%'series': master function associated to the GUI series.m for analysis field series %------------------------------------------------------------------------ % function varargout = series(varargin) % associated with the GUI series.fig % %INPUT % param: structure with input parameters (link with the GUI uvmat) % .menu_coord_str: string for the transform_fct (menu for coordinate transforms) % .menu_coord_val: value for transform_fct (menu for coordinate transforms) % .FileName: input file name % .FileName_1: second input file name % .list_field: menu of input fields % .index_fields: chosen index % .civ1=0 or 1, .interp1, ... : input civ field type % %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA % Copyright Joel Sommeria, 2008, LEGI / CNRS-UJF-INPG, sommeria@coriolis-legi.org. %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA % This file 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 (file UVMAT/COPYING.txt) for more details. %AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA function varargout = series(varargin) % Begin initialization code - DO NOT EDIT gui_Singleton = 1; gui_State = struct('gui_Name', mfilename, ... 'gui_Singleton', gui_Singleton, ... 'gui_OpeningFcn', @series_OpeningFcn, ... 'gui_OutputFcn', @series_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 series is made visible. %-------------------------------------------------------------------------- function series_OpeningFcn(hObject, eventdata, handles,param) global nb_builtin_ACTION nb_builtin_transform % Choose default command line output for series handles.output = hObject; % Update handles structure guidata(hObject, handles); %default initial parameters drawnow %load the list of previously browsed files in menus Open and Open_1 dir_perso=prefdir; test_profil_perso=0; profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); if exist(profil_perso,'file') h=load (profil_perso); test_profil_perso=1; if isfield(h,'MenuFile_1') set(handles.MenuFile_1,'Label',h.MenuFile_1); set(handles.MenuFile_insert_1,'Label',h.MenuFile_1); end if isfield(h,'MenuFile_1') set(handles.MenuFile_2,'Label',h.MenuFile_2); set(handles.MenuFile_insert_2,'Label',h.MenuFile_2); end if isfield(h,'MenuFile_1') set(handles.MenuFile_3,'Label',h.MenuFile_3); set(handles.MenuFile_insert_3,'Label',h.MenuFile_3); end if isfield(h,'MenuFile_1') set(handles.MenuFile_4,'Label',h.MenuFile_4); set(handles.MenuFile_insert_4,'Label',h.MenuFile_4); end if isfield(h,'MenuFile_1') set(handles.MenuFile_5,'Label',h.MenuFile_5); set(handles.MenuFile_insert_5,'Label',h.MenuFile_5); end end %check default input data if ~exist('param','var') param=[]; %default end %file name and browser initialisation if isfield(param,'menu_coord_str') set(handles.transform_fct,'String',param.menu_coord_str) end if isfield(param,'menu_coord_val') set(handles.transform_fct,'Value',param.menu_coord_val); else set(handles.transform_fct,'Value',1);%default end if isfield(param,'FileName') if isfield(param,'FileName_1') update_file(hObject, eventdata, handles,param.FileName_1,0) update_file(hObject, eventdata, handles,param.FileName,1) else update_file(hObject, eventdata, handles,param.FileName,0) end end %fields input initialisation if isfield(param,'list_fields')&& isfield(param,'index_fields') &&~isempty(param.list_fields) &&~isempty(param.index_fields) set(handles.FieldMenu,'String',param.list_fields);% list menu fields set(handles.FieldMenu,'Value',param.index_fields);% selected string index FieldCell{1}=param.list_fields{param.index_fields}; end % if isfield(param,'velTypeMenu')&&isfield(param,'velTypeIndex') % set(handles.VelTypeMenu,'Value',param.VelTypeIndex) % set(handles.VelTypeMenu,'String',param.VelTypeMenu) % end set(hObject,'WindowButtonUpFcn',{@mouse_up_gui,handles}) NomType_Callback(hObject, eventdata, handles) %loads the information stored in prefdir to initiate the list of ACTION functions fct_menu={'check_files';'aver_stat';'time_series';'merge_proj';'clean_civ_cmx'}; transform_menu={'';'phys';'px';'phys_polar'}; nb_builtin_ACTION=numel(fct_menu); %number of functions nb_transform=numel(transform_menu); [path_series,name,ext]=fileparts(which('series')); path_series=fullfile(path_series,'series');%path of the function 'series' path_transform=fullfile(path_series,'transform_field');%path of the field transform functions for ilist=1:length(fct_menu) fct_path{ilist,1}=path_series;%paths of the fuctions buil-in in 'series.m' end %TRANSFORM menu: loads the information stored in prefdir to initiate the list of field transform functions menu_str={'';'phys';'px';'phys_polar'}; nb_builtin_transform=numel(menu_str); %number of functions [path_uvmat,name,ext]=fileparts(which('uvmat')); addpath(fullfile(path_uvmat,'transform_field')) fct_handle{1,1}=[]; testexist(1)=1; for ilist=2:length(menu_str) if exist(menu_str{ilist},'file') fct_handle{ilist,1}=str2func(menu_str{ilist}); testexist(ilist)=1; else testexist(ilist)=0; end end rmpath(fullfile(path_uvmat,'transform_field')) % read the list of functions stored in the personal file 'uvmat_perso.mat' in prefdir if test_profil_perso if isfield(h,'series_fct') && iscell(h.series_fct) for ilist=1:length(h.series_fct) [path,file]=fileparts(h.series_fct{ilist}); fct_path=[fct_path; {path}];%concatene the list of paths fct_menu=[fct_menu; {file}]; end end if isfield(h,'transform_fct') && iscell(h.transform_fct) for ilist=1:length(h.transform_fct); [path,file]=fileparts(h.transform_fct{ilist}); addpath(path) if exist(file,'file') h_func=str2func(file); testexist=[testexist 1]; else h_func=[]; testexist=[testexist 0]; end fct_handle=[fct_handle; {h_func}];%concatene the list of paths rmpath(path) menu_str=[menu_str; {file}]; end end end fct_menu=[fct_menu;{'more...'}]; set(handles.ACTION,'String',fct_menu) set(handles.ACTION,'UserData',fct_path)% store the list of path in UserData of ACTION menu_str=menu_str(find(testexist)); fct_handle=fct_handle(find(testexist)); menu_str=[menu_str;{'more...'}]; set(handles.transform_fct,'String',menu_str) set(handles.transform_fct,'UserData',fct_handle)% store the list of path in UserData of ACTION % display the GUI for the default action 'check_files' ACTION_Callback(hObject, eventdata, handles) %-------------------------------------------------------------- % --- Outputs from this function are returned to the command line. %----------------------------------------------------------------- function varargout = series_OutputFcn(hObject, eventdata, handles) % varargout cell array for returning output args (see VARARGOUT); % hObject handle to figure % eventdata reserved - to be defined in a future version of MATLAB % handles structure with handles and user data (see GUIDATA) % Get default command line output from handles structure varargout{1} = handles.output; % -------------------------------------------------------------------- function MenuBrowse_Callback(hObject, eventdata, handles) RootPathCell=get(handles.RootPath,'String'); SubDirCell=get(handles.SubDir,'String'); RootFileCell=get(handles.RootFile,'String'); oldfile=''; %default if isempty(RootPathCell)|isequal(RootPathCell,{''})%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,'filebase')&ischar(h.filebase) oldfile=h.filebase; end if isfield(h,'RootPath')&ischar(h.RootPath) oldfile=h.RootPath; end end else oldfile=fullfile(RootPathCell{1},SubDirCell{1},RootFileCell{1}); end [FileName, PathName, filterindex] = uigetfile( ... {'*.xml;*.xls;*.png;*.tif;*.avi;*.AVI;*.nc', ' (*.xml,*.xls, *.png,*.tif, *.avi,*.nc)'; '*.xml', '.xml files '; ... '*.xls', '.xls files '; ... '*.png','.png image files'; ... '*.tif','.tif image files'; ... '*.avi;*.AVI','.avi movie files'; ... '*.nc','.netcdf files'; ... '*.