405]3237        if ~exist(imagename,'file') % browse for images if it is not found
[387]3238            [FileName,PathName] = uigetfile( ...
3239                {'*.png;*.jpg;*.tif;*.avi;*.AVI;*.vol', ' (*.png, .tif, *.avi,*.vol)';
3240                '*.jpg',' jpeg image files'; ...
3241                '*.png','.png image files'; ...
3242                '*.tif','.tif image files'; ...
3243                '*.avi;*.AVI','.avi movie files'; ...
3244                '*.vol','.volume images (png)'; ...
3245                '*.*',  'All Files (*.*)'}, ...
3246                'Pick an image',imagename);
3247            imagename=[PathName FileName];
3248        end
[405]3249        if ~ischar(imagename)% quit if the browser has  been closed
3250            set(handles.SubField,'Value',0)
3251        else %valid browser input:  display the selected image
3252            set(handles.TitleNpx,'Visible','on')% visible npx,pxcm... buttons
3253            set(handles.TitleNpy,'Visible','on')
3254            set(handles.num_Npx,'Visible','on')
3255            set(handles.num_Npy,'Visible','on')
[406]3256            display_file_name(handles,imagename,2)%display the imag
[405]3257        end
[387]3258    otherwise
3259        if check_new
3260            UvData.FileType{2}=UvData.FileType{1};
3261            set(handles.FileIndex_1,'String',get(handles.FileIndex,'String'))
3262            set(handles.FileExt_1,'String',get(handles.FileExt,'String'))
3263        end
3264        if ~isequal(field,'image')
3265            set(handles.TitleNpx,'Visible','off')% visible npx,pxcm... buttons
3266            set(handles.TitleNpy,'Visible','off')
3267            set(handles.num_Npx,'Visible','off')
3268            set(handles.num_Npy,'Visible','off')
3269        end
3270        set(handles.uvmat,'UserData',UvData)
3271        if ~(isfield(UvData,'NewSeries')&&isequal(UvData.NewSeries,1))
3272            run0_Callback(hObject, eventdata, handles)
3273        end
3274end
3275
3276%------------------------------------------------------------------------
3277% --- set the visibility of relevant velocity type menus:
3278function menu=set_veltype_display(Civ,FileType)
3279%------------------------------------------------------------------------
3280if ~exist('FileType','var')
3281    FileType='civx';
3282end
3283switch FileType
3284    case 'civx'
[389]3285        menu={'civ1';'interp1';'filter1';'civ2';'interp2';'filter2'};
3286        if isequal(Civ,0)
3287            imax=0;
3288        elseif isequal(Civ,1) || isequal(Civ,2)
3289            imax=1;
3290        elseif isequal(Civ,3)
3291            imax=3;
3292        elseif isequal(Civ,4) || isequal(Civ,5)
3293            imax=4;
3294        elseif isequal(Civ,6) %patch2
3295            imax=6;
3296        end
[387]3297    case 'civdata'
[389]3298        menu={'civ1';'filter1';'civ2';'filter2'};
3299        if isequal(Civ,0)
3300            imax=0;
3301        elseif isequal(Civ,1) || isequal(Civ,2)
3302            imax=1;
3303        elseif isequal(Civ,3)
3304            imax=2;
3305        elseif isequal(Civ,4) || isequal(Civ,5)
3306            imax=3;
3307        elseif isequal(Civ,6) %patch2
3308            imax=4;
3309        end
[387]3310end
3311menu=menu(1:imax);
3312
3313%------------------------------------------------------------------------
[402]3314% --- Executes on button press in FixVelType.
3315function FixVelType_Callback(hObject, eventdata, handles)
3316%------------------------------------------------------------------------
[405]3317% refresh the current plot if the fixed  veltype is unselected
3318if ~get(handles.FixVelType,'Value')
[402]3319    run0_Callback(hObject, eventdata, handles)
3320end
3321
3322%------------------------------------------------------------------------
[387]3323% --- Executes on button press in VelType.
3324function VelType_Callback(hObject, eventdata, handles)
3325%------------------------------------------------------------------------
3326set(handles.FixVelType,'Value',1)
3327run0_Callback(hObject, eventdata, handles)
3328
3329%------------------------------------------------------------------------
[515]3330% --- Executes on choice selection in VelType_1.
[387]3331function VelType_1_Callback(hObject, eventdata, handles)
3332%------------------------------------------------------------------------
3333set(handles.FixVelType,'Value',1)% the velocity type is now imposed by the GUI (not automatic)
[389]3334UvData=get(handles.uvmat,'UserData');
[515]3335set(handles.run0,'BackgroundColor',[1 1 0])%paint run0 button in yellow to indicate its activation
[387]3336drawnow   
[515]3337InputFile=read_GUI(handles.InputFile);% read the input file parameters
3338[RootPath,SubDir,RootFile,FileIndex,FileExt]=read_file_boxes(handles);
3339[RootPath_1,SubDir_1,RootFile_1,FileIndex_1,FileExt_1]=read_file_boxes_1(handles);
3340FileName=[fullfile(RootPath,SubDir,RootFile) FileIndex FileExt];% name of the first input file
[405]3341
[515]3342check_refresh=0;
[389]3343if isempty(InputFile.VelType_1)
[515]3344        FileName_1='';% we plot the first input field without the second field
[387]3345        set(handles.SubField,'Value',0)
[515]3346        SubField_Callback(hObject, eventdata, handles)% activate SubField_Callback and refresh current display, removing the second field
[387]3347elseif get(handles.SubField,'Value')% if subfield is already 'on'
[515]3348     FileName_1=[fullfile(RootPath_1,SubDir_1,RootFile_1) FileIndex_1 FileExt_1];% name of the second input file
3349     check_refresh=1;%will refresh the current display
3350else% we introduce the same file (with a different field) for the second series
3351     FileName_1=FileName;% we compare two fields in the same file
[389]3352     UvData.FileType{2}=UvData.FileType{1};
[515]3353     UvData.XmlData{2}= UvData.XmlData{1};
[387]3354     set(handles.SubField,'Value',1)
[515]3355     transform=get(handles.path_transform,'UserData');
3356     if (~isa(transform,'function_handle')||nargin(transform)<3)
3357        set(handles.transform_fct,'value',2); % set transform to sub_field if the current fct doe not accept two input fields
3358        transform_fct_Callback(hObject, eventdata, handles)% activate transform_fct_Callback and refresh current display
3359     else
3360         check_refresh=1;
3361     end 
[387]3362end
3363
[515]3364% refresh the current display if it has not been done previously
3365if check_refresh
3366    UvData.FileName_1='';% desactivate the use of a constant second file
3367    set(handles.uvmat,'UserData',UvData)
3368    num_i1=stra2num(get(handles.i1,'String'));
3369    num_i2=stra2num(get(handles.i2,'String'));
3370    num_j1=stra2num(get(handles.j1,'String'));
3371    num_j2=stra2num(get(handles.j2,'String'));
3372    [tild,tild,tild,i1_1,i2_1,j1_1,j2_1]=fileparts_uvmat(['xx' FileIndex_1]);
3373    errormsg=refresh_field(handles,FileName,FileName_1,num_i1,num_i2,num_j1,num_j2,i1_1,i2_1,j1_1,j2_1);
3374    if ~isempty(errormsg)
3375        msgbox_uvmat('ERROR',errormsg);
3376    else
3377        set(handles.i1,'BackgroundColor',[1 1 1])
3378        set(handles.i2,'BackgroundColor',[1 1 1])
3379        set(handles.j1,'BackgroundColor',[1 1 1])
3380        set(handles.j2,'BackgroundColor',[1 1 1])
3381        set(handles.FileIndex,'BackgroundColor',[1 1 1])
3382        set(handles.FileIndex_1,'BackgroundColor',[1 1 1])
3383    end
3384    set(handles.run0,'BackgroundColor',[1 0 0])
[387]3385end
3386
3387%-----------------------------------------------
3388% --- reset civ buttons
3389function reset_vel_type(handles_civ0,handle1)
3390for ibutton=1:length(handles_civ0)
3391    set(handles_civ0(ibutton),'BackgroundColor',[0.831 0.816 0.784])
3392    set(handles_civ0(ibutton),'Value',0)
3393end
3394if exist('handle1','var')%handles of selected button
3395        set(handle1,'BackgroundColor',[1 1 0]) 
3396end
3397
3398%-------------------------------------------------------
3399% --- Executes on button press in MENUVOLUME.
