%'uvmat': function associated with the GUI 'uvmat.fig' for images and data field visualization %------------------------------------------------------------------------ % function huvmat=uvmat(input) % %OUTPUT % huvmat=current handles of the GUI uvmat.fig % %INPUT: % input: input file name (if character chain), or input image matrix to % visualize, or Matlab structure representing netcdf fields (with fields % ListVarName....) % %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA % Copyright Joel Sommeria, Louis Gostiaux, 2008, LEGI / CNRS-UJF-INPG, sommeria@coriolis-legi.org. %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA % This open is part of the toolbox UVMAT. % % UVMAT is free software; you can redistribute it and/or modify % it under the terms of the GNU General Public License as published by % the Free Software Foundation; either version 2 of the License, or % (at your option) any later version. % % UVMAT is distributed in the hope that it will be useful, % but WITHOUT ANY WARRANTY; without even the implied warranty of % MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the % GNU General Public License (open UVMAT/COPYING.txt) for more details. %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA % % Information stored on the interface: % 'Strings' of all edit boxes and menus: get(handles.Tag,'String') % 'Values' of all menus and toggle buttons: get(handles.Tag,'Value') % Matlab structure stored as 'UserData' of the figure uvmat.fig,(can be obtained by right mouse click on the interface). % It contains the following fields: % - Fixed specifiacation of plotting figures and axes (defined bu uvmat_OpeningFcn) % .PosColorbar: [0.8210 0.4710 0.0190 0.4450]; specified position of the colorbar on figures % - Information read in the documentation open of a series (activated by RootPath_Callback) : % .XmlData, with fields: % .Time: matrix of times of the images with index i and j % .GeometryCalib: [1x1 struct] % - Information defined from the interface: % .NewSeries: =1 when the first view of a new field series is displayed, else 0 % .filename:(char string) % .VelType:(char string) type of velocity field selected % .VelType_1:(char string) REMPLACER LE CELL ACTUEL % .FieldName: (char string) main field selected('image', 'velocity'...) % .FieldName_1:(char string) second field selected('image', 'velocity'...) % .CName: (char string)name of the scalar used for vector colors % .CoordType: (char string) coordinate transform: e.g. 'phys' or 'px' % .MouseAction: store the current effect of mouse button (create or edit objects) % - Information on projection objects % .Object: {[1x1 struct]} % .CurrentObjectIndex: index of the projection object .Object currently selected for editing % -Information on the current field (Field{i}) % .Txt : text information to display (e.g. error message) % .NbDim: number of dimensions (=0 by default) % .NbCoord: number of vector components % .CoordType: expresses the type of coordinate ('px' for image, 'sig' for instruments, or 'phys') % .dt: time interval for the corresponding image pair % .Mesh: estimated typical distance between vectors % .ZMax: % .ZMin: % .X, .Y, .Z: set of vector coordinates % .U,.V,.W: corresponding set of vector components % .F: corresponding set of warning flags % .FF: corresponding set of false flags, =0 for good vectors % .C: corresponding values of the scalar used for vector color % (.X, .Y, .Z,.U,.V,.W,.F,.FF,.C are matlab vectors of the same length, % equal to the number of vectors stored in the input open) % .CName: name of the scalar .C % .CType: type of the scalar .C, setting how the scalar is obtained (see 'Scalars' below) % .A image or scalar % .AX: vector of dimension 2 representing the first and last values % of the X coordinates for the image or scalar known on a regular grid, % or vector of dimension .A for a scaler defined on irregular grid. % .AY: same as .AX along the Y direction % .AName: name of the scalar, ='image' for an image % %%%%%%%%%%%%%%%%%%%%%%%%%%%%%% DATA FLOW (for run0_Callback) %%%%%%%%%%%%%%%%%%%%: % % Main input open second input open(_1) second image (pair animation) % read_ncfield.m | | % read_image.m | | % Field{1} Field{2} % | % coord transform (phys.m) or other user defined fct acting on Field{i} | % Field{i} % | % calc_field.m: calculate scalar or other derived fields (vort, div..). % % sub_field.m: combine the input Field{i} in a single set of fields (vector + scalar): % Field{i=1->3}.X --> UvData.X | % | % UvData % | % plot histograms of the whole field % proj_field.m: project the set of fields on the current projection objects defined by UvData.Object % | | % ObjectData % | % plot_field.m: plot the projected fields and store them as user | % data of the plotting axes | % | % AxeData % %%%%%%%%%%%%%% SCALARS: %%%%%%%%%%%%??%%% % scalars are displayed either as an image or countour plot, either as a color of % velocity vectors. The scalar values in the first case is represented by % UvData.Field.A, and by UvData.Field.C in the second case. The corresponding set of X % and Y coordinates are represented by UvData.Field.AX and UvData.Field.AY, and .X and % .Y for C (the same as velocity vectors). If A is a nxxny matrix (scalar % on a regtular grid), then .AX andf.AY contains only two elements, represneting the % coordinates of the four image corners. The scalar name is represented by % the strings .AName and/or .CName. % If the scalar exists in an input open (image or scalar stored under its % name in a netcdf open), it is directly read at the level of Field{1}or Field{2}. % Else only its name AName is recorded in Field{i}, and its field is then calculated %by the fuction calc_scal after the coordinate transform or after projection on an edit % Properties attached to plotting figures (standard Matlab properties): % 'CurrentAxes'= gca or get(gcf,'CurrentAxes'); % 'CurrentPoint'=get(gcf,'CurrentPoint'): figure coordinates of the point over which the mouse is positioned % 'CurrentCharacter'=get(gcf,'CurrentCharacter'): last character typed over the figure where the mouse is positioned % 'WindowButtonMotionFcn': function permanently called by mouse motion over the figure % 'KeyPressFcn': function called by pressing a key on the key board % 'WindowButtonDownFcn': function called by pressing the mouse over the figure % 'WindowButtonUpFcn': function called by releasing the mouse pressure over the figure % Properties attached to plotting axes: % 'CurrentPoint'=get(gca,'CurrentPoint'); (standard Matlab) same as for the figure, but position in plot coordinates. % AxeData:=get(gca,'UserData'); % AxeData.Drawing = create: create a new edit % = deform: modify an existing edit by moving its defining create % = off: no current drawing action % = translate: translate an existing edit % = zoom: isolate a subregion for zoom in=1 if an edit is being currently drawn, 0 else (set to 0 by releasing mouse button) % .hset_edit=handle of the set_edit interface (if a projection edit is edited); % .CurrentOrigin: Origin of a curently drawn edit % .CurrentLine: currently drawn menuline (A REVOIR) % .CurrentObject: handle of the currently drawn edit % .CurrentRectZoom: current rectangle used for zoom % .zoomon : zoom state (a revoir) % .X, .Y, .Z: array of coordinates defining the position of the vector: ASSOCIER AU PLAN (OBJET) PLUTOT QU'A L'AXE ? % .U, .V, .W: array of components of the vector % .C: % .F: % .FF: % .A % Properties attached to projection objects (create, menuline, menuplane...): % 'Tag'='proj_edit': for all projection objects % ObjectData.Style=...: style of projection edit: % .ProjMode % .Coord: defines the position of the edit % .XMin,YMin.... % .XMax,YMax.... % .DX,DY,DZ % .Phi, .Theta, .Psi : Euler angles % .X,.Y,.U,.V.... : field data projected on the edit % .IndexObj: index in the list of UvData.Object %during plotting % .plotaxes: handles of the current axes used to plot the result of field projection on the object % .plothandle: vector of handle(s) of the object graphic represnetation in all the opened plotting axes % To each projection object #iobj, corresponds an axis % Object{iobj}.plotaxes and nbobj representation graphs Object{iobj}.plothandles(:) (where nbobj is the % nbre of current objects opened in uvmat. Note that Object{iobj}.plothandles(iobj)=[] : an object is not represented in its own projection field; %------------------------------------------------------------------- %------------------------------------------------------------------- % I - MAIN FUNCTION UVMAT (DO NOT MODIFY) %------------------------------------------------------------------- %------------------------------------------------------------------- function varargout = uvmat(varargin) % Begin initialization code - DO NOT EDIT gui_Singleton = 1; gui_State = struct('gui_Name', mfilename, ... 'gui_Singleton', gui_Singleton, ... 'gui_OpeningFcn', @uvmat_OpeningFcn, ... 'gui_OutputFcn', @uvmat_OutputFcn, ... 'gui_LayoutFcn', [], ... 'gui_Callback', []); if nargin && ischar(varargin{1}) gui_State.gui_Callback = str2func(varargin{1}); end if nargout varargout{1:nargout} = gui_mainfcn(gui_State, varargin{:}); else gui_mainfcn(gui_State, varargin{:}); end % End initialization code - DO NOT EDIT %------------------------------------------------------------------- % --- Executes just before uvmat is made visible. function uvmat_OpeningFcn(hObject, eventdata, handles, input ) %------------------------------------------------------------------- %WARNING: avoid the second input parameter, leads to erros global dircur dir_opening % Choose default command menuline output for uvmat handles.output = hObject; % %group handles for input file in a structure handles.InputFile % handlesInputFile={handles.RootPath,handles.SubDir,handles.RootFile,handles.FileIndex,handles.FileExt}; % TagsInputFile={'RootPath','SubDir','RootFile','FileIndex','FileExt'}; % handles.InputFile=cell2struct(handlesInputFile,TagsInputFile,2); % % %group handles for the second input file in a structure handles.InputFile_1 % handlesInputFile={handles.RootPath_1,handles.SubDir_1,handles.RootFile_1,handles.FileIndex_1,handles.FileExt_1}; % TagsInputFile={'RootPath','SubDir','RootFile','FileIndex','FileExt'}; % handles.InputFile_1=cell2struct(handlesInputFile,TagsInputFile,2); % Update handles structure guidata(hObject, handles); dircur=pwd; %current working directory dir_opening=dircur; % set the position of colorbar and ancillary GUIs: set(hObject,'Units','Normalized') movegui(hObject,'center') UvData.PosColorbar=[0.805 0.022 0.019 0.445]; UvData.SetObjectOrigin=[-0.05 -0.03]; %position for set_object UvData.SetObjectSize=[0.3 0.7]; UvData.CalOrigin=[0.95 -0.03];%position for geometry_calib (TO IMPROVE) UvData.CalSize=[0.28 1]; %functions for the mouse and keyboard set(handles.histo_u,'NextPlot','replacechildren'); set(handles.histo_v,'NextPlot','replacechildren'); set(hObject,'KeyPressFcn',{'keyboard_callback',handles})%set keyboard action function set(hObject,'WindowButtonMotionFcn',{'mouse_motion',handles})%set mouse action functio set(hObject,'WindowButtonDownFcn',{'mouse_down'})%set mouse click action function set(hObject,'WindowButtonUpFcn',{'mouse_up',handles}) %set(hObject,'ResizeFcn',{@resize_uvmat}) %load the list of previously browsed files in menus Open and Open_1 dir_perso=prefdir; profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); if exist(profil_perso,'file') h=load (profil_perso); if isfield(h,'MenuFile_1') set(handles.MenuFile_1,'Label',h.MenuFile_1); set(handles.MenuFile_1_1,'Label',h.MenuFile_1); end if isfield(h,'MenuFile_1') set(handles.MenuFile_2,'Label',h.MenuFile_2); set(handles.MenuFile_2_1,'Label',h.MenuFile_2); end if isfield(h,'MenuFile_1') set(handles.MenuFile_3,'Label',h.MenuFile_3); set(handles.MenuFile_3_1,'Label',h.MenuFile_3); end if isfield(h,'MenuFile_1') set(handles.MenuFile_4,'Label',h.MenuFile_4); set(handles.MenuFile_4_1,'Label',h.MenuFile_4); end if isfield(h,'MenuFile_1') set(handles.MenuFile_5,'Label',h.MenuFile_5); set(handles.MenuFile_5_1,'Label',h.MenuFile_5); end end %initiates menu of vector colors list_menu=calc_field; %list_menu=[{'ima_cor'};{'black'};{'white'};list_menu(3:end)]; set(handles.col_vec,'String',list_menu) %check the path and date of modification of all functions in uvmat path_to_uvmat=which ('uvmat');% check the path detected for source file uvmat [errormsg,date_str]=check_functions;%check the path of the functions called by uvmat.m %check the path of menu_coord transform %set(handles.menu_coord,'String',{'';'phys';'px';'more...'}) path_fct{1}=''; path_fct{2}=fileparts(path_to_uvmat); path_fct{3}=fileparts(path_to_uvmat); path_fct{4}=fileparts(path_to_uvmat); set(handles.menu_coord,'UserData',path_fct) %case of an input argument for uvmat testinputfield=0; inputfile=[]; Field=[]; if exist('input','var') if ~isempty(errormsg) warndlg_uvmat(errormsg,'WARNING') end if ishandle(handles.UVMAT_title) delete(handles.UVMAT_title) end if isstruct(input) if isfield(input,'InputFile') inputfile=input.InputFile; end Field=input; elseif ischar(input)% file name introduced as input inputfile=input; elseif isnumeric(input) sizinput=size(input); if sizinput(1)<=1 || sizinput(2)<=1 warndlg_uvmat('bad input for uvmat: file name, structure or numerical matrix accepted','ERROR') return end Field.A=input; Field.AX=[0.5 size(input,2)-0.5]; Field.AY=[size(input,1)-0.5 0.5]; end if ~isempty(inputfile) display_file_name(hObject, eventdata, handles,inputfile) testinputfield=1; else UvData.TestInputFile=0; end if ~isempty(Field) set(handles.Fields,'Value',1) set(handles.Fields,'String',{'get_field...'}) % set(handles.Fields,'Value',2)% option 'get_field...' set(handles.Fields,'UserData',Field) testinputfield=1; % set the colorbar position on the interface: UvData.PosColorbar=[0.805 0.022 0.019 0.445]; elseif ischar(input) scan_i_Callback(handles.scan_i, eventdata, handles); end else if ishandle(handles.UVMAT_title) fid=fopen('revision.log') if fid a=textscan(fid,'%s%s%s',1,'HeaderLines',1,'Delimiter','|'); set(handles.UVMAT_title,'String',[{'Copyright Joel Sommeria, 2008, Coriolis/ LEGI / CNRS-UJF-INPG';'GNU General Public License'; path_to_uvmat; ['at revision ' a{1}{1}]};a{3}{1};errormsg]); fclose(fid); else set(handles.UVMAT_title,'String',[{'Copyright Joel Sommeria, 2008, Coriolis/ LEGI / CNRS-UJF-INPG';'GNU General Public License'; path_to_uvmat; 'version 2.2.beta';date_str};errormsg]); end end end UvData.NewSeries=1; set(hObject,'UserData',UvData) if testinputfield %delete drawn objects hother=findobj(handles.axes3,'Tag','proj_object');%find all the proj objects for iobj=1:length(hother) delete_object(hother(iobj)) end if isempty(inputfile) run0_Callback(hObject, eventdata, handles) set(handles.MenuTools,'Enable','on') set(handles.OBJECT_txt,'Visible','on') set(handles.edit,'Visible','on') set(handles.list_object,'Visible','on') set(handles.frame_object,'Visible','on') else update_rootinfo(hObject,eventdata,handles); end end set_vec_col_bar(handles) %------------------------------------------------------------------- % --- Outputs from this function are returned to the command menuline. function varargout = uvmat_OutputFcn(hObject, eventdata, handles) varargout{1} = handles.output;% the only output argument is the handle to the GUI figure %------------------------------------------------------------------- %------------------------------------------------------------------- % II - FUNCTIONS FOR INTRODUCING THE INPUT FILES % automatically sets the global properties when the rootfile name is introduced % then activate the view-field action if selected % it is activated either by clicking on the RootPath window or by the % browser %------------------------------------------------------------------ %------------------------------------------------------------------ % --- Executes on the menu Open/Browse... % search the files, recognize their type according to their name and fill the rootfile input windows function MenuBrowse_Callback(hObject, eventdata, handles) oldfile=read_file_boxes(handles); if isempty(oldfile)||isequal(oldfile,'') %loads the previously stored file name and set it as default in the file_input box dir_perso=prefdir; profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); if exist(profil_perso,'file') h=load (profil_perso); if isfield(h,'MenuFile_1') oldfile=h.MenuFile_1; end end end [FileName, PathName] = uigetfile( ... {'*.xml;*.xls;*.civ;*.png;*.jpg;*.tif;*.avi;*.AVI;*.nc;*.cmx;*.fig;*.log;*.dat', ' (*.xml,*.xls,*.civ,*.jpg ,*.png, .tif, *.avi,*.nc,*.cmx ,*.fig,*.log,*.dat)'; '*.xml', '.xml files '; ... '*.xls', '.xls files '; ... '*.civ', '.civ files '; ... '*.jpg',' jpeg image files'; ... '*.png','.png image files'; ... '*.tif','.tif image files'; ... '*.avi;*.AVI','.avi movie files'; ... '*.nc','.netcdf files'; ... '*.cdf','.netcdf files'; ... '*.cmx','.cmx text files';... '*.cmx2','.cmx2 text files';... '*.fig','.fig files (matlab fig)';... '*.log','.log text files ';... '*.dat','.dat text files ';... '*.*', 'All Files (*.*)'}, ... 'Pick a file',oldfile); %global filebase fileinput=[PathName FileName];%complete file name testblank=findstr(fileinput,' ');%look for blanks if ~isempty(testblank) warndlg_uvmat(['The input file name ' fileinput ' contains blank character : This is not allowed. Please change name'],'ERROR') return end sizf=size(fileinput); if (~ischar(fileinput)||~isequal(sizf(1),1)),return;end % display the selected field and related information display_file_name(hObject, eventdata, handles,fileinput) %update list of recent files in the menubar MenuFile_1=fileinput; MenuFile_2=get(handles.MenuFile_1,'Label'); MenuFile_3=get(handles.MenuFile_2,'Label'); MenuFile_4=get(handles.MenuFile_3,'Label'); MenuFile_5=get(handles.MenuFile_4,'Label'); set(handles.MenuFile_1,'Label',MenuFile_1) set(handles.MenuFile_2,'Label',MenuFile_2) set(handles.MenuFile_3,'Label',MenuFile_3) set(handles.MenuFile_4,'Label',MenuFile_4) set(handles.MenuFile_5,'Label',MenuFile_5) set(handles.MenuFile_1_1,'Label',MenuFile_1) set(handles.MenuFile_2_1,'Label',MenuFile_2) set(handles.MenuFile_3_1,'Label',MenuFile_3) set(handles.MenuFile_4_1,'Label',MenuFile_4) set(handles.MenuFile_5_1,'Label',MenuFile_5) dir_perso=prefdir; profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); if exist(profil_perso,'file') save (profil_perso,'MenuFile_1','MenuFile_2','MenuFile_3','MenuFile_4', 'MenuFile_5','-append'); %store the file names for future opening of uvmat else txt=ver; Release=txt(1).Release; relnumb=str2double(Release(3:4)); if relnumb >= 14 save (profil_perso,'MenuFile_1','MenuFile_2','MenuFile_3','MenuFile_4', 'MenuFile_5','-V6'); %store the file names for future opening of uvmat else save (profil_perso,'MenuFile_1','MenuFile_2','MenuFile_3','MenuFile_4', 'MenuFile_5'); %store the file names for future opening of uvmat end end % -------------------------------------------------------------------- function MenuFile_1_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_1,'Label'); display_file_name(hObject, eventdata, handles,fileinput) % -------------------------------------------------------------------- function MenuFile_2_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_2,'Label'); display_file_name(hObject, eventdata, handles,fileinput) % -------------------------------------------------------------------- function MenuFile_3_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_3,'Label'); display_file_name(hObject, eventdata, handles,fileinput) % -------------------------------------------------------------------- function MenuFile_4_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_4,'Label'); display_file_name(hObject, eventdata, handles,fileinput) % -------------------------------------------------------------------- function MenuFile_5_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_5,'Label'); display_file_name(hObject, eventdata, handles,fileinput) %----------------------------------------------------------------- % fills the edit boxes RootPath, RootFile,NomType...from an input file name 'fileinput' %---------------------------------------------------------------- function display_file_name(hObject, eventdata, handles,fileinput) if ~exist(fileinput,'file') msgbox_uvmat('ERROR',['input file ' fileinput ' does not exist']) return end [RootPath,RootFile,i1,i2,str_a,str_b,ext,NomType,SubDir]=name2display(fileinput); ext_test=''; %default if ~isempty(ext) form=imformats(ext(2:end));%test valid Matlab image formats if ~isempty(form) ext_test='.image'; imainfo=imfinfo(fileinput); if length(imainfo) >1 %case of image with multiple frames i1='1'; % set the frame counter to 1 by default i2=''; str_a=''; str_b=''; NomType='*'; %indicate a set of indexed frames within a single file [RootPath,RootFile]=fileparts(fileinput); %include the indices in the root file end elseif isequal(lower(ext),'.avi') ext_test='.image'; i1='1'; % set the frame counter to 1 by default i2=''; str_a=''; str_b=''; NomType='*'; %indicate a set of indexed frames within a single file [RootPath,RootFile]=fileparts(fileinput); %include the indices in the root file else ext_test=lower(ext); end end switch ext_test case {'.civ','.log','.cmx','.cmx2','.txt'} %display text file edit(fileinput) case '.fig' %display matlab figure hfig=open(fileinput); set(hfig,'WindowButtonMotionFcn','mouse_motion')%set mouse action functio set(hfig,'WindowButtonUpFcn','mouse_up')%set mouse click action function set(hfig,'WindowButtonUpFcn','mouse_down')%set mouse click action function case {'.xml','.xls'} % edit xml or Excel files editxml(fileinput); case {'.avi','.image','.vol','.nc','.cdf'} set(handles.RootPath,'String',RootPath); if