*', 'All Files (*.*)'}, ... 'Pick a file',oldfile); fileinput=[PathName FileName];%complete file name %testblank=findstr(fileinput,' ');%look for blanks % if ~isempty(testblank) % errordlg('forbidden input file name: contain blanks') % return % end sizf=size(fileinput); if (~ischar(fileinput)|~isequal(sizf(1),1)),return;end [path,name,ext]=fileparts(fileinput); SeriesData=[];%dfault if isequal(ext,'.xml') warndlg_uvmat('ERROR','input file type not implemented')%A Faire: ouvrir le fichier pour naviguer elseif isequal(ext,'.xls') warndlg_uvmat('ERROR','input file type not implemented')%A Faire: ouvrir le fichier pour naviguer else update_file(hObject, eventdata, handles,fileinput,0) %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_insert_1,'Label',MenuFile_1) set(handles.MenuFile_insert_2,'Label',MenuFile_2) set(handles.MenuFile_insert_3,'Label',MenuFile_3) set(handles.MenuFile_insert_4,'Label',MenuFile_4) set(handles.MenuFile_insert_5,'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('MATLAB'); Release=txt.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 end % -------------------------------------------------------------------- function MenuFile_1_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_1,'Label'); update_file(hObject, eventdata, handles,fileinput,0) % -------------------------------------------------------------------- function MenuFile_2_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_2,'Label'); update_file(hObject, eventdata, handles,fileinput,0) % -------------------------------------------------------------------- function MenuFile_3_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_3,'Label'); update_file(hObject, eventdata, handles,fileinput,0) % -------------------------------------------------------------------- function MenuFile_4_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_4,'Label'); update_file(hObject, eventdata, handles,fileinput,0) % -------------------------------------------------------------------- function MenuFile_5_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_5,'Label'); update_file(hObject, eventdata, handles,fileinput,0) % -------------------------------------------------------------------- function MenuBrowse_insert_Callback(hObject, eventdata, handles) RootPathCell=get(handles.RootPath,'String'); RootFileCell=get(handles.RootFile,'String'); oldfile=''; %default if isempty(RootPathCell)||isequal(RootPathCell,{''})%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,'filebase')&ischar(h.filebase) oldfile=h.filebase; end if isfield(h,'RootPath')&ischar(h.RootPath) oldfile=h.RootPath; end end else oldfile=fullfile(RootPathCell{1},RootFileCell{1}); end [FileName, PathName, filterindex] = uigetfile( ... {'*.xml;*.xls;*.png;*.avi;*.AVI;*.nc', ' (*.xml,*.xls, *.png, *.avi,*.nc)'; '*.xml', '.xml files '; ... '*.xls', '.xls files '; ... '*.png','.png image files'; ... '*.avi;*.AVI','.avi movie files'; ... '*.nc','.netcdf files'; ... '*.*', 'All Files (*.*)'}, ... 'Pick a file',oldfile); fileinput=[PathName FileName];%complete file name % testblank=findstr(fileinput,' ');%look for blanks % if ~isempty(testblank) % errordlg('forbidden input file name: contain blanks') % return % end sizf=size(fileinput); if (~ischar(fileinput)|~isequal(sizf(1),1)),return;end [path,name,ext]=fileparts(fileinput); SeriesData=[];%dfault if isequal(ext,'.xml') msgbox_uvmat('ERROR','input file type not implemented')%A Faire: ouvrir le fichier pour naviguer elseif isequal(ext,'.xls') msgbox_uvmat('ERROR','input file type not implemented')%A Faire: ouvrir le fichier pour naviguer else update_file(hObject, eventdata, handles,fileinput,1) %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_insert_1,'Label',MenuFile_1) set(handles.MenuFile_insert_2,'Label',MenuFile_2) set(handles.MenuFile_insert_3,'Label',MenuFile_3) set(handles.MenuFile_insert_4,'Label',MenuFile_4) set(handles.MenuFile_insert_5,'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('MATLAB'); Release=txt.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 end %------------------------------------------------ % -------------------------------------------------------------------- function MenuFile_insert_1_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_insert_1,'Label'); update_file(hObject, eventdata, handles,fileinput,1) % -------------------------------------------------------------------- function MenuFile_insert_2_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_insert_2,'Label'); update_file(hObject, eventdata, handles,fileinput,1) % -------------------------------------------------------------------- function MenuFile_insert_3_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_insert_3,'Label'); update_file(hObject, eventdata, handles,fileinput,1) % -------------------------------------------------------------------- function MenuFile_insert_4_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_insert_4,'Label'); update_file(hObject, eventdata, handles,fileinput,1) % -------------------------------------------------------------------- function MenuFile_insert_5_Callback(hObject, eventdata, handles) fileinput=get(handles.MenuFile_insert_5,'Label'); update_file(hObject, eventdata, handles,fileinput,1) %------------------------------------------------------------------------ % --- refresh the GUI data after introduction of a new file series function update_file(hObject, eventdata, handles,fileinput,addtest) %------------------------------------------------------------------------ if ~exist(fileinput,'file') msgbox_uvmat('ERROR',['input file ' fileinput ' does not exist']) return end % refresh input root name, indices, file extension and nomenclature [RootPath,RootFile,field_count,str2,str_a,str_b,FileExt,NomType,SubDir]=name2display(fileinput); %check for movie image files if ~isempty(FileExt) if ~isempty(imformats(FileExt(2:end))) imainfo=imfinfo(fileinput); if length(imainfo) >1 %case of image with multiple frames NomType='*'; [RootPath,RootFile]=fileparts(fileinput); end end end NcType='none';%default if isequal(FileExt,'.nc') Data=nc2struct(fileinput,[]); if isfield(Data,'absolut_time_T0') NcType='civx'; % test for civx velocity fields end end set(handles.RootPath,'Value',1) set(handles.SubDir,'Value',1) set(handles.RootFile,'Value',1) set(handles.NomType,'Value',1) set(handles.FileExt,'Value',1) set(handles.nb_field,'Value',1) set(handles.nb_field2,'Value',1) if addtest SeriesData=get(handles.figure1,'UserData'); SeriesData.displ_num=[0 0 0 