3400%-------------------------------------------------------
3401function VOLUME_Callback(hObject, eventdata, handles)
3402%errordlg('command VOL not implemented yet')
3403if ishandle(handles.UVMAT_title)
3404    delete(handles.UVMAT_title)
3405end
3406UvData=get(handles.uvmat,'UserData');%read UvData properties stored on the uvmat interface
3407if isequal(get(handles.VOLUME,'Value'),1)
3408    set(handles.CheckZoom,'Value',0)
3409    set(handles.CheckZoom,'BackgroundColor',[0.7 0.7 0.7])
3410    set(handles.edit_vect,'Value',0)
3411    edit_vect_Callback(hObject, eventdata, handles)
3412    set(handles.edit_object,'Value',0)
3413    set(handles.edit_object,'BackgroundColor',[0.7 0.7 0.7])
3414%     set(handles.cal,'Value',0)
3415%     set(handles.cal,'BackgroundColor',[0 1 0])
3416    set(handles.edit_vect,'Value',0)
3417    edit_vect_Callback(hObject, eventdata, handles)
3418    %initiate set_object GUI
3419    data.Name='VOLUME';
3420    if isfield(UvData,'CoordType')
3421        data.CoordType=UvData.CoordType;
3422    end
[404]3423    if isfield(UvData.Field,'Mesh')&~isempty(UvData.Field.Mesh)
3424        data.RangeX=[UvData.Field.XMin UvData.Field.XMax];
3425        data.RangeY=[UvData.Field.YMin UvData.Field.YMax];
3426        data.DX=UvData.Field.Mesh;
3427        data.DY=UvData.Field.Mesh;
[387]3428    elseif isfield(UvData.Field,'AX')&isfield(UvData.Field,'AY')& isfield(UvData.Field,'A')%only image
3429        np=size(UvData.Field.A);
3430        meshx=(UvData.Field.AX(end)-UvData.Field.AX(1))/np(2);
3431        meshy=abs(UvData.Field.AY(end)-UvData.Field.AY(1))/np(1);
3432        data.RangeY=max(meshx,meshy);
3433        data.RangeX=max(meshx,meshy);
3434        data.DX=max(meshx,meshy);
3435    end
3436    data.ParentButton=handles.VOLUME;
3437    PlotHandles=get_plot_handles(handles);%get the handles of the interface elements setting the plotting parameters
3438    [hset_object,UvData.sethandles]=set_object(data,PlotHandles);% call the set_object interface with action on haxes,
3439                                                      % associate the set_object interface handle to the plotting axes
[511]3440    set(hset_object,'Position',get(handles.uvmat,'Position')+UvData.OpenParam.PosSetObject)
[387]3441    UvData.MouseAction='create_object';
3442else
3443    set(handles.VOLUME,'BackgroundColor',[0 1 0])
3444end
3445set(handles.uvmat,'UserData',UvData)
3446
3447%-------------------------------------------------------
3448function edit_vect_Callback(hObject, eventdata, handles)
3449%-------------------------------------------------------
3450%
3451% UvData=get(handles.uvmat,'UserData');%read UvData properties stored on the uvmat interface
3452if isequal(get(handles.edit_vect,'Value'),1)
3453    test_civ2=isequal(get(handles.civ2,'BackgroundColor'),[1 1 0]);
3454    test_civ1=isequal(get(handles.VelType,'BackgroundColor'),[1 1 0]);
3455    if ~test_civ2 && ~test_civ1
3456        msgbox_uvmat('ERROR','manual correction only possible for CIV1 or CIV2 velocity fields')
3457    end
3458    set(handles.record,'Visible','on')
3459    set(handles.edit_vect,'BackgroundColor',[1 1 0])
3460    set(handles.edit_object,'Value',0)
3461    set(handles.CheckZoom,'Value',0)
3462    set(handles.CheckZoom,'BackgroundColor',[0.7 0.7 0.7])
3463%     set(handles.create,'Value',0)
3464%     set(handles.create,'BackgroundColor',[0 1 0])
3465    set(handles.edit_object,'BackgroundColor',[0.7 0.7 0.7])
3466    set(gcf,'Pointer','arrow')
3467%     UvData.MouseAction='edit_vect';
3468else
3469    set(handles.record,'Visible','off')
3470    set(handles.edit_vect,'BackgroundColor',[0.7 0.7 0.7])
3471end
3472
3473%----------------------------------------------
3474function save_mask_Callback(hObject, eventdata, handles)
3475%-----------------------------------------------------------------------
3476UvData=get(handles.uvmat,'UserData');
3477
3478flag=1;
3479npx=size(UvData.Field.A,2);
3480npy=size(UvData.Field.A,1);
3481xi=0.5:npx-0.5;
3482yi=0.5:npy-0.5;
3483[Xi,Yi]=meshgrid(xi,yi);
3484if isfield(UvData,'Object')
3485    for iobj=1:length(UvData.Object)
3486        ObjectData=UvData.Object{iobj};
3487        if isfield(ObjectData,'ProjMode') &&(isequal(ObjectData.ProjMode,'mask_inside')||isequal(ObjectData.ProjMode,'mask_outside'));
3488            flagobj=1;
3489            testphys=0; %coordinates in pixels by default
3490            if isfield(ObjectData,'CoordType') && isequal(ObjectData.CoordType,'phys')
3491                if isfield(UvData,'XmlData')&& isfield(UvData.XmlData{1},'GeometryCalib')
3492                    Calib=UvData.XmlData{1}.GeometryCalib;
3493                    testphys=1;
3494                end
3495            end
3496            if isfield(ObjectData,'Coord')& isfield(ObjectData,'Style')
3497                if isequal(ObjectData.Type,'polygon')
3498                    X=ObjectData.Coord(:,1);
3499                    Y=ObjectData.Coord(:,2);
3500                    if testphys
3501                        [X,Y]=px_XYZ(Calib,X,Y,0);% to generalise with 3D cases
3502                    end
3503                    flagobj=~inpolygon(Xi,Yi,X',Y');%=0 inside the polygon, 1 outside                 
3504                elseif isequal(ObjectData.Type,'ellipse')
3505                    if testphys
3506                        %[X,Y]=px_XYZ(Calib,X,Y,0);% TODO:create a polygon boundary and transform to phys
3507                    end
3508                    RangeX=max(ObjectData.RangeX);
3509                    RangeY=max(ObjectData.RangeY);
3510                    X2Max=RangeX*RangeX;
3511                    Y2Max=RangeY*RangeY;
3512                    distX=(Xi-ObjectData.Coord(1,1));
3513                    distY=(Yi-ObjectData.Coord(1,2));
3514                    flagobj=(distX.*distX/X2Max+distY.*distY/Y2Max)>1;
3515                elseif isequal(ObjectData.Type,'rectangle')
3516                    if testphys
3517                        %[X,Y]=px_XYZ(Calib,X,Y,0);% TODO:create a polygon boundary and transform to phys
3518                    end
3519                    distX=abs(Xi-ObjectData.Coord(1,1));
3520                    distY=abs(Yi-ObjectData.Coord(1,2));
3521                    flagobj=distX>max(ObjectData.RangeX) | distY>max(ObjectData.RangeY);
3522                end
3523                if isequal(ObjectData.ProjMode,'mask_outside')
3524                    flagobj=~flagobj;
3525                end
3526                flag=flag & flagobj;
3527            end
3528        end
3529    end
3530end
3531% flag=~flag;
3532%mask name
3533RootPath=get(handles.RootPath,'String');
3534RootFile=get(handles.RootFile,'String');
3535RootFile=regexprep(RootFile,'\<[\\/]|[\\/]\>','');%suppress possible / or \ separator at the beginning or the end of the string
3536filebase=fullfile(RootPath,RootFile);
3537list=get(handles.masklevel,'String');
3538masknumber=num2str(length(list));
3539maskindex=get(handles.masklevel,'Value');
3540mask_name=fullfile_uvmat(RootPath,SubDir,[RootFile '_' masknumber 'mask'],'.png','_1',maskindex);
3541%mask_name=name_generator([filebase '_' masknumber 'mask'],maskindex,1,'.png','_i');
3542imflag=uint8(255*(0.392+0.608*flag));% =100 for flag=0 (vectors not computed when 20<imflag<200)
3543imflag=flipdim(imflag,1);
3544% imflag=uint8(255*flag);% =0 for flag=0 (vectors=0 when 20<imflag<200)
3545msgbox_uvmat('CONFIRMATION',[mask_name ' saved'])
3546imwrite(imflag,mask_name,'BitDepth',8);
3547
3548%display the mask
3549figure;
3550vec=linspace(0,1,256);%define a linear greyscale colormap
3551map=[vec' vec' vec'];
3552colormap(map)
3553
3554image(imflag);
3555
3556%-------------------------------------------------------------------
3557%-------------------------------------------------------------------
3558%  - FUNCTIONS FOR SETTING PLOTTING PARAMETERS
3559
3560%------------------------------------------------------------------
3561%-------------------------------------------------------------
3562% --- Executes on selection change in transform_fct.