isequal(SubDir,'') rootname=fullfile(RootPath,RootFile); else rootname=fullfile(RootPath,SubDir,RootFile); SubDir=['/' SubDir]; %display the separator end set(handles.SubDir,'String',SubDir); set(handles.RootFile,'String',['/' RootFile]); %display the separator indices=fileinput(length(rootname)+1:end); indices(end-length(ext)+1:end)=[]; %remove extension set(handles.FileIndex,'String',indices); set(handles.FileIndex,'UserData',NomType); set(handles.FileExt,'String',ext); % fill file index counters set(handles.i1,'String',i1); set(handles.i2,'String',i2); set(handles.j1,'String',str_a); set(handles.j2,'String',str_b); % synchronise indices of the second input file if it exists if get(handles.SubField,'Value')==1% if the subfield button is activated, update the field numbers [FileName_1,RootPath_1,FileBase_1,FileIndices_1,FileExt_1,SubDir_1]=read_file_boxes_1(handles); NomType_1=get(handles.FileIndex_1,'UserData'); [FileName_1,idetect]=name_generator(FileBase_1,stra2num(i1),stra2num(i2),FileExt_1,NomType_1,1,stra2num(str_a),stra2num(str_b),SubDir_1); if idetect FileIndex_1=name_generator('',stra2num(i1),stra2num(i2),'',NomType_1,1,stra2num(str_a),stra2num(str_b),''); set(handles.FileIndex_1,'String',FileIndex_1) else set(handles.SubField,'Value',0) SubField_Callback(hObject, eventdata, handles) end end %enable other menus set(handles.MenuOpen_1,'Enable','on') set(handles.MenuFile_1_1,'Enable','on') set(handles.MenuFile_2_1,'Enable','on') set(handles.MenuFile_3_1,'Enable','on') set(handles.MenuFile_4_1,'Enable','on') set(handles.MenuFile_5_1,'Enable','on') set(handles.MenuExport,'Enable','on') set(handles.MenuExportFigure,'Enable','on') set(handles.MenuExportMovie,'Enable','on') set(handles.MenuTools,'Enable','on') set(handles.OBJECT_txt,'Visible','on') set(handles.edit,'Visible','on') set(handles.list_object,'Visible','on') set(handles.frame_object,'Visible','on') % initiate input file: update_rootinfo(hObject,eventdata,handles); otherwise msgbox_uvmat('ERROR',['invalid input file extension' ext]) end %------------------------------------------------------------------- function RootPath_Callback(hObject,eventdata,handles) update_rootinfo(hObject,eventdata,handles); %------------------------------------------------------------------- %-- called by action in RootFile edit box %------------------------------------------------------------------- function SubDir_Callback(hObject, eventdata, handles) %refresh the menu of input fields Fields_Callback(hObject, eventdata, handles); % refresh the current field run0_Callback(hObject, eventdata, handles); %------------------------------------------------------------------- %-- called by action in RootFile edit box %------------------------------------------------------------------- function RootFile_Callback(hObject, eventdata, handles) update_rootinfo(hObject,eventdata,handles) %------------------------------------------------------------------- %-- called by action in FileIndex edit box %------------------------------------------------------------------- function FileIndex_Callback(hObject, eventdata, handles) NomType_str=get(handles.FileIndex,'String') ; [P,F,str1,str2,str_a,str_b]=name2display(['xx' NomType_str get(handles.FileExt,'String')]); % display the new index values on the counters set(handles.i1,'String',str1); set(handles.i2,'String',str2); set(handles.j1,'String',str_a); set(handles.j2,'String',str_b); %------------------------------------------------------------------- % -- update information about a new field series (indices to scan, timing, calibration from an xml file, then refresh current plots %------------------------------------------------------------------- function update_rootinfo(hObject,eventdata,handles) global dircur dir_opening set(handles.RootPath,'BackgroundColor',[1 1 0]) drawnow set(handles.Fields,'UserData',[])% reinialize data from uvmat opening huvmat=get(handles.RootPath,'parent'); UvData=get(huvmat,'UserData');%huvmat=handles of the uvmat interface UvData.NewSeries=1; %flag for run0: begin a new series UvData.TestInputFile=1; set(handles.fix_pair,'Value',0) % desactivate by default the comp_input '-'input window %FileIndex_Callback(hObject, eventdata, handles)% update field counters [FileName,RootPath,FileBase,FileIndices,FileExt,SubDir]=read_file_boxes(handles); if ~exist(FileName,'file') msgbox_uvmat('ERROR',['input file ' FileName ' not found']); return end nbfield=[];%default nburst=[];%default % read timing and total frame number from the current file (movie files) !! may be overrid by xml file XmlData.Time=[];%default XmlData.GeometryCalib=[];%default TimeUnit=[];%default testima=0; %test for image input if isequal(lower(FileExt),'.avi') %.avi file testima=1; info=aviinfo([FileBase FileIndices FileExt]); nbfield=info.NumFrames; nburst=1; set(handles.Dt_txt,'String',['Dt=' num2str(1000/info.FramesPerSecond) 'ms']);%display the elementary time interval in millisec XmlData.Time=[0:1/info.FramesPerSecond:(info.NumFrames-1)/info.FramesPerSecond]'; TimeUnit='s'; set(handles.npx,'String',num2str(info.Width));%fills nbre of pixels x box set(handles.npy,'String',num2str(info.Height));%fills nbre of pixels y box hhh=which('mmreader'); if ~isequal(hhh,'')&& mmreader.isPlatformSupported()% if the function is found (recent version of matlab) UvData.MovieObject=mmreader([FileBase FileIndices FileExt]); end elseif ~isempty(imformats(FileExt(2:end))) || isequal(FileExt,'.vol')%&& isequal(NomType,'*')% multi-frame image testima=1; if ~isequal(SubDir,'') RootFile=get(handles.RootFile,'String'); imainfo=imfinfo([fullfile(RootPath,SubDir,RootFile) FileIndices FileExt]); else imainfo=imfinfo([FileBase FileIndices FileExt]); end if length(imainfo) >1 %case of image with multiple frames nbfield=length(imainfo); nburst=1; end if isfield(UvData,'MovieObject') UvData=rmfield(UvData,'MovieObject'); end else %set(handles.last_i,'String','');%fills last_field box set(handles.npx,'String','');%fills nbre of pixels x box set(handles.npy,'String','');%fills nbre of pixels y box if isfield(UvData,'MovieObject') UvData=rmfield(UvData,'MovieObject'); end end % read parameters (time, geometric calibration..) from a documentation file (.xml advised) filexml=[FileBase '.xml']; fileciv=[FileBase '.civ']; warntext='';%default warning message NbSlice=1;%default if exist(filexml,'file') set(handles.view_xml,'Visible','on') set(handles.view_xml,'BackgroundColor',[1 1 0]) set(handles.RootPath,'BackgroundColor',[1 1 1]) set(handles.view_xml,'String','view .xml') drawnow [XmlData,warntext]=imadoc2struct(filexml); if ~isempty(warntext) msgbox_uvmat('WARNING',warntext) end if isfield(XmlData,'TimeUnit') if isfield(XmlData,'TimeUnit')&& ~isempty(XmlData.TimeUnit) TimeUnit=XmlData.TimeUnit; end end set(handles.view_xml,'BackgroundColor',[1 1 1]) drawnow elseif exist(fileciv,'file')% if .civ file found [error,XmlData.Time,TimeUnit,mode,npx,npy,pxcmx,pxcmy]=read_imatext([FileBase '.civ']); GeometryCalib.R=[pxcmx 0 0; 0 pxcmy 0;0 0 0]; GeometryCalib.Tx=0; GeometryCalib.Ty=0; GeometryCalib.Tz=1; GeometryCalib.dpx=1; GeometryCalib.dpy=1; GeometryCalib.sx=1; GeometryCalib.Cx=0; GeometryCalib.Cy=0; GeometryCalib.f=1; GeometryCalib.kappa1=0; GeometryCalib.CoordUnit='cm'; XmlData.GeometryCalib=GeometryCalib; if error==2, warntext=['no file ' FileBase '.civ']; elseif error==1, warntext='inconsistent number of fields in the .civ file'; end set(handles.npx,'String',num2str(npx));%fills nbre of pixels x box set(handles.npy,'String',num2str(npy));%fills nbre of pixels y box set(handles.pxcm,'String',num2str(pxcmx));%fills scale x (pixel/cm) box set(handles.pycm,'String',num2str(pxcmy));%fills scale y (pixel/cm) box set(handles.pxcm,'Visible','on');%fills scale x (pixel/cm) box set(handles.pycm,'Visible','on');%fills scale y (pixel/cm) box set(handles.view_xml,'Visible','on') set(handles.view_xml,'String','view .civ') else set(handles.view_xml,'Visible','off') end % store last index in handles.lat_i and .last_j if ~isempty(XmlData.Time) nbfield=size(XmlData.Time,1); nburst=size(XmlData.Time,2); end last_i_cell=get(handles.last_i,'String'); if isempty(nbfield) last_i_cell{1}=''; else last_i_cell{1}=num2str(nbfield); end set(handles.last_i,'String',last_i_cell) last_j_cell=get(handles.last_j,'String'); if isempty(nburst) last_j_cell{1}=''; else last_j_cell{1}=num2str(nburst); end set(handles.last_j,'String',last_j_cell); % store geometric calibration in UvData if isfield(XmlData,'GeometryCalib') GeometryCalib=XmlData.GeometryCalib; if isempty(GeometryCalib) set(handles.pxcm,'String','') set(handles.pycm,'String','') set(handles.menu_coord,'Value',1); % no transform by default else if (isfield(GeometryCalib,'R')& ~isequal(GeometryCalib.R(2,1),0) & ~isequal(GeometryCalib.R(1,2),0)) |... (isfield(GeometryCalib,'kappa1')& ~isequal(GeometryCalib.kappa1,0)) set(handles.pxcm,'String','var') set(handles.pycm,'String','var') else pixcmx=GeometryCalib.f*GeometryCalib.R(1,1)*GeometryCalib.sx/(GeometryCalib.Tz*GeometryCalib.dpx); pixcmy=GeometryCalib.f*GeometryCalib.R(2,2)/(GeometryCalib.Tz*GeometryCalib.dpy); set(handles.pxcm,'String',num2str(pixcmx)) set(handles.pycm,'String',num2str(pixcmy)) end set(handles.menu_coord,'Value',2); % phys transform by default if isfield(GeometryCalib,'SliceCoord') siz=size(GeometryCalib.SliceCoord); if siz(1)>1 NbSlice=siz(1); set(handles.slices,'Visible','on') set(handles.slices,'Value',1) end set(handles.nb_slice,'String',num2str(NbSlice)) slices_Callback(hObject, eventdata, handles) % Coord=UvData.XmlData.GeometryCalib.SliceCoord; % ZIndex=num_i1-NbSlice*(floor((num_i1-1)/NbSlice)); end end end %update the data attached to the uvmat interface set(handles.nb_slice,'String',num2str(NbSlice)) if ~isempty(TimeUnit) set(handles.time_txt,'String',['time (' TimeUnit ')']) end %set(handles.DtUnit,'String',['10^(-3)' TimeUnit]) UvData.TimeUnit=TimeUnit; UvData.XmlData=XmlData; UvData.NewSeries=1; set(huvmat,'UserData',UvData) %display warning message if ~isequal(warntext,'') msgbox_uvmat('WARNING',warntext); end % set default options in menu 'Fields' if testima set(handles.Fields,'Value',1) % set menu to 'image' set(handles.Fields,'String',{'image';'get_field...';'velocity';'vort';'div';'more...'}) elseif isequal(FileExt,'.nc')|isequal(FileExt,'.cdf') Data=nc2struct(FileName,[]); col_vec=get(handles.col_vec,'String'); if isfield(Data,'absolut_time_T0')&& (isfield(Data,'civ1')||isfield(Data,'civ')) set(handles.Fields,'String',{'image';'get_field...';'velocity';'vort';'div';'more...'}) set(handles.Fields,'Value',3) % set menu to 'velocity' col_vec{1}='ima_cor'; else set(handles.Fields,'Value',1) % set menu to 'get_field... set(handles.Fields,'String',{'get_field...'}) col_vec{1}='get_field...'; end set(handles.col_vec,'String',col_vec) else msgbox_uvmat('ERROR',['invalid input file extension ' FileExt]) return end % set index navigation options and refresh plots set(handles.RootPath,'BackgroundColor',[1 1 1]) drawnow set_scan_options(hObject, eventdata, handles) %------------------------------------------------------------------- %-- set index navigation options for new series input and refresh plot %------------------------------------------------------------------- function set_scan_options(hObject, eventdata, handles) % set the corresponding index navigation options (TO CHECK WITH THE SECOND FIELD) NomType=get(handles.FileIndex,'UserData'); NomType_1=get(handles.FileIndex_1,'UserData'); state_j='off'; %default scan_option='i'; switch NomType case {'_i_j','_i_j1-j2','_i1-i2_j','#_ab'},% two navigation indices state_j='on'; if exist('nbfield','var') && isequal(nbfield,1) scan_option='j'; else scan_option='i'; end end if ~isempty(NomType_1) switch NomType_1 case {'_i_j','_i_j1-j2','_i1-i2_j','#_ab'},% two navigation indices state_j='on'; if exist('nbfield','var') && isequal(nbfield,1) scan_option='j'; else scan_option='i'; end end end if isequal(scan_option,'i') set(handles.scan_i,'Value',1) scan_i_Callback(hObject, eventdata, handles); else set(handles.scan_j,'Value',1) scan_j_Callback(hObject, eventdata, handles); end set(handles.scan_j,'Visible',state_j) set(handles.j1,'Visible',state_j) set(handles.j2,'Visible',state_j) set(handles.last_j,'Visible',state_j); set(handles.frame_j,'Visible',state_j); set(handles.j_text,'Visible',state_j); % view the field run0_Callback(hObject, eventdata, handles); %view field mask_test=get(handles.mask_test,'value'); if mask_test MaskData=get(handles.mask_test,'UserData'); if isfield(MaskData,'maskhandle') && ishandle(MaskData.maskhandle) delete(MaskData.maskhandle) %delete old mask end mask_test_Callback(hObject, eventdata, handles) end %------------------------------------------------------------------- function MenuBrowse_1_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- huvmat=get(handles.run0,'parent'); UvData=get(huvmat,'UserData'); RootPath=get(handles.RootPath,'String'); [FileName, PathName, filterindex] = uigetfile( ... {'*.xml;*.xls;*.civ;*.jpg;*.png;*.avi;*.AVI;*.nc;*.cmx;*.fig;*.log;*.dat', ' (*.xml,*.xls,*.civ, *.jpg,*.png, *.avi,*.nc,*.cmx ,*.fig,*.log,*.dat)'; '*.xml', '.xml files '; ... '*.xls', '.xls files '; ... '*.civ', '.civ files '; ... '*.jpg','.jpg image files'; ... '*.png','.png image files'; ... '*.avi;*.AVI','.avi movie files'; ... '*.nc','.netcdf files'; ... '*.cdf','.netcdf files'; ... '*.cmx','.cmx text files';... '*.cmx2','.cmx2 text files';... '*.fig','.fig files (matlab fig)';... '*.log','.log text files ';... '*.dat','.dat text files ';... '*.*', 'All Files (*.*)'}, ... 'Pick a file',RootPath); fileinput_1=[PathName FileName];%complete file name testblank=findstr(fileinput_1,' ');%look for blanks if ~isempty(testblank) warndlg_uvmat(['The input file name ' fileinput_1 ' contains blank character : This is not allowed. Please change name'],'ERROR') return end sizf=size(fileinput_1); if (~ischar(fileinput_1)|~isequal(sizf(1),1)),return;end % refresh the current displayed field display_file_name_1(hObject,eventdata,handles,fileinput_1) %update list of recent files in the menubar MenuFile_1=fileinput_1; MenuFile_2=get(handles.MenuFile_1,'Label'); MenuFile_3=get(handles.MenuFile_2,'Label'); MenuFile_4=get(handles.MenuFile_3,'Label'); MenuFile_5=get(handles.MenuFile_4,'Label'); set(handles.MenuFile_1,'Label',MenuFile_1) set(handles.MenuFile_2,'Label',MenuFile_2) set(handles.MenuFile_3,'Label',MenuFile_3) set(handles.MenuFile_4,'Label',MenuFile_4) set(handles.MenuFile_5,'Label',MenuFile_5) set(handles.MenuFile_1_1,'Label',MenuFile_1) set(handles.MenuFile_2_1,'Label',MenuFile_2) set(handles.MenuFile_3_1,'Label',MenuFile_3) set(handles.MenuFile_4_1,'Label',MenuFile_4) set(handles.MenuFile_5_1,'Label',MenuFile_5) dir_perso=prefdir; profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); if exist(profil_perso,'file') save (profil_perso,'MenuFile_1','MenuFile_2','MenuFile_3','MenuFile_4', 'MenuFile_5','-append'); %store the file names for future opening of uvmat else txt=ver; Release=txt(1).Release; relnumb=str2num(Release(3:4)); if relnumb >= 14 save (profil_perso,'MenuFile_1','MenuFile_2','MenuFile_3','MenuFile_4', 'MenuFile_5','-V6'); %store the file names for future opening of uvmat else save (profil_perso,'MenuFile_1','MenuFile_2','MenuFile_3','MenuFile_4', 'MenuFile_5'); %store the file names for future opening of uvmat end end % -------------------------------------------------------------------- function MenuFile_1_1_Callback(hObject, eventdata, handles) fileinput_1=get(handles.MenuFile_1_1,'Label'); display_file_name_1(hObject,eventdata,handles,fileinput_1) % -------------------------------------------------------------------- function MenuFile_2_1_Callback(hObject, eventdata, handles) fileinput_1=get(handles.MenuFile_2_1,'Label'); display_file_name_1(hObject,eventdata,handles,fileinput_1) % -------------------------------------------------------------------- function MenuFile_3_1_Callback(hObject, eventdata, handles) fileinput_1=get(handles.MenuFile_3_1,'Label'); display_file_name_1(hObject,eventdata,handles,fileinput_1) % -------------------------------------------------------------------- function MenuFile_4_1_Callback(hObject, eventdata, handles) fileinput_1=get(handles.MenuFile_4_1,'Label'); display_file_name_1(hObject,eventdata,handles,fileinput_1) % -------------------------------------------------------------------- function MenuFile_5_1_Callback(hObject, eventdata, handles) fileinput_1=get(handles.MenuFile_5_1,'Label'); display_file_name_1(hObject,eventdata,handles,fileinput_1) %----------------------------------------------------------------- % fills the edit boxes RootPath, RootFile,NomType...from an input file name 'fileinput' %---------------------------------------------------------------- function display_file_name_1(hObject,eventdata,handles,fileinput_1) %[path,name,ext]=fileparts(fileinput_1); [RootPath_1,RootFile_1,field_count,str2,str_a,str_b,FileExt_1,NomType_1,SubDir_1]=name2display(fileinput_1); nbfield_1=1; %default ext_test=FileExt_1;%default form=imformats(FileExt_1(2:end)); if ~isempty(form) % if the extension corresponds to an image format recognized by Matlab imainfo=imfinfo(fileinput_1); nbfield_1=length(imainfo); ext_test='.image'; elseif isequal(lower(FileExt_1),'.avi') info=aviinfo(fileinput_1); nbfield_1=info.NumFrames; ext_test='.image'; end %open directly fig or text files switch ext_test case {'.civ','.log','.cmx','.cmx2','.txt'} %display text file edit(fileinput) return case '.fig' %display matlab figure hfig=open(fileinput); set(hfig,'WindowButtonMotionFcn','mouse_motion')%set mouse action functio set(hfig,'WindowButtonUpFcn','mouse_up')%set mouse click action function set(hfig,'WindowButtonUpFcn','mouse_down')%set mouse click action function return case {'.xml','.xls'} % edit xml or Excel files heditxml=editxml(fileinput); return case {'.image','.nc','.cdf'} % set(handles.FileIndex,'UserData',NomType_1); otherwise warndlg_uvmat(['invalid input file extension ' FileExt_1 ' for uvmat'],'ERROR') return end % test for image series in a single file and synchronise file indices of the two series if nbfield_1 >1 %case of image with multiple frames if nbfield_1 < num_i1 warndlg_uvmat('current frame index beyond the input movie length','ERROR') return else NomType_1='*'; %indicate a set of indexed frames within a single file filename_new=fileinput_1; end else % cases of data files RootPath=get(handles.RootPath,'String'); RootFile=get(handles.RootFile,'String'); FileBase=fullfile(RootPath,RootFile); FileBase_1=fullfile(RootPath_1,RootFile_1); if isequal(FileBase,FileBase_1) filename_new=fileinput_1; else num_i1=stra2num(get(handles.i1,'String'));%get the current file indices from counters num_j1=stra2num(get(handles.j1,'String')); num_i2=stra2num(get(handles.i2,'String')); num_j2=stra2num(get(handles.j2,'String')); [filename_new,idetect]=... name_generator(FileBase_1,num_i1,num_j1,FileExt_1,NomType_1,1,num_i2,num_j2,SubDir_1);%create name with indices synchronised with the first file indices=''; %default if ~idetect warndlg_uvmat('second input file with indices corresponding to the first one does not exist','ERROR') return end end end set(handles.FileIndex,'UserData',NomType_1); % make visible and fill the second raw of edit boxes set(handles.RootPath_1,'Visible','on') set(handles.RootFile_1,'Visible','on') set(handles.SubDir_1,'Visible','on'); set(handles.FileIndex_1,'Visible','on'); set(handles.FileExt_1,'Visible','on'); [FileName,RootPath,FileBase,FileIndices,FileExt,SubDir]=read_file_boxes(handles); if isequal(FileBase,FileBase_1) set(handles.RootPath_1,'String','"') set(handles.RootFile_1,'String','"'); else set(handles.RootPath_1,'String',RootPath_1) set(handles.RootFile_1,'String',['/' RootFile_1]); end if isequal(SubDir_1,'') set(handles.SubDir_1,'String',''); FileBaseSub_1=FileBase_1; else set(handles.SubDir_1,'String',['/' SubDir_1]); FileBaseSub_1=fullfile(FileBase_1,SubDir_1); end indices=filename_new(length(FileBaseSub_1)+1:end); indices(end-length(FileExt_1)+1:end)=[]; %remove extension set(handles.FileIndex_1,'String',indices) set(handles.FileIndex_1,'UserData',NomType_1) set(handles.FileExt_1,'String',FileExt_1); % default choice of fields if isequal(ext_test,'.image') set(handles.Fields_1,'String',{'';'image';'get_field...';'velocity';'vort';'div';'more...'}) set(handles.Fields_1,'Value',2) % set menu to 'image' elseif isequal(FileExt_1,'.nc')|isequal(FileExt_1,'.cdf') Data=nc2struct(fileinput_1,[]); if isfield(Data,'absolut_time_T0') set(handles.Fields_1,'String',{'';'image';'get_field...';'velocity';'vort';'div';'more...'}) set(handles.Fields_1,'Value',4) % set menu to 'velocity' else set(handles.Fields_1,'Value',2) % set menu to 'get_field...' set(handles.Fields_1,'String',{'';'get_field...'