0;SeriesData.displ_num]; SeriesData.CurrentInputFile_1=SeriesData.CurrentInputFile; RootPathCell=[{RootPath}; get(handles.RootPath,'String')] ; SubDirCell=[{SubDir}; get(handles.SubDir,'String')]; RootFileCell=[{RootFile}; get(handles.RootFile,'String')]; NomTypeCell=[{NomType}; SeriesData.NomType]; FileExtCell=[{FileExt}; get(handles.FileExt,'String')]; NcTypeCell=[{NcType};SeriesData.NcType]; set(handles.NomType,'String',[{};get(handles.NomType,'String')]) else SeriesData=[];%re-initialisation SeriesData.displ_num=[0 0 0 0]; RootPathCell={RootPath}; SubDirCell={SubDir}; RootFileCell={RootFile}; NomTypeCell={NomType}; FileExtCell={FileExt}; NcTypeCell={NcType}; end SeriesData.NomType=NomTypeCell; SeriesData.NcType=NcTypeCell; SeriesData.CurrentInputFile=fileinput; set(handles.RootPath,'String',RootPathCell); set(handles.SubDir,'String',SubDirCell); set(handles.RootFile,'String',RootFileCell); set(handles.NomType,'String',NomTypeCell); set(handles.FileExt,'String',FileExtCell); %determine field indices ref_i=1; %default ref_i is a reference frame index used to find existing pairs from PIV if ~isempty(str2num(field_count)) ref_i=str2num(field_count); if ~isempty(str2num(str2)) ref_i=floor((ref_i+str2num(str2))/2);% reference image number corresponding to the file SeriesData.browse_Di=str2num(str2)-str2num(field_count); end end set(handles.ref_i,'String',num2str(ref_i)); set(handles.first_i,'String',num2str(ref_i)); set(handles.last_i,'String',num2str(ref_i)); ref_j=1; %default ref_j is a reference frame index used to find existing pairs from PIV if ~isempty(str2num(str_a)) ref_j=str2num(str_a); if ~isempty(str2num(str_b)) ref_j=floor((str2num(str_a)+str2num(str_b))/2); SeriesData.browse_Dj=str2num(str_b)-str2num(str_a); end end set(handles.ref_j,'String',num2str(ref_j)); set(handles.first_j,'String',num2str(ref_j)) set(handles.last_j,'String',num2str(ref_j)); %enable other menus and uicontrols set(handles.MenuOpen_insert,'Enable','on') set(handles.MenuFile_insert_1,'Enable','on') set(handles.MenuFile_insert_2,'Enable','on') set(handles.MenuFile_insert_3,'Enable','on') set(handles.MenuFile_insert_4,'Enable','on') set(handles.MenuFile_insert_5,'Enable','on') set(handles.RUN, 'Enable','On') set(handles.RUN,'BackgroundColor',[1 0 0])% set RUN button to red set(handles.RootPath,'BackgroundColor',[1 1 0]) % set RootPath edit box to yellow drawnow TimeUnit=''; %default time=[];%default GeometryCalib=[];%default nb_field=NaN;%default nb_field2=NaN;%default SeriesData.PathCampaign=get(handles.PathCampaign,'String'); % read timing and total frame number from the current file (movie files) !! may be overrid by xml file FileBase=fullfile(RootPath,RootFile); testima=0; %test for image input if isequal(lower(FileExt),'.avi') %.avi file testima=1; info=aviinfo([FileBase FileExt]); time=(0:1/info.FramesPerSecond:(info.NumFrames-1)/info.FramesPerSecond)'; nb_field=info.NumFrames; nb_field2=1; elseif ~isempty(imformats(FileExt(2:end))) testima=1; if isequal(NomType,'*')% multi-frame image imainfo=imfinfo([FileBase FileExt]); if length(imainfo) >1 %case of image with multiple frames nb_field=length(imainfo); nb_field2=1; end end elseif isequal(FileExt,'.vol') testima=1; end % enable field and veltype menus testfield=isequal(get(handles.FieldMenu,'enable'),'on'); testfield_1=isequal(get(handles.FieldMenu_1,'enable'),'on'); testveltype=isequal(get(handles.VelTypeMenu,'enable'),'on'); testveltype_1=isequal(get(handles.VelTypeMenu_1,'enable'),'on'); testtransform=isequal(get(handles.transform_fct,'Enable'),'on'); testnc=0; testnc_1=0; testcivx=0; testcivx_1=0; if length(FileExtCell)==1 || length(FileExtCell)>2 for iview=1:length(FileExtCell) if isequal(FileExtCell{iview},'.nc') testnc=1; end if isequal(NcTypeCell{iview},'civx') testcivx=1; end end elseif length(FileExtCell)==2 testnc=isequal(FileExtCell{1},'.nc'); testnc_1=isequal(FileExtCell{2},'.nc'); testcivx=isequal(NcTypeCell{1},'civx'); testcivx_1=isequal(NcTypeCell{2},'civx'); end if testfield && testnc view_FieldMenu(handles,'on') if testcivx menustr=get(handles.FieldMenu,'String'); if isequal(menustr,{'get_field...'}) set(handles.FieldMenu,'String',{'get_field...';'velocity';'vort';'div';'more...'}) end else set(handles.FieldMenu,'Value',1) set(handles.FieldMenu,'String',{'get_field...'}) end else view_FieldMenu(handles,'off') end if testfield_1 && testnc_1 view_FieldMenu_1(handles,'on') if testcivx_1 menustr=get(handles.FieldMenu_1,'String'); if isequal(menustr,{'get_field...'}) set(handles.FieldMenu_1,'String',{'get_field...';'velocity';'vort';'div';'more...'}) end else set(handles.FieldMenu_1,'Value',1) set(handles.FieldMenu_1,'String',{'get_field...'}) end else view_FieldMenu_1(handles,'off') end if testveltype && testcivx set(handles.VelTypeMenu,'Visible','on') set(handles.VelType_text,'Visible','on'); else set(handles.VelTypeMenu,'Visible','off') set(handles.VelType_text,'Visible','off'); end if testveltype_1 && testcivx_1 set(handles.VelTypeMenu_1,'Visible','on') set(handles.VelType_text_1,'Visible','on'); else set(handles.VelTypeMenu_1,'Visible','off') set(handles.VelType_text_1,'Visible','off'); end if testtransform && (testcivx || testima) view_TRANSFORM(handles,'on') else view_TRANSFORM(handles,'off') end if ~isequal(FileExt,'.nc') && ~isequal(FileExt,'.cdf') && ~testima msgbox_uvmat('ERROR',['invalid input file extension ' FileExt]) return end %%%%%%%% read image documentation file if found%%%%%%%%%%%%%%%%%%%%%%%%%%% %look for the file existence ext_imadoc=''; if isequal(FileExt,'.xml')||isequal(FileExt,'.civ') ext_imadoc=FileExt; elseif exist([FileBase '.xml'],'file') ext_imadoc='.xml'; elseif exist([FileBase '.civ'],'file') ext_imadoc='.civ'; end %read the ImaDoc file XmlData=[]; NbSlice_calib={}; if isequal(ext_imadoc,'.xml') [XmlData,warntext]=imadoc2struct([FileBase '.xml']); if isfield(XmlData,'Heading') && isfield(XmlData.Heading,'ImageName') && ischar(XmlData.Heading.ImageName) [PP,FF,ext_ima_read]=fileparts(XmlData.Heading.ImageName); end if isfield(XmlData,'Time') time=XmlData.Time; end if isfield(XmlData,'Camera') if isfield(XmlData.Camera,'NbSlice')&& ~isempty(XmlData.Camera.NbSlice) NbSlice_calib{iview}=XmlData.Camera.NbSlice;% Nbre of slices for Zindex in phys transform if ~isequal(NbSlice_calib{iview},NbSlice_calib{1}) msgbox_uvmat('WARNING','inconsistent number of Z indices for the two field series'); end end if isfield(XmlData.Camera,'TimeUnit')&& ~isempty(XmlData.Camera.TimeUnit) TimeUnit=XmlData.Camera.TimeUnit; end end if ~isempty(warntext) msgbox_uvmat('WARNING',warntext) end elseif isequal(ext_imadoc,'.civ') [error,XmlData.Time,TimeUnit,mode,npx,npy,pxcmx,pxcmy]=read_imatext([FileBase '.civ']); time=XmlData.Time; if error==2, warntext=['no file ' FileBase '.civ']; elseif error==1, warntext='inconsistent number of fields in the .civ file'; end end if addtest SeriesData.Time=[{time} SeriesData.Time]; else SeriesData.Time={time}; end % if ~isempty(time) % siztime=size(time); % nb_field=siztime(1); % nb_field2=siztime(2); % end set(handles.TimeUnit,'String',TimeUnit) %look for max indices if ~strcmp(NomType,'*') [num_i1,num_i2,num_j1,num_j2]=find_indexseries(fileinput); nb_field=max(floor((max(num_i1)+max(num_i2))/2)); nb_field2=max(floor((max(num_j1)+max(num_j2))/2)); end if isnan(nb_field) nb_field_str='?'; nb_field_str2='?'; else nb_field_str=num2str(nb_field); nb_field_str2=num2str(nb_field2); end if addtest