[508]3563
[387]3564function transform_fct_Callback(hObject, eventdata, handles)
3565%-------------------------------------------------------------
3566UvData=get(handles.uvmat,'UserData');
[508]3567menu=get(handles.transform_fct,'String');refresh
[507]3568ichoice=get(handles.transform_fct,'Value');%item number in the menu
3569transform_name=menu{ichoice};% choice of the transform fct
3570list_path=get(handles.transform_fct,'UserData');
3571
3572%% add a new item to the menu if the option 'more...' has been selected
[508]3573prev_path=fullfile(get(handles.path_transform,'String'));
3574if ~exist(prev_path,'dir')
3575    prev_path=fullfile(fileparts(which('uvmat')),'transform_field');
3576end
[507]3577if strcmp(transform_name,'more...');
[387]3578    [FileName, PathName] = uigetfile( ...
[507]3579        {'*.m', ' (*.m)';
[387]3580        '*.m',  '.m files '; ...
3581        '*.*', 'All Files (*.*)'}, ...
[508]3582        'Pick the transform function', prev_path);
[507]3583    path_transform_fct =fullfile(PathName,FileName);
3584    if ~exist(path_transform_fct,'file')% cancel has been activated
3585        return
[387]3586    end
[507]3587    if isempty(regexp(FileName,'.m$'))% detect file extension .m
[387]3588        msgbox_uvmat('ERROR','a Matlab function .m must be introduced');
3589        return
[507]3590    else
3591        transform_name=regexprep(FileName,'.m','');
3592    end
3593    ichoice=find(strcmp(transform_name,menu),1);%look for the selected fct in the existing menu
3594    if isempty(ichoice)% if the item is not found, add it to the menu (before 'more...' and select it)
3595        menu=[menu(1:end-1);{transform_name};{'more...'}];
3596        ichoice=numel(menu)-1;   
3597    end
3598    list_path{ichoice}=PathName;%update the list fo fct paths
[508]3599    set(handles.transform_fct,'String',menu)
3600    set(handles.transform_fct,'Value',ichoice)
[507]3601   
3602    % save the new menu in the personal file 'uvmat_perso.mat'
3603    dir_perso=prefdir;%personal Matalb directory
3604    profil_perso=fullfile(dir_perso,'uvmat_perso.mat');
3605    if exist(profil_perso,'file')
3606        nb_builtin=UvData.OpenParam.NbBuiltin;% number of 'builtin' (basic) transform fcts in uvmat
[523]3607        if nb_builtin<numel(list_path)
[507]3608        for ilist=nb_builtin+1:numel(list_path)
[508]3609            transform_fct{ilist-nb_builtin}=[fullfile(list_path{ilist},menu{ilist}) '.m'];
[507]3610        end
[387]3611        save (profil_perso,'transform_fct','-append'); %store the root name for future opening of uvmat
[523]3612        end
[507]3613    end
[387]3614end
3615
[507]3616%% create the function handle of the selected fct
[512]3617
[507]3618if isempty(list_path{ichoice})% case of no selected fct
3619    transform_handle=[];
[387]3620else
[507]3621    if ~exist(list_path{ichoice},'dir')
3622        msgbox_uvmat('ERROR','invalid fct path: select the transform fct again with the option more...')
3623        return
3624    end
3625    current_dir=pwd;%current working dir
3626    cd(list_path{ichoice})
3627    transform_handle=str2func(transform_name);
3628    cd(current_dir)
[387]3629end
[508]3630set(handles.path_transform,'String',list_path{ichoice})
[507]3631set(handles.path_transform,'UserData',transform_handle)
[512]3632set(handles.transform_fct,'UserData',list_path)
[387]3633
[507]3634%% update the ToolTip string of the menu transform_fct with the first line of the selected fct file
3635if isempty(list_path{ichoice})% case of no selected fct
3636    set(handles.transform_fct,'ToolTipString','transform_fct:choose a transform function')
3637else
3638    try
3639        [fid,errormsg] =fopen([fullfile(list_path{ichoice},transform_name) '.m']);
3640        InputText=textscan(fid,'%s',1,'delimiter','\n');
3641        fclose(fid)
3642        set(handles.transform_fct,'ToolTipString',['transform_fct: ' InputText{1}{1}])% put the first line of the selected function as tooltip help
3643    end
3644end
3645
3646%% adapt the GUI to the input/output conditions of the selected transform fct
[508]3647DataOut=[];
3648CoordUnit='';
3649CoordUnitPrev='';
3650if isfield(UvData,'Field')&&isfield(UvData.Field,'CoordUnit')
3651    CoordUnitPrev=UvData.Field.CoordUnit;
3652end
3653if ~isempty(list_path{ichoice})
3654    if nargin(transform_handle)>1 && isfield(UvData,'XmlData')&&~isempty(UvData.XmlData)
3655        XmlData=UvData.XmlData{1};
3656        DataOut=feval(transform_handle,'*',XmlData);
3657        if isfield(DataOut,'CoordUnit')
3658            CoordUnit=DataOut.CoordUnit;
[507]3659        end
[508]3660        if isfield(DataOut,'InputFieldType')
3661            UvData.InputFieldType=DataOut.InputFieldType;
3662        end
3663    else
3664        DataOut=feval(transform_handle,'*');
[507]3665    end
3666end
3667
[387]3668set(handles.CheckFixLimits,'Value',0)
3669set(handles.CheckFixLimits,'BackgroundColor',[0.7 0.7 0.7])
3670
[508]3671%% delete drawn objects if the output CooordUnit is different from the previous one
3672if ~strcmp(CoordUnit,CoordUnitPrev)
3673    hother=findobj('Tag','proj_object');%find all the proj objects
3674    for iobj=1:length(hother)
3675        delete_object(hother(iobj))
3676    end
3677    hother=findobj('Tag','DeformPoint');%find all the proj objects
3678    for iobj=1:length(hother)
3679        delete_object(hother(iobj))
3680    end
3681    hh=findobj('Tag','calib_points');
3682    if ~isempty(hh)
3683        delete(hh)
3684    end
3685    hhh=findobj('Tag','calib_marker');
3686    if ~isempty(hhh)
3687        delete(hhh)
3688    end
3689%     if isfield(UvData,'Object')
3690%         UvData.Object=UvData.Object(1);
3691%     end
3692    set(handles.ListObject,'Value',1)
3693    set(handles.ListObject,'String',{''})
3694    set(handles.ListObject_1,'Value',1)
3695    set(handles.ListObject_1,'String',{''})
3696    set(handles.ViewObject,'value',0)
3697    ViewObject_Callback(hObject, eventdata, handles)
3698    set(handles.ViewField,'value',0)
3699    ViewField_Callback(hObject, eventdata, handles)
3700    set(handles.edit_object,'Value',0)
3701    edit_object_Callback(hObject, eventdata, handles)
3702    UvData.Object={[]};
[387]3703end
[508]3704set(handles.uvmat,'UserData',UvData)
[387]3705
[508]3706%% refresh the current plot
[515]3707if isempty(list_path{ichoice}) || nargin(transform_handle)<3
3708    set(handles.SubField,'Value',0)
3709    SubField_Callback(hObject, eventdata, handles)
3710else
3711    run0_Callback(hObject, eventdata, handles)
3712end
[387]3713
3714%------------------------------------------------
3715%CALLBACKS FOR PLOTTING PARAMETERS
3716%-------------------------------------------------
[405]3717%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
3718% Plot coordinates
3719%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
[387]3720%------------------------------------------------------------------------
3721function num_MinX_Callback(hObject, eventdata, handles)
3722%------------------------------------------------------------------------
3723set(handles.CheckFixLimits,'Value',1) %suppress auto mode
3724set(handles.CheckFixLimits,'BackgroundColor',[1 1 0])
3725update_plot(handles);
3726
3727%------------------------------------------------------------------------
3728function num_MaxX_Callback(hObject, eventdata, handles)
3729%------------------------------------------------------------------------
3730set(handles.CheckFixLimits,'Value',1) %suppress auto mode
3731set(handles.CheckFixLimits,'BackgroundColor',[1 1 0])
3732update_plot(handles);
3733