}); end end set(handles.SubField,'Visible','on') set(handles.SubField,'Value',1) RootPath_1_Callback(hObject,eventdata,handles); %----------------------------------------------------- function RootPath_1_Callback(hObject,eventdata,handles) update_rootinfo_1(hObject,eventdata,handles) %------------------------------------------------------------------- function RootFile_1_Callback(hObject, eventdata, handles) update_rootinfo_1(hObject,eventdata,handles) %------------------------------------------------------------------- %------------------------------------------------------------------- function update_rootinfo_1(hObject,eventdata,handles) %A REVOIR set(handles.RootPath_1,'BackgroundColor',[1 1 0])% indicate active program by yellow color drawnow huvmat=get(handles.RootPath,'parent'); UvData=get(huvmat,'UserData');%huvmat=handles of the uvmat interface UvData.NewSeries=1; %flag for run0: begin a new series [FileName,RootPath,FileBase,FileIndices,FileExt]=read_file_boxes_1(handles); if ~exist(FileName,'file') msgbox_uvmat('ERROR',['input file ' FileName ' not found']); end nbfield_1=[];%default nburst_1=[];%default XmlData.Time=[]; XmlData.GeometryCalib=[];%default TimeUnit=[]; if isfield(UvData,'TimeUnit') TimeUnit=UvData.TimeUnit; end TimeUnit_1=[]; testima=0; %test for image input if isequal(lower(FileExt),'.avi') %.avi file testima=1; info=aviinfo([FileBase FileIndices FileExt]); nbfield_1=info.NumFrames; nburst_1=1; %set(handles.last_i,'String',num2str(info.NumFrames));%fills last_field box set(handles.Dt_txt,'String',['Dt=' num2str(1000/info.FramesPerSecond) 'ms']);%display the elementary time interval in millisec % set(handles.dt,'UserData',info.FramesPerSecond); time=[0:1/info.FramesPerSecond:(info.NumFrames-1)/info.FramesPerSecond]'; npx=get(handles.npx,'String'); npy=get(handles.npy,'String'); if isequal(npx,'') || isequal(npy,'') set(handles.npx,'String',num2str(info.Width));%fills nbre of pixels x box set(handles.npy,'String',num2str(info.Height));%fills nbre of pixels y box end elseif ~isempty(imformats(FileExt(2:end))) %&& isequal(NomType,'*')% multi-frame image testima=1; imainfo=imfinfo([FileBase FileIndices FileExt]); if length(imainfo) >1 %case of image with multiple frames nbfield_1=length(imainfo); nburst_1=1; %set(handles.last_i,'String',num2str(length(imainfo)));%fills last_field box end else %set(handles.last_i,'String','');%fills last_field box set(handles.npx,'String','');%fills nbre of pixels x box set(handles.npy,'String','');%fills nbre of pixels y box end % find scaling parameters filexml=[FileBase '.xml']; fileciv=[FileBase '.civ']; warntext='';%default warning text if exist(filexml,'file') [XmlData,warntext]=imadoc2struct(filexml); if ~isempty(warntext) msgbox_uvmat('WARNING',warntext) end if isfield(XmlData,'Camera') % if isfield(XmlData.Camera,'NbSlice')&& ~isempty(XmlData.Camera.NbSlice) % NbSlice=XmlData.Camera.NbSlice; % end if isfield(XmlData.Camera,'TimeUnit')&& ~isempty(XmlData.Camera.TimeUnit) TimeUnit=XmlData.Camera.TimeUnit; end end elseif exist(fileciv,'file')% if .civ file found [error,XmlData.Time,TimeUnit,mode,npx,npy,pxcmx,pxcmy]=read_imatext([FileBase '.civ']); GeometryCalib.R=[pxcmx 0 0; 0 pxcmy 0;0 0 0]; GeometryCalib.Tx=0; GeometryCalib.Ty=0; GeometryCalib.Tz=1; GeometryCalib.dpx=1; GeometryCalib.dpy=1; GeometryCalib.sx=1; GeometryCalib.Cx=0; GeometryCalib.Cy=0; GeometryCalib.f=1; GeometryCalib.kappa1=0; GeometryCalib.CoordUnit='cm'; XmlData.GeometryCalib=GeometryCalib; if error==2, warntext=['no file ' FileBase '.civ']; elseif error==1, warntext='inconsistent number of fields in the .civ file'; end set(handles.npx,'String',num2str(npx));%fills nbre of pixels x box set(handles.npy,'String',num2str(npy));%fills nbre of pixels y box set(handles.pxcm,'String',num2str(pxcmx));%fills scale x (pixel/cm) box set(handles.pycm,'String',num2str(pxcmy));%fills scale y (pixel/cm) box set(handles.pxcm,'Visible','on');%fills scale x (pixel/cm) box set(handles.pycm,'Visible','on');%fills scale y (pixel/cm) box end if ~isempty(TimeUnit_1) && ~isequal(TimeUnit_1,TimeUnit) warndlg_uvmat('the time units for the second series differs from the first one','WARNING') end % store last index in handles.lat_i and .last_j if ~isempty(XmlData.Time) nbfield_1=size(XmlData.Time,1); nburst_1=size(XmlData.Time,2); end last_i_cell=get(handles.last_i,'String'); if isempty(nbfield_1) last_i_cell{2}=''; else last_i_cell{2}=num2str(nbfield_1); end set(handles.last_i,'String',last_i_cell) last_j_cell=get(handles.last_j,'String'); if isempty(nburst_1) last_j_cell{2}=''; else last_j_cell{2}=num2str(nburst_1); end set(handles.last_j,'String',last_j_cell); if ~isequal(last_i_cell{1},last_i_cell{2}) || ~isequal(last_j_cell{1},last_j_cell{2}) warndlg_uvmat('the numbers of input file of the second series differs from the first one','WARNING') end % store calibration data GeometryCalib=XmlData.GeometryCalib; if isempty(GeometryCalib) if isfield(UvData, 'GeometryCalib_1') UvData=rmfield(UvData,'GeometryCalib_1'); end else UvData.GeometryCalib_1=GeometryCalib; if (isfield(GeometryCalib,'R')& ~isequal(GeometryCalib.R(2,1),0) & ~isequal(GeometryCalib.R(1,2),0)) |... (isfield(GeometryCalib,'kappa1')& ~isequal(GeometryCalib.kappa1,0)) set(handles.pxcm,'String','var') set(handles.pycm,'String','var') else pixcmx=GeometryCalib.f*GeometryCalib.R(1,1)*GeometryCalib.sx/(GeometryCalib.Tz*GeometryCalib.dpx); pixcmy=GeometryCalib.f*GeometryCalib.R(2,2)/(GeometryCalib.Tz*GeometryCalib.dpy); set(handles.pxcm,'String',num2str(pixcmx)) set(handles.pycm,'String',num2str(pixcmy)) end end UvData.XmlData_1=XmlData; set(huvmat,'UserData',UvData)%update the data attached to the uvmat interface if ~isequal(warntext,'') warndlg_uvmat(warntext,'WARNING') end set(handles.RootPath_1,'BackgroundColor',[1 1 1])% signa the end the input operation drawnow set_scan_options(hObject, eventdata, handles) %--------------------------------------------------- % switch file index scanning options scan_i and scan_j in an exclusive way function scan_i_Callback(hObject, eventdata, handles) %--------------------------------------------------- if get(handles.scan_i,'Value')==1 set(handles.scan_i,'BackgroundColor',[1 1 0]) set(handles.scan_j,'Value',0) set(handles.scan_j,'BackgroundColor',[0.831 0.816 0.784]) else set(handles.scan_i,'BackgroundColor',[0.831 0.816 0.784]) set(handles.scan_j,'Value',1) set(handles.scan_j,'BackgroundColor',[1 1 0]) end %------------------------------------------------------------------- %--------------------------------------------------- % switch file index scanning options scan_i and scan_j in an exclusive way function scan_j_Callback(hObject, eventdata, handles) %--------------------------------------------------- %------------------------------------------------------------------- if get(handles.scan_j,'Value')==1 set(handles.scan_j,'BackgroundColor',[1 1 0]) set(handles.scan_i,'Value',0) set(handles.scan_i,'BackgroundColor',[0.831 0.816 0.784]) else set(handles.scan_j,'BackgroundColor',[0.831 0.816 0.784]) set(handles.scan_i,'Value',1) set(handles.scan_i,'BackgroundColor',[1 1 0]) end %------------------------------------------------------------------- function i1_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- % [filebase,num1,num_a,num2,num_b,ext,NomType,subdir]=read_input_file(handles); [FileName,RootPath,filebase,xx,FileExt]=read_file_boxes(handles); NomType=get(handles.FileIndex,'UserData'); num1=stra2num(get(handles.i1,'String')); num2=stra2num(get(handles.i2,'String')); num_a=stra2num(get(handles.j1,'String')); num_b=stra2num(get(handles.j2,'String')); indices=name_generator('',num1,num_a,'',NomType,1,num2,num_b,''); set(handles.FileIndex,'String',indices) if get(handles.SubField,'Value')==1 NomType_1=get(handles.FileIndex_1,'String'); FileExt_1=get(handles.FileExt_1,'String'); [P,F,str1,str2,str_a,str_b,Ext,NomType_1]=name2display(['xx' NomType_1 FileExt_1]); indices=name_generator('',num1,num_a,'',NomType_1,1,num2,num_b,''); set(handles.FileIndex_1,'String',indices) end run0_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- function i2_Callback(hObject, eventdata, handles) i1_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- %------------------------------------------------------------------- function j1_Callback(hObject, eventdata, handles) i1_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- %------------------------------------------------------------------- function j2_Callback(hObject, eventdata, handles) i1_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- %------------------------------------------------------------------- function slices_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- if get(handles.slices,'Value')==1 set(handles.slices,'BackgroundColor',[1 1 0]) set(handles.nb_slice,'Visible','on') set(handles.z_text,'Visible','on') set(handles.z_index,'Visible','on') nb_slice_Callback(hObject, eventdata, handles) % z=mod(num_i1-1,nbslice)+1; % set(handles.z_index,'String',num2str(z)) else set(handles.nb_slice,'Visible','off') set(handles.slices,'BackgroundColor',[0.7 0.7 0.7]) set(handles.z_text,'Visible','off') set(handles.z_index,'Visible','off') set(handles.masklevel,'Value',1) set(handles.masklevel,'String',{'1'}) end %------------------------------------------------------------------- function nb_slice_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- num_i1=str2num(get(handles.i1,'String')); nbslice=str2num(get(handles.nb_slice,'String')); z=mod(num_i1-1,nbslice)+1; set(handles.z_index,'String',num2str(z)) for ilist=1:nbslice list_index{ilist,1}=num2str(ilist); end set(handles.masklevel,'String',list_index) set(handles.masklevel,'Value',z) %------------------------------------------------------------------- % --- Executes on button press in view_xml. function view_xml_Callback(hObject, eventdata, handles) [FileName,RootPath,FileBase,FileIndices,FileExt]=read_file_boxes(handles); option=get(handles.view_xml,'String'); if isequal(option,'view .xml') FileXml=[FileBase '.xml']; heditxml=editxml(FileXml); end %------------------------------------------------------------------- % --- Executes on button press in mask_test. function mask_test_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- if isequal(get(handles.mask_test,'Value'),1) [FF,RootPath,FileBase]=read_file_boxes(handles); num_i1=stra2num(get(handles.i1,'String')); num_j1=stra2num(get(handles.j1,'String')); currentdir=pwd; cd(RootPath); maskfiles=dir('*_*mask_*.png');%look for a mask file cd(currentdir);%come back to the working directory mdetect=0; if isempty(maskfiles) msgbox_uvmat('ERROR','no mask file detected (format ..._xxmask_ii.png needed), use the menu bar Tools/Make mask') return end for ilist=1:length(maskfiles) maskname=maskfiles(ilist).name;% take the first mask file in the list [rr,ff,x1,x2,xa,xb,xext,Mask_NomType{ilist}]=name2display(maskname); if ~strcmp(Mask_NomType{ilist},Mask_NomType{1}) msgbox_uvmat('ERROR',['inconsistent mask types ' Mask_NomType{1} Mask_NomType{ilist } ' coexist in the current image directory']) return end [Path2,Name,ext]=fileparts(maskname); Namedouble=double(Name); val=(48>Namedouble)|(Namedouble>57);% select the non-numerical characters ind_mask=findstr('mask',Name); i=ind_mask-1; while val(i)==0 & i>0 i=i-1; end nbmask_str=str2num(Name(i+1:ind_mask-1)); if ~isempty(nbmask_str) nbslice(ilist)=nbmask_str; % number of different masks (slices) end end if isequal(min(nbslice),max(nbslice)) nbslice=nbslice(1); else msgbox_uvmat('ERROR','several inconsistent mask sets coexist in the current image directory') return end if ~isempty(nbslice) && Name(i)=='_' Mask.Base=[FileBase Name(i:ind_mask+3)]; Mask.NbSlice=nbslice; num_i1=mod(num_i1-1,nbslice)+1 Mask.NomType=Mask_NomType{1}; [maskname,mdetect]=name_generator(Mask.Base,num_i1,num_j1,'.png',Mask.NomType)% mdetect=exist(maskname,'file') if mdetect set(handles.nb_slice,'String',Name(i+1:ind_mask-1)); set(handles.nb_slice,'BackgroundColor',[1 1 0]) set(handles.mask_test,'UserData',Mask); set(handles.mask_test,'BackgroundColor',[1 1 0]) if nbslice > 1 set(handles.slices,'value',1) slices_Callback(hObject, eventdata, handles) end end end if mdetect==0 msgbox_uvmat('ERROR','no mask file detected (format ..._xxmask_ii.png needed), use the menu bar Tools/Make mask') set(handles.mask_test,'Value',0) return end update_mask(handles,num_i1,num_j1); else MaskData=get(handles.mask_test,'UserData'); if isfield(MaskData,'maskhandle') && ishandle(MaskData.maskhandle) delete(MaskData.maskhandle) end set(handles.mask_test,'UserData',[]) huvmat=get(handles.mask_test,'parent'); UvData=get(huvmat,'UserData'); if isfield(UvData,'MaskName') UvData=rmfield(UvData,'MaskName'); set(huvmat,'UserData',UvData) end set(handles.mask_test,'BackgroundColor',[0.7 0.7 0.7]) end %------------------------------------------------------------------- function update_mask(handles,num_i1,num_j1) %------------------------------------------------------------------- MaskData=get(handles.mask_test,'UserData'); if isfield(MaskData,'maskhandle')&& ishandle(MaskData.maskhandle) uistack(MaskData.maskhandle,'top'); end num_i1_mask=mod(num_i1-1,MaskData.NbSlice)+1; [MaskName,mdetect]=name_generator(MaskData.Base,num_i1_mask,num_j1,'.png',MaskData.NomType); huvmat=get(handles.mask_test,'parent'); UvData=get(huvmat,'UserData'); %update mask image if the mask is new if ~ (isfield(UvData,'MaskName') && isequal(UvData.MaskName,MaskName)) UvData.MaskName=MaskName; %update the recorded name on UvData set(huvmat,'UserData',UvData); if mdetect==0 if isfield(MaskData,'maskhandle')&& ishandle(MaskData.maskhandle) delete(MaskData.maskhandle) end else %read mask image Mask.AName='image'; Mask.A=imread(MaskName); npxy=size(Mask.A); Mask.AX=[0.5 npxy(2)-0.5]; Mask.AY=[npxy(1)-0.5 0.5 ]; Mask.CoordType='px'; if isequal(get(handles.slices,'Value'),1) NbSlice=str2num(get(handles.nb_slice,'String')); num_i1=str2num(get(handles.i1,'String')); Mask.ZIndex=mod(num_i1-1,NbSlice)+1; end %px to phys or other transform on field menu_transform=get(handles.menu_coord,'String'); choice_value=get(handles.menu_coord,'Value'); transform=menu_transform{choice_value};%name of the transform fct given by the menu 'menu_coord' if ~isequal(transform,'') && ~isequal(transform,'px') if isfield(UvData,'XmlData') && isfield(UvData.XmlData,'GeometryCalib')%use geometry calib recorded from the ImaDoc xml file as first priority Calib=UvData.XmlData.GeometryCalib; Mask=feval(transform,Mask,UvData.XmlData); end end flagmask=Mask.A < 200; %make brown color image imflag(:,:,1)=0.9*flagmask; imflag(:,:,2)=0.7*flagmask; imflag(:,:,3)=zeros(size(flagmask)); %update mask image hmask=[]; %default if isfield(MaskData,'maskhandle')&& ishandle(MaskData.maskhandle) hmask=MaskData.maskhandle; end if ~isempty(hmask) set(hmask,'CData',imflag) set(hmask,'AlphaData',flagmask*0.6) set(hmask,'XData',Mask.AX); set(hmask,'YData',Mask.AY); % uistack(hmask,'top') else axes(handles.axes3) hold on MaskData.maskhandle=image(Mask.AX,Mask.AY,imflag,'Tag','mask','HitTest','off','AlphaData',0.6*flagmask); % set(MaskData.maskhandle,'AlphaData',0.6*flagmask) set(handles.mask_test,'UserData',MaskData) end end end %------------------------------------------------------------------- function MenuExportFigure_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- huvmat=get(handles.MenuExport,'parent'); UvData=get(huvmat,'UserData'); hfig=figure; newaxes=copyobj(handles.axes3,hfig); map=colormap(handles.axes3); colormap(map);%transmit the current colormap to the zoom fig colorbar %------------------------------------------------------------------- %------------------------------------------------------------------- % III - MAIN REFRESH FUNCTIONS : 'FRAME PLOT' %------------------------------------------------------------------- %------------------------------------------------------------------- %Executes on button press in runplus: make one step forward and call %run0. The step forward is along the fields series 1 or 2 depending on %the scan_i and scan_j check box (exclusive each other) %------------------------------------------------------------------- function runplus_Callback(hObject, eventdata, handles) increment=str2num(get(handles.increment_scan,'String')); %get the field increment d runpm(hObject,eventdata,handles,increment) %------------------------------------------------------------------- %Executes on button press in runmin: make one step backward and call %run0. The step backward is along the fields series 1 or 2 depending on %the scan_i and scan_j check box (exclusive each other) %------------------------------------------------------------------- function runmin_Callback(hObject, eventdata, handles) increment=-str2num(get(handles.increment_scan,'String')); %get the field increment d runpm(hObject,eventdata,handles,increment) %------------------------------------------------------------------- %Executes on button press in runmin: make one step backward and call %run0. The step backward is along the fields series 1 or 2 depending on %the scan_i and scan_j check box (exclusive each other) %------------------------------------------------------------------- function RunMovie_Callback(hObject, eventdata, handles) %------------------------------------------------------------------ set(handles.RunMovie,'BackgroundColor',[1 1 0])%paint the command button in yellow drawnow increment=str2num(get(handles.increment_scan,'String')); %get the field increment d set(handles.STOP,'Visible','on') set(handles.speed,'Visible','on') set(handles.speed_txt,'Visible','on') set(handles.RunMovie,'BusyAction','queue') testavi=0; huvmat=get(handles.RunMovie,'parent'); UvData=get(huvmat,'UserData'); while get(handles.speed,'Value')~=0 & isequal(get(handles.RunMovie,'BusyAction'),'queue') % enable STOP command runpm(hObject,eventdata,handles,increment) pause(1.02-get(handles.speed,'Value'))% wait for next image end if isfield(UvData,'aviobj') && ~isempty( UvData.aviobj), UvData.aviobj=close(UvData.aviobj); set(huvmat,'UserData',UvData); end set(handles.RunMovie,'BackgroundColor',[1 0 0])%paint the command buttonback to red %------------------------------------------------------------------- function STOP_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- set(handles.run0,'BusyAction','Cancel') set(handles.RunMovie,'BusyAction','Cancel') set(handles.MenuExportMovie,'BusyAction','Cancel') %------------------------------------------------------------------ function runpm(hObject,eventdata,handles,increment) %------------------------------------------------------------------ %read the data on the current input rootfile(s) [FileName,RootPath,filebase,FileIndices,FileExt,subdir]=read_file_boxes(handles); NomType=get(handles.FileIndex,'UserData'); num1=stra2num(get(handles.i1,'String')); num2=stra2num(get(handles.i2,'String')); num_a=stra2num(get(handles.j1,'String')); num_b=stra2num(get(handles.j2,'String')); sub_value= get(handles.SubField,'Value'); if sub_value ==1 [FileName_1,RootPath_1,filebase_1,FileIndices_1,FileExt_1,SubDir_1]=read_file_boxes_1(handles); end comp_input=get(handles.fix_pair,'Value'); if isequal(NomType,'_i1-i2')|isequal(NomType,'_i1-i2_j') comp_input=1; %impose a fixed pair interval set(handles.fix_pair,'Value',1) end %case of scanning along the first direction (rootfile numbers) if get(handles.scan_i,'Value')==1% case of scanning along field numbers num1=num1+increment; num2=num2+increment; if comp_input==0% find a free pair [filename,num_i1_out,num_j1_out,num_i2_out,num_j2_out]=... name_generator(filebase,num1,num_a,FileExt,NomType,0,num2,num_b,subdir); if exist(filename,'file') num_a=num_j1_out; num_b=num_j2_out; end end if sub_value>=2 num_i1=num_i1+increment; num_i2=num_i2+increment; end else % case of scanning along the second direction (burst numbers) lastfield_cell=get(handles.last_j,'String'); % get the last field number lastfield=str2num(lastfield_cell{1}); num_a=num_a+increment; num_b=num_b+increment; if sub_value >=2 num_j1=num_j1+increment; num_j2=num_j2+increment; elseif ~isempty(lastfield) && num_a>lastfield num_a=1; num1=num1+1; num2=num2+1; end end % display the new open numbers set(handles.i1,'String',num2stra(num1,NomType,1)); set(handles.i2,'String',num2stra(num2,NomType,1)); set(handles.j1,'String',num2stra(num_a,NomType,2)); set(handles.j2,'String',num2stra(num_b,NomType,2)); [indices]=name_generator('',num1,num_a,'',NomType,1,num2,num_b,''); set(handles.FileIndex,'String',indices); if sub_value ==1 NomType_1=get(handles.FileIndex_1,'UserData'); [indices]=... name_generator('',num1,num_a,'',NomType_1,1,num2,num_b,''); set(handles.FileIndex_1,'String',indices); end % refresh plots run0_Callback(hObject, eventdata, handles); %run %------------------------------------------------------- % --- Executes on button press in movie_pair. %------------------------------------------------------- function movie_pair_Callback(hObject, eventdata, handles) %initialisation set(handles.movie_pair,'BackgroundColor',[1 1 0])%paint the command button in yellow drawnow list_fields=get(handles.Fields,'String');% list menu fields index_fields=get(handles.Fields,'Value');% selected string index FieldName=list_fields{index_fields}; % selected field huvmat=get(handles.movie_pair,'parent'); if isequal(FieldName,'image') run0_Callback(hObject, eventdata, handles)%display the first image UvData=get(huvmat,'UserData'); else warndlg_uvmat('an image or movie must be first introduced as input','ERROR') return end [ff,rr,filebase,xx,Ext,SubDir]=read_file_boxes(handles); NomType=get(handles.FileIndex,'UserData'); num_i2=str2num(get(handles.i2,'String')); num_j2=str2num(get(handles.j2,'String')); if ~isempty(num_j2) num_i1=str2num(get(handles.i1,'String')); [imaname_1,idetect]=name_generator(filebase,num_i1,num_j2,Ext,NomType); if idetect==0 warndlg_uvmat(['second input open (-) ' imaname_1 ' not found'],'ERROR'); return end set(handles.i2,'String',''); % indicates that the second index i2 is not used elseif ~isempty(num_i2) num_j1=str2num(get(handles.j1,'String')); [imaname_1,idetect]=name_generator(filebase,num_i2,num_j1,Ext,NomType); if idetect==0 warndlg_uvmat(['second input open (-) ' imaname_1 ' not found'],'ERROR'); return end else warndlg_uvmat('a second image index i2 or j2 is needed to show the pair as a movie','ERROR') return end %read the second image Field.AName='image'; % Field.ListDimName={'AY','AX'}; %A FAIRE % Field.DimValue=[]; % Field.ListVarName={'A'}; Field.AX=UvData.Field.AX; Field.AY=UvData.Field.AY; Field.CoordType='px'; [Field.A,error]=read_image(imaname_1,NomType,num_i2); %px to phys or other transform on field menu_transform=get(handles.menu_coord,'String'); choice_value=get(handles.menu_coord,'Value'); transform=menu_transform{choice_value};%name of the transform fct given by the menu 'menu_coord' if ~isequal(transform,'') && ~isequal(transform,'px') if isfield(UvData,'XmlData') && isfield(UvData.XmlData,'GeometryCalib')%use geometry calib recorded from the ImaDoc xml file as first priority Field=feval(transform,Field,UvData.XmlData); end end % make movie until movie speed is set to 0 or STOP is activated hima=findobj(handles.axes3,'Tag','ima');% %handles.axes3 =main plotting window (A GENERALISER) set(handles.STOP,'Visible','on') set(handles.speed,'Visible','on') set(handles.speed_txt,'Visible','on') while get(handles.speed,'Value')~=0 & isequal(get(handles.run0,'BusyAction'),'queue'); % enable STOP command % read and plot the series of images in non erase mode set(hima,'CData',Field.A); pause(1.02-get(handles.speed,'Value'));% wait for next image set(hima,'CData',UvData.Field.A); pause(1.02-get(handles.speed,'Value'));% wait for next image end set(handles.movie_pair,'BackgroundColor',[1 0 0])%paint the command button in red %run0_Callback(hObject, eventdata, handles) %------------------------------------------------------- % --- Executes on button press in run0. %------------------------------------------------- function run0_Callback(hObject, eventdata, handles) %initialisation set(handles.run0,'BackgroundColor',[1 1 0])%paint the command button in yellow drawnow abstime=[]; abstime_1=[]; dt=[]; CalibCell={};%default Field={}; huvmat=get(handles.run0,'parent'); UvData=get(huvmat,'UserData'); if isfield(UvData,'Txt') UvData=rmfield(UvData,'Txt');%erase previous error message end set(handles.run0,'BusyAction','queue'); if ishandle(handles.UVMAT_title) %remove title panel on uvmat delete(handles.UVMAT_title) end % determine the main input file information for action TestInputFile=1;%default if isfield(UvData,'TestInputFile')&& isequal(UvData.TestInputFile,0), TestInputFile=0; end num_i1=[];%default if TestInputFile [filename,RootPath,filebase,xx,Ext,SubDir]=read_file_boxes(handles); if ~exist(filename,'file') msgbox_uvmat('ERROR',['input file ' filename ' does not exist']) return end num_i1=stra2num(get(handles.i1,'String')); num_i2=stra2num(get(handles.i2,'String')); num_j1=stra2num(get(handles.j1,'String')); num_j2=stra2num(get(handles.j2,'String')); NomType=get(handles.FileIndex,'UserData'); %update the z position index % if isequal(get(handles.nb_slice,'String'),'vol.')