nb_field_cell=[{nb_field_str} ;get(handles.nb_field,'String')]; nb_field2_cell=[{nb_field_str2} ;get(handles.nb_field2,'String')]; else nb_field_cell={nb_field_str}; nb_field2_cell={nb_field_str2}; end set(handles.nb_field,'String',nb_field_cell); set(handles.nb_field2,'String',nb_field2_cell); set(handles.figure1,'UserData',SeriesData); %number of slices if isfield(XmlData,'GeometryCalib') && isfield(XmlData.GeometryCalib,'SliceCoord') siz=size(XmlData.GeometryCalib.SliceCoord); if siz(1)>1 NbSlice=siz(1); else NbSlice=1; end set(handles.NbSlice,'String',num2str(NbSlice)) end % set menus of index pairs NomType_Callback(hObject, eventdata, handles) %store the root name for future opening of uvmat dir_perso=prefdir; profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); if exist(profil_perso,'file') save (profil_perso,'RootPath','SubDir','RootFile','NomType', '-append'); %store the root name for future opening of uvmat else txt=ver('MATLAB'); Release=txt.Release; relnumb=str2num(Release(3:4)); if relnumb >= 14 save (profil_perso,'RootPath','SubDir','RootFile','NomType','-V6') %store the root name for future opening of uvmat else save(profil_perso,'RootPath','SubDir','RootFile','NomType') end end set(handles.RootPath,'BackgroundColor',[1 1 1]) set(handles.PathCampaign,'String',SeriesData.PathCampaign) last_j_Callback(hObject, eventdata, handles) last_i_Callback(hObject, eventdata, handles) %------------------------------------------------------------ function RootPath_Callback(hObject, eventdata, handles) Val=get(handles.RootPath,'Value'); synchronise_view(handles,Val) NomType_Callback(hObject, eventdata, handles) %------------------------------------------------------------ function synchronise_view(handles,Val) set(handles.RootPath,'Value',Val) set(handles.SubDir,'Value',Val) set(handles.RootFile,'Value',Val) set(handles.NomType,'Value',Val) set(handles.FileExt,'Value',Val) set(handles.nb_field,'Value',Val) set(handles.nb_field2,'Value',Val) set(handles.time_first,'Value',Val) set(handles.time_last,'Value',Val) %--------------------------------------------------------- % Executes on carriage return on the subdir civ1 edit window %-------------------------------------------------------- function SubDir_Callback(hObject, eventdata, handles) Val=get(handles.SubDir,'Value'); synchronise_view(handles,Val) NomType_Callback(hObject, eventdata, handles) %-------------------------------------------------------------- %function activated when a new filebase (image series) is introduced %------------------------------------------------------------ function RootFile_Callback(hObject, eventdata, handles) Val=get(handles.RootFile,'Value'); synchronise_view(handles,Val) NomType_Callback(hObject, eventdata, handles) %-------------------------------------------------------------- %function activated when a new filebase (image series) is introduced %------------------------------------------------------------ function FileExt_Callback(hObject, eventdata, handles) Val=get(handles.FileExt,'Value'); synchronise_view(handles,Val) %-------------------------------------------------------------- %function activated when a new filebase (image series) is introduced %------------------------------------------------------------ function nb_field_Callback(hObject, eventdata, handles) Val=get(handles.nb_field,'Value'); synchronise_view(handles,Val) %-------------------------------------------------------------- %function activated when a new filebase (image series) is introduced %------------------------------------------------------------ function nb_field2_Callback(hObject, eventdata, handles) Val=get(handles.nb_field2,'Value'); synchronise_view(handles,Val) %-------------------------------------------------------------- %function activated when a new filebase (image series) is introduced %------------------------------------------------------------ function time_first_Callback(hObject, eventdata, handles) Val=get(handles.time_first,'Value'); synchronise_view(handles,Val) %-------------------------------------------------------------- %function activated when a new filebase (image series) is introduced %------------------------------------------------------------ function time_last_Callback(hObject, eventdata, handles) Val=get(handles.time_last,'Value'); synchronise_view(handles,Val) %-------------------------------------------------------------- %function activated by NomType %------------------------------------------------------------ NomType_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ function NomType_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ hseries=get(handles.ProjObject,'Parent'); SeriesData=get(hseries,'UserData'); if isfield(SeriesData,'NomType') NomTypeCell=SeriesData.NomType; else NomTypeCell={}; end nbfield2_cell=get(handles.nb_field2,'String'); val=get(handles.nb_field2,'Value'); if iscell(nbfield2_cell) nbfield2=str2num(nbfield2_cell{val}); else nbfield2=str2num(nbfield2_cell); end nbfield_cell=get(handles.nb_field,'String'); if iscell(nbfield_cell) nbfield=str2num(nbfield_cell{val}); else nbfield=str2num(nbfield_cell); end set(handles.mode,'Visible','off') % do not show index pairs by default set(handles.list_pair_civ,'Visible','off') set(handles.ref_i,'Visible','off') set(handles.ref_i_text,'Visible','off') testpair=0; state_j='off'; %set the menus of image pairs and default selection for series %list pairs if relevant Val=get(handles.NomType,'Value'); synchronise_view(handles,Val) if ~isempty(NomTypeCell) NomType=NomTypeCell{Val}; switch NomType case {'_i1-i2_j', '_i1-i2'} set(handles.mode,'String',{'series(Di)'}) set(handles.mode,'Value',1); set(handles.mode,'Visible','on') testpair=1; case {'#_ab'} set(handles.mode,'String',{'bursts'}) set(handles.mode,'Value',1); testpair=1; case '_i_j1-j2' set(handles.mode,'String',{'bursts';'series(Dj)'})%multiple choice if ~isempty(nbfield) && ~isempty(nbfield2) && ((nbfield2>10) || (nbfield==1)) set(handles.mode,'Value',2); else set(handles.mode,'Value',1);% advice 'bursts' for small bursts end set(handles.mode,'Visible','on') testpair=1; end switch NomType case {'_1_1','_i_j1-j2','_i1-i2_j','1_ab','01_ab'},% two navigation indices state_j='on'; end end if testpair mode_Callback(hObject, eventdata, handles) else set(handles.NomType,'String',NomTypeCell) set(handles.first_j,'Visible',state_j) set(handles.incr_j,'Visible',state_j) set(handles.last_j,'Visible',state_j) set(handles.nb_field2,'Visible',state_j) end %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%???????????? % --- Executes on button press in mode. %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% function mode_Callback(hObject, eventdata, handles) %hseries=get(handles.mode,'parent'); hseries=handles.figure1; SeriesData=get(hseries,'UserData'); mode_list=get(handles.mode,'String'); mode_value=get(handles.mode,'Value'); mode=mode_list{mode_value}; NomType=[]; test_find_pair=0; if isfield(SeriesData,'NomType') NomTypeCell=SeriesData.NomType; Val=get(handles.NomType,'Value'); NomType=NomTypeCell{Val}; test_find_pair=isequal(NomType,'_i_j1-j2')|| isequal(NomType,'_i1-i2_j')|| isequal(NomType,'_i1-i2')|| isequal(NomType,'#_ab'); end time=[]; if