3734%------------------------------------------------------------------------
3735function num_MinY_Callback(hObject, eventdata, handles)
3736%------------------------------------------
3737set(handles.CheckFixLimits,'Value',1) %suppress auto mode
3738set(handles.CheckFixLimits,'BackgroundColor',[1 1 0])
3739update_plot(handles);
3740
3741%------------------------------------------------------------------------
3742function num_MaxY_Callback(hObject, eventdata, handles)
3743%------------------------------------------------------------------------
3744set(handles.CheckFixLimits,'Value',1) %suppress auto mode
3745set(handles.CheckFixLimits,'BackgroundColor',[1 1 0])
3746update_plot(handles);
3747
[405]3748%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
3749% Scalar or image representation
3750%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
[387]3751%------------------------------------------------------------------------
3752function num_MinA_Callback(hObject, eventdata, handles)
3753%------------------------------------------
3754set(handles.CheckFixScalar,'Value',1) %suppress auto mode
3755set(handles.CheckFixScalar,'BackgroundColor',[1 1 0])
3756MinA=str2double(get(handles.num_MinA,'String'));
3757MaxA=str2double(get(handles.num_MaxA,'String'));
3758if MinA>MaxA% switch minA and maxA in case of error
3759    MinA_old=MinA;
3760    MinA=MaxA;
3761    MaxA=MinA_old;
3762    set(handles.num_MinA,'String',num2str(MinA,5));
3763    set(handles.num_MaxA,'String',num2str(MaxA,5));
3764end
3765update_plot(handles);
3766
3767%------------------------------------------------------------------------
3768function num_MaxA_Callback(hObject, eventdata, handles)
3769%------------------------------------------------------------------------
3770set(handles.CheckFixScalar,'Value',1) %suppress auto mode
3771set(handles.CheckFixScalar,'BackgroundColor',[1 1 0])
3772MinA=str2double(get(handles.num_MinA,'String'));
3773MaxA=str2double(get(handles.num_MaxA,'String'));
3774if MinA>MaxA% switch minA and maxA in case of error
3775        MinA_old=MinA;
3776    MinA=MaxA;
3777    MaxA=MinA_old;
3778    set(handles.num_MinA,'String',num2str(MinA,5));
3779    set(handles.num_MaxA,'String',num2str(MaxA,5));
3780end
3781update_plot(handles);
3782
3783%------------------------------------------------------------------------
3784function CheckFixScalar_Callback(hObject, eventdata, handles)
3785%------------------------------------------------------------------------
3786test=get(handles.CheckFixScalar,'Value');
3787if test
3788    set(handles.CheckFixScalar,'BackgroundColor',[1 1 0])
3789else
3790    set(handles.CheckFixScalar,'BackgroundColor',[0.7 0.7 0.7])
3791    update_plot(handles);
3792end
3793
3794%-------------------------------------------------------------------
3795function CheckBW_Callback(hObject, eventdata, handles)
3796%-------------------------------------------------------------------
3797update_plot(handles);
3798
3799%-------------------------------------------------------------------
[428]3800function num_Opacity_Callback(hObject, eventdata, handles)
3801update_plot(handles);
3802%-------------------------------------------------------------------
3803
3804%-------------------------------------------------------------------
[387]3805function ListContour_Callback(hObject, eventdata, handles)
3806%-------------------------------------------------------------------
3807val=get(handles.ListContour,'Value');
3808if val==2
3809    set(handles.interval_txt,'Visible','on')
3810    set(handles.num_IncrA,'Visible','on')
3811else
3812    set(handles.interval_txt,'Visible','off')
3813    set(handles.num_IncrA,'Visible','off')
3814end
3815update_plot(handles);
3816
3817%-------------------------------------------------------------------
3818function num_IncrA_Callback(hObject, eventdata, handles)
3819%-------------------------------------------------------------------
3820update_plot(handles);
3821
[405]3822
3823%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
3824% Vector representation
3825%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
[387]3826%-------------------------------------------------------------------
3827function CheckHideWarning_Callback(hObject, eventdata, handles)
3828%-------------------------------------------------------------------
3829update_plot(handles);
3830
3831%-------------------------------------------------------------------
3832function CheckHideFalse_Callback(hObject, eventdata, handles)
3833%-------------------------------------------------------------------
3834update_plot(handles);
3835
3836%-------------------------------------------------------------------
3837function num_VecScale_Callback(hObject, eventdata, handles)
3838%-------------------------------------------------------------------
3839set(handles.CheckFixVectors,'Value',1);
3840set(handles.CheckFixVectors,'BackgroundColor',[1 1 0])
3841update_plot(handles);
3842
3843%-------------------------------------------------------------------
3844function CheckFixVectors_Callback(hObject, eventdata, handles)
3845%-------------------------------------------------------------------
3846test=get(handles.CheckFixVectors,'Value');
3847if test
3848    set(handles.CheckFixVectors,'BackgroundColor',[1 1 0])
3849else
3850    update_plot(handles);
3851    %set(handles.num_VecScale,'String',num2str(ScalOut.num_VecScale,3))
3852    set(handles.CheckFixVectors,'BackgroundColor',[0.7 0.7 0.7])
3853end
3854
3855%------------------------------------------------------------------------
3856% --- Executes on selection change in CheckDecimate4 (nb_vec/4).
3857function CheckDecimate4_Callback(hObject, eventdata, handles)
3858%------------------------------------------------------------------------
3859update_plot(handles);
3860
3861%------------------------------------------------------------------------
[405]3862% --- Executes on selection change in ColorCode menu
3863function ColorCode_Callback(hObject, eventdata, handles)
[387]3864%------------------------------------------------------------------------
[405]3865% edit the choice for color code
3866update_color_code_boxes(handles);
3867update_plot(handles);
3868
3869%------------------------------------------------------------------------
3870function update_color_code_boxes(handles)
3871%------------------------------------------------------------------------
3872list_code=get(handles.ColorCode,'String');% list menu fields
3873colcode= list_code{get(handles.ColorCode,'Value')}; % selected field
3874enable_slider='off';%default
3875enable_bounds='off';%default
3876enable_scalar='off';%default
3877switch colcode
3878    case {'rgb','bgr'}
3879        enable_slider='on';
3880        enable_bounds='on';
3881        enable_scalar='on';
3882    case '64 colors'
3883        enable_bounds='on';
3884        enable_scalar='on';
3885end
3886set(handles.Slider1,'Visible',enable_slider)
3887set(handles.Slider2,'Visible', enable_slider)
3888set(handles.num_ColCode1,'Visible',enable_slider)
3889set(handles.num_ColCode2,'Visible',enable_slider)
3890set(handles.TitleColCode1,'Visible',enable_slider)
3891set(handles.TitleColCode2,'Visible',enable_slider)
3892set(handles.CheckFixVecColor,'Visible',enable_bounds)
3893set(handles.num_MinVec,'Visible',enable_bounds)
3894set(handles.num_MaxVec,'Visible',enable_bounds)
3895set(handles.ColorScalar,'Visible',enable_scalar)
[387]3896set_vec_col_bar(handles)
[405]3897
3898%------------------------------------------------------------------
3899% --- Executes on selection change in ColorScalar: choice of the color code.