%case of volume % set(handles.z_index,'String',get(handles.j1,'String')); % else nbslice=str2num(get(handles.nb_slice,'String')); z_index=mod(num_i1-1,nbslice)+1; if ~isempty(nbslice) z_index=mod(num_i1-1,nbslice)+1; set(handles.z_index,'String',num2str(z_index)) % refresh menu for save_mask if relevant masknumber=get(handles.masklevel,'String'); if length(masknumber)>=z_index set(handles.masklevel,'Value',z_index) end end % end % choose the main field testima=0; if isequal(lower(Ext),'.avi')||isequal(lower(Ext),'.vol') testima=1; FieldName='image'; else form=imformats(Ext([2:end])); if ~isempty(form)% if the extension corresponds to an image format recognized by Matlab testima=1; FieldName='image'; end end else filename=[]; FieldName='get_field...'; testima=0; end VelType=[];%default if ~testima list_fields=get(handles.Fields,'String');% list menu fields index_fields=get(handles.Fields,'Value');% selected string index FieldName= list_fields{index_fields}; % selected field if isequal(FieldName,'get_field...')% read the field names on the interface get_field... VelType=get(handles.Fields,'UserData'); Field{1}=get(handles.Fields,'UserData'); else VelType=setfield(handles); %enable_transform(handles,'on')% no field transform (possible transform in the GUI get_field) end end % choose a second field if Subfield option is 'on' filename_1=[]; VelType_1=[];%default FieldName_1=[]; scal_color=[]; testvel=0; testX=0;%default VelType_1=setfield_1(handles); sub_value=get(handles.SubField,'Value'); if sub_value==1 filename_1=read_file_boxes_1(handles); if ~exist(filename_1,'file') msgbox_uvmat('ERROR',['second file ' filename_1 ' does not exist']) return end NomType_1=get(handles.FileIndex_1,'UserData'); list_fields=get(handles.Fields_1,'String');% list menu fields index_fields=get(handles.Fields_1,'Value');% selected string index FieldName_1= list_fields{index_fields}; % selected field if isequal(VelType_1,'*')% free veltype choice VelType_1=[]; elseif isequal(VelType_1,'"')% veltype the same as for the first field if isempty(VelType) VelType_1=[]; else VelType_1=VelType; end end end % test for keeping the previous stored data if the input files are unchanged test_keepdata_1=0;%defautl test_keepdata=0; if sub_value>=2 if ~isequal(NomType_1,'*')%in cas of a series of files (not avi movie) if isfield(UvData,'filename_1')& isfield(UvData,'VelType_1') & isfield(UvData,'FieldName_1') test_keepdata_1= isequal(filename_1,UvData.filename_1)&... isequal(VelType_1,UvData.filename_1) & isequal(FieldName_1,UvData.FieldName_1); end end end %read the input field(s) testima_1=isequal(FieldName_1,'image'); %read images if ~isempty(filename) && testima if isfield(UvData,'MovieObject') A=read(UvData.MovieObject,num_i1); else [A,error]=read_image(filename,NomType,num_i1); if ~isequal(error,0) msgbox_uvmat('ERROR',error) return end end npxy=size(A); set(handles.npx,'String',num2str(npxy(2)));% display image size on the interface set(handles.npy,'String',num2str(npxy(1))); Rangx=[0.5 npxy(2)-0.5]; % coordinates of the first and last pixel centers Rangy=[npxy(1)-0.5 0.5]; % npx=str2num(get(handles.npx,'String')); npy=str2num(get(handles.npy,'String')); if isfield(UvData.XmlData,'Time') abs_time=UvData.XmlData.Time; end Field{1}.AName='image'; Field{1}.ListVarName={'AY','AX','A'}; % if size(A,3)==3;%color Field{1}.VarDimName={'AY','AX',{'AY','AX','rgb'}}; % else Field{1}.VarDimName={'AY','AX',{'AY','AX'}}; % end Field{1}.AY=Rangy; Field{1}.AX=Rangx; Field{1}.A=A; Field{1}.CoordType='px'; %used for mouse_motion Field{1}.CoordUnit='pixel'; %used for mouse_motion end if ~isfield(UvData,'Txt')& ~isempty(filename_1) & testima_1 [A,error]=read_image(filename_1,NomType_1,num_i1); if ~isequal(error,0) msgbox_uvmat('ERROR',error) return end npxy=size(A); set(handles.npx,'String',num2str(npxy(2)));% display image size on the interface set(handles.npy,'String',num2str(npxy(1))); Rangx=[0.5 npxy(2)-0.5]; % coordinates of the first and last pixel centers Rangy=[npxy(1)-0.5 0.5]; % npx=str2num(get(handles.npx,'String')); npy=str2num(get(handles.npy,'String')); if isfield(UvData,'XmlData_1') && isfield(UvData.XmlData_1,'Time') abs_time=UvData.XmlData_1.Time; end Field{2}.AName='image'; Field{2}.ListVarName={'AY','AX','A'}; % if size(A,3)==3;%color Field{2}.VarDimName={'AY','AX',{'AY','AX','rgb'}}; % else Field{2}.VarDimName={'AY','AX',{'AY','AX'}}; % end Field{2}.AY=Rangy; Field{2}.AX=Rangx; Field{2}.A=A; Field{2}.CoordType='px'; %used for mouse_motion Field{2}.CoordUnit='px'; %used for move_mou end %read ncfile(s) CivStage_1=0;%default VelType_out_1=[]; InputField={FieldName}; InputField_1={FieldName_1}; if ~isfield(UvData,'Txt') && ((~isempty(filename)&~testima) || (~isempty(filename_1)&~testima_1)) ; %read the velocity field(s) from netcdf rootfile(s) list_code=get(handles.col_vec,'String');% list menu fields index_code=get(handles.col_vec,'Value');% selected string index scal_color= list_code{index_code(1)}; % selected field if isequal(FieldName,'velocity')&& ~isequal(scal_color,'black') && ~isequal(scal_color,'white') InputField=[InputField scal_color]; end if isequal(FieldName_1,'velocity') && ~isequal(scal_color,'black') && ~isequal(scal_color,'white') InputField_1=[InputField_1 scal_color]; end if ~testima %read the first nc field if isequal(FieldName,'get_field...')% read the field names on the interface get_field. test_detect=0;%default VelType=get(handles.Fields,'UserData'); hget_field=findobj(allchild(0),'Name','get_field');%find the get_field... GUI if isempty(hget_field) hget_field= get_field(filename);%open the get_field GUI end test_detect=1; hhget_field=guidata(hget_field); set(hhget_field.inputfile,'String',filename)% update the list of input fields in get_field set(hhget_field.ACTION,'Value',1)% PLOT option selected set(hhget_field.list_fig,'Value',2)% plotting axes =uvmat selected [Field{1},errormsg]=read_get_field(hget_field); %read the names of the variables to plot in the get_field GUI if ~isempty(errormsg) msgbox_uvmat('ERROR',['error in uvmat/run0_Callback/read_get_field: ' errormsg]) return end CivStage=0; VelType_out=[]; else [Field{1},VelType_out]=read_civxdata(filename,InputField,VelType); if isfield(Field{1},'Txt') msgbox_uvmat('ERROR',Field{1}.Txt) return end CivStage=Field{1}.CivStage; UvData.NbDim=Field{1}.nb_dim; end end if ~isempty(filename_1) && ~testima_1 %read the second file if isequal(FieldName_1,'get_field...')% read the field names on the interface get_field. test_detect=0;%default hget_field=findobj(allchild(0),'Name','get_field_1');%find the get_field... GUI if isempty(hget_field) hget_field= get_field(filename_1);%open the get_field GUI set(hget_field,'name','get_field_1') % enable_transform(handles,'off')% no field transform (possible transform in the GUI get_field) end test_detect=1; hhget_field=guidata(hget_field);%handles of GUI elements in get_field SubField=get_field('read_var_names',hObject,eventdata,hhget_field); %read the names of the variables to plot in the get_field GUI [Field{2},var_detect]=nc2struct(filename_1,SubField.ListVarName); %read the corresponding input data Field{2}.VarAttribute=SubField.VarAttribute; if isequal(get(hhget_field.menu_coord,'Visible'),'on') list_transform=get(hhget_field.menu_coord,'String'); val_list=get(hhget_field.menu_coord,'Value'); transf=list_transform{val_list}; if ~isempty(transf) Field{2}=feval(transf,Field{2}); end end %update the display on get_field set(hhget_field.inputfile,'String',filename_1) set(hhget_field.variables,'Value',1) Tabchar={''};%default Tabcell=[]; if isfield(Field{2},'ListGlobalAttribute')& ~isempty(Field{2}.ListGlobalAttribute) for iline=1:length(Field{2}.ListGlobalAttribute) Tabcell{iline,1}=Field{2}.ListGlobalAttribute{iline}; if isfield(Field{2}, Field{2}.ListGlobalAttribute{iline}) eval(['val=Field{2}.' Field{2}.ListGlobalAttribute{iline} ';']) if ischar(val); Tabcell{iline,2}=val; else Tabcell{iline,2}=num2str(val); end end end if ~isempty(Tabcell) Tabchar=cell2tab(Tabcell,'='); Tabchar=[{''};Tabchar]; end end set(hhget_field.attributes,'String',Tabchar);%update list of global attributes in get_field else [Field{2},VelType_out_1]=read_civxdata(filename_1,[],VelType_1); CivStage_1=Field{2}.CivStage; end if testima VelType_out=VelType_out_1; end end end %update the display buttons for the first velocity type (first menuline) veltype_handles=[handles.civ1 handles.interp1 handles.filter1 handles.civ2 handles.interp2 handles.filter2]; if testima reset_vel_type(veltype_handles) elseif isempty(VelType) set_veltype_display(veltype_handles,CivStage)%update the display of available velocity types for the first field if isempty(VelType_out) reset_vel_type(veltype_handles) else handle1=eval(['handles.' VelType_out]); reset_vel_type(veltype_handles,handle1) end end %update the display buttons for the second velocity type (second menuline) veltype_handles_1=[handles.civ1_1 handles.interp1_1 handles.filter1_1 handles.civ2_1 handles.interp2_1 handles.filter2_1]; if testima_1 reset_vel_type(veltype_handles_1) elseif isempty(VelType_1) set_veltype_display(veltype_handles_1,CivStage_1)%update the display of available velocity types for the first field if isempty(VelType_out_1) reset_vel_type(veltype_handles_1) else handle1=eval(['handles.' VelType_out_1 '_1']); reset_vel_type(veltype_handles_1,handle1) end end %introduce w as background image by default for a new series (only for nbdim=2) if ~isfield(UvData,'NewSeries') UvData.NewSeries=1; end %put W as background image by default if NbDim=2: if ~isfield(UvData,'NbDim')|isempty(UvData.NbDim)|~isequal(UvData.NbDim,3) if UvData.NewSeries && isequal(get(handles.SubField,'Value'),0) && isfield(Field{1},'W') && ~isempty(Field{1}.W); set(handles.SubField,'Value',1); menu=update_menu(handles.Fields_1,'w');%update the menu for the background scalar nd set the choice to 'w' set(handles.RootPath_1,'String','"') set(handles.RootFile_1,'String','"') set(handles.SubDir_1,'String','"'); [indices]=name_generator('',num_i1,num_j1,'',NomType,1,num_i2,num_j2,''); set(handles.FileIndex_1,'String',indices) set(handles.FileExt_1,'String','"'); set(handles.Fields_1,'Visible','on'); set(handles.Fields_1,'Visible','on'); set(handles.RootPath_1,'Visible','on') set(handles.RootFile_1,'Visible','on') set(handles.SubDir_1,'Visible','on'); set(handles.FileIndex_1,'Visible','on'); set(handles.FileExt_1,'Visible','on'); set(handles.Fields_1,'Visible','on'); Field{1}.AName='w'; testscal=1; end end %multislice case if TestInputFile &&(~isfield(UvData,'NbDim') || isequal(UvData.NbDim,2))&&...%2D case isfield(UvData,'XmlData') && isfield(UvData.XmlData,'GeometryCalib')&& isfield(UvData.XmlData.GeometryCalib,'SliceCoord') % nbfield2=str2num(get(handles.last_j,'String')); siz=size(UvData.XmlData.GeometryCalib.SliceCoord); if siz(1)>1 NbSlice=siz(1); set(handles.slices,'Visible','on') set(handles.slices,'Value',1) else NbSlice=1; end set(handles.nb_slice,'String',num2str(NbSlice)) slices_Callback(hObject, eventdata, handles) % Coord=UvData.XmlData.GeometryCalib.SliceCoord; % ZIndex=num_i1-NbSlice*(floor((num_i1-1)/NbSlice)); % Field{1}.Z=ZIndex; end %store the current open names, fields and vel types in uvmat interface UvData.filename=filename; UvData.filename_1=filename_1; UvData.VelType=VelType; UvData.VelType_1=VelType_1; UvData.FieldName=FieldName; UvData.FieldName_1=FieldName_1; if ~isempty(scal_color) UvData.CName=scal_color; end %coordinate transform or user fct XmlData=[];%default if isfield(UvData,'XmlData')%use geometry calib recorded from the ImaDoc xml file as first priority XmlData=UvData.XmlData; end XmlData_1=[];%default if isfield(UvData,'XmlData_1') XmlData_1=UvData.XmlData_1; end menu_transform=get(handles.menu_coord,'String'); choice_value=get(handles.menu_coord,'Value'); transform=menu_transform{choice_value};%name of the transform fct given by the menu 'menu_coord' % z index if TestInputFile Field{1}.ZIndex=mod(num_i1-1,nbslice)+1; end %px to phys or other transform on field if ~isequal(transform,'') if length(Field)>=2 Field{2}.ZIndex=mod(num_i1-1,nbslice)+1; [Field{1},Field{2}]=feval(transform,Field{1},XmlData,Field{2},XmlData_1); if isempty(Field{2}) Field(2)=[]; end else Field{1}=feval(transform,Field{1},XmlData); end end %calculate scalar if ~testima && ~isequal(FieldName,'get_field...')% Field{1}=calc_field(InputField,Field{1}); end if length(Field)==2 && ~testima_1 && ~isequal(FieldName,'get_field...') Field{2}=calc_field(InputField_1,Field{2}); end % combine the two input fields (e.g. substract velocity fields) if numel(Field)==2 if ~(isequal(get(handles.movie_pair,'Value'),1) & isequal(FieldName,'image') & isequal(FieldName_1,'image')) %combine fields if not viewing image pairs UvData.Field=sub_field(Field{1},Field{2}); %TO UPDATE FOR MORE GENERAL INPUT end else UvData.Field=Field{1}; end UvData.NewSeries=0;% put to 0 the test for a new field series (set by RootPath_callback) % test 3D , default projection menuplane and typical mesh (needed to menuopen set_object) test_x=0; test_z=0;% test for unstructured z coordinate UvData.ZMax=0; UvData.ZMin=0;%default UvData.Mesh=1; %default [UvData.Field,errormsg]=check_field_structure(UvData.Field); if ~isempty(errormsg) msgbox_uvmat('ERROR',['error in uvmat/run0_Callback/check_field_structure: ' errormsg]) return end [CellVarIndex,NbDim,VarType]=find_field_indices(UvData.Field); [NbDim,imax]=max(NbDim); if isempty(imax) DimVarIndex=0; coord_x=[]; else VarIndex=CellVarIndex{imax}; coord_x=VarType{imax}.coord_x; end if isfield(UvData,'NbDim') & ~isempty(UvData.NbDim) NbDim=UvData.NbDim; else UvData.NbDim=NbDim; end if ~isempty(CellVarIndex) & ~isempty(VarType{imax}.coord_x) & ~isempty(VarType{imax}.coord_y) %unstructured coordinate z XName=UvData.Field.ListVarName{VarType{imax}.coord_x}; YName=UvData.Field.ListVarName{VarType{imax}.coord_y}; test_x=1; elseif isfield(UvData.Field,'X')&isfield(UvData.Field,'Y') XName='X'; YName='Y'; test_x=1; end if test_x eval(['UvData.XMax=max(UvData.Field.' XName ');']) eval(['UvData.XMin=min(UvData.Field.' XName ');']) eval(['UvData.YMax=max(UvData.Field.' YName ');']) eval(['UvData.YMin=min(UvData.Field.' YName ');']) eval(['nbvec=length(UvData.Field.' XName ');']) if NbDim==3% if ~isempty(CellVarIndex) & ~isempty(VarType{imax}.coord_z)%unstructured coordinate z ZName=UvData.ListVarName{VarType{imax}.coord_z}; eval(['UvData.ZMax=max(UvData.Field.' ZName ');']) eval(['UvData.ZMin=min(UvData.Field.' ZName ');']) test_z=1; elseif isfield(UvData,'Z')% usual civ data UvData.ZMax=max(UvData.Z); UvData.ZMin=min(UvData.Z); test_z=1; end end if isequal(UvData.ZMin,UvData.ZMax)%no z dependency NbDim=2; test_z=0; end if test_z UvData.Mesh=((UvData.XMax-UvData.XMin)*(UvData.YMax-UvData.YMin)*(UvData.ZMax-UvData.ZMin))/nbvec;% volume per vector UvData.Mesh=(UvData.Mesh)^(1/3); else UvData.Mesh=sqrt((UvData.XMax-UvData.XMin)*(UvData.YMax-UvData.YMin)/nbvec);%2D end end %case of structured coordinates if isfield(UvData.Field,'AX') & isfield(UvData.Field,'AY')& isfield(UvData.Field,'A') UvData.XMax=max(UvData.Field.AX); UvData.XMin=min(UvData.Field.AX); UvData.YMax=max(UvData.Field.AY); UvData.YMin=min(UvData.Field.AY); np_A=size(UvData.Field.A); UvData.Mesh=sqrt((UvData.XMax-UvData.XMin)*(UvData.YMax-UvData.YMin)/((np_A(1)-1) * (np_A(2)-1))) ; end if isempty(coord_x)&~isempty(CellVarIndex) VarIndex=CellVarIndex{imax}; % list of variable indices DimIndex=UvData.Field.VarDimIndex{VarIndex(1)}; %list of dim indices for the variable if NbDim==3 nbpoints=UvData.Field.DimValue(DimIndex(1)); %Zvar=DimVarIndex(DimIndex(1)); %Zvar=DimVarIndex(1); Zvar=VarType{imax}.coord_3; if Zvar~=0 % z is a dimension variable ZName=UvData.Field.ListVarName{Zvar}; eval(['UvData.ZMax=max(UvData.Field.' ZName ');']) eval(['UvData.ZMin=min(UvData.Field.' ZName ');']) else testcoord_z=0; if length(UvData.Field.VarAttribute)>=VarIndex(1) if isfield(UvData.Field.VarAttribute{VarIndex(1)},'Coord_1')%regular grid Coord_z=UvData.Field.VarAttribute{VarIndex(1)}.Coord_1; UvData.ZMax=max(Coord_z); UvData.ZMin=min(Coord_z); testcoord_z=1; end end if ~testcoord_z UvData.ZMin=1; UvData.ZMax=UvData.Field.DimValue(DimIndex(1)); end end UvData.Mesh=(UvData.ZMax-UvData.ZMin)/(nbpoints-1); elseif NbDim==2 nbpoints_y=UvData.Field.DimValue(DimIndex(1)); Yvar=VarType{imax}.coord_y; if Yvar~=0 % x is a dimension variable YName=UvData.Field.ListVarName{Yvar}; eval(['UvData.YMax=max(UvData.Field.' YName ');']) eval(['UvData.YMin=min(UvData.Field.' YName ');']) else testcoord_y=0; if ~testcoord_y UvData.YMin=1; UvData.YMax=UvData.Field.DimValue(DimIndex(1)); end end DY=(UvData.YMax-UvData.YMin)/(nbpoints_y-1); nbpoints_x=UvData.Field.DimValue(DimIndex(2)); Xvar=VarType{imax}.coord_x; if Xvar~=0 % x is a dimension variable XName=UvData.Field.ListVarName{Xvar}; eval(['UvData.XMax=max(UvData.Field.' XName ');']) eval(['UvData.XMin=min(UvData.Field.' XName ');']) else testcoord_x=0; if ~testcoord_x UvData.XMin=1; UvData.XMax=UvData.Field.DimValue(DimIndex(2)); end end DX=(UvData.XMax-UvData.XMin)/(nbpoints_x-1); UvData.Mesh= sqrt(DX*DY); end end %create a default projection menuplane UvData.Object{1}.Style='plane';%main plotting plane UvData.Object{1}.ProjMode='projection';%main plotting plane if ~isfield(UvData.Object{1},'plotaxes') UvData.Object{1}.plotaxes=handles.axes3;%default plotting axis set(handles.list_object,'String',{'1-PLANE';'...'}); set(handles.list_object,'Value',1); end %3D case (menuvolume) if NbDim==3 UvData.Object{1}.NbDim=UvData.NbDim;%test for 3D objects UvData.Object{1}.RangeZ=UvData.Mesh;%main plotting plane UvData.Object{1}.Coord(1,3)=(UvData.ZMin+UvData.ZMax)/2;%section at a middle plane chosen UvData.Object{1}.Phi=0; UvData.Object{1}.Theta=0; UvData.Object{1}.Psi=0; UvData.Object{1}.HandlesDisplay=plot(0,0,'Tag','proj_object');% A REVOIR PlotHandles=get_plot_handles(handles); ZBounds(1)=UvData.ZMin; %minimum for the Z slider ZBounds(2)=UvData.ZMax;%maximum for the Z slider set_object(UvData.Object{1},PlotHandles,ZBounds); set(handles.list_object,'Value',1); %multilevel case (single menuplane in a 3D space) elseif isfield(UvData,'Z') if isfield(UvData,'CoordType')& isequal(UvData.CoordType,'phys') & isfield(UvData,'XmlData') XmlData=UvData.XmlData; if isfield(XmlData,'PlanePos') UvData.Object{1}.Coord=XmlData.PlanePos(UvData.ZIndex,:); end if isfield(XmlData,'PlaneAngle') siz=size(XmlData.PlaneAngle); indangle=min(siz(1),UvData.ZIndex);%take first angle if a single angle is defined (translating scanning) UvData.Object{1}.Phi=XmlData.PlaneAngle(indangle,1); UvData.Object{1}.Theta=XmlData.PlaneAngle(indangle,2); UvData.Object{1}.Psi=XmlData.PlaneAngle(indangle,3); end elseif isfield(UvData,'ZIndex') UvData.Object{1}.ZObject=UvData.ZIndex; end end %Plot the projections on all existing projection objects keeplim=get(handles.FixedLimits,'Value'); %reset the min and max of scalar if only the mask is displayed if isfield(UvData,'Mask')&~isfield(UvData,'A') set(handles.MinA,'String','0') set(handles.MaxA,'String','255') end Object=UvData.Object; for iobj=1:length(Object) if ~isempty(Object{iobj})%& isfield(Object{iobj},'plotaxes')& ishandle(Object{iobj}.plotaxes) %Projeter les champs sur l'objet:* ObjectData=proj_field(UvData.Field,Object{iobj},iobj); %use of mask if isfield(ObjectData,'NbDim')&isequal(ObjectData.NbDim,2) if isfield(ObjectData,'Mask') & isfield(ObjectData,'A') flag_mask=double(ObjectData.Mask>200);%=0 for masked regions AX=ObjectData.AX; AY=ObjectData.AY; MaskX=ObjectData.MaskX; MaskY=ObjectData.MaskY; if ~isequal(MaskX,AX)|~isequal(MaskY,AY) nxy=size(flag_mask); sizpx=(ObjectData.MaskX(end)-ObjectData.MaskX(1))/(nxy(2)-1);%size of a mask pixel sizpy=(ObjectData.MaskY(1)-ObjectData.MaskY(end))/(nxy(1)-1); x_mask=[ObjectData.MaskX(1):sizpx:ObjectData.MaskX(end)]; % pixel x coordinates for image display y_mask=[ObjectData.MaskY(1):-sizpy:ObjectData.MaskY(end)];% pixel x coordinates for image display %project on the positions of the scalar npxy=size(ObjectData.A); dxy(1)=(ObjectData.AY(end)-ObjectData.AY(1))/(npxy(1)-1);%grid mesh in y dxy(2)=(ObjectData.AX(end)-ObjectData.AX(1))/(npxy(2)-1);%grid mesh in x xi=[ObjectData.AX(1):dxy(2):ObjectData.AX(end)]; yi=[ObjectData.AY(1):dxy(1):ObjectData.AY(end)]; [XI,YI]=meshgrid(xi,yi);% creates the matrix of regular coordinates flag_mask = interp2(x_mask,y_mask,flag_mask,XI,YI); end AClass=class(ObjectData.A); ObjectData.A=flag_mask.