isfield(SeriesData,'Time') time=SeriesData.Time{1}; %get the set of times end siztime=size(time); nbfield=siztime(1); nbfield2=siztime(2); indchosen=1; %%first pair selected by default if isequal(mode,'bursts') enable_i(handles,'On') enable_j(handles,'Off') %do not display j index scanning in burst mode (j is fixed by the burst choice) elseif isequal(NomType,'_i_j1-j2')|| isequal(NomType,'_i1-i2_j') enable_i(handles,'On') enable_j(handles,'On') % allow both i and j index scanning else enable_i(handles,'On') enable_j(handles,'Off') end set(handles.list_pair_civ,'Value',indchosen);%set the default choice of image pairs for civ1 set(hseries,'UserData',SeriesData) %list pairs if relevant if test_find_pair find_netcpair_civ(hObject, eventdata, handles,Val) end %------------------------------------- function enable_i(handles,state) set(handles.i_txt,'Visible',state) set(handles.first_i,'Visible',state) set(handles.last_i,'Visible',state) set(handles.incr_i,'Visible',state) set(handles.nb_field,'Visible',state) set(handles.ref_i,'Visible',state) set(handles.ref_i_text,'Visible',state) %----------------------------------- function enable_j(handles,state) set(handles.j_txt,'Visible',state) set(handles.first_j,'Visible',state) set(handles.last_j,'Visible',state) set(handles.incr_j,'Visible',state) set(handles.nb_field2,'Visible',state) set(handles.ref_j,'Visible',state) set(handles.ref_j_text,'Visible',state) %----------------------------------- function view_FieldMenu(handles,state) set(handles.FieldMenu,'Visible',state) set(handles.Field_text,'Visible',state) set(handles.Field_frame,'Visible',state) %----------------------------------- function view_FieldMenu_1(handles,state) set(handles.FieldMenu_1,'Visible',state) set(handles.Field_text_1,'Visible',state) %----------------------------------- function view_TRANSFORM(handles,state) set(handles.TRANSFORM_frame,'Visible',state) set(handles.transform_fct,'Visible',state); set(handles.TRANSFORM_title,'Visible',state) %-------------------------------------------------------------- % determine the menu for civ1 pairs depending on existing netcdf files % with the reference indices ref_i and ref_j %---------------------------------------------------------------- function find_netcpair_civ(hObject, eventdata, handles,Val) %hseries=get(handles.list_pair_civ,'parent'); SeriesData=get(handles.figure1,'UserData'); % NomTypeCell=get(handles.NomType,'String'); NomTypeCell=SeriesData.NomType; NomType=NomTypeCell{Val}; set(handles.list_pair_civ,'Visible','on') %nomenclature types RootPathCell=get(handles.RootPath,'String'); filepath=RootPathCell{Val}; RootFileCell=get(handles.RootFile,'String'); filename=RootFileCell{Val}; filebase=fullfile(filepath,filename); SubDirCell=get(handles.SubDir,'String'); subdir=SubDirCell{Val}; if ~exist(fullfile(filepath,subdir),'dir') msgbox_uvmat('ERROR',['no civ file available: subdirectory ' subdir ' does not exist']) set(handles.list_pair_civ,'String',{''}); return end mode_list=get(handles.mode,'String'); mode_value=get(handles.mode,'Value'); mode=mode_list{mode_value}; %reads image numbers from the interface ref_i=str2num(get(handles.ref_i,'String')); ref_j=str2num(get(handles.ref_j,'String')); ref_time=0; nbfield=50; nbfield2=50;%default max number of pairs %look for existing processed pairs involving the field at the middle of the series if civ1 will not % be performed, while the result is needed for next steps. displ_pair={''}; displ_num=[]; ind_exist=0; TimeUnit=get(handles.TimeUnit,'String'); if length(TimeUnit)>=1 dtunit=['m' TimeUnit]; else dtunit='e-03'; end if strcmp(mode,'series(Di)') for index=1:min(nbfield-1,50) filename=name_generator(filebase,ref_i-floor(index/2),ref_j,'.nc',NomType,1,ref_i+ceil(index/2),ref_j,subdir); select=(exist(filename,'file')==2); if select==1 ind_exist=ind_exist+1; displ_num(1,ind_exist)=0; displ_num(2,ind_exist)=0; displ_num(3,ind_exist)=-floor(index/2); displ_num(4,ind_exist)=ceil(index/2); %[cte_detect,vdt,cte_read]=read_netcdf(filename,{'dt','dt2','absolut_time_T0','absolute_time_TO_2'}); [Cte,var_detect,ichoice]=nc2struct(filename,{}); if isfield(Cte,'dt2') dt=Cte.dt2; elseif isfield(Cte,'dt') dt=Cte.dt; end if isfield(Cte,'absolut_time_TO_2') ref_time(ind_exist)=Cte.absolut_time_TO_2;%civ2 data used in priority elseif isfield(Cte,'absolut_time_TO') ref_time(ind_exist)=Cte.absolut_time_TO;%civ2 data used in priorit elseif isfield(Cte,'Time') ref_time(ind_exist)=Cte.Time; end displ_pair{ind_exist}=['Di= ' num2str(-floor(index/2)) '|' num2str(ceil(index/2)) ' :dt= ' num2str(dt*1000) dtunit]; end end set(handles.list_pair_civ,'String',[displ_pair';{'Di=*|*'}]); elseif isequal(mode,'series(Dj)')% series on the j index for index=1:min(nbfield2-1,50) filename=name_generator(filebase,ref_i,ref_j-floor(index/2),'.nc',NomType,1,ref_i,ref_j+ceil(index/2),subdir); select=(exist(filename,'file')==2); if select==1 ind_exist=ind_exist+1; displ_num(1,ind_exist)=-floor(index/2); displ_num(2,ind_exist)=ceil(index/2); displ_num(3,ind_exist)=0; displ_num(4,ind_exist)=0; [Cte,var_detect,ichoice]=nc2struct(filename,{}); if isfield(Cte,'dt2') dt=Cte.dt2; elseif isfield(Cte,'dt') dt=Cte.dt; end if isfield(Cte,'absolut_time_TO_2') ref_time(ind_exist)=Cte.absolut_time_TO_2;%civ2 data used in priority elseif isfield(Cte,'absolut_time_TO') ref_time(ind_exist)=Cte.absolut_time_TO;%civ2 data used in priorit elseif isfield(Cte,'Time') ref_time(ind_exist)=Cte.Time; end % if cte_detect(2)==1; % dt=cte_read(2); % ref_time(ind_exist)=cte_read(4);%civ2 data used in priority % else % dt=cte_read(1); % ref_time(ind_exist)=cte_read(3); % end displ_pair{ind_exist}=['Dj= ' num2str(-floor(index/2)) '|' num2str(ceil(index/2)) ' :dt= ' num2str(dt*1000) dtunit]; end end set(handles.list_pair_civ,'String',[displ_pair';{'Dj=*|*'}]); elseif isequal(mode,'bursts') %case of bursts for numod_a=1:nbfield2-1 %nbfield2 always >=2 for 'bursts' mode for numod_b=(numod_a+1):nbfield2 [filename]=name_generator(filebase,ref_i,numod_a,'.nc',NomType,1,ref_i,numod_b,subdir); select=(exist(filename,'file')==2); if select==1 ind_exist=ind_exist+1; numlist_a(ind_exist)=numod_a; numlist_b(ind_exist)=numod_b; Attr=nc2struct(filename,[]); isfield(Attr,'absolut_time_T0_2') if isfield(Attr,'dt2') dt(ind_exist)=Attr.dt2; ref_time(ind_exist)=Attr.absolut_time_T0_2; elseif isfield(Attr,'dt')& isfield(Attr,'absolut_time_T0') dt(ind_exist)=Attr.dt; ref_time(ind_exist)=Attr.absolut_time_T0; else dt(ind_exist)=NaN;%no information on dt end %determine nom_type_ima for pair display (used in num2stra.m) switch NomType case {'#ab'} nom_type_ima='#a'; case {'#AB'} nom_type_ima='#A'; otherwise nom_type_ima='_i_j'; end displ_pair{ind_exist}=['j= ' num2stra(numod_a,nom_type_ima,2) '-' num2stra(numod_b,nom_type_ima,2) ... ' :dt= ' num2str(dt(ind_exist)*1000)]; end end set(handles.list_pair_civ,'String',[displ_pair';{'j=*-*'}]); end if exist('dt','var') & ~isempty(dt) [dtsort,indsort]=sort(dt); displ_num(1,:)=numlist_a(indsort); displ_num(2,:)=numlist_b(indsort); displ_num(3,:)=0; displ_num(4,:)=0; displ_pair=displ_pair(indsort); ref_time=ref_time(indsort); end end if ind_exist==0 if isequal(mode,'series(Dj)') | isequal(mode,'st_series(Dj)') msgbox_uvmat('ERROR',['no .nc file available