3900function ColorScalar_Callback(hObject, eventdata, handles)
3901%------------------------------------------------------------------
3902% edit the choice for color code
3903list_scalar=get(handles.ColorScalar,'String');% list menu fields
3904col_scalar= list_scalar{get(handles.ColorScalar,'Value')}; % selected field
3905if isequal(col_scalar,'ima_cor')
3906    set(handles.CheckFixVecColor,'Value',1)%fixed scale by default
3907    ColorCode='rgb';
3908    set(handles.num_MinVec,'String','0')
3909    set(handles.num_MaxVec,'String','1')
3910    set(handles.num_ColCode1,'String','0.333')
3911    set(handles.num_ColCode2,'String','0.666')
3912else
3913    set(handles.CheckFixVecColor,'Value',0)%auto scale between min,max by default
3914    ColorCode='64 colors';
3915end
3916ColorCodeList=get(handles.ColorCode,'String');
3917ichoice=find(strcmp(ColorCode,ColorCodeList),1);
3918set(handles.ColorCode,'Value',ichoice)% set color code in the menu
3919
3920update_color_code_boxes(handles);
3921%replot the current graph
3922run0_Callback(hObject, eventdata, handles)
3923
3924%----------------------------------------------------------------
3925% -- Executes on slider movement to set the color code
3926%
3927function Slider1_Callback(hObject, eventdata, handles)
3928%------------------------------------------------------------------
3929slider1=get(handles.Slider1,'Value');
3930min_val=str2num(get(handles.num_MinVec,'String'));
3931max_val=str2num(get(handles.num_MaxVec,'String'));
3932col=min_val+(max_val-min_val)*slider1;
3933set(handles.num_ColCode1,'String',num2str(col))
3934if(get(handles.Slider2,'Value') < col)%move also the second slider at the same value if needed
3935    set(handles.Slider2,'Value',col)
3936    set(handles.num_ColCode2,'String',num2str(col))
3937end
3938set_vec_col_bar(handles)
[387]3939update_plot(handles);
3940
[405]3941%----------------------------------------------------------------
3942% Executes on slider movement to set the color code
3943%----------------------------------------------------------------
3944function Slider2_Callback(hObject, eventdata, handles)
3945slider2=get(handles.Slider2,'Value');
3946min_val=str2num(get(handles.num_MinVec,'String'));
3947max_val=str2num(get(handles.num_MaxVec,'String'));
3948col=min_val+(max_val-min_val)*slider2;
3949set(handles.num_ColCode2,'String',num2str(col))
3950if(get(handles.Slider1,'Value') > col)%move also the first slider at the same value if needed
3951    set(handles.Slider1,'Value',col)
3952    set(handles.num_ColCode1,'String',num2str(col))
3953end
3954set_vec_col_bar(handles)
3955update_plot(handles);
3956
3957%----------------------------------------------------------------
3958% --- Execute on return carriage on the edit box corresponding to slider 1
3959%----------------------------------------------------------------
3960function num_ColCode1_Callback(hObject, eventdata, handles)
3961set_vec_col_bar(handles)
3962update_plot(handles);
3963
3964%----------------------------------------------------------------
3965% --- Execute on return carriage on the edit box corresponding to slider 2
3966%----------------------------------------------------------------
3967function num_ColCode2_Callback(hObject, eventdata, handles)
3968set_vec_col_bar(handles)
3969update_plot(handles);
[387]3970%------------------------------------------------------------------------
[405]3971%-------------------------------------------------------
[387]3972% --- Executes on button press in CheckFixVecColor.
[405]3973%-------------------------------------------------------
3974function VecColBar_Callback(hObject, eventdata, handles)
3975set_vec_col_bar(handles)
3976
3977%------------------------------------------------------------------------
3978% --- Executes on button press in CheckFixVecColor.
[387]3979function CheckFixVecColor_Callback(hObject, eventdata, handles)
3980%------------------------------------------------------------------------
[405]3981if ~get(handles.CheckFixVecColor,'Value')
[387]3982    update_plot(handles);
3983end
3984
3985%------------------------------------------------------------------------
3986% --- Executes on selection change in num_MaxVec.
3987function num_MinVec_Callback(hObject, eventdata, handles)
3988%------------------------------------------------------------------------
3989max_vec_Callback(hObject, eventdata, handles)
3990
3991%------------------------------------------------------------------------
3992% --- Executes on selection change in num_MaxVec.
3993function num_MaxVec_Callback(hObject, eventdata, handles)
3994%------------------------------------------------------------------------
3995set(handles.CheckFixVecColor,'Value',1)
3996CheckFixVecColor_Callback(hObject, eventdata, handles)
3997min_val=str2num(get(handles.num_MinVec,'String'));
3998max_val=str2num(get(handles.num_MaxVec,'String'));
3999slider1=get(handles.Slider1,'Value');
4000slider2=get(handles.Slider2,'Value');
4001colcode1=min_val+(max_val-min_val)*slider1;
4002colcode2=min_val+(max_val-min_val)*slider2;
4003set(handles.num_ColCode1,'String',num2str(colcode1))
4004set(handles.num_ColCode2,'String',num2str(colcode2))
4005update_plot(handles);
4006
4007%------------------------------------------------------------------------
[405]4008% --- update the display of color code for vectors (on vecColBar)
[387]4009function set_vec_col_bar(handles)
4010%------------------------------------------------------------------------
4011%get the image of the color display button 'VecColBar' in pixels
4012set(handles.VecColBar,'Unit','pixel');
4013pos_vert=get(handles.VecColBar,'Position');
4014set(handles.VecColBar,'Unit','Normalized');
4015width=ceil(pos_vert(3));
4016height=ceil(pos_vert(4));
4017
4018%get slider indications
[405]4019list=get(handles.ColorCode,'String');
4020ichoice=get(handles.ColorCode,'Value');
4021colcode.ColorCode=list{ichoice};
[387]4022colcode.MinVec=str2num(get(handles.num_MinVec,'String'));
4023colcode.MaxVec=str2num(get(handles.num_MaxVec,'String'));
[405]4024test3color=strcmp(colcode.ColorCode,'rgb') || strcmp(colcode.ColorCode,'bgr');
[387]4025if test3color
4026    colcode.ColCode1=str2num(get(handles.num_ColCode1,'String'));
4027    colcode.ColCode2=str2num(get(handles.num_ColCode2,'String'));
4028end
4029vec_C=colcode.MinVec+(colcode.MaxVec-colcode.MinVec)*(0.5:width-0.5)/width;%sample of vec_C values from min to max
4030[colorlist,col_vec]=set_col_vec(colcode,vec_C);
4031oneheight=ones(1,height);
4032A1=colorlist(col_vec,1)*oneheight;
4033A2=colorlist(col_vec,2)*oneheight;
4034A3=colorlist(col_vec,3)*oneheight;
4035A(:,:,1)=A1';
4036A(:,:,2)=A2';
4037A(:,:,3)=A3';
4038set(handles.VecColBar,'Cdata',A)
4039
4040%-------------------------------------------------------------------
4041function update_plot(handles)
4042%-------------------------------------------------------------------
4043UvData=get(handles.uvmat,'UserData');
[511]4044AxeData=UvData.PlotAxes;% retrieve the current plotted data
[387]4045PlotParam=read_GUI(handles.uvmat);
[511]4046[tild,PlotParamOut]= plot_field(AxeData,handles.PlotAxes,PlotParam);
[387]4047write_plot_param(handles,PlotParamOut); %update the auto plot parameters
4048
[402]4049%------------------------------------------------------------------------
4050%------------------------------------------------------------------------
4051%   SELECTION AND EDITION OF PROJECTION OBJECTS
4052%------------------------------------------------------------------------
4053%------------------------------------------------------------------------
[387]4054
[410]4055% --- Executes on selection change in ListObject_1.
4056function ListObject_1_Callback(hObject, eventdata, handles)
[432]4057list_str=get(handles.ListObject,'String');
[410]4058UvData=get(handles.uvmat,'UserData');
4059ObjectData=UvData.Object{get(handles.ListObject_1,'Value')};
4060
4061%% update the projection plot on uvmat
[432]4062ProjData= proj_field(UvData.Field,ObjectData);%project the current input field on object ObjectData
[511]4063plot_field(ProjData,handles.PlotAxes,read_GUI(handles.uvmat));% plot the projected field;
[432]4064%replot all the objects within the new projected field
4065for IndexObj=1:numel(list_str)
[515]4066        hobject=UvData.Object{IndexObj}.DisplayHandle.uvmat;
[432]4067        if isempty(hobject) || ~ishandle(hobject)
[515]4068            hobject=handles.PlotAxes;
[432]4069        end
4070        if isequal(IndexObj,get(handles.ListObject,'Value'))
4071            objectcolor='m'; %paint in magenta the currently selected object in ListObject
4072        else
4073            objectcolor='b';
4074        end
4075        UvData.Object{IndexObj}.DisplayHandle.uvmat=plot_object(UvData.Object{IndexObj},ObjectData,hobject,objectcolor);%draw the object in uvmat     
4076end
4077set(handles.uvmat,'UserData',UvData)
[410]4078
4079%% display the object parameters if the GUI set_object is already opened
[425]4080if ~get(handles.ViewObject,'Value')
[410]4081    ZBounds=0; % default
4082    if isfield(UvData.Field,'ZMin') && isfield(UvData.Field,'ZMax')
4083        ZBounds(1)=UvData.Field.ZMin; %minimum for the Z slider
4084        ZBounds(2)=UvData.Field.ZMax;%maximum for the Z slider
4085    end
[425]4086    ObjectData.Name=list_str{get(handles.ListObject_1,'Value')};
[410]4087    set_object(ObjectData,[],ZBounds);
[424]4088    set(handles.ViewObject,'Value',1)% show that the selected object in ListObject_1 is currently visualised
[410]4089end
[432]4090
[410]4091%  desactivate the edit object mode
4092set(handles.edit_object,'Value',0)
4093set(handles.edit_object,'BackgroundColor',[0.7,0.7,0.7])
4094
[387]4095%------------------------------------------------------------------------
4096% --- Executes on selection change in ListObject.