*double(ObjectData.A); ObjectData.A=feval(AClass,ObjectData.A); ind_off=[]; if isfield(ObjectData,'ListVarName') for ilist=1:length(ObjectData.ListVarName) if isequal(ObjectData.ListVarName{ilist},'Mask')|isequal(ObjectData.ListVarName{ilist},'MaskX')|isequal(ObjectData.ListVarName{ilist},'MaskY') ind_off=[ind_off ilist]; end end ObjectData.ListVarName(ind_off)=[]; ObjectData.VarDimIndex(ind_off)=[]; ind_off=[]; for ilist=1:length(ObjectData.ListDimName) if isequal(ObjectData.ListDimName{ilist},'MaskX')|isequal(ObjectData.ListDimName{ilist},'MaskY') ind_off=[ind_off ilist]; end end ObjectData.ListDimName(ind_off)=[]; ObjectData.DimValue(ind_off)=[]; end end end if ~isempty(ObjectData) haxes=[];%default if isfield(Object{iobj},'plotaxes') haxes=Object{iobj}.plotaxes;%axes used for representing the projection on the object end PosColorbar=[];%default: no colorbar if ishandle(haxes) & isequal(get(haxes,'Tag'),'axes3')& isfield(UvData,'PosColorbar') PosColorbar=UvData.PosColorbar;%prescribe the colorbar position on the uvmat interface else PosColorbar='*';%default position end PlotParam=read_plot_param(handles);%read plotting parameters on the uvmat interface [PlotType,ScalOut,UvData.Object{iobj}.plotaxes]=plot_field(ObjectData,haxes,PlotParam,keeplim,PosColorbar); if isequal(PlotType,'none') hget_field=findobj(allchild(0),'name','get_field'); if isempty(hget_field) get_field([],ObjectData)% the projected field cannot be automatically plotted: use get_field to specify the variablesdelete(hget_field) else msgbox_uvmat('ERROR','The field defined by get_field cannot be plotted') end end UvData.Object{iobj}.PlotParam=ScalOut; %record the plotting parameters end end end %display the updated plotting parameters for the base menuplane write_plot_param(handles,UvData.Object{1}.PlotParam);% update the display of the plotting parameters set(huvmat,'UserData',UvData) %update the mask if isequal(get(handles.mask_test,'Value'),1)%if the mask option is on update_mask(handles,num_i1,num_i2); end %prepare the menus of histograms (for the whole menuvolume in 3D case) menu_histo=(UvData.Field.ListVarName)'; ind_bad=[]; nb_histo=1; for ivar=1:numel(menu_histo) if isfield(UvData.Field,'VarAttribute') && numel(UvData.Field.VarAttribute)>=ivar && isfield(UvData.Field.VarAttribute{ivar},'Role') Role=UvData.Field.VarAttribute{ivar}.Role; switch Role case {'coord_x','coord_y','coord_z','dimvar'} ind_bad=[ind_bad ivar]; case {'vector_y'} nb_histo=nb_histo+1; end end DimCell=UvData.Field.VarDimName{ivar}; DimName=''; if ischar(DimCell) DimName=DimCell; elseif iscell(DimCell)&& numel(DimCell)==1 DimName=DimCell{1}; end if strcmp(DimName,menu_histo{ivar}) ind_bad=[ind_bad ivar]; end end menu_histo(ind_bad)=[]; test_v=0; if ~isempty(menu_histo) set(handles.histo1_menu,'Value',1) set(handles.histo1_menu,'String',menu_histo) histo1_menu_Callback(hObject, eventdata, handles) if nb_histo > 1 test_v=1; set(handles.histo2_menu,'Visible','on') set(handles.histo_v,'Visible','on') set(handles.histo2_menu,'String',menu_histo) set(handles.histo2_menu,'Value',2) histo2_menu_Callback(hObject, eventdata, handles) end end if ~test_v set(handles.histo2_menu,'Visible','off') set(handles.histo_v,'Visible','off') cla(handles.histo_v) set(handles.histo2_menu,'Value',1) end %display time testimedoc=0; if isfield(UvData,'XmlData') && isfield(UvData.XmlData,'Time') if isempty(num_i2) num_i2=num_i1; end if isempty(num_j1) num_j1=1; end if isempty(num_j2) num_j2=num_j1; end siz=size(UvData.XmlData.Time); if siz(1)>=max(num_i1,num_i2) & siz(2)>=max(num_j1,num_j2) abstime=(UvData.XmlData.Time(num_i1,num_j1)+UvData.XmlData.Time(num_i2,num_j2))/2;%overset the time read from files dt=(UvData.XmlData.Time(num_i2,num_j2)-UvData.XmlData.Time(num_i1,num_j1)); testimedoc=1; end end if isfield(UvData,'XmlData_1') && isfield(UvData.XmlData_1,'Time') [P,F,str1,str2,str_a,str_b,E,NomType]=name2display(['xx' get(handles.FileIndex_1,'String') get(handles.FileExt_1,'String')]); num_i2=str2num(str2); if isempty(num_i2) num_i2=num_i1; end num_j1=str2num(str_a); if isempty(num_j1) num_j1=1; end num_j2=str2num(str_b); if isempty(num_j2) num_j2=num_j1; end num_i1=str2num(str1); siz=size(UvData.XmlData_1.Time); if siz(1)>=max(num_i1,num_i2) & siz(2)>=max(num_j1,num_j2) abstime_1=(UvData.XmlData_1.Time(num_i1,num_j1)+UvData.XmlData_1.Time(num_i2,num_j2))/2;%overset the time read from files end end set(handles.abs_time,'String',num2str(abstime,4)) set(handles.abs_time_1,'String',num2str(abstime_1,4)) if testimedoc && isfield(UvData,'dt') dt=UvData.dt; end if isequal(dt,0) set(handles.Dt_txt,'String','') else if ~(isfield(UvData,'TimeUnit') && ~isempty(UvData.TimeUnit)) set(handles.Dt_txt,'String',['Dt=' num2str(1000*dt,3) ' 10^(-3)'] ) else set(handles.Dt_txt,'String',['Dt=' num2str(1000*dt,3) ' m' UvData.TimeUnit] ) end end set(handles.run0,'BackgroundColor',[1 0 0]) %------------------------------------------------------------------- % --- translate coordinate to matrix index %------------------------------------------------------------------- function [indx,indy]=pos2ind(x0,rangx0,nxy) indx=1+round((nxy(2)-1)*(x0-rangx0(1))/(rangx0(2)-rangx0(1)));% index x of pixel indy=1+round((nxy(1)-1)*(y12-rangy0(1))/(rangy0(2)-rangy0(1)));% index y of pixel %------------------------------------------------------------------- % --- Executes on button press in 'FixedLimits'. %------------------------------------------------------------------- function FixedLimits_Callback(hObject, eventdata, handles) test=get(handles.FixedLimits,'Value'); if test set(handles.FixedLimits,'BackgroundColor',[1 1 0]) else set(handles.FixedLimits,'BackgroundColor',[0.7 0.7 0.7]) end %------------------------------------------------------------------- % --- Executes on button press in auto_xy. function auto_xy_Callback(hObject, eventdata, handles) test=get(handles.auto_xy,'Value'); if test set(handles.auto_xy,'BackgroundColor',[1 1 0]) cla(handles.axes3) update_plot(handles) else set(handles.auto_xy,'BackgroundColor',[0.7 0.7 0.7]) update_plot(handles) % axis(handles.axes3,'image') end %------------------------------------------------------------------- %------------------------------------------------------------------- % --- Executes on button press in 'zoom'. %------------------------------------------------------------------- function zoom_Callback(hObject, eventdata, handles) huvmat=get(handles.zoom,'parent');%general input UvData=get(huvmat,'UserData'); if (get(handles.zoom,'Value') == 1); set(handles.zoom,'BackgroundColor',[1 1 0]) set(handles.FixedLimits,'Value',1)% propose by default fixed limits for the plotting axes set(handles.FixedLimits,'BackgroundColor',[1 1 0]) %UvData.ZoomOn=1; %test for mouse action else set(handles.zoom,'BackgroundColor',[0.7 0.7 0.7]) %UvData.ZoomOn=0; %test for mouse action end set(huvmat,'UserData',UvData); %------------------------------------------------------------------- %----Executes on button press in 'record': records the current flags of manual correction. %------------------------------------------------------------------- function record_Callback(hObject, eventdata, handles) % [filebase,num_i1,num_j1,num_i2,num_j2,Ext,NomType,SubDir]=read_input_file(handles); filename=read_file_boxes(handles); AxeData=get(gca,'UserData'); [erread,message]=fileattrib(filename); if ~isempty(message) & ~isequal(message.UserWrite,1) msgbox_uvmat('ERROR',['no writting access to ' filename]) return end nc=netcdf(filename,'write'); %open netcdf file result=redef(nc); if isempty(result), warndlg_uvmat('##Bad redef operation.','ERROR'),end test_civ2=isequal(get(handles.civ2,'BackgroundColor'),[1 1 0]); if ~test_civ2 test_civ1=isequal(get(handles.civ1,'BackgroundColor'),[1 1 0]); end if test_civ2 % for civ2 theDim=nc('nb_vectors2') ;% get the number of velocity vectors nb_vectors2=size(theDim); var_FixFlag=ncvar('vec2_FixFlag',nc);% var_FixFlag will be written as the netcdf variable vec_FixFlag var_FixFlag(1:nb_vectors2)=AxeData.FF;% elseif test_civ1 % for civ1 theDim=nc('nb_vectors') ;% get the number of velocity vectors nb_vectors=size(theDim); var_FixFlag=ncvar('vec_FixFlag',nc);% var_FixFlag will be written as the netcdf variable vec_FixFlag var_FixFlag(1:nb_vectors)=AxeData.FF;% else msgbox_uvmat('ERROR','manual correction only possible for CIV1 or CIV2 velocity fields') end fin=close(nc); %------------------------------------------------------------------- %determines the fields to read from the interface %------------------------------------------------------------------ function [VelType,civ]=setfield(handles) VelType=[]; %default if (get(handles.civ1,'Value') == 1); VelType='civ1'; % interp1 elseif (get(handles.interp1,'Value') == 1); VelType='interp1'; % filter1 elseif (get(handles.filter1,'Value') == 1); VelType='filter1'; % CIV2 elseif (get(handles.civ2,'Value') == 1); VelType='civ2'; % interp2 elseif (get(handles.interp2,'Value') == 1); VelType='interp2'; % filter2 elseif (get(handles.filter2,'Value') == 1); VelType='filter2'; end if isequal(get(handles.filter2,'Visible'),'on'); civ=6; % interp1 elseif isequal(get(handles.interp2,'Visible'),'on'); civ=5; % filter1 elseif isequal(get(handles.civ2,'Visible'),'on'); civ=4; % CIV2 elseif isequal(get(handles.filter1,'Visible'),'on'); civ=3; % interp2 elseif isequal(get(handles.interp1,'Visible'),'on'); civ=2; % filter2 elseif isequal(get(handles.civ1,'Visible'),'on'); civ=1; else civ=0; end %------------------------------------------------------------------- %determines the veltype of the second field to read from the iinterface %------------------------------------------------------------------ function VelType=setfield_1(handles) VelType=[]; %default if (get(handles.civ1_1,'Value') == 1); VelType='civ1'; % interp1 elseif (get(handles.interp1_1,'Value') == 1); VelType='interp1'; % filter1 elseif (get(handles.filter1_1,'Value') == 1); VelType='filter1'; % CIV2 elseif (get(handles.civ2_1,'Value') == 1); VelType='civ2'; % interp2 elseif (get(handles.interp2_1,'Value') == 1); VelType='interp2'; % filter2 elseif (get(handles.filter2_1,'Value') == 1); VelType='filter2'; end %--------------------------------------------------- % --- Executes on button press in SubField function SubField_Callback(hObject, eventdata, handles) huvmat=get(handles.run0,'parent'); UvData=get(huvmat,'UserData'); if get(handles.SubField,'Value')==0% if the subfield button is desactivated set(handles.RootPath_1,'String','') set(handles.RootFile_1,'String','') set(handles.SubDir_1,'String',''); set(handles.FileIndex_1,'String',''); set(handles.FileExt_1,'String',''); set(handles.RootPath_1,'Visible','off') set(handles.RootFile_1,'Visible','off') set(handles.SubDir_1,'Visible','off'); set(handles.FileIndex_1,'Visible','off'); set(handles.FileExt_1,'Visible','off'); set(handles.Fields_1,'Value',1);%set to blank state set_veltype_display([handles.civ1_1 handles.interp1_1 handles.filter1_1 ... handles.civ2_1 handles.interp2_1 handles.filter2_1],0) if isfield(UvData,'XmlData_1') UvData=rmfield(UvData,'XmlData_1'); end set(huvmat,'UserData',UvData); run0_Callback(hObject, eventdata, handles); %run else MenuBrowse_1_Callback(hObject, eventdata, handles) end % %---------------------------------------------- % %read the data displayed for the input rootfile windows (new) % %------------------------------------------------- function [FileName,RootPath,FileBase,FileIndices,FileExt,SubDir]=read_file_boxes(handles) RootPath=get(handles.RootPath,'String'); FileName=RootPath; %default SubDir=get(handles.SubDir,'String'); if ~isempty(SubDir) && ~isequal(SubDir,'') if (isequal(SubDir(1),'/')|| isequal(SubDir(1),'\')) SubDir(1)=[]; %suppress possible / or \ separator end FileName=fullfile(RootPath,SubDir); end RootFile=get(handles.RootFile,'String'); if ~isempty(RootFile) && ~isequal(RootFile,'') if (isequal(RootFile(1),'/')|| isequal(RootFile(1),'\')) RootFile(1)=[]; %suppress possible / or \ separator end FileName=fullfile(FileName,RootFile); end FileBase=fullfile(RootPath,RootFile); FileIndices=get(handles.FileIndex,'String'); FileExt=get(handles.FileExt,'String'); FileName=[FileName FileIndices FileExt]; %---------------------------------------------- %read the data displayed for the second input rootfile windows %------------------------------------------------- function [FileName_1,RootPath_1,FileBase_1,FileIndices_1,FileExt_1,SubDir_1]=read_file_boxes_1(handles) RootPath_1=get(handles.RootPath_1,'String'); % read the data from the file1_input window if isequal(RootPath_1,'"'),RootPath_1=get(handles.RootPath,'String'); end; FileName_1=RootPath_1; %default SubDir_1=get(handles.SubDir_1,'String'); if isequal(SubDir_1,'"') SubDir_1=get(handles.SubDir,'String'); end if ~isempty(SubDir_1) && ~isequal(SubDir_1,'') if (isequal(SubDir_1(1),'/')|| isequal(SubDir_1(1),'\')) SubDir_1(1)=[]; %suppress possible / or \ separator end FileName_1=fullfile(RootPath_1,SubDir_1); end RootFile_1=get(handles.RootFile_1,'String'); if isequal(RootFile_1,'"'),RootFile_1=get(handles.RootFile,'String'); end; if ~isempty(RootFile_1) && ~isequal(RootFile_1,'') if ~(isequal(RootFile_1(1),'/')|isequal(RootFile_1(1),'\')) RootFile_1(1)=[];%suppress possible / or \ separator end FileName_1=fullfile(FileName_1,RootFile_1); end FileBase_1=fullfile(RootPath_1,RootFile_1); FileIndices_1=get(handles.FileIndex_1,'String'); FileExt_1=get(handles.FileExt_1,'String'); if isequal(FileExt_1,'"'),FileExt_1=get(handles.FileExt,'String'); end; FileName_1=[FileName_1 FileIndices_1 FileExt_1]; %--------------------------------------------------- % --- Executes on menu selection Fields function Fields_Callback(hObject, eventdata, handles) %------------------------------------------------- huvmat=get(handles.Fields,'parent'); list_fields=get(handles.Fields,'String');% list menu fields index_fields=get(handles.Fields,'Value');% selected string index field= list_fields{index_fields(1)}; % selected string if isequal(field,'get_field...') veltype_handles=[handles.civ1 handles.interp1 handles.filter1 handles.civ2 handles.interp2 handles.filter2]; set_veltype_display(veltype_handles,0) % unvisible civ buttons filename=read_file_boxes(handles); hget_field=findobj(allchild(0),'name','get_field'); if ~isempty(hget_field) delete(hget_field) end get_field(filename) return %no action end list_fields=get(handles.Fields_1,'String');% list menu fields index_fields=get(handles.Fields_1,'Value');% selected string index field_1= list_fields{index_fields(1)}; % selected string UvData=get(huvmat,'UserData'); %read the rootfile input display FileExt=get(handles.FileExt,'String'); [P,F,str1,str2,str_a,str_b,E,NomType]=name2display(['xxx' get(handles.FileIndex,'String') FileExt]); NomTypeNew=NomType;%default if isequal(field,'image') % transform netc type to the corresponding image type if isequal(NomType,'_i1-i2_j')||isequal(NomType,'_i_j1-j2')|| isequal(NomType,'#_ab')|| isequal(NomType,'_i1-i2') UvData.SubDir=get(handles.SubDir,'String'); %preserve the subdir in memory if ~isempty(UvData.SubDir) && (isequal(UvData.SubDir(1),'/')|isequal(UvData.SubDir(1),'/')) UvData.SubDir(1)=[]; end set(handles.SubDir,'String','') set(handles.FileExt,'String','.png'); if isequal(NomType,'_i1-i2_j')|isequal(NomType,'_i_j1-j2') NomTypeNew='_i_j'; elseif isequal(NomType,'#_ab') NomTypeNew='#a'; elseif isequal(NomType,'_i1-i2') NomTypeNew='_i'; end end veltype_handles=[handles.civ1 handles.interp1 handles.filter1 handles.civ2 handles.interp2 handles.filter2]; set_veltype_display(veltype_handles,0) % unvisible civ buttons else ext=get(handles.FileExt,'String'); if ~isequal(ext,'.nc') %find the new NomType if the previous display was not already a netcdf file MenuBrowse_Callback(hObject, eventdata, handles) end if isequal(field,'vort') || isequal(field,'div') || isequal(field,'strain') set(handles.civ1,'BackgroundColor',[0.702 0.702 0.702]) % put their color to grey set(handles.civ2,'BackgroundColor',[0.702 0.702 0.702]) set(handles.interp1,'BackgroundColor',[0.702 0.702 0.702]) set(handles.interp2,'BackgroundColor',[0.702 0.702 0.702]) elseif isequal(field,'more...'); set(handles.civ1,'BackgroundColor',[0.702 0.702 0.702]) % put their color to grey set(handles.civ2,'BackgroundColor',[0.702 0.702 0.702]) str=calc_field;%get the list of available scalars by the function calc_scal [ind_answer,v] = listdlg('PromptString','Select a file:',... 'SelectionMode','single',... 'ListString',str); % edit the choice in the field and action menu scalar=cell2mat(str(ind_answer)); menu=update_menu(handles.Fields,scalar); menu=[{''};menu]; set(handles.Fields_1,'String',menu);% store the selected scalar type end end indices=name_generator('',str2num(str1),str2num(str_a),'',NomTypeNew,1,str2num(str2),str2num(str_b),''); set(handles.FileIndex,'String',indices) set(handles.FileIndex,'UserData',NomTypeNew) %common to Fields_1_Callback if isequal(field,'image')|isequal(field_1,'image') set(handles.npx_title,'Visible','on')% visible npx,pxcm... buttons set(handles.npy_title,'Visible','on') set(handles.npx,'Visible','on') set(handles.npy,'Visible','on') set(handles.fix_pair,'Value',0) else set(handles.npx_title,'Visible','off')% visible npx,pxcm... buttons set(handles.npy_title,'Visible','off') set(handles.npx,'Visible','off') set(handles.npy,'Visible','off') set(handles.fix_pair,'Value',1) end if isequal(field,'velocity')|isequal(field_1,'velocity'); state_vect='on'; else state_vect='off'; end if ~isequal(field,'velocity')|(~isequal(field_1,'velocity')); state_scal='on'; else state_scal='off'; end setfield(handles);% update the field structure ('civ1'....) if ~isfield(UvData,'NewSeries')|isequal(UvData.NewSeries,0) run0_Callback(hObject, eventdata, handles) end %--------------------------------------------------- % --- Executes on menu selection Fields function Fields_1_Callback(hObject, eventdata, handles) %------------------------------------------------- huvmat=get(handles.Fields_1,'parent'); list_fields=get(handles.Fields,'String');% list menu fields index_fields=get(handles.Fields,'Value');% selected string index field= list_fields{index_fields(1)}; % selected string list_fields=get(handles.Fields_1,'String');% list menu fields index_fields=get(handles.Fields_1,'Value');% selected string index field_1= list_fields{index_fields(1)}; % selected string for the second field if isequal(field_1,'') %remove second field if 'blank' field is selected set(handles.SubField,'Value',0) SubField_Callback(hObject, eventdata, handles) return end UvData=get(huvmat,'UserData'); %read the rootfile input display FileExt_prev=get(handles.FileExt_1,'String'); if isempty(FileExt_prev)|isequal(FileExt_prev,'') FileExt_1=get(handles.FileExt,'String'); else FileExt_1=FileExt_prev; end NomType_1=get(handles.FileIndex_1,'UserData'); if isempty(NomType_1)|isequal(NomType_1,'') NomType_1=get(handles.FileIndex,'UserData'); end NomTypeNew=NomType_1;%default set(handles.SubField,'Value',1)%introduce second field if isfield(UvData,'XmlData') UvData.XmlData_1=UvData.XmlData; end set(handles.FileIndex_1,'Visible','on') set(handles.FileExt_1,'Visible','on') RootPath_1=get(handles.RootPath_1,'String'); RootFile_1=get(handles.RootFile_1,'String'); if isempty(RootPath_1)|isequal(RootPath_1,'') set(handles.RootPath_1,'String','"') end if isempty(RootFile_1) | isequal(RootFile_1,'') set(handles.RootFile_1,'String','"') end if ~isempty(RootFile_1)&(isequal(RootFile_1(1),'/')|isequal(RootFile_1(1),'\')) RootFile_1(1)=[]; end if isequal(field_1,'get_field...') veltype_handles=[handles.civ1 handles.interp1 handles.filter1 handles.civ2 handles.interp2 handles.filter2]; set_veltype_display(veltype_handles,0) % unvisible civ buttons filename=read_file_boxes_1(handles); hget_field=findobj(allchild(0),'name','get_field_1'); if ~isempty(hget_field) delete(hget_field) end hget_field=get_field(filename); set(hget_field,'name','get_field_1') return %no action end if isequal(field_1,'image') % transform netc type to the corresponding image type set(handles.FileExt_1,'String','.png'); if isequal(NomType_1,'_i1-i2_j')|isequal(NomType_1,'_i_j1-j2')| isequal(NomType_1,'#_ab')| isequal(NomType_1,'_i1-i2') UvData.SubDir_1=get(handles.SubDir_1,'String'); %preserve the subdir in memory set(handles.SubDir_1,'String','') % set(handles.FileExt_1,'String','.png'); if isequal(NomType_1,'_i1-i2_j')|isequal(NomType_1,'_i_j1-j2') NomTypeNew='_i_j'; elseif isequal(NomType_1,'#_ab') NomTypeNew='#a'; elseif isequal(NomType_1,'_i1-i2') NomTypeNew='_i'; end end veltype_handles=[handles.civ1_1 handles.interp1_1 handles.filter1_1 handles.civ2_1 handles.interp2_1 handles.filter2_1]; set_veltype_display(veltype_handles,0) % unvisible civ buttons else set(handles.SubDir_1,'Visible','on') if ~isequal(FileExt_prev,'.nc') %find the new NomType if the previous display was not already a netcdf file veltype_handles=[handles.civ1_1 handles.interp1_1 handles.filter1_1 handles.civ2_1 handles.interp2_1 handles.filter2_1]; set_veltype_display(veltype_handles,6); % make all civ buttons visible RootPath_1=get(handles.RootPath_1,'String'); RootFile_1=get(handles.RootFile_1,'String'); if isempty(RootPath_1)|isequal(RootPath_1,'') set(handles.RootPath_1,'String','"') end if isempty(RootFile_1) | isequal(RootFile_1,'') set(handles.RootFile_1,'String','"') end if ~isempty(RootFile_1)&(isequal(RootFile_1(1),'/')|isequal(RootFile_1(1),'\')) RootFile_1(1)=[]; end filebase_1=fullfile(RootPath_1,RootFile_1); SubDir_1=get(handles.SubDir,'String'); if isempty(SubDir_1)|isequal(SubDir_1,'') if isfield(UvData,'SubDir_1') SubDir_1=UvData.SubDir_1;%retrieve previous subdir else SubDir_1='?'; end end if isequal(NomType_1,'#_ab')|isequal(NomType_1,'_i1-i2_j')|isequal(NomType_1,'_i_j1-j2')|isequal(NomType_1,'_i1-i2') NomTypeNew=NomType_1; elseif isequal(NomType_1,'#a') [filename,idetect,n1,na,n2,nb,SubDir_1]=name_generator(filebase_1, str2num(str1),str2num(str_a),'.nc','#_ab',0,[],[],SubDir_1); NomTypeNew='#_ab'; elseif isequal(NomType_1,'_i_j') [filename,idetect,n1,na,n2,nb,SubDir_1]=name_generator(filebase_1,str2num(str1),str2num(str_a),'.nc','_i1-i2_j',0,str2num(str1),[],SubDir_1); if idetect==1 NomTypeNew='_i1-i2_j'; else NomTypeNew='_i_j1-j2'; end else %for instance avi files or any ima_num series [filename,idetect,n1,na,n2,nb,SubDir_1]=name_generator(filebase_1,str2num(str1),str2num(str_a),'.nc','_i1-i2',0,str2num(str1),[],SubDir_1); NomTypeNew='_i1-i2'; end [Path,Name]=fileparts(filebase_1); set(handles.FileExt_1,'String','.nc'); if ~isempty(SubDir_1) & ~isequal(SubDir_1,'''')& ~isequal(SubDir_1,'"') SubDir_1=['/' SubDir_1]; end set(handles.SubDir_1,'String',SubDir_1); end if isequal(field,'vort') | isequal(field,'div') | isequal(field,'strain') set(handles.civ1_1,'BackgroundColor',[0.702 0.702 0.702]) % put their color to grey set(handles.civ2_1,'BackgroundColor',[0.702 0.702 0.702]) set(handles.interp1_1,'BackgroundColor',[0.702 0.702 0.702]) set(handles.interp2_1,'BackgroundColor',[0.702 0.702 0.702]) elseif isequal(field_1,'more...'); %add new item to the menu set(handles.civ1_1,'BackgroundColor',[0.702 0.702 0.702]) % put their color to grey set(handles.civ2_1,'BackgroundColor',[0.702 0.702 0.702]) str=calc_field;%get the list of available scalars by the function calc_scal [ind_answer,v] = listdlg('PromptString','Select a file:',... 