for the selected reference index j=' num2str(ref_j) ' and subdirectory ' subdir]) else msgbox_uvmat('ERROR',['no .nc file available for the selected reference index i=' num2str(ref_i) ' and subdirectory ' subdir]) end if isequal(mode,'bursts') %case of bursts set(handles.list_pair_civ,'String',{'j=*-*'}); elseif isequal(mode,'series(Di)') %case of bursts set(handles.list_pair_civ,'String',{'Di=*|*'}); elseif isequal(mode,'series(Dj)') %case of bursts set(handles.list_pair_civ,'String',{'Dj=*|*'}); end end val=get(handles.list_pair_civ,'Value'); if val > length(displ_pair) set(handles.list_pair_civ,'Value',1);% first pair proposed by default in the menu val=1; end iview=get(handles.NomType,'Value'); SeriesData.displ_num(iview,:)=(displ_num(:,val))'; SeriesData.ref_time=ref_time; set(handles.figure1,'UserData',SeriesData) list_pair_civ_Callback(hObject, eventdata, handles) %------------------------------------------------------------- % --- Executes on selection in list_pair_civ. function list_pair_civ_Callback(hObject, eventdata, handles) %------------------------------------------------------------ %update first_i and last_i according to the chosen image pairs testupdate=0; Val=get(handles.RootPath,'Value'); IndexCell=get(handles.NomType,'String'); %hseries=get(handles.list_pair_civ,'parent'); SeriesData=get(handles.figure1,'UserData'); NomType=SeriesData.NomType{Val}; list_pair=get(handles.list_pair_civ,'String');%get the menu of image pairs index_pair=get(handles.list_pair_civ,'Value'); str_pair=list_pair{index_pair}; ind_equ=strfind(str_pair,'=');%find '=' ind_sep=strfind(str_pair,'|');%find pair separator '|' ind_com=strfind(str_pair,':');%find ':' test_bursts=0; if isempty(ind_sep) ind_sep=strfind(str_pair,'-');%find pair separator if it is not '|' test_bursts=1;% we are in the case of bursts end displ_num=[0 0 0 0]; %default if ~isempty(ind_sep)&& ~strcmp(str_pair(ind_sep-1),'*')% if there is a pair separator ('|' or '-') num1_str=str_pair(ind_equ(1)+1:ind_sep-1); num2_str=str_pair(ind_sep+1:ind_com-1); num1=str2double(num1_str); num2=str2double(num2_str); if isequal(num1_str(1),' ') num1_str(1)=[]; end if isequal(num2_str(end),' ') num2_str(end)=[]; end switch NomType case {'_i1-i2_j'} if isequal(num1_str(1),'0') IndexCell{Val}=['_(i-(i+' num2_str ')_j']; else IndexCell{Val}=['_(i' num1_str ')-(i+' num2_str ')_j']; end displ_num(3)=num1; displ_num(4)=num2; case {'_i1-i2'} if isequal(num1_str(1),'0') IndexCell{Val}=['_(i' num1_str ')-(i+' num2_str ')']; else IndexCell{Val}=['_(i' num1_str ')-(i+' num2_str ')']; end displ_num(3)=num1; displ_num(4)=num2; case '_i_j1-j2' if test_bursts IndexCell{Val}=['_i_' num1_str '-' num2_str ]; else if isequal(num1_str(1),'0') IndexCell{Val}=['_i_j-(j+' num2_str ')']; else IndexCell{Val}=['_i_(j' num1_str ')-(j+' num2_str ')']; end end displ_num(1)=num1; displ_num(2)=num2; case {'#_ab'} %TO COMPLETE IndexCell{Val}=['_i_' num1_str '-' num2_str ]; end end set(handles.NomType,'String',IndexCell) SeriesData.displ_num(Val,:)=displ_num; set(handles.figure1,'UserData',SeriesData) % set(handles.NomType,'Value',Val) if ~isequal(str_pair,'Dj=*|*')&~isequal(str_pair,'Di=*|*') mode_list=get(handles.mode,'String'); mode_value=get(handles.mode,'Value'); mode=mode_list{mode_value}; if isequal(mode,'series(Di)') first_i=str2num(get(handles.first_i,'String')); last_i=str2num(get(handles.last_i,'String')); incr_i=str2num(get(handles.incr_i,'String')); num1=first_i:incr_i:last_i; lastfieldCell=get(handles.nb_field,'String'); lastfield=str2num(lastfieldCell{1}); if ~isempty(lastfield) ind=find((num1-floor(index_pair/2)*ones(size(num1))>0)& (num1+ceil(index_pair/2)*ones(size(num1))<=lastfield)); num1=num1(ind); end if ~isempty(num1) set(handles.first_i,'String',num2str(num1(1))); set(handles.last_i,'String',num2str(num1(end))); end testupdate=1; elseif isequal(mode,'series(Dj)') first_j=str2num(get(handles.first_j,'String')); last_j=str2num(get(handles.last_j,'String')); incr_j=str2num(get(handles.incr_j,'String')); num_j=first_j:incr_j:last_j; lastfieldCell=get(handles.nb_field2,'String'); if ~isempty(lastfieldCell) lastfield2=lastfieldCell{1}; ind=find((num_j-floor(index_pair/2)*ones(size(num_j))>0)& ... (num_j+ceil(index_pair/2)*ones(size(num_j))<=lastfield2)); end testupdate=1; end %update the first and last times of the series if testupdate && isfield(SeriesData,'Time') if ~isempty(SeriesData.Time{1}) displ_time(handles,SeriesData.Time{1}); end end end %------------------------------------------------------------------------ % --- Executes on button press in RUN. function RUN_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ %read root name and field type set(handles.RUN,'BusyAction','queue'); %hseries=get(handles.RUN,'parent'); set(0,'CurrentFigure',handles.figure1) if isequal(get(handles.GetObject,'Visible'),'on') && isequal(get(handles.GetObject,'Value'),1) Series.GetObject=1; GetObject_Callback(hObject, eventdata, handles) else Series.GetObject=0; end SeriesData=get(handles.figure1,'UserData'); %reinitiate waitbar position Series.WaitbarPos=get(handles.waitbar_frame,'Position');%TO SUPPRESS waitbarpos=Series.WaitbarPos; waitbarpos(4)=0.005;%reinitialize waitbar to zero height waitbarpos(2)=Series.WaitbarPos(2)+Series.WaitbarPos(4)-0.005; set(handles.waitbar,'Position',waitbarpos) % read input file parameters and set menus Series.PathProject=get(handles.PathCampaign,'String'); RootPath=get(handles.RootPath,'String');% path of the root name of the first field series RootFile=get(handles.RootFile,'String');% root name of the first field series SubDir=get(handles.SubDir,'String');% subdirectory for netcdf files FileExt=get(handles.FileExt,'String');%file extension if isempty(SeriesData) msgbox_uvmat('ERROR','no input file series') return end NomType=SeriesData.NomType; if length(RootPath)==1 %string character input for user fct Series.RootPath=RootPath{1}; Series.RootFile=RootFile{1}; Series.SubDir=SubDir{1}; Series.FileExt=FileExt{1}; Series.NomType=NomType{1}; else %cell input for user fct Series.RootPath=RootPath; Series.RootFile=RootFile; Series.SubDir=SubDir; Series.FileExt=FileExt; Series.NomType=NomType; end if isequal(get(handles.FieldMenu,'Visible'),'on') FieldMenu=get(handles.FieldMenu,'String'); FieldValue=get(handles.FieldMenu,'Value'); Series.Field=FieldMenu(FieldValue); end menu_coord_state=get(handles.transform_fct,'Visible'); Series.CoordType='';%default if isequal(menu_coord_state,'on') % menu_coord=get(handles.transform_fct,'String'); menu_index=get(handles.transform_fct,'Value'); transform_list=get(handles.transform_fct,'UserData'); Series.transform_fct=transform_list{menu_index};% transform function handles end Series.hseries=handles.figure1; % handles to the series GUI %read the set of field numbers first_i=str2num(get(handles.first_i,'String')); last_i=str2num(get(handles.last_i,'String')); incr_i=str2num(get(handles.incr_i,'String')); first_j=str2num(get(handles.first_j,'String')); last_j=str2num(get(handles.last_j,'String')); incr_j=str2num(get(handles.incr_j,'String')); if ~isequal(get(handles.first_i,'Visible'),'on') first_i=1; last_i=1; incr_i=1; end if ~isequal(get(handles.first_j,'Visible'),'on') first_j=1; last_j=1; incr_j=1; end