4097function ListObject_Callback(hObject, eventdata, handles)
4098%------------------------------------------------------------------------
4099list_str=get(handles.ListObject,'String');
4100IndexObj=get(handles.ListObject,'Value');%present object selection
4101
[410]4102%% The object  is displayed in set_object if this GUI is already opened
[402]4103UvData=get(handles.uvmat,'UserData');
[410]4104ObjectData=UvData.Object{IndexObj};
[402]4105hset_object=findobj(allchild(0),'tag','set_object');
4106if ~isempty(hset_object)
4107    ZBounds=0; % default
4108    if isfield(UvData.Field,'ZMin') && isfield(UvData.Field,'ZMax')
4109        ZBounds(1)=UvData.Field.ZMin; %minimum for the Z slider
4110        ZBounds(2)=UvData.Field.ZMax;%maximum for the Z slider
4111    end
[410]4112    ObjectData.Name=list_str{IndexObj};
[402]4113    set_object(ObjectData,[],ZBounds);
[424]4114    set(handles.ViewField,'Value',1)% show that the selected object in ListObject is currently visualised
[402]4115end
[429]4116
4117%%  desactivate the edit object mode
[402]4118set(handles.edit_object,'Value',0)
4119set(handles.edit_object,'BackgroundColor',[0.7,0.7,0.7])
4120
[429]4121%% update the  plot on view_field if view_field is already openened
4122hview_field=findobj(allchild(0),'tag','view_field');
4123if isempty(hview_field)
[511]4124    hhview_field.PlotAxes=[];
[429]4125else
4126    Data=get(hview_field,'UserData');
4127    hhview_field=guidata(hview_field);
4128    ProjData= proj_field(UvData.Field,ObjectData);%project the current interface field on ObjectData
[511]4129    [PlotType,PlotParam]=plot_field(ProjData,hhview_field.PlotAxes,read_GUI(hview_field));%read plotting parameters on the uvmat interfachhview_fiel
[429]4130    write_plot_param(hhview_field,PlotParam); %update the display of plotting parameters for the current object
4131    haxes=findobj(hview_field,'tag','axes3');
4132    pos=get(hview_field,'Position'); 
4133    if strcmp(get(haxes,'Visible'),'off')%sempty(PlotParam.Coordinates)% case of no plot display (pure text table)
4134        h_TableDisplay=findobj(hview_field,'tag','TableDisplay');
4135        pos_table=get(h_TableDisplay,'Position');
4136        set(hview_field,'Position',[pos(1)+pos(3)-pos_table(3) pos(2)+pos(4)-pos_table(4) pos_table(3) pos_table(4)])
4137        drawnow% needed to change position before the next command
4138        set(hview_field,'UserData',Data);% restore the previously stored GUI position after GUI resizing
4139    else
4140        set(hview_field,'Position',Data.GUISize)% return to the previously stored GUI position and size
[387]4141    end
4142end
4143
[402]4144%% update the color of the graphic object representation: the selected object in magenta, others in blue
[511]4145update_object_color(handles.PlotAxes,hhview_field.PlotAxes,UvData.Object{IndexObj}.DisplayHandle.uvmat)
[387]4146
4147%------------------------------------------------------------------------
[402]4148%--- update the color representation of objects (indicating the selected ones)
4149function update_object_color(axes_uvmat,axes_view_field,DisplayHandle)
[387]4150%------------------------------------------------------------------------
[402]4151if isempty(axes_view_field)% case with no view_field plot
4152hother=[findobj(axes_uvmat,'Tag','proj_object');findobj(axes_uvmat,'Tag','DeformPoint')];%find all the proj object and deform point representations
[387]4153else
[402]4154hother=[findobj(axes_uvmat,'Tag','proj_object') ;findobj(axes_view_field,'Tag','proj_object');... %find all the proj object representations
4155findobj(axes_uvmat,'Tag','DeformPoint'); findobj(axes_view_field,'Tag','DeformPoint')];%find all the deform point representations
[387]4156end
4157for iobj=1:length(hother)
4158    if isequal(get(hother(iobj),'Type'),'rectangle')||isequal(get(hother(iobj),'Type'),'patch')
4159        set(hother(iobj),'EdgeColor','b')
4160        if isequal(get(hother(iobj),'FaceColor'),'m')
4161            set(hother(iobj),'FaceColor','b')
4162        end
4163    elseif isequal(get(hother(iobj),'Type'),'image')
4164        Acolor=get(hother(iobj),'CData');
4165        Acolor(:,:,1)=zeros(size(Acolor,1),size(Acolor,2));
4166        set(hother(iobj),'CData',Acolor);
4167    else
4168        set(hother(iobj),'Color','b')
4169    end
4170    set(hother(iobj),'Selected','off')
4171end
[432]4172if ishandle(DisplayHandle)
[402]4173    linetype=get(DisplayHandle,'Type');
4174    if isequal(linetype,'line')
4175        set(DisplayHandle,'Color','m'); %set the selected object to magenta color
4176    elseif isequal(linetype,'rectangle')
4177        set(DisplayHandle,'EdgeColor','m'); %set the selected object to magenta color
4178    elseif isequal(linetype,'patch')
4179        set(DisplayHandle,'FaceColor','m'); %set the selected object to magenta color
4180    end
4181    SubObjectData=get(DisplayHandle,'UserData');
4182    if isfield(SubObjectData,'SubObject') & ishandle(SubObjectData.SubObject)
4183        for iobj=1:length(SubObjectData.SubObject)
4184            hsub=SubObjectData.SubObject(iobj);
4185            if isequal(get(hsub,'Type'),'rectangle')
4186                set(hsub,'EdgeColor','m'); %set the selected object to magenta color
4187            elseif isequal(get(hsub,'Type'),'image')
4188                Acolor=get(hsub,'CData');
4189                Acolor(:,:,1)=Acolor(:,:,3);
4190                set(hsub,'CData',Acolor);
4191            else
4192                set(hsub,'Color','m')
4193            end
[387]4194        end
4195    end
[402]4196    if isfield(SubObjectData,'DeformPoint') & ishandle(SubObjectData.DeformPoint)
4197        set(SubObjectData.DeformPoint,'Color','m')
4198    end
[387]4199end
[402]4200
[427]4201%-------------------------------------------------------------------
4202% --- Executes on selection change in edit_object.
4203function edit_object_Callback(hObject, eventdata, handles)
4204%-------------------------------------------------------------------
4205UvData=get(handles.uvmat,'UserData');%read UvData properties stored on the uvmat interface
4206hset_object=findobj(allchild(0),'Tag','set_object');
4207if get(handles.edit_object,'Value')
4208    set(handles.edit_object,'BackgroundColor',[1,1,0]) 
4209    %suppress the other options
4210    set(handles.CheckZoom,'Value',0)
4211    CheckZoom_Callback(hObject, eventdata, handles)
4212    hgeometry_calib=findobj(allchild(0),'tag','geometry_calib');
4213    if ishandle(hgeometry_calib)
4214        hhgeometry_calib=guidata(hgeometry_calib);
4215        set(hhgeometry_calib.edit_append,'Value',0)% desactivate mouse action in geometry_calib
4216        set(hhgeometry_calib.edit_append,'BackgroundColor',[0.7 0.7 0.7])
4217    end
4218    set(handles.ViewObject,'value',1)
4219    ViewObject_Callback(hObject, eventdata, handles)
4220else % desctivate object edit mode
4221    set(handles.edit_object,'BackgroundColor',[0.7,0.7,0.7]) 
4222    if ~isempty(hset_object)% open the
4223        hhset_object=guidata(hset_object);
4224        set(hhset_object.PLOT,'enable','off');
4225        set(get(hset_object,'children'),'enable','inactive')
4226    end
4227end
4228
4229
[402]4230%------------------------------------------------------------------------
[424]4231% --- Executes on button press in ViewObject.