'SelectionMode','single',... 'ListString',str); % edit the choice in the field and action menu scalar=cell2mat(str(ind_answer)); menu=update_menu(handles.Fields_1,scalar); set(handles.Fields_1,'String',menu);% store the selected scalar type end end str1=get(handles.i1,'String'); str2=get(handles.i2,'String'); str_a=get(handles.j1,'String'); str_b=get(handles.j2,'String'); indices=name_generator('',str2num(str1),stra2num(str_a),'',NomTypeNew,1,str2num(str2),stra2num(str_b),''); set(handles.FileIndex_1,'String',indices) set(handles.FileIndex_1,'UserData',NomTypeNew) %common to Fields_Callback if isequal(field,'image')|isequal(field_1,'image') set(handles.npx_title,'Visible','on')% visible npx,pxcm... buttons set(handles.npy_title,'Visible','on') set(handles.npx,'Visible','on') set(handles.npy,'Visible','on') set(handles.fix_pair,'Value',0) else set(handles.npx_title,'Visible','off')% visible npx,pxcm... buttons set(handles.npy_title,'Visible','off') set(handles.npx,'Visible','off') set(handles.npy,'Visible','off') set(handles.fix_pair,'Value',1) end if isequal(field,'velocity')|isequal(field_1,'velocity'); state_vect='on'; else state_vect='off'; end if ~isequal(field,'velocity')|(~isequal(field_1,'velocity')&~isequal(field_1,'')); state_scal='on'; else state_scal='off'; end set(huvmat,'UserData',UvData) setfield(handles);% update the field structure ('civ1'....) if ~isfield(UvData,'NewSeries')|isequal(UvData.NewSeries,0) run0_Callback(hObject, eventdata, handles) end %----------------------------------- %set the visibility of relevant velocity type menus: %----------------------------------- %Civ=0; all states 'off' %Civ=6; all states 'on' function set_veltype_display(handles,Civ) if isequal(Civ,0) imax=0; % set(handles(1),'Visible','on') % unvisible civ buttons % else % set(handles(1),'String','civ1') % end elseif isequal(Civ,1) imax=1; elseif isequal(Civ,2) | isequal(Civ,3) imax=3; elseif isequal(Civ,4) | isequal(Civ,5) imax=4; elseif isequal(Civ,6) imax=6; end for ibutton=1:imax; set(handles(ibutton),'Visible','on') % unvisible civ buttons end % for ibutton=max(imax+1,2):6; for ibutton=imax+1:6; set(handles(ibutton),'Visible','off') % unvisible civ buttons set(handles(ibutton),'Value',0)%unactivate unvisible buttons end %------------------------------------------------------------------- % --- Executes on button press in civ1. function civ1_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- if get(handles.civ1,'Value')==1 reset_vel_type([handles.interp1 handles.civ2 handles.filter1 handles.interp1 handles.interp2 handles.filter2],handles.civ1) else reset_vel_type([handles.civ1 handles.filter1 handles.interp1 handles.civ2 handles.interp2 handles.filter2]) end run0_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- % --- Executes on button press in interp1. function interp1_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- if get(handles.interp1,'Value')==1 reset_vel_type([handles.civ1 handles.civ2 handles.filter1 handles.interp2 handles.filter2],handles.interp1) else reset_vel_type([handles.civ1 handles.filter1 handles.interp1 handles.civ2 handles.interp2 handles.filter2]) end run0_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- % --- Executes on button press in filter1. function filter1_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- if get(handles.filter1,'Value')==1 reset_vel_type([handles.civ1 handles.civ2 handles.interp1 handles.interp2 handles.filter2],handles.filter1) else reset_vel_type([handles.civ1 handles.filter1 handles.interp1 handles.civ2 handles.interp2 handles.filter2]) end run0_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- % --- Executes on button press in civ2. function civ2_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- if get(handles.civ2,'Value')==1 reset_vel_type([handles.civ1 handles.filter1 handles.interp1 handles.interp2 handles.filter2],handles.civ2) else reset_vel_type([handles.civ1 handles.filter1 handles.interp1 handles.civ2 handles.interp2 handles.filter2]) end run0_Callback(hObject, eventdata, handles) %----------------------------------------- % --- Executes on button press in interp2. %------------------------------------------- function interp2_Callback(hObject, eventdata, handles) if get(handles.interp2,'Value')==1 reset_vel_type([handles.civ1 handles.filter1 handles.interp1 handles.civ2 handles.filter2],handles.interp2) else reset_vel_type([handles.civ1 handles.filter1 handles.interp1 handles.civ2 handles.interp2 handles.filter2]) end run0_Callback(hObject, eventdata, handles) %--------------------------------------------- % --- Executes on button press in filter2. %------------------------------------------- function filter2_Callback(hObject, eventdata, handles) if get(handles.filter2,'Value')==1 reset_vel_type([handles.civ1 handles.filter1 handles.interp1 handles.civ2 handles.interp2],handles.filter2) else reset_vel_type([handles.civ1 handles.filter1 handles.interp1 handles.civ2 handles.interp2 handles.filter2]) end run0_Callback(hObject, eventdata, handles) %--------------------------------------------- function civ1_1_Callback(hObject, eventdata, handles) %--------------------------------------------- if get(handles.civ1_1,'Value')==1 reset_vel_type([handles.interp1_1 handles.civ2_1 handles.filter1_1 handles.interp1_1 handles.interp2_1 handles.filter2_1],handles.civ1_1) else reset_vel_type([handles.civ1_1 handles.filter1_1 handles.interp1_1 handles.civ2_1 handles.interp2_1 handles.filter2_1]) end run0_Callback(hObject, eventdata, handles) %-------------------------------------------- function interp1_1_Callback(hObject, eventdata, handles) %-------------------------------------------- if get(handles.interp1_1,'Value')==1 reset_vel_type([handles.civ1_1 handles.civ2_1 handles.filter1_1 handles.interp2_1 handles.filter2_1],handles.interp1_1) else reset_vel_type([handles.civ1_1 handles.filter1_1 handles.interp1_1 handles.civ2_1 handles.interp2_1 handles.filter2_1]) end run0_Callback(hObject, eventdata, handles) %-------------------------------------------- function filter1_1_Callback(hObject, eventdata, handles) %-------------------------------------------- if get(handles.filter1_1,'Value')==1 reset_vel_type([handles.interp1_1 handles.civ2_1 handles.interp1_1 handles.interp2_1 handles.filter2_1],handles.filter1_1) else reset_vel_type([handles.civ1_1 handles.filter1_1 handles.interp1_1 handles.civ2_1 handles.interp2_1 handles.filter2_1]) end run0_Callback(hObject, eventdata, handles) %-------------------------------------------- function civ2_1_Callback(hObject, eventdata, handles) %-------------------------------------------- if get(handles.civ2_1,'Value')==1 reset_vel_type([handles.civ1_1 handles.interp1_1 handles.filter1_1 handles.interp2_1 handles.filter2_1],handles.civ2_1) else reset_vel_type([handles.civ1_1 handles.filter1_1 handles.interp1_1 handles.civ2_1 handles.interp2_1 handles.filter2_1]) end run0_Callback(hObject, eventdata, handles) %-------------------------------------------- function interp2_1_Callback(hObject, eventdata, handles) %-------------------------------------------- if get(handles.interp2_1,'Value')==1 reset_vel_type([handles.civ1_1 handles.civ2_1 handles.filter1_1 handles.interp1_1 handles.filter2_1],handles.interp2_1) else reset_vel_type([handles.civ1_1 handles.filter1_1 handles.interp1_1 handles.civ2_1 handles.interp2_1 handles.filter2_1]) end run0_Callback(hObject, eventdata, handles) %-------------------------------------------- function filter2_1_Callback(hObject, eventdata, handles) %-------------------------------------------- if get(handles.filter2_1,'Value')==1 reset_vel_type([handles.civ1_1 handles.interp1_1 handles.civ2_1 handles.filter1_1 handles.interp1_1 handles.interp2_1],handles.filter2_1) else reset_vel_type([handles.civ1_1 handles.filter1_1 handles.interp1_1 handles.civ2_1 handles.interp2_1 handles.filter2_1]) end run0_Callback(hObject, eventdata, handles) %----------------------------------------------- % --- reset civ buttons function reset_vel_type(handles_civ0,handle1) for ibutton=1:length(handles_civ0) set(handles_civ0(ibutton),'BackgroundColor',[0.831 0.816 0.784]) set(handles_civ0(ibutton),'Value',0) end if exist('handle1','var')%handles of selected button set(handle1,'BackgroundColor',[1 1 0]) end %------------------------------------------------ function create_Callback(hObject,eventdata,handles) %------------------------------------------------ if ishandle(handles.UVMAT_title) delete(handles.UVMAT_title) end huvmat=get(handles.create,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface (handles huvmat) if isequal(get(handles.create,'Value'),1) set(handles.zoom,'Value',0) zoom_Callback(hObject, eventdata, handles) set(handles.create,'BackgroundColor',[1 1 0]) %visualise in yellow set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'Value',0) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) list_object=get(handles.list_object,'String'); if ~isempty(list_object) set(handles.list_object,'Value',length(list_object)) end MouseAction='create_object'; hset_object=findobj(allchild(0),'Name','set_object'); uistack(hset_object,'top') else set(handles.create,'BackgroundColor',[0 1 0]) set(handles.edit,'Value',1) set(handles.edit,'BackgroundColor',[1 1 0]) MouseAction='none'; end UvData.MouseAction=MouseAction; set(huvmat,'UserData',UvData); %------------------------------------------------ function POINTS_Callback(hObject,eventdata,handles) %------------------------------------------------ if ishandle(handles.UVMAT_title) delete(handles.UVMAT_title) end huvmat=get(handles.create,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface (handles huvmat) if isequal(get(handles.create,'Value'),1) set(handles.zoom,'Value',0) zoom_Callback(hObject, eventdata, handles) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'Value',0) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) %set(handles.grid,'Value',0) %set(handles.grid,'BackgroundColor',[0 1 0]) % initiate set_object GUI data.TITLE='POINTS'; if isfield(UvData,'CoordType') data.CoordType=UvData.CoordType; end if isfield(UvData,'Mesh')&~isempty(UvData.Mesh) data.RangeY=UvData.Mesh; elseif isfield(UvData,'AX')&isfield(UvData,'AY')& isfield(UvData,'A')%only image np=size(UvData.Field.A); meshx=(UvData.Field.AX(end)-UvData.Field.AX(1))/np(2); meshy=abs(UvData.Field.AY(end)-UvData.Field.AY(1))/np(1); data.RangeY=max(meshx,meshy); data.DX=max(meshx,meshy); end data.Coord=[0 0 0]; %default data.ParentButton=handles.create; PlotHandles=get_plot_handles(handles);%get the handles of the graphic objects setting the plotting parameters [hset_object,UvData.sethandles]=set_object(data,PlotHandles);% call the set_object interface if isfield(UvData,'SetObjectOrigin') pos_uvmat=get(huvmat,'Position'); pos_set_object(1:2)=UvData.SetObjectOrigin + pos_uvmat(1:2); pos_set_object(3:4)=UvData.SetObjectSize .* pos_uvmat(3:4); set(hset_object,'Position',pos_set_object) end %set(hset_object,'Position',[pos_uvmat(1) pos_uvmat(2)-0.05*pos_uvmat(4) 0.2*pos_uvmat(3) 0.5*pos_uvmat(4)]); list_object=get(handles.list_object,'String'); if ~isempty(list_object) set(handles.list_object,'Value',length(list_object)) end MouseAction='create_object'; %UvData.ZoomOn=0; else set(handles.create,'BackgroundColor',[0 1 0]) set(handles.edit,'Value',1) set(handles.edit,'BackgroundColor',[1 1 0]) MouseAction='none'; end UvData.MouseAction=MouseAction; set(huvmat,'UserData',UvData); %----------------------------------------------------------- function LINE_Callback(hObject, eventdata, handles) %------------------------------------------------- if ishandle(handles.UVMAT_title) delete(handles.UVMAT_title) end huvmat=get(handles.create,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface % if (get(handles.LINE,'Value')==1) %suppress the other options if MENULINE is chosen set(handles.zoom,'Value',0) zoom_Callback(hObject, eventdata, handles) % set(handles.create,'Value',0) % set(handles.create,'BackgroundColor',[0 1 0]) % set(handles.LINE,'Value',1) % set(handles.LINE,'BackgroundColor',[1 1 0]) % set(handles.PATCH,'Value',0) % set(handles.PATCH,'BackgroundColor',[0 1 0]) % set(handles.PLANE,'Value',0) % set(handles.PLANE,'BackgroundColor',[0 1 0])%put activated buttons to yellow % set(handles.VOLUME,'Value',0) % set(handles.VOLUME,'BackgroundColor',[0 1 0]) %et(handles.makemask,'Value',0) %makemask_Callback(hObject, eventdata, handles) set(handles.edit_vect,'BackgroundColor',[0.7 0.7 0.7]) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) set(handles.edit,'Value',0) set(handles.list_object,'Value',1); edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) set(handles.cal,'Value',0) set(handles.cal,'BackgroundColor',[0 1 0]) % set(handles.grid,'Value',0) % set(handles.grid,'BackgroundColor',[0 1 0]) % initiate the set_object GUI data.TITLE='LINE'; if isfield(UvData,'CoordType') data.CoordType=UvData.CoordType; end if isfield(UvData,'Mesh')&~isempty(UvData.Mesh) data.RangeX=UvData.Mesh; data.RangeY=UvData.Mesh; % data.YMax=UvData.Mesh; % data.XMax=UvData.Mesh; data.DX=UvData.Mesh; data.DY=UvData.Mesh; elseif isfield(UvData.Field,'AX')&isfield(UvData.Field,'AY')& isfield(UvData.Field,'A')%only image np=size(UvData.Field.A); meshx=(UvData.Field.AX(end)-UvData.Field.AX(1))/np(2); meshy=abs(UvData.Field.AY(end)-UvData.Field.AY(1))/np(1); data.RangeY=max(meshx,meshy); data.RangeX=max(meshx,meshy); % data.YMax=max(meshx,meshy); % data.XMax=max(meshx,meshy); data.DX=max(meshx,meshy); end if isfield(data,'DX') data.Coord=[[0 0 0];[data.DX 0 0]]; %default else data.Coord=[[0 0 0];[1 0 0]]; %default end data.ParentButton=handles.create; PlotHandles=get_plot_handles(handles);%get the handles of the interface elements setting the plotting parameters [hset_object,UvData.sethandles]=set_object(data,PlotHandles);% call the set_object interface with action on haxes, % associate the set_edit interface handle to the plotting axes pos_uvmat=get(huvmat,'Position'); if isfield(UvData,'SetObjectOrigin') pos_set_object(1:2)=UvData.SetObjectOrigin + pos_uvmat(1:2); pos_set_object(3:4)=UvData.SetObjectSize .* pos_uvmat(3:4); set(hset_object,'Position',pos_set_object) end list_object=get(handles.list_object,'String'); if ~isempty(list_object) set(handles.list_object,'Value',length(list_object)) end MouseAction='create_object'; % else % set(handles.LINE,'BackgroundColor',[0 1 0]) % MouseAction='none'; % end UvData.MouseAction=MouseAction; set(huvmat,'UserData',UvData) %----------------------------------------------------------- function PATCH_Callback(hObject, eventdata, handles) %----------------------------------------------------------- if ishandle(handles.UVMAT_title) delete(handles.UVMAT_title) end huvmat=get(handles.create,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface % if isequal(get(handles.PATCH,'Value'),1) set(handles.zoom,'Value',0) set(handles.zoom,'BackgroundColor',[0.7 0.7 0.7]) % set(handles.create,'Value',0)%suppress the other options if LINE is chosen % set(handles.create,'BackgroundColor',[0 1 0]) % set(handles.LINE,'Value',0) % set(handles.LINE,'BackgroundColor',[0 1 0]) % set(handles.PATCH,'Value',1) % set(handles.PATCH,'BackgroundColor',[1 1 0]) % set(handles.PLANE,'Value',0) % set(handles.PLANE,'BackgroundColor',[0 1 0])%put activated buttons to yellow % set(handles.VOLUME,'Value',0) % set(handles.VOLUME,'BackgroundColor',[0 1 0]) %set(handles.makemask,'Value',0) %makemask_Callback(hObject, eventdata, handles) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'Value',0) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.cal,'Value',0) set(handles.cal,'BackgroundColor',[0 1 0]) %set(handles.grid,'Value',0) %set(handles.grid,'BackgroundColor',[0 1 0]) %initiate set_object GUI data.TITLE='PATCH'; if isfield(UvData,'CoordType') data.CoordType=UvData.CoordType; end if isfield(UvData,'Mesh')&~isempty(UvData.Mesh) data.YMax=UvData.Mesh; elseif isfield(UvData.Field,'AX')&isfield(UvData.Field,'AY')& isfield(UvData.Field,'A')%only image np=size(UvData.Field.A); meshx=(UvData.Field.AX(end)-UvData.Field.AX(1))/(np(2)-1); meshy=abs(UvData.Field.AY(end)-UvData.Field.AY(1))/(np(1)-1); data.YMax=max(meshx,meshy); data.DX=max(meshx,meshy); end data.Coord=[0 0 0]; %default data.ParentButton=handles.create; PlotHandles=get_plot_handles(handles);%get the handles of the graphic objects setting the plotting parameters [hset_object,UvData.sethandles]=set_object(data,PlotHandles);% call the set_object interface pos_uvmat=get(huvmat,'Position'); if isfield(UvData,'SetObjectOrigin') pos_set_object(1:2)=UvData.SetObjectOrigin + pos_uvmat(1:2); pos_set_object(3:4)=UvData.SetObjectSize .* pos_uvmat(3:4); set(hset_object,'Position',pos_set_object) end list_object=get(handles.list_object,'String'); if ~isempty(list_object) set(handles.list_object,'Value',length(list_object)) end UvData.MouseAction='create_object'; set(huvmat,'UserData',UvData); %------------------------------------------------------- function PLANE_Callback(hObject, eventdata, handles) %------------------------------------------------------- if ishandle(handles.UVMAT_title) delete(handles.UVMAT_title) end huvmat=get(handles.create,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface set(handles.zoom,'Value',0) set(handles.zoom,'BackgroundColor',[0.7 0.7 0.7]) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'Value',0) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) set(handles.cal,'Value',0) set(handles.cal,'BackgroundColor',[0 1 0]) %set(handles.grid,'Value',0) %set(handles.grid,'BackgroundColor',[0 1 0]) %initiate set_object GUI data.TITLE='PLANE'; if isfield(UvData,'CoordType') data.CoordType=UvData.CoordType; end %Si 3D data.nbdim=3; %Si 2D if isfield(UvData,'Mesh')&~isempty(UvData.Mesh) data.ZMax=UvData.Mesh; data.DX=UvData.Mesh; data.DY=UvData.Mesh; elseif isfield(UvData.Field,'AX')&isfield(UvData.Field,'AY')& isfield(UvData.Field,'A')%only image np=size(UvData.Field.A); meshx=(UvData.Field.AX(end)-UvData.Field.AX(1))/(np(2)-1); meshy=abs(UvData.Field.AY(end)-UvData.Field.AY(1))/(np(1)-1); data.DX=max(meshx,meshy); end if isfield(UvData,'DX') data.DX=UvData.DX; end if isfield(UvData,'DY') data.DY=UvData.DY; elseif isfield(UvData,'Mesh') data.DY=UvData.Mesh; end if isfield(UvData.Field,'X')& isfield(UvData.Field,'Y') data.Coord=[0 0 0]; data.Style='plane'; data.Phi=0; data.IndexObj=1; %act on the first reference plane by default haxes= handles.axes3;%GENERALISER plot_object(data,[],haxes,'m'); %plot the axes of the default plane end data.ParentButton=handles.create; PlotHandles=get_plot_handles(handles);%get the handles of the graphic objects setting the plotting parameters ZBounds=0; % default if isfield(UvData,'ZMin') && isfield(UvData,'ZMax') ZBounds(1)=UvData.ZMin; %minimum for the Z slider ZBounds(2)=UvData.ZMax;%maximum for the Z slider end [hset_object,UvData.sethandles]=set_object(data,PlotHandles,ZBounds);% call the set_object interface with action on haxes, if isfield(UvData,'SetObjectOrigin') pos_uvmat=get(huvmat,'Position'); pos_set_object(1:2)=UvData.SetObjectOrigin + pos_uvmat(1:2); pos_set_object(3:4)=UvData.SetObjectSize .