Series.NbSlice=str2num(get(handles.NbSlice,'String')); if isequal(first_i,[])|isequal(first_j,[]), msgbox_uvmat('ERROR','first field number not defined'),... set(handles.RUN, 'Enable','On'), set(handles.RUN,'BackgroundColor',[1 0 0]),return,end; if isequal(last_i,[])| isequal(last_j,[]),msgbox_uvmat('ERROR','last field number not defined'),... set(handles.RUN, 'Enable','On'), set(handles.RUN,'BackgroundColor',[1 0 0]),return,end; if isequal(incr_i,[])| isequal(incr_j,[]),msgbox_uvmat('ERROR','increment in field number not defined'),... set(handles.RUN, 'Enable','On'), set(handles.RUN,'BackgroundColor',[1 0 0]),return,end; if last_i < first_i | last_j < first_j , msgbox_uvmat('ERROR','last field number must be larger than the first one'),... set(handles.RUN, 'Enable','On'), set(handles.RUN,'BackgroundColor',[1 0 0]),return,end; num_i=first_i:incr_i:last_i; num_j=first_j:incr_j:last_j; nbfield_cell=get(handles.nb_field,'String'); nbfield=[]; %default for iview=1:length(nbfield_cell) nb=str2num(nbfield_cell{iview}); if ~isempty(nb) nbfield=[nbfield nb]; end end nbfield=min(nbfield); nbfield2_cell=get(handles.nb_field2,'String'); nbfield2=[]; %default for iview=1:length(nbfield2_cell) nb=str2num(nbfield2_cell{iview}); if ~isempty(nb) nbfield2=[nbfield2 nb]; end end nbfield2=min(nbfield2); %get complementary information from the 'series' interface list_action=get(handles.ACTION,'String');% list menu action index_action=get(handles.ACTION,'Value');% selected string index action= list_action{index_action}; % selected string mode_list=get(handles.mode,'String'); index_mode=get(handles.mode,'Value'); mode=mode_list{index_mode}; ind_shift=0;%default %determine the list of input file names nbmissing=0; for iview=1:length(RootPath) %case of pairs (.nc files) if isequal(NomType{iview},'_i_j1-j2')|| isequal(NomType{iview},'_i1-i2_j')|| isequal(NomType{iview},'_i1-i2')|| isequal(NomType{iview},'#_ab') ind_shift=SeriesData.displ_num(iview,:); if isequal(ind_shift,[0 0 0 0]) % undefined pairs if isequal(NomType{iview},'#_ab') mode='#_ab'; end [num_i1,num_i2,num_j1,num_j2,nbmissing]=netseries_generator(fullfile(RootPath{iview},RootFile{iview}),SubDir{iview},mode,first_i,incr_i,last_i,first_j,incr_j,last_j); else [num_i1,num_i2,num_j1,num_j2,num_i,num_j]=find_file_indices(num_i,num_j,ind_shift,NomType{iview},mode); if isempty(num_i) msgbox_uvmat('ERROR','ERROR: empty set of input files chosen') return end if num_i(1)>first_i set(handles.first_i,'String',num2str(num_i(1)))%update the display of first field last_i_Callback(hObject, eventdata, handles) end if num_i(end)first_j set(handles.first_j,'String',num2str(num_j(1)))%update the display of first field last_j_Callback(hObject, eventdata, handles) end if num_j(end)1 num_i1_cell{iview}=num_i1; num_i2_cell{iview}=num_i2; num_j1_cell{iview}=num_j1; num_j2_cell{iview}=num_j2; end end % defining the ACTION function handle path_series=which('series'); list_path=get(handles.ACTION,'UserData'); index=get(handles.ACTION,'Value'); fct_path=list_path{index}; %path stored for the function ACTION if ~isequal(fct_path,path_series) eval(['spath=which(''' action ''');']) %spath = current path of the selected function ACTION if ~exist(fct_path,'dir') msgbox_uvmat('ERROR',['The prescibed function path ' fct_path ' does not exist']) return end if ~isequal(spath,fct_path) addpath(fct_path)% add the prescribed path if not the current one end end eval(['h_fun=@' action ';'])%create a function handle for ACTION if ~isequal(fct_path,path_series) rmpath(fct_path)% add the prescribed path if not the current one end % RUN ACTION Series.Action=action;%name of the processing programme set(handles.RUN,'BackgroundColor',[0.831 0.816 0.784]) if length(RootPath)>1 h_fun(num_i1_cell,num_i2_cell,num_j1_cell,num_j2_cell,Series); else h_fun(num_i1,num_i2,num_j1,num_j2,Series); end set(handles.RUN,'BackgroundColor',[1 0 0]) % %save the current interface setting as figure namefig, append .0 to the name if it already exists % detect=1; % while detect==1 % namefigfull=[namedoc '.fig']; % hh=dir(namefigfull); % if ~isempty(hh) % detect=1; % namedoc=[namedoc '.0']; % else % detect=0; % end % end % saveas(gcbf,namefigfull);%save the interface with name namefigfull (A CHANGER EN FICHIER .xml) %------------------------------------------------------------------------ function STOP_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ set(handles.RUN, 'BusyAction','cancel') set(handles.RUN,'BackgroundColor',[1 0 0]) %------------------------------------------------------------------------ function first_i_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ last_i_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ function last_i_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ % hseries=get(handles.last_i,'parent'); % first_i=str2num(get(handles.first_i,'String')); % last_i=str2num(get(handles.last_i,'String')); % ref_i=ceil((first_i+last_i)/2); % set(handles.ref_i,'String', num2str(ref_i)) % ref_i_Callback(hObject, eventdata, handles) SeriesData=get(handles.figure1,'UserData'); if ~isfield(SeriesData,'Time') SeriesData.Time{1}=[]; end displ_time(handles,SeriesData.Time{1}); %------------------------------------------------------------------------ function first_j_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ last_j_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ function last_j_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ first_j=str2num(get(handles.first_j,'String')); last_j=str2num(get(handles.last_j,'String')); ref_j=ceil((first_j+last_j)/2); set(handles.ref_j,'String', num2str(ref_j)) ref_j_Callback(hObject, eventdata, handles) SeriesData=get(handles.figure1,'UserData'); if ~isfield(SeriesData,'Time') SeriesData.Time{1}=[]; end displ_time(handles,SeriesData.Time{1}); %------------------------------------------------------------------------ function ref_i_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ mode_list=get(handles.mode,'String'); mode_value=get(handles.mode,'Value'); mode=mode_list{mode_value}; %hseries=get(handles.ref_i,'parent'); SeriesData=get(handles.figure1,'UserData'); %NomTypeCell=get(handles.NomType,'String'); NomTypeCell=SeriesData.NomType; if ~isempty(NomTypeCell) Val=get(handles.NomType,'Value'); NomType=NomTypeCell{Val}; % for ilist=1:length(NomType) if isequal(NomType,'_i_j1-j2')|| isequal(NomType,'_i1-i2_j')|| isequal(NomType,'_i1-i2') if isequal(mode,'series(Di)') find_netcpair_civ(hObject, eventdata, handles,Val);% update the menu of pairs depending on the available netcdf files % break end end end %------------------------------------------------------------------------ function ref_j_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ mode_list=get(handles.mode,'String'); mode_value=get(handles.mode,'Value'); mode=mode_list{mode_value}; %hseries=get(handles.ref_i,'parent'); SeriesData=get(handles.figure1,'UserData'); NomTypeCell=SeriesData.NomType; if ~isempty(NomTypeCell) Val=get(handles.NomType,'Value'); NomType=NomTypeCell{Val}; if isequal(NomType,'_i_j1-j2')|| isequal(NomType,'_i1-i2_j')|| isequal(NomType,'_i1-i2') if isequal(mode,'series(Dj)') find_netcpair_civ(hObject, eventdata, handles,Val);% update the menu of pairs depending on the available netcdf files end end end %------------------------------------------------------------------------ % --- Executes on selection change in ACTION. function ACTION_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ global nb_builtin_ACTION list_ACTION=get(handles.ACTION,'String');% list menu fields index_ACTION=get(handles.ACTION,'Value');% selected string index ACTION= list_ACTION{index_ACTION}; % selected function name path_series=which('series');%path to series.m list_path=get(handles.ACTION,'UserData');%list of recorded paths to functions of the list ACTION default_file=fullfile(list_path{end},ACTION); % add a new function to the menu if the selected item is 'more...' if isequal(ACTION,'more...') pathfct=fileparts(path_series); [FileName, PathName, filterindex] = uigetfile( ... {'*.m', ' (*.m)'; '*.m', '.m files '; ... '*.