4232function ViewObject_Callback(hObject, eventdata, handles)
[410]4233%------------------------------------------------------------------------
[424]4234check_view=get(handles.ViewObject,'Value');
[410]4235
4236if check_view %activate set_object   
[424]4237    IndexObj=get(handles.ListObject,'Value');
4238    list_object=get(handles.ListObject,'String');
[410]4239    UvData=get(handles.uvmat,'UserData');%read UvData properties stored on the uvmat interface
4240    UvData.Object{IndexObj}.Name=list_object{IndexObj};
4241    if numel(UvData.Object)<IndexObj;% error in UvData
4242        msgbox_uvmat('ERROR','invalid object list')
4243        return
4244    end
4245    ZBounds=0; % default
4246    if isfield(UvData.Field,'ZMin') && isfield(UvData.Field,'ZMax')
4247        ZBounds(1)=UvData.Field.ZMin; %minimum for the Z slider
4248        ZBounds(2)=UvData.Field.ZMax;%maximum for the Z slider
4249    end
[424]4250%     set(handles.ListObject_1,'Value',IndexObj);%restore ListObject selection after set_object deletion
[410]4251    data=UvData.Object{IndexObj};
4252    if ~isfield(data,'Type')% default plane
4253        data.Type='plane';
4254    end
[515]4255%     if isfield(UvData,'Field')
4256%         Field=UvData.Field;
4257%         if isfield(UvData.Field,'Mesh')&&~isempty(UvData.Field.Mesh)
4258%             data.RangeX=[UvData.Field.XMin UvData.Field.XMax];
4259%             if strcmp(data.Type,'line')||strcmp(data.Type,'polyline')
4260%                 data.RangeY=UvData.Field.Mesh;
4261%             else
4262%                 data.RangeY=[UvData.Field.YMin UvData.Field.YMax];
4263%             end
4264%             data.DX=UvData.Field.Mesh;
4265%             data.DY=UvData.Field.Mesh;
4266%         end
4267%         if isfield(Field,'NbDim')&& isequal(Field.NbDim,3)
4268%             data.Coord=[0 0 0]; %default
4269%         end
4270%         if isfield(Field,'CoordUnit')
4271%             data.CoordUnit=Field.CoordUnit;
4272%         end
4273%     end
[410]4274    hset_object=set_object(data,[],ZBounds);
4275    hhset_object=guidata(hset_object);
4276    if get(handles.edit_object,'Value')% edit mode
4277        set(hhset_object.PLOT,'Enable','on')
[424]4278        set(get(hset_object,'children'),'enable','on')
[410]4279    else
4280        set(hhset_object.PLOT,'Enable','off')
[427]4281        set(get(hset_object,'children'),'enable','inactive')% deactivate the GUI except SAVE
4282        set(hhset_object.SAVE,'Enable','on')
[410]4283    end
4284else
4285    hset_object=findobj(allchild(0),'tag','set_object');
4286    if ~isempty(hset_object)
4287        delete(hset_object)% delete existing version of set_object
4288    end
4289end
4290 
[424]4291
[410]4292%------------------------------------------------------------------------
[424]4293% --- Executes on button press in ViewField.
4294function ViewField_Callback(hObject, eventdata, handles)
[402]4295%------------------------------------------------------------------------
[424]4296check_view=get(handles.ViewField,'Value');
[387]4297
[410]4298if check_view
4299    IndexObj=get(handles.ListObject,'Value');
4300    UvData=get(handles.uvmat,'UserData');%read UvData properties stored on the uvmat interface
4301    if numel(UvData.Object)<IndexObj(end);% error in UvData
4302        msgbox_uvmat('ERROR','invalid object list')
4303        return
4304    end
4305    ZBounds=0; % default
4306    if isfield(UvData.Field,'ZMin') && isfield(UvData.Field,'ZMax')
4307        ZBounds(1)=UvData.Field.ZMin; %minimum for the Z slider
4308        ZBounds(2)=UvData.Field.ZMax;%maximum for the Z slider
4309    end
4310    set(handles.ListObject,'Value',IndexObj);%restore ListObject selection after set_object deletion
4311    if ~isfield(UvData.Object{IndexObj(1)},'Type')% default plane
4312        UvData.Object{IndexObj(1)}.Type='plane';
4313    end
4314    list_object=get(handles.ListObject,'String');
4315    UvData.Object{IndexObj(end)}.Name=list_object{IndexObj(end)};
4316   
[429]4317    %% show the projection of the selected object on view_field
4318    ProjData= proj_field(UvData.Field,UvData.Object{IndexObj});%project the current field on ObjectData
[402]4319    hview_field=findobj(allchild(0),'tag','view_field');
4320    if isempty(hview_field)
4321        hview_field=view_field;
4322    end
[429]4323    hhview_field=guidata(hview_field);
[511]4324    [PlotType,PlotParam]=plot_field(ProjData,hhview_field.PlotAxes,read_GUI(hview_field));%read plotting parameters on the GUI view_field);
[429]4325    write_plot_param(hhview_field,PlotParam); %update the display of plotting parameters for the current object
4326    haxes=findobj(hview_field,'tag','axes3');
4327    pos=get(hview_field,'Position');
4328    if strcmp(get(haxes,'Visible'),'off')%sempty(PlotParam.Coordinates)% case of no plot display (pure text table)
4329        h_TableDisplay=findobj(hview_field,'tag','TableDisplay');
4330        pos_table=get(h_TableDisplay,'Position');
4331        set(hview_field,'Position',[pos(1)+pos(3)-pos_table(3) pos(2)+pos(4)-pos_table(4) pos_table(3) pos_table(4)])
4332    else
4333        Data=get(hview_field,'UserData');
[432]4334        set(hview_field,'Position',Data.GUISize)% restore the size of view_field for plots
[429]4335    end
[410]4336else
[424]4337    hview_field=findobj(allchild(0),'tag','view_field');
4338    if ~isempty(hview_field)
4339        delete(hview_field)% delete existing version of set_object
[410]4340    end
[402]4341end
4342
[424]4343
[402]4344%------------------------------------------------------------------------
4345% --- Executes on button press in delete_object.
4346function delete_object_Callback(hObject, eventdata, handles)
4347%------------------------------------------------------------------------
[499]4348IndexObj=get(handles.ListObject,'Value');%projection object selected for view_field
4349IndexObj_1=get(handles.ListObject_1,'Value');%projection object selected for uvmat plot
4350if IndexObj>1 && ~isequal(IndexObj,IndexObj_1) % do not delete the object used for the uvmat plot
[410]4351    delete_object(IndexObj)
[402]4352end
4353
4354%------------------------------------------------------------------------
4355%------------------------------------------------------------------------
4356%  II - TOOLS FROM THE UPPER MENU BAR
4357%------------------------------------------------------------------------
4358%------------------------------------------------------------------------
4359
4360%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
4361% Export  Menu Callbacks
4362%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
4363%------------------------------------------------------------------------
[387]4364% --- Executes on button press in Menu/Export/field in workspace.
4365function MenuExportField_Callback(hObject, eventdata, handles)
[402]4366%------------------------------------------------------------------------
[387]4367global Data_uvmat
4368Data_uvmat=get(handles.uvmat,'UserData');
4369evalin('base','global Data_uvmat')%make CurData global in the workspace
4370display('current field :')
4371evalin('base','Data_uvmat') %display CurData in the workspace
4372commandwindow; %brings the Matlab command window to the front
4373
[402]4374%------------------------------------------------------------------------
[387]4375% --- Executes on button press in Menu/Export/extract figure.
[402]4376function MenuExportFigure_Callback(hObject, eventdata, handles)
4377%------------------------------------------------------------------------
4378% huvmat=get(handles.MenuExport,'parent');
[387]4379hfig=figure;
[511]4380copyobj(handles.PlotAxes,hfig);
4381map=colormap(handles.PlotAxes);
[387]4382colormap(map);%transmit the current colormap to the zoom fig
4383colorbar
4384
[508]4385% --------------------------------------------------------------------
4386function MenuExportAxis_Callback(hObject, eventdata, handles)
4387answer=msgbox_uvmat('CONFIRMATION','select a figure/axis on which the current uvmat plot will be exported')
4388if strcmp(answer,'Yes')
[511]4389hchild=get(handles.PlotAxes,'children');
[508]4390copyobj(hchild,gca);
4391end
[387]4392
4393%------------------------------------------------------------------------
4394% --------------------------------------------------------------------
4395function MenuExportMovie_Callback(hObject, eventdata, handles)
4396% --------------------------------------------------------------------
4397set(handles.MenuExportMovie,'BusyAction','queue')% activate the button
4398huvmat=get(handles.run0,'parent');
4399UvData=get(huvmat,'UserData');
4400%[xx,xx,FileBase]=read_file_boxes(handles);
[515]4401[RootPath,SubDir,RootFile,FileIndex,FileExt]=read_file_boxes(handles);
[387]4402FileBase=fullfile(RootPath,RootFile);
4403 %read the current input file name
4404prompt = {'movie file name';'frames per second';'frame resolution (*[512x384] pixels)';'axis position relative to the frame';'total frame number (starting from the current uvmat display)'};
4405dlg_title = 'select properties of the output avi movie';
4406num_lines= 1;
4407def     = {[FileBase '_out.avi'];'10';'1';'[0.03 0.05 0.95 0.92]';'10'};
4408answer = inputdlg(prompt,dlg_title,num_lines,def,'on');
4409aviname=answer{1};
4410fps=str2double(answer{2});
4411% check for existing file with output name aviname
4412if exist(aviname,'file')
4413    backup=aviname;
4414    testexist=2;
4415    while testexist==2
4416        backup=[backup '~'];
4417        testexist=exist(backup,'file');     
4418    end
4419    [success,message]=copyfile(aviname,backup);%make backup of the existing file
4420    if isequal(success,1)
4421        delete(aviname)%delete existing file
4422    else
4423        msgbox_uvmat('ERROR',message)
4424        return
4425    end
4426end
4427%create avi open
4428aviobj=avifile(aviname,'Compression','None','fps',fps);
4429
4430%display first view for tests
4431newfig=figure;
[511]4432newaxes=copyobj(handles.PlotAxes,newfig);%new plotting axes in the new figure
[387]4433set(newaxes,'Tag','movieaxes')
4434nbpix=[512 384]*str2double(answer{3});
4435set(gcf,'Position',[1 1 nbpix])% resolution XVGA
4436set(newaxes,'Position',eval(answer{4}));
[511]4437map=colormap(handles.PlotAxes);
[387]4438colormap(map);%transmit the current colormap to the zoom fig
4439msgbox_uvmat('INPUT_Y-N',{['adjust figure ' num2str(newfig) ' with its matlab edit menu '] ;...