* pos_uvmat(3:4); set(hset_object,'Position',pos_set_object) end list_object=get(handles.list_object,'String'); nbobject=length(list_object); set(handles.list_object,'Value',nbobject) UvData.MouseAction='create_object'; set(huvmat,'UserData',UvData) %------------------------------------------------------- % --- Executes on button press in MENUVOLUME. %------------------------------------------------------- function VOLUME_Callback(hObject, eventdata, handles) %errordlg('command VOL not implemented yet') if ishandle(handles.UVMAT_title) delete(handles.UVMAT_title) end huvmat=get(handles.create,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface if isequal(get(handles.VOLUME,'Value'),1) set(handles.zoom,'Value',0) set(handles.zoom,'BackgroundColor',[0.7 0.7 0.7]) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'Value',0) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) set(handles.cal,'Value',0) set(handles.cal,'BackgroundColor',[0 1 0]) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) %initiate set_object GUI data.TITLE='VOLUME'; if isfield(UvData,'CoordType') data.CoordType=UvData.CoordType; end if isfield(UvData,'Mesh')&~isempty(UvData.Mesh) data.RangeY=UvData.Mesh; data.RangeX=UvData.Mesh; data.DX=UvData.Mesh; data.DY=UvData.Mesh; elseif isfield(UvData.Field,'AX')&isfield(UvData.Field,'AY')& isfield(UvData.Field,'A')%only image np=size(UvData.Field.A); meshx=(UvData.Field.AX(end)-UvData.Field.AX(1))/np(2); meshy=abs(UvData.Field.AY(end)-UvData.Field.AY(1))/np(1); data.RangeY=max(meshx,meshy); data.RangeX=max(meshx,meshy); data.DX=max(meshx,meshy); end data.ParentButton=handles.VOLUME; PlotHandles=get_plot_handles(handles);%get the handles of the interface elements setting the plotting parameters [hset_object,UvData.sethandles]=set_object(data,PlotHandles);% call the set_object interface with action on haxes, % associate the set_edit interface handle to the plotting axes if isfield(UvData,'SetObjectOrigin') pos_uvmat=get(huvmat,'Position'); pos_set_object(1:2)=UvData.SetObjectOrigin + pos_uvmat(1:2); pos_set_object(3:4)=UvData.SetObjectSize .* pos_uvmat(3:4); set(hset_object,'Position',pos_set_object) end UvData.MouseAction='create_object'; else set(handles.VOLUME,'BackgroundColor',[0 1 0]) UvData.MouseAction='none'; end set(huvmat,'UserData',UvData) %------------------------------------------------------- function edit_vect_Callback(hObject, eventdata, handles) %------------------------------------------------------- huvmat=get(handles.edit_vect,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface if isequal(get(handles.edit_vect,'Value'),1) set(handles.record,'Visible','on') set(handles.edit_vect,'BackgroundColor',[1 1 0]) set(handles.edit,'Value',0) set(handles.create,'Value',0) set(handles.create,'BackgroundColor',[0 1 0]) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) set(gcf,'Pointer','arrow') UvData.MouseAction='edit_vect'; else set(handles.record,'Visible','off') set(handles.edit_vect,'BackgroundColor',[0.7 0.7 0.7]) UvData.MouseAction='none'; end set(huvmat,'UserData',UvData) %---------------------------------------------- function save_mask_Callback(hObject, eventdata, handles) %----------------------------------------------------------------------- huvmat=get(handles.save_mask,'parent'); UvData=get(huvmat,'UserData'); hpatch=findobj(huvmat,'Type','patch'); flag=1; npx=size(UvData.Field.A,2); npy=size(UvData.Field.A,1); xi=[0.5:npx-0.5]; yi=[0.5:npy-0.5]; [Xi,Yi]=meshgrid(xi,yi); if isfield(UvData,'Object') for iobj=1:length(UvData.Object) ObjectData=UvData.Object{iobj}; if isfield(ObjectData,'ProjMode') &&(isequal(ObjectData.ProjMode,'mask_inside')||isequal(ObjectData.ProjMode,'mask_outside')); flagobj=1; testphys=0; %coordinates in pixels by default if isfield(ObjectData,'CoordType') && isequal(ObjectData.CoordType,'phys') if isfield(UvData,'XmlData')&& isfield(UvData.XmlData,'GeometryCalib') Calib=UvData.XmlData.GeometryCalib; testphys=1; end end if isfield(ObjectData,'Coord')& isfield(ObjectData,'Style') if isequal(ObjectData.Style,'polygon') X=ObjectData.Coord(:,1); Y=ObjectData.Coord(:,2); if testphys [X,Y]=px_XYZ(Calib,X,Y,0);% to generalise with 3D cases end flagobj=~inpolygon(Xi,Yi,X,Y);%=0 inside the polygon, 1 outside elseif isequal(ObjectData.Style,'ellipse') if testphys %[X,Y]=px_XYZ(Calib,X,Y,0);% TODO:create a polygon boundary and transform to phys end RangeX=max(ObjectData.RangeX); RangeY=max(ObjectData.RangeY); X2Max=RangeX*RangeX; Y2Max=RangeY*RangeY; distX=(Xi-ObjectData.Coord(1,1)); distY=(Yi-ObjectData.Coord(1,2)); flagobj=(distX.*distX/X2Max+distY.*distY/Y2Max)>1; elseif isequal(ObjectData.Style,'rectangle') if testphys %[X,Y]=px_XYZ(Calib,X,Y,0);% TODO:create a polygon boundary and transform to phys end distX=abs(Xi-ObjectData.Coord(1,1)); distY=abs(Yi-ObjectData.Coord(1,2)); flagobj=distX>max(ObjectData.RangeX) | distY>max(ObjectData.RangeY); end if isequal(ObjectData.ProjMode,'mask_outside') flagobj=~flagobj; end flag=flag & flagobj; end end end end % flag=~flag; %mask name RootPath=get(handles.RootPath,'String'); RootFile=get(handles.RootFile,'String'); if ~isempty(RootFile)&(isequal(RootFile(1),'/')| isequal(RootFile(1),'\')) RootFile(1)=[]; end filebase=fullfile(RootPath,RootFile); list=get(handles.masklevel,'String'); masknumber=num2str(length(list)); maskindex=get(handles.masklevel,'Value'); mask_name=name_generator([filebase '_' masknumber 'mask'],maskindex,1,'.png','_i'); imflag=uint8(255*(0.392+0.608*flag));% =100 for flag=0 (vectors not computed when 20 col)%move also the first slider at the same value if needed set(handles.slider1,'Value',col) set(handles.colcode1,'String',num2str(col)) end colcode2_Callback(hObject, eventdata, handles) %---------------------------------------------------------------- %execute on return carriage on the edit box corresponding to slider 1 %---------------------------------------------------------------- function colcode1_Callback(hObject, eventdata, handles) % col=str2num(get(handles.colcode1,'String')); % set(handles.slider1,'Value',col) set_vec_col_bar(handles) update_plot(handles) %---------------------------------------------------------------- %execute on return carriage on the edit box corresponding to slider 2 %---------------------------------------------------------------- function colcode2_Callback(hObject, eventdata, handles) % col=str2num(get(handles.colcode2,'String')); % set(handles.slider2,'Value',col) % slider2_Callback(hObject, eventdata, handles) set_vec_col_bar(handles) update_plot(handles) %------------------------------------------------------------ %update the slider values after displaying vectors %-------------------------------------------------------- % function slider_update(handles,auto,minC,colcode1,colcode2,maxC) % set(handles.slider1,'Min',minC) % set(handles.slider1,'Max',maxC) % set(handles.slider2,'Min',minC) % set(handles.slider2,'Max',maxC) % set(handles.min_title_vec,'String',num2str(minC)) % set(handles.max_vec,'String',num2str(maxC)) % if auto % set(handles.colcode1,'String',num2str(colcode1,3))%update display % set(handles.colcode2,'String',num2str(colcode2,3)) % end % set(handles.slider1,'Value',colcode1)%update slider with constant display % set(handles.slider2,'Value',colcode2) % set_vec_col_bar(handles) %------------------------------------------------------- % --- Executes on button press in AutoVecColor. %------------------------------------------------------- function vec_col_bar_Callback(hObject, eventdata, handles) set_vec_col_bar(handles) % %-------------------------------------------- % %update the display of color code for vectors % %-------------------------------------------- % function set_vec_col_bar(handles) % %get the image of the color display button 'vec_col_bar' in pixels % uni=get(handles.vec_col_bar,'Unit'); % set(handles.vec_col_bar,'Unit','pixel') % pos_vert=get(handles.vec_col_bar,'Position'); % set(handles.vec_col_bar,'Unit','Normalized') % width=ceil(pos_vert(3)); % height=ceil(pos_vert(4)); % %get slider indications % colcode.min=get(handles.slider1,'Min'); % colcode.max=get(handles.slider1,'Max'); % colcode.colcode1=get(handles.slider1,'Value'); % colcode.colcode2=get(handles.slider2,'Value'); % colcode.option=get(handles.vec_col_bar,'Value'); % colcode.auto=1; % list_code=get(handles.col_vec,'String');% list menu fields % index_code=get(handles.col_vec,'Value');% selected string index % colcode.CName= list_code{index_code(1)}; % selected field used for vector color % vec_C=colcode.min+(colcode.max-colcode.min)*[0.5:width-0.5]/width;%sample of vec_C values from min to max % [colorlist,col_vec]=set_col_vec(colcode,vec_C); % oneheight=ones(1,height); % A1=colorlist(col_vec,1)*oneheight; % A2=colorlist(col_vec,2)*oneheight; % A3=colorlist(col_vec,3)*oneheight; % A(:,:,1)=A1'; % A(:,:,2)=A2'; % A(:,:,3)=A3'; % set(handles.vec_col_bar,'Cdata',A) %-------------------------------------------------------- % --- Executes on button press in cal. function cal_Callback(hObject, eventdata, handles) huvmat=get(handles.cal,'parent');%handles of the uvmat interface UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface %reinitialize the edit interface associated with uvmat value=get(handles.cal,'Value'); if value set(handles.cal,'BackgroundColor',[1 1 0]) %suppress the other options if MENULINE is chosen set(handles.zoom,'Value',0) set(handles.zoom,'BackgroundColor',[0.7 0.7 0.7]) set(handles.create,'Value',0) set(handles.create,'BackgroundColor',[0 1 0]) set(handles.create,'enable','off') set(handles.edit_vect,'Value',0) set(handles.edit_vect,'enable','off') edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'Value',0) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) set(handles.edit,'enable','off') set(handles.list_object,'Value',1) % initiate display of GUI geometry_calib data=[]; %default if isfield(UvData,'CoordType') data.CoordType=UvData.CoordType; end %data.ParentButton=handles.cal; % transmit the handles of the calling button to the GUI geometry_calib pos=get(huvmat,'Position'); pos(1)=pos(1)+pos(3)-0.311+0.04; %0.311= width of the geometry_calib interface (units relative to the srcreen) pos(2)=pos(2)-0.02; [FileName,RootPath,FileBase,FileIndices,FileExt,SubDir]=read_file_boxes(handles); % [filebase,num_i1,num_j1,num_i2,num_j2,Ext,NomType,SubDir]=read_input_file(handles); % [inputfile,idetect]=name_generator(filebase,num_i1,num_j1,Ext,NomType,1,num_i2,num_j2,SubDir); [UvData.hset_object,UvData.sethandles]=geometry_calib(handles,pos,FileName);% call the set_object interface pos_uvmat=get(huvmat,'Position'); %pos_cal(1:2)=UvData.CalOrigin + pos_uvmat(1:2); if isfield(UvData,'CalOrigin') pos_cal(1)=pos_uvmat(1)+UvData.CalOrigin(1)*pos_uvmat(3); pos_cal(2)=pos_uvmat(2)+UvData.CalOrigin(2)*pos_uvmat(4); pos_cal(3:4)=UvData.CalSize .* pos_uvmat(3:4); set(UvData.hset_object,'Position',pos_cal) end UvData.MouseAction='calib'; else UvData.MouseAction='none'; hgeometry_calib=findobj(allchild(0),'Name','geometry_calib'); % if ~isempty(hgeometry_calib) % answer=questdlg('close the GUI geometry-calib?'); % if isequal(answer,'Yes') % delete(hgeometry_calib) % set(handles.cal,'BackgroundColor',[0 1 0]) % else % set(handles.cal,'Value',1)% keep the calibration function active % end % end set(handles.edit_vect,'enable','on') set(handles.edit,'enable','on') set(handles.create,'enable','on') % set(handles.LINE,'enable','on') % set(handles.PATCH,'enable','on') % set(handles.PLANE,'enable','on') % set(handles.VOLUME,'enable','on') %set(handles.makemask,'enable','on') hh=findobj(handles.axes3,'Tag','calib_points'); if ~isempty(hh) delete(hh) end hhh=findobj(handles.axes3,'Tag','calib_marker'); if ~isempty(hhh) delete(hhh) end end set(huvmat,'UserData',UvData); %------------------------------------------------------------- % --- Executes on selection change in menu_coord. function menu_coord_Callback(hObject, eventdata, handles) %------------------------------------------------------------- huvmat=get(handles.menu_coord,'parent'); menu=get(handles.menu_coord,'String'); ind_coord=get(handles.menu_coord,'Value'); coord_option=menu{ind_coord}; list_path=get(handles.menu_coord,'UserData'); if isequal(coord_option,'more...'); coord_fct=''; dir_perso=prefdir; profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); if exist(profil_perso,'file') h=load (profil_perso); if isfield(h,'coord_fct') coord_fct=h.coord_fct; end end prompt = {'Enter the name of the transform function'}; dlg_title = 'user defined transform'; num_lines= 1; [FileName, PathName, filterindex] = uigetfile( ... {'*.m', ' (*.m)'; '*.m', '.m files '; ... '*.*', 'All Files (*.*)'}, ... 'Pick a file', coord_fct); if isequal(PathName(end),'/')||isequal(PathName(end),'\') PathName(end)=[]; end coord_fct=fullfile(PathName,FileName); if ~exist(coord_fct,'file') msgbox_uvmat('ERROR',['image procesing fct ' coord_fct ' not found']) else transform=FileName(1:end-2);% menu=update_menu(handles.menu_coord,transform);%add the selected fct to the menu ind_coord=get(handles.menu_coord,'Value'); list_path{ind_coord}=PathName; set(handles.menu_coord,'UserData',list_path) if exist(profil_perso,'file') save (profil_perso,'coord_fct','-append'); %store the root name for future opening of uvmat end end end %check the current path to the selected function PathName=list_path{ind_coord}; CurrentPath=fileparts(which(coord_option)); if ~isequal(PathName,CurrentPath)&&~isequal(CurrentPath,fullfile(PathName,'private')) addpath(PathName) errormsg=check_functions; msgbox_uvmat('WARNING',[['path ' PathName ' added to the current Matlab pathes'];errormsg]) end set(handles.path_transform,'String',fullfile(PathName,' ')); %show the path to the senlected function set(handles.FixedLimits,'Value',0) set(handles.FixedLimits,'BackgroundColor',[0.7 0.7 0.7]) UvData=get(huvmat,'UserData'); %delete drawn objects hother=findobj('Tag','proj_object');%find all the proj objects for iobj=1:length(hother) delete_object(hother(iobj)) end hother=findobj('Tag','DeformPoint');%find all the proj objects for iobj=1:length(hother) delete_object(hother(iobj)) end hh=findobj('Tag','calib_points'); if ~isempty(hh) delete(hh) end hhh=findobj('Tag','calib_marker'); if ~isempty(hhh) delete(hhh) end if isfield(UvData,'Object') nbobject=length(UvData.Object); UvData.Object([2:nbobject])=[]; end %delete mask if it is displayed if isequal(get(handles.mask_test,'Value'),1)%if the mask option is on UvData=rmfield(UvData,'MaskName'); %will impose mask refresh end set(huvmat,'UserData',UvData) run0_Callback(hObject, eventdata, handles) %-------------------------------------------- function histo1_menu_Callback(hObject, eventdata, handles) %-------------------------------------------- %plot first histo huvmat=get(handles.histo1_menu,'parent'); histo_menu=get(handles.histo1_menu,'String'); histo_value=get(handles.histo1_menu,'Value'); FieldName=histo_menu{histo_value}; UvData=get(huvmat,'UserData'); update_histo(handles.histo_u,huvmat,FieldName) %---------------------------------------------- function histo2_menu_Callback(hObject, eventdata, handles) %---------------------------------------------- %plot second histo huvmat=get(handles.histo2_menu,'parent'); histo_menu=get(handles.histo2_menu,'String'); histo_value=get(handles.histo2_menu,'Value'); FieldName=histo_menu{histo_value}; UvData=get(huvmat,'UserData'); update_histo(handles.histo_v,huvmat,FieldName) %-------------------------------------------- %read the field .Fieldname stored in UvData and plot its histogram function update_histo(haxes,huvmat,FieldName) UvData=get(huvmat,'UserData'); if ~isfield(UvData.Field,FieldName) msgbox_uvmat('ERROR',['no field ' FieldName ' for histogram']) return end Field=UvData.Field; FieldHisto=eval(['Field.' FieldName]); if isfield(Field,'FF') & ~isempty(Field.FF) & isequal(size(Field.FF),size(FieldHisto)) indsel=find(Field.FF==0);%find values marked as false if ~isempty(indsel) FieldHisto=FieldHisto(indsel); end end if isempty(Field) msgbox_uvmat('ERROR',['empty field ' FieldName]) else nxy=size(FieldHisto); Amin=double(min(min(min(FieldHisto))));%min of image Amax=double(max(max(max(FieldHisto))));%max of image if isequal(Amin,Amax) Histo.Txt=['uniform field =' num2str(Amin)]; else Histo.ListVarName={FieldName,'histo'}; if numel(nxy)==2 Histo.VarDimName={FieldName,FieldName}; %dimensions for the histogram else %color images Histo.VarDimName={FieldName,{FieldName,'rgb'}}; %dimensions for the histogram end %unit units=[]; %default for ivar=1:numel(Field.ListVarName) if strcmp(Field.ListVarName{ivar},FieldName) if isfield(Field,'VarAttribute') && numel(Field.VarAttribute)>=ivar && isfield(Field.VarAttribute{ivar},'units') units=Field.VarAttribute{ivar}.units; break end end end if ~isempty(units) Histo.VarAttribute{1}.units=units; end eval(['Histo.' FieldName '=linspace(Amin,Amax,50);'])%absissa values for histo for col=1:size(FieldHisto,3) B=FieldHisto(:,:,col); C=reshape(double(B),1,nxy(1)*nxy(2));% reshape in a vector eval(['Histo.histo(:,col)=hist(C, Histo.' FieldName ');']); %calculate histogram end set(haxes,'XLimMode','auto')%reset auto mode (after zoom effect) set(haxes,'YLimMode','auto') plot_field(Histo,haxes); end end %------------------------------------------------ %CALLBACKS FOR PLOTTING PARAMETERS %------------------------------------------------- %----------------------------------------------------------------- function MinA_Callback(hObject, eventdata, handles) %------------------------------------------ set(handles.AutoScal,'Value',1) %suppress auto mode set(handles.AutoScal,'BackgroundColor',[1 1 0]) update_plot(handles) %----------------------------------------------------------------- function MaxA_Callback(hObject, eventdata, handles) %-------------------------------------------- set(handles.AutoScal,'Value',1) %suppress auto mode set(handles.AutoScal,'BackgroundColor',[1 1 0]) update_plot(handles) %----------------------------------------------- function AutoScal_Callback(hObject, eventdata, handles) %-------------------------------------------- test=get(handles.AutoScal,'Value'); if test set(handles.AutoScal,'BackgroundColor',[1 1 0]) else set(handles.AutoScal,'BackgroundColor',[0.7 0.7 0.7]) update_plot(handles); % set(handles.MinA,'String',num2str(ScalOut.MinA,3)) % set(handles.MaxA,'String',num2str(ScalOut.MaxA,3)) end %------------------------------------------------------------------- function BW_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- update_plot(handles) %------------------------------------------------------------------- function Contours_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- val=get(handles.Contours,'Value'); if val==2 set(handles.interval_txt,'Visible','on') set(handles.IncrA,'Visible','on') else set(handles.interval_txt,'Visible','off') set(handles.IncrA,'Visible','off') end update_plot(handles) %------------------------------------------------------------------- function IncrA_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- update_plot(handles) %------------------------------------------------------------------- function HideWarning_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- update_plot(handles) %------------------------------------------------------------------- function HideFalse_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- update_plot(handles) %------------------------------------------------------------------- function VecScale_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- set(handles.AutoVec,'Value',1); set(handles.AutoVec,'BackgroundColor',[1 1 0]) update_plot(handles) %------------------------------------------------------------------- function AutoVec_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- test=get(handles.AutoVec,'Value'); if test set(handles.AutoVec,'BackgroundColor',[1 1 0]) else update_plot(handles); %set(handles.VecScale,'String',num2str(ScalOut.VecScale,3)) set(handles.AutoVec,'BackgroundColor',[0.7 0.7 0.7]) end %------------------------------------------------------- % --- Executes on selection change in decimate4 (nb_vec/4). %------------------------------------------------------- function decimate4_Callback(hObject, eventdata, handles) update_plot(handles) %------------------------------------------------------- % --- Executes on selection change in color_code menu %------------------------------------------------------- function color_code_Callback(hObject, eventdata, handles) set_vec_col_bar(handles) update_plot(handles); %------------------------------------------------------- % --- Executes on button press in AutoVecColor. %------------------------------------------------------- function AutoVecColor_Callback(hObject, eventdata, handles) test=get(handles.AutoVecColor,'Value'); if test set(handles.AutoVecColor,'BackgroundColor',[1 1 0]) else update_plot(handles); %set(handles.VecScale,'String',num2str(ScalOut.VecScale,3)) set(handles.AutoVecColor,'BackgroundColor',[0.7 0.7 0.7]) end %set_vec_col_bar(handles) %------------------------------------------------------- % --- Executes on selection change in max_vec. %------------------------------------------------------- function min_vec_Callback(hObject, eventdata, handles) max_vec_Callback(hObject, eventdata, handles) % --- Executes on selection change in max_vec. function