4440        ['then press OK to get the avi movie as a copy of figure ' num2str(newfig) ' display']});
4441UvData.plotaxes=newaxes;% the axis in the new figure becomes the current main plotting axes
4442set(huvmat,'UserData',UvData);
[511]4443increment=str2num(get(handles.num_IndexIncrement,'String')); %get the field increment d
[387]4444set(handles.STOP,'Visible','on')
4445set(handles.speed,'Visible','on')
4446set(handles.speed_txt,'Visible','on')
4447set(handles.Movie,'BusyAction','queue')
4448
4449%imin=str2double(get(handles.i1,'String'));
4450imax=str2double(answer{5});
4451% if isfield(UvData,'Time')
4452htitle=get(newaxes,'Title');
4453xlim=get(newaxes,'XLim');
4454ylim=get(newaxes,'YLim');
4455set(htitle,'Position',[xlim(2)+0.07*(xlim(2)-xlim(1)) ylim(2)-0.05*(ylim(2)-ylim(1)) 0])
4456time_str=get(handles.abs_time,'String');
4457set(htitle,'String',['t=' time_str])
4458set(handles.speed,'Value',1)
4459for i=1:imax
4460    if get(handles.speed,'Value')~=0 && isequal(get(handles.MenuExportMovie,'BusyAction'),'queue') % enable STOP command
4461            runpm(hObject,eventdata,handles,increment)% run plus
4462            drawnow
4463            time_str=get(handles.abs_time,'String');
4464            if ishandle(htitle)
4465             set(htitle,'String',['t=' time_str])
4466            end
4467            mov=getframe(newfig);
4468            aviobj=addframe(aviobj,mov);
4469    end
4470end
4471aviobj=close(aviobj);
4472UvData=rmfield(UvData,'plotaxes');
[511]4473%UvData.Object{1}.plotaxes=handles.PlotAxes;
[387]4474set(huvmat,'UserData',UvData);
4475msgbox_uvmat('CONFIRMATION',{['movie ' aviname ' created '];['with ' num2str(imax) ' frames']})
4476
[402]4477
4478%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
4479% Projection Objects Menu Callbacks
4480%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
4481
4482% -----------------------------------------------------------------------
4483function Menupoints_Callback(hObject, eventdata, handles)
[387]4484%------------------------------------------------------------------------
[402]4485data.Type='points';
4486data.ProjMode='projection';%default
[410]4487data.ProjModeMenu={};% do not restrict ProjMode menus
[402]4488create_object(data,handles)
4489
4490% -----------------------------------------------------------------------
4491function Menuline_Callback(hObject, eventdata, handles)
4492%------------------------------------------------------------------------
4493data.Type='line';
4494data.ProjMode='projection';%default
[410]4495data.ProjModeMenu={};% do not restrict ProjMode menus
[402]4496create_object(data,handles)
4497
4498%------------------------------------------------------------------------
4499function Menupolyline_Callback(hObject, eventdata, handles)
4500%------------------------------------------------------------------------
4501data.Type='polyline';
4502data.ProjMode='projection';%default
[410]4503data.ProjModeMenu={};% do not restrict ProjMode menus
[402]4504create_object(data,handles)
4505
4506%------------------------------------------------------------------------
4507function Menupolygon_Callback(hObject, eventdata, handles)
4508%------------------------------------------------------------------------
4509data.Type='polygon';
4510data.ProjMode='inside';%default
[410]4511data.ProjModeMenu={};% do not restrict ProjMode menus
[402]4512create_object(data,handles)
4513
4514%------------------------------------------------------------------------
4515function Menurectangle_Callback(hObject, eventdata, handles)
4516%------------------------------------------------------------------------
4517data.Type='rectangle';
4518data.ProjMode='inside';%default
[410]4519data.ProjModeMenu={};% do not restrict ProjMode menus
[402]4520create_object(data,handles)
4521
4522%------------------------------------------------------------------------
4523function Menuellipse_Callback(hObject, eventdata, handles)
4524%------------------------------------------------------------------------
4525data.Type='ellipse';
4526data.ProjMode='inside';%default
[410]4527data.ProjModeMenu={};% do not restrict ProjMode menus
[402]4528create_object(data,handles)
4529
4530%------------------------------------------------------------------------
4531function MenuMaskObject_Callback(hObject, eventdata, handles)
4532%------------------------------------------------------------------------
4533data.Type='polygon';
4534data.TypeMenu={'polygon'};
4535data.ProjMode='mask_inside';%default
4536data.ProjModeMenu={'mask_inside';'mask_outside'};
4537create_object(data,handles)
4538
4539%------------------------------------------------------------------------
4540function Menuplane_Callback(hObject, eventdata, handles)
4541%------------------------------------------------------------------------
4542data.Type='plane';
4543data.ProjMode='projection';%default
[410]4544data.ProjModeMenu={};% do not restrict ProjMode menus
[402]4545create_object(data,handles)
4546
4547%------------------------------------------------------------------------
4548function Menuvolume_Callback(hObject, eventdata, handles)
4549%------------------------------------------------------------------------
4550data.Type='volume';
4551data.ProjMode='interp';%default
[410]4552data.ProjModeMenu={};
[402]4553% set(handles.create,'Visible','on')
4554% set(handles.create,'Value',1)
[410]4555% VOLUME_Callback(hObject,eventdata,handles)data.ProjModeMenu={};
[402]4556create_object(data,handles)
4557
4558%------------------------------------------------------------------------
4559% --- generic function used for the creation of a projection object
4560function create_object(data,handles)
4561%------------------------------------------------------------------------
[410]4562% desactivate geometric calibration if opened
[402]4563hgeometry_calib=findobj(allchild(0),'tag','geometry_calib');
4564if ishandle(hgeometry_calib)
4565    hhgeometry_calib=guidata(hgeometry_calib);
4566    set(hhgeometry_calib.edit_append,'Value',0)% desactivate mouse action in geometry_calib
4567    set(hhgeometry_calib.edit_append,'BackgroundColor',[0.7 0.7 0.7])
4568end
4569set(handles.edit_object,'Value',0); %suppress the object edit mode
4570set(handles.edit_object,'BackgroundColor',[0.7,0.7,0.7]) 
[429]4571ListObject=get(handles.ListObject,'String');
4572if ~strcmp(ListObject{end},'')
4573    ListObject=[ListObject;{''}]; %append a blank to the list (if nort already done) to indicate the creation of a new object
4574    set(handles.ListObject,'String',ListObject)
4575end
4576IndexObj=length(ListObject);
4577set(handles.ListObject,'Value',IndexObj)
[410]4578UvData=get(handles.uvmat,'UserData');
[429]4579UvData.Object{IndexObj}=[]; %create a new empty object
[511]4580UvData.Object{IndexObj}.DisplayHandle.uvmat=handles.PlotAxes; % axes for plot_object
[432]4581UvData.Object{IndexObj}.DisplayHandle.view_field=[]; %no plot handle before plot_field operation
[410]4582data.Name=data.Type;% default name=type
[402]4583data.Coord=[0 0]; %default
4584if isfield(UvData,'Field')
4585    Field=UvData.Field;
[404]4586    if isfield(UvData.Field,'Mesh')&&~isempty(UvData.Field.Mesh)
4587        data.RangeX=[UvData.Field.XMin UvData.Field.XMax];