max_vec_Callback(hObject, eventdata, handles) set(handles.AutoVecColor,'Value',1) AutoVecColor_Callback(hObject, eventdata, handles) min_val=str2num(get(handles.min_vec,'String')); max_val=str2num(get(handles.max_vec,'String')); slider1=get(handles.slider1,'Value'); slider2=get(handles.slider2,'Value'); colcode1=min_val+(max_val-min_val)*slider1; colcode2=min_val+(max_val-min_val)*slider2; set(handles.colcode1,'String',num2str(colcode1)) set(handles.colcode2,'String',num2str(colcode2)) update_plot(handles); %------------------------------------------------------------------- %update the display of color code for vectors function set_vec_col_bar(handles) %------------------------------------------------------------------- %get the image of the color display button 'vec_col_bar' in pixels set(handles.vec_col_bar,'Unit','pixel'); pos_vert=get(handles.vec_col_bar,'Position'); set(handles.vec_col_bar,'Unit','Normalized'); width=ceil(pos_vert(3)); height=ceil(pos_vert(4)); %get slider indications list=get(handles.color_code,'String'); ichoice=get(handles.color_code,'Value'); colcode.ColorCode=list{ichoice}; colcode.MinC=str2num(get(handles.min_vec,'String')); colcode.MaxC=str2num(get(handles.max_vec,'String')); test3color=strcmp(colcode.ColorCode,'rgb') || strcmp(colcode.ColorCode,'bgr'); if test3color % set(handles.colcode1,'Visible','on') % set(handles.colcode2,'Visible','on') % set(handles.slider1,'Visible','on') % set(handles.slider2,'Visible','on') colcode.colcode1=str2num(get(handles.colcode1,'String')); colcode.colcode2=str2num(get(handles.colcode2,'String')); else % set(handles.colcode1,'Visible','off') % set(handles.colcode2,'Visible','off') % set(handles.slider1,'Visible','off') % set(handles.slider2,'Visible','off') % colcode.colcode1=colcode.min; % colcode.colcode2=colcode.max; end % colcode.option=get(handles.vec_col_bar,'Value'); colcode.FixedCbounds=0; % list_code=get(handles.col_vec,'String');% list menu fields % index_code=get(handles.col_vec,'Value');% selected string index % colcode.CName= list_code{index_code(1)}; % selected field used for vector color colcode.FixedCbounds=1; vec_C=colcode.MinC+(colcode.MaxC-colcode.MinC)*[0.5:width-0.5]/width;%sample of vec_C values from min to max [colorlist,col_vec]=set_col_vec(colcode,vec_C); oneheight=ones(1,height); A1=colorlist(col_vec,1)*oneheight; A2=colorlist(col_vec,2)*oneheight; A3=colorlist(col_vec,3)*oneheight; A(:,:,1)=A1'; A(:,:,2)=A2'; A(:,:,3)=A3'; set(handles.vec_col_bar,'Cdata',A) %------------------------------------------------------------------- function [PlotType,ScalOut]=update_plot(handles) %------------------------------------------------------------------- haxes= handles.axes3; AxeData=get(haxes,'UserData'); PlotParam=read_plot_param(handles); [PlotType,PlotParamOut]= plot_field(AxeData,haxes,PlotParam,1); write_plot_param(handles,PlotParamOut); %update the auto plot parameters %------------------------------------------------------------------- % --- Executes on button press in grid. function grid_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- huvmat=get(handles.create,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface %suppress the other options if grid is chosen set(handles.create,'Value',0) set(handles.create,'BackgroundColor',[0 1 0]) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) set(handles.list_object,'Value',1) set(handles.cal,'Value',0) set(handles.cal,'BackgroundColor',[0 1 0]) %prepare display of the set_grid GUI data.fixedtitle=1; FileName=read_file_boxes(handles); [hset_object,UvData.sethandles]=set_grid(FileName);% call the set_object interface set(huvmat,'UserData',UvData); %------------------------------------------------------------------- % --- Executes on selection change in edit. function edit_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- huvmat=get(handles.list_object,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface test=get(handles.edit,'Value'); if test UvData.MouseAction='edit_object'; set(handles.edit,'BackgroundColor',[1,1,0]) %suppress the other options set(handles.zoom,'Value',0) zoom_Callback(hObject, eventdata, handles) set(handles.create,'Value',0) set(handles.create,'BackgroundColor',[0 1 0]) % set(handles.LINE,'Value',0) % set(handles.LINE,'BackgroundColor',[0 1 0]) % set(handles.PATCH,'Value',0) % set(handles.PATCH,'BackgroundColor',[0 1 0]) % set(handles.PLANE,'Value',0) % set(handles.PLANE,'BackgroundColor',[0 1 0])%put activated buttons to yellow % set(handles.VOLUME,'Value',0) % set(handles.VOLUME,'BackgroundColor',[0 1 0]) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.cal,'Value',0) set(handles.cal,'BackgroundColor',[0 1 0]) %set(handles.grid,'Value',0) %set(handles.grid,'BackgroundColor',[0 1 0]) list_object_Callback(hObject, eventdata, handles) else UvData.MouseAction='none'; set(handles.edit,'BackgroundColor',[0.7,0.7,0.7]) end set(huvmat,'UserData',UvData); %-------------------------------------------------------- % --- Executes on selection change in list_object. %-------------------------------------------------------- function list_object_Callback(hObject, eventdata, handles) huvmat=get(handles.list_object,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface list_str=get(handles.list_object,'String'); IndexObj=get(handles.list_object,'Value'); if ~(length(UvData.Object)>=IndexObj); return end ObjectData=UvData.Object{IndexObj}; ObjectData.desable_open=1; % desable the OPEN option in the set_object GUI (editing mode) if isequal(get(handles.edit,'Value'),0) ObjectData.desable_plot=1; % desable the PLOT option in the set_object GUI (editing mode end PlotHandles=get_plot_handles(handles);%get the handles of the interface elements setting the plotting parameters ZBounds=0; % default if isfield(UvData,'ZMin') && isfield(UvData,'ZMax') ZBounds(1)=UvData.ZMin; %minimum for the Z slider ZBounds(2)=UvData.ZMax;%maximum for the Z slider end AxeData.hset_object=set_object(ObjectData,PlotHandles,ZBounds);% call the set_object interface, pos_uvmat=get(huvmat,'Position'); if isfield(UvData,'SetObjectOrigin') pos_set_object(1:2)=UvData.SetObjectOrigin + pos_uvmat(1:2); pos_set_object(3:4)=UvData.SetObjectSize .* pos_uvmat(3:4); set(AxeData.hset_object,'Position',pos_set_object) end hother=findobj('Tag','proj_object');%find all the proj objects for iobj=1:length(hother) if isequal(get(hother(iobj),'Type'),'rectangle')|isequal(get(hother(iobj),'Type'),'patch') set(hother(iobj),'EdgeColor','b') if isequal(get(hother(iobj),'FaceColor'),'m') set(hother(iobj),'FaceColor','b') end elseif isequal(get(hother(iobj),'Type'),'image') Acolor=get(hother(iobj),'CData'); Acolor(:,:,1)=zeros(size(Acolor,1),size(Acolor,2)); set(hother(iobj),'CData',Acolor); else set(hother(iobj),'Color','b') end set(hother(iobj),'Selected','off') end hother=findobj('Tag','DeformPoint'); set(hother,'Color','b'); set(hother,'Selected','off') if isfield(ObjectData,'HandlesDisplay') for iview=1:length(ObjectData.HandlesDisplay) if ishandle(ObjectData.HandlesDisplay(iview)) uistack(ObjectData.HandlesDisplay(iview),'top') linetype=get(ObjectData.HandlesDisplay(iview),'Type'); if isequal(linetype,'line') set(ObjectData.HandlesDisplay(iview),'Color','m'); %set the selected object to magenta color elseif isequal(linetype,'rectangle') set(ObjectData.HandlesDisplay(iview),'EdgeColor','m'); %set the selected object to magenta color elseif isequal(linetype,'patch') set(ObjectData.HandlesDisplay(iview),'FaceColor','m'); %set the selected object to magenta color end SubObjectData=get(ObjectData.HandlesDisplay(iview),'UserData'); if isfield(SubObjectData,'SubObject')& ishandle(SubObjectData.SubObject) uistack(SubObjectData.SubObject,'top') for iobj=1:length(SubObjectData.SubObject) hsub=SubObjectData.SubObject(iobj); if isequal(get(hsub,'Type'),'rectangle') set(hsub,'EdgeColor','m'); %set the selected object to magenta color elseif isequal(get(hsub,'Type'),'image') Acolor=get(hsub,'CData'); Acolor(:,:,1)=Acolor(:,:,3); set(hsub,'CData',Acolor); else set(hsub,'Color','m') end end end if isfield(SubObjectData,'DeformPoint')& ishandle(SubObjectData.DeformPoint) set(SubObjectData.DeformPoint,'Color','m') end end end end %------------------------------------------------------ % --- Executes on button press in Menu/Export/field in workspace. %------------------------------------------------------ function MenuExportField_Callback(hObject, eventdata, handles) global CurData huvmat=get(handles.RootPath,'parent'); CurData=get(huvmat,'UserData'); evalin('base','global CurData')%make CurData global in the workspace display(['UserData of uvmat :']) evalin('base','CurData') %display CurData in the workspace commandwindow; %------------------------------------------------------ % --- Executes on button press in Menu/Export/extract figure. %------------------------------------------------------ function MenuExport_plot_Callback(hObject, eventdata, handles) huvmat=get(handles.MenuExport_plot,'parent'); UvData=get(huvmat,'UserData'); hfig=figure; newaxes=copyobj(handles.axes3,hfig); map=colormap(handles.axes3); colormap(map);%transmit the current colormap to the zoom fig colorbar % -------------------------------------------------------------------- function Insert_Callback(hObject, eventdata, handles) % -------------------------------------------------------------------- function MenuRun_Callback(hObject, eventdata, handles) % -------------------------------------------------------------------- % -------------------------------------------------------------------- function MenuHelp_Callback(hObject, eventdata, handles) % -------------------------------------------------------------------- path_to_uvmat=which ('uvmat');% check the path of uvmat pathelp=fileparts(path_to_uvmat); helpfile=fullfile(pathelp,'UVMAT_DOC','uvmat_doc.html'); if isempty(dir(helpfile)), errordlg('Please put the help file uvmat_doc.html in the directory UVMAT/UVMAT_DOC') else web(helpfile); end % -------------------------------------------------------------------- function MenuOpen_Callback(hObject, eventdata, handles) % -------------------------------------------------------------------- % -------------------------------------------------------------------- function MenuOpen_1_Callback(hObject, eventdata, handles) % -------------------------------------------------------------------- % -------------------------------------------------------------------- function MenuExport_Callback(hObject, eventdata, handles) % -------------------------------------------------------------------- % -------------------------------------------------------------------- function MenuExportMovie_Callback(hObject, eventdata, handles) % -------------------------------------------------------------------- set(handles.MenuExportMovie,'BusyAction','queue')% activate the button huvmat=get(handles.run0,'parent'); UvData=get(huvmat,'UserData'); [xx,xx,FileBase]=read_file_boxes(handles); %read the current input file name prompt = {'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)'}; dlg_title = 'select properties of the output avi movie'; num_lines= 1; nbfield_cell=get(handles.last_i,'String'); def = {[FileBase '_out.avi'];'10';'1';'[0.03 0.05 0.95 0.92]';'10'}; answer = inputdlg(prompt,dlg_title,num_lines,def,'on'); aviname=answer{1}; fps=str2num(answer{2}); % check for existing file with output name aviname if exist(aviname,'file') backup=aviname; testexist=2; while testexist==2 backup=[backup '~']; testexist=exist(backup,'file'); end [success,message]=copyfile(aviname,backup);%make backup of the existing file if isequal(success,1) delete(aviname)%delete existing file else msgbox_uvmat('ERROR',message) return end end %create avi open aviobj=avifile(aviname,'Compression','None','fps',fps); %display first view for tests newfig=figure; newaxes=copyobj(handles.axes3,newfig);%new plotting axes in the new figure set(newaxes,'Tag','movieaxes') nbpix=[512 384]*str2num(answer{3}); set(gcf,'Position',[1 1 nbpix])% resolution XVGA set(newaxes,'Position',eval(answer{4})); map=colormap(handles.axes3); colormap(map);%transmit the current colormap to the zoom fig msgbox_uvmat('INPUT_Y-N',{['adjust figure ' num2str(newfig) ' with its matlab edit menu '] ;... ['then press OK to get the avi movie as a copy of figure ' num2str(newfig) ' display']}); UvData.Object{1}.plotaxes=newaxes;% the axis in the new figure becomes the current main plotting axes set(huvmat,'UserData',UvData); increment=str2num(get(handles.increment_scan,'String')); %get the field increment d set(handles.STOP,'Visible','on') set(handles.speed,'Visible','on') set(handles.speed_txt,'Visible','on') set(handles.RunMovie,'BusyAction','queue') imin=str2num(get(handles.i1,'String')); imax=str2num(answer{5}); % if isfield(UvData,'Time') htitle=get(newaxes,'Title'); xlim=get(newaxes,'XLim'); ylim=get(newaxes,'YLim'); set(htitle,'Position',[xlim(2)+0.07*(xlim(2)-xlim(1)) ylim(2)-0.05*(ylim(2)-ylim(1)) 0]) time_str=get(handles.abs_time,'String'); set(htitle,'String',['t=' time_str]) set(handles.speed,'Value',1) for i=1:imax if get(handles.speed,'Value')~=0 & isequal(get(handles.MenuExportMovie,'BusyAction'),'queue') % enable STOP command runpm(hObject,eventdata,handles,increment) drawnow time_str=get(handles.abs_time,'String'); if ishandle(htitle) set(htitle,'String',['t=' time_str]) end mov=getframe(newfig); aviobj=addframe(aviobj,mov); end end aviobj=close(aviobj); UvData.Object{1}.plotaxes=handles.axes3; set(huvmat,'UserData',UvData); msgbox_uvmat('CONFIRMATION',{['movie ' aviname ' created '];['with ' num2str(imax) ' frames']}) % -------------------------------------------------------------------- function MenuPoints_Callback(hObject, eventdata, handles) set(handles.create,'Visible','on') set(handles.create,'Value',1) POINTS_Callback(hObject,eventdata,handles) % -------------------------------------------------------------------- function MenuLine_Callback(hObject, eventdata, handles) set(handles.create,'Visible','on') set(handles.create,'Value',1) LINE_Callback(hObject,eventdata,handles) % ------------------------------------------------------------------ function MenuPatch_Callback(hObject, eventdata, handles) set(handles.create,'Visible','on') set(handles.create,'Value',1) PATCH_Callback(hObject,eventdata,handles) % ------------------------------------------------------------------ function MenuPlane_Callback(hObject, eventdata, handles) set(handles.create,'Visible','on') set(handles.create,'Value',1) PLANE_Callback(hObject,eventdata,handles) % ------------------------------------------------------------------ function MenuVolume_Callback(hObject, eventdata, handles) set(handles.create,'Visible','on') set(handles.create,'Value',1) VOLUME_Callback(hObject,eventdata,handles) % ------------------------------------------------------------------ function MenuCalib_Callback(hObject, eventdata, handles) set(handles.TOOLS_txt,'Visible','on') set(handles.frame_tools,'Visible','on') set(handles.cal,'Visible','on') set(handles.cal,'Value',1) cal_Callback(hObject,eventdata,handles) % ------------------------------------------------------------------ function MenuMask_Callback(hObject, eventdata, handles) set(handles.TOOLS_txt,'Visible','on') set(handles.frame_tools,'Visible','on') set(handles.create,'Visible','on') set(handles.create,'Value',1) set(handles.create,'BackgroundColor',[1 1 0]) %visualise in yellow set(handles.save_mask,'Visible','on') set(handles.masklevel,'Visible','on') if isequal(get(handles.z_index,'Visible'),'on') nb_slice=str2num(get(handles.nb_slice,'String')); for ilist=1:nb_slice list_index{ilist,1}=num2str(ilist); end set(handles.masklevel,'String',list_index) val=str2num(get(handles.z_index,'String')); if val<=nb_slice set(handles.masklevel,'Value',val) end else set(handles.masklevel,'String',{'1'}) set(handles.masklevel,'Value',1) end if ishandle(handles.UVMAT_title) delete(handles.UVMAT_title) end huvmat=get(handles.create,'parent'); UvData=get(huvmat,'UserData');%read UvData properties stored on the uvmat interface set(handles.zoom,'Value',0) set(handles.zoom,'BackgroundColor',[0.7 0.7 0.7]) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.edit,'Value',0) set(handles.edit,'BackgroundColor',[0.7 0.7 0.7]) set(handles.edit_vect,'Value',0) edit_vect_Callback(hObject, eventdata, handles) set(handles.cal,'Value',0) set(handles.cal,'BackgroundColor',[0 1 0]) %initiate the GUI set_object data.TITLE='MASK'; if isfield(UvData,'CoordType') data.CoordType=UvData.CoordType; end if isfield(UvData,'Mesh')&&~isempty(UvData.Mesh) data.YMax=UvData.Mesh; elseif isfield(UvData.Field,'AX')&&isfield(UvData.Field,'AY')&& isfield(UvData.Field,'A')%only image np=size(UvData.Field.A); meshx=(UvData.Field.AX(end)-UvData.Field.AX(1))/(np(2)-1); meshy=abs(UvData.Field.AY(end)-UvData.Field.AY(1))/(np(1)-1); data.YMax=max(meshx,meshy); data.DX=max(meshx,meshy); end data.Coord=[0 0 0]; %default PlotHandles=get_plot_handles(handles);%get the handles of the graphic objects setting the plotting parameters [hset_object,UvData.sethandles]=set_object(data,PlotHandles);% call the set_object interface pos_uvmat=get(huvmat,'Position'); if isfield(UvData,'SetObjectOrigin') pos_set_object(1:2)=UvData.SetObjectOrigin + pos_uvmat(1:2); pos_set_object(3:4)=UvData.SetObjectSize .* pos_uvmat(3:4); set(hset_object,'Position',pos_set_object) end list_object=get(handles.list_object,'String'); if ~isempty(list_object) set(handles.list_object,'Value',length(list_object)) end UvData.MouseAction='create_object'; set(huvmat,'UserData',UvData); % ------------------------------------------------------------------ %-- open the GUI set_grid.fig to create grid function MenuGrid_Callback(hObject, eventdata, handles) set(handles.TOOLS_txt,'Visible','on') set(handles.frame_tools,'Visible','on') grid_Callback(hObject,eventdata,handles) %---------------------------------------------------------------- % open the GUI 'series' %---------------------------------------------------------------- function MenuSeries_Callback(hObject, eventdata, handles) [param.FileName]=read_file_boxes(handles); if isequal(get(handles.SubField,'Value'),1) FileName_1=read_file_boxes_1(handles);% if ~isequal(FileName_1,param.FileName) param.FileName_1=FileName_1; end end param.NomType=get(handles.FileIndex,'UserData'); param.NomType_1=get(handles.FileIndex_1,'UserData'); param.comp_input=get(handles.fix_pair,'Value'); huvmat=get(handles.MenuSeries,'parent'); UvData=get(huvmat,'UserData'); if isfield(UvData,'Time') param.Time=UvData.XmlData.Time; end if isequal(get(handles.scan_i,'Value'),1) param.incr_i=str2num(get(handles.increment_scan,'String')); elseif isequal(get(handles.scan_j,'Value'),1) param.incr_j=str2num(get(handles.increment_scan,'String')); end param.list_fields=get(handles.Fields,'String');% list menu fields param.list_fields(1)=[]; %suppress 'image' option param.index_fields=get(handles.Fields,'Value');% selected string index if param.index_fields>1 param.index_fields=param.index_fields-1; end param.list_fields_1=get(handles.Fields_1,'String');% list menu fields param.list_fields_1(1)=[]; %suppress 'image' option param.index_fields_1=get(handles.Fields_1,'Value')-1;% selected string index if param.index_fields_1>1 param.index_fields_1=param.index_fields_1-1; end param.civ1=get(handles.civ1,'Value'); param.civ2=get(handles.civ2,'Value'); param.interp1=get(handles.interp1,'Value'); param.interp2=get(handles.interp2,'Value'); param.filter1=get(handles.filter1,'Value'); param.filter2=get(handles.filter2,'Value'); param.menu_coord_str=get(handles.menu_coord,'String'); param.menu_coord_val=get(handles.menu_coord,'Value'); series(param); %run the series interface % ------------------------------------------------------------------ % -- open the GUI civ.fig for civx (PIV) % ------------------------------------------------------------------ function MenuPIV_Callback(hObject, eventdata, handles) [FileName,RootPath,filebase,FileIndices,ext,SubDir]=read_file_boxes(handles); [P,F,str1,str2,str_a,str_b]=name2display(FileName); num1=stra2num(str1); num2=stra2num(str2); num_a=stra2num(str_a); num_b=stra2num(str_b); NomType=get(handles.FileIndex,'UserData'); ind_opening=1; % default (images): will advice civ1 option by default in the civ interface if isequal(ext,'.nc') || isequal(ext,'.cdf')% netcdf files ind_opening=2;% propose 'fix' as the default option % +read the current netcdf rootfile Data=nc2struct(FileName,[]); if isfield(Data,'fix') & isequal(Data.fix,1) ind_opening=3; end if isfield(Data,'patch') & isequal(Data.patch,1) ind_opening=4; end if isfield(Data,'civ2') & isequal(Data.civ2,1) ind_opening=5; end if isfield(Data,'fix2') & isequal(Data.fix2,1) ind_opening=6; end end varargin{1}=filebase; varargin{2}=NomType; varargin{3}=num1; varargin{4}=num2; varargin{5}=num_a; varargin{6}=num_b; varargin{7}=SubDir; varargin{8}=ind_opening;% A REVOIR +TRANSMETTRE IMADOC INFO varargin{11}=ext; civ(varargin);% interface de civ(not in the uvmat file) % ------------------------------------------------------------------ function MenuTools_Callback(hObject, eventdata, handles) % ------------------------------------------------------------------ function MenuEdit_Callback(hObject, eventdata, handles) %-------------------------------------------------------------------------- function enable_transform(handles,state) set(handles.menu_coord,'Visible',state) set(handles.TRANSFORM_txt,'Visible',state) set(handles.menu_coord,'Visible',state) set(handles.path_transform,'Visible',state) set(handles.pxcmx_txt,'Visible',state) set(handles.pxcmy_txt,'Visible',state) set(handles.pxcm,'Visible',state) set(handles.pycm,'Visible',state) % -------------------------------------------------------------------- function MenuEditVectors_Callback(hObject, eventdata, handles) set(handles.edit_vect,'Visible','on') set(handles.edit_vect,'Value',1) edit_vect_Callback(hObject, eventdata, handles)