*', 'All Files (*.*)'}, ... 'Pick a file',default_file); if length(FileName)<2 return end [pp,ACTION,ext_fct]=fileparts(FileName);%(end-1:end); if ~isequal(ext_fct,'.m') msgbox_uvmat('ERROR','a Matlab function .m must be introduced'); return end % insert the choice in the action menu menu_str=update_menu(handles.ACTION,ACTION);%new action menu in which the new item has been appended if needed index_ACTION=get(handles.ACTION,'Value');% currently selected index in the list list_path{index_ACTION}=PathName; if length(menu_str)>nb_builtin_ACTION+5; %nb_builtin=nbre of functions always remaining in the initial menu nbremove=length(menu_str)-nb_builtin_ACTION-5; menu_str(nb_builtin_ACTION+1:end-5)=[]; list_path(nb_builtin_ACTION+1:end-4)=[]; index_ACTION=index_ACTION-nbremove; set(handles.ACTION,'Value',index_ACTION) set(handles.ACTION,'String',menu_str) end list_path{index_ACTION}=PathName; set(handles.ACTION,'UserData',list_path); set(handles.path,'enable','inactive')% indicate that the current path is accessible (not 'off') %record the current menu in personal file profil_perso dir_perso=prefdir; profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); for ilist=nb_builtin_ACTION+1:length(menu_str)-1 series_fct{ilist-nb_builtin_ACTION}=fullfile(list_path{ilist},[menu_str{ilist} '.m']); end if nb_builtin_ACTION+1<=length(menu_str)-1 if exist(profil_perso,'file')% && nb_builtin_ACTION+1>=length(menu_str)-1 save(profil_perso,'series_fct','-append') else txt=ver('MATLAB'); Release=txt.Release; relnumb=str2num(Release(3:4)); if relnumb >= 14%recent relaese of Matlab save(profil_perso,'series_fct','-V6') else save(profil_perso, 'series_fct') end end end end %check the current path to the selected function PathName=list_path{index_ACTION};%current recorded path set(handles.path,'String',PathName); %show the path to the senlected function %default setting for the visibility of the GUI elements set(handles.RootPath,'UserData','many') set(handles.SubDir,'Visible','on') set(handles.RootFile,'Visible','on') set(handles.NomType,'Visible','on') set(handles.FileExt,'Visible','on') set(handles.NbSlice,'Visible','off') set(handles.NbSlice_title,'Visible','off') set(handles.VelTypeMenu,'Visible','off'); set(handles.VelType_text,'Visible','off'); set(handles.VelTypeMenu_1,'Visible','off'); set(handles.VelType_text_1,'Visible','off'); view_FieldMenu(handles,'off') view_FieldMenu_1(handles,'off') view_TRANSFORM(handles,'off') set(handles.ProjObject_frame,'Visible','off'); set(handles.GetMask,'Visible','off') set(handles.Mask,'Visible','off') set(handles.GetObject,'Visible','off'); set(handles.ProjObject,'Visible','off'); set(handles.OutputDir,'Visible','off'); set(handles.PARAMETERS_frame,'Visible','off'); set(handles.PARAMETERS_title,'Visible','off'); set(handles.ParamKey,'Visible','off') set(handles.ParamVal,'Visible','off') ParamKey={}; set(handles.FieldMenu,'Enable','off') set(handles.VelTypeMenu,'Enable','off') set(handles.FieldMenu_1,'Enable','off') set(handles.VelTypeMenu_1,'Enable','off') set(handles.transform_fct,'Enable','off') %set the displayed GUI item needed for input parameters if ~isequal(path_series,PathName) addpath(PathName) end eval(['h_function=@' ACTION ';']); [fid,errormsg] =fopen([ACTION '.m']); InputText=textscan(fid,'%s',1,'delimiter','\n'); fclose(fid) if ~isequal(path_series,PathName) rmpath(PathName) end set(handles.ACTION,'ToolTipString',InputText{1}{1}) varargout=h_function(); Param_list={}; %nb_series=length(RootFile); FileExt=get(handles.FileExt,'String'); nb_series=length(FileExt); testima_series=1; %test for a list of images only testima=1; testima_1=1; testciv_series=1; for iview=1:nb_series ext=FileExt{iview}; if length(ext)<2 ext='.none'; end testimaview=~isempty(imformats(ext(2:end))) || isequal(lower(ext),'.avi'); if ~testimaview if iview==1 testima=0; end if iview==2 testima_1=0; end testima_series=0; end end for ilist=1:length(varargout)-1 switch varargout{ilist} %RootFile always visible case 'RootPath' %visible by default value=lower(varargout{ilist+1}); if isequal(value,'one')||isequal(value,'two')||isequal(value,'many') set(handles.RootFile,'UserData',value)% for use in menu Open_insert end case 'SubDir' %visible by default if isequal(lower(varargout{ilist+1}),'off') set(handles.SubDir,'Visible','off') end case 'RootFile' %visible by default value=lower(varargout{ilist+1}); if isequal(value,'off') set(handles.RootFile,'Visible','off') elseif isequal(value,'one')||isequal(value,'two')||isequal(value,'many') set(handles.RootFile,'Visible','on') set(handles.RootFile,'UserData',value)% for use in menu Open_insert end case 'NomType' %visible by default if isequal(lower(varargout{ilist+1}),'off') set(handles.NomType,'Visible','off') end case 'FileExt' %visible by default if isequal(lower(varargout{ilist+1}),'off') set(handles.FileExt,'Visible','off') end case 'NbSlice' %hidden by default if isequal(lower(varargout{ilist+1}),'on') set(handles.NbSlice,'Visible','on') set(handles.NbSlice_title,'Visible','on') end case 'VelTypeMenu' %hidden by default if isequal(lower(varargout{ilist+1}),'one') || isequal(lower(varargout{ilist+1}),'two') set(handles.VelTypeMenu,'Enable','on') if nb_series >=1 && ~testima_series set(handles.VelTypeMenu,'Visible','on') set(handles.VelType_text,'Visible','on'); set(handles.Field_frame,'Visible','on') end end if isequal(lower(varargout{ilist+1}),'two') set(handles.VelTypeMenu_1,'Enable','on') if nb_series >=2 && ~testima_series set(handles.VelTypeMenu_1,'Visible','on') set(handles.VelType_text_1,'Visible','on'); end end case 'FieldMenu' %hidden by default if isequal(lower(varargout{ilist+1}),'one')||isequal(lower(varargout{ilist+1}),'two') set(handles.FieldMenu,'Enable','on') % test for MenuBorser if nb_series >=1 && ~testima_series view_FieldMenu(handles,'on') end end if isequal(lower(varargout{ilist+1}),'two') set(handles.FieldMenu_1,'Enable','on') if nb_series >=2 && ~testima_1 view_FieldMenu_1(handles,'on') end end case 'CoordType' %hidden by default if isequal(lower(varargout{ilist+1}),'on') set(handles.transform_fct,'Enable','on') view_TRANSFORM(handles,'on') end case 'GetObject' %hidden by default if isequal(lower(varargout{ilist+1}),'on') set(handles.ProjObject_frame,'Visible','on') set(handles.GetObject,'Visible','on'); end case 'Mask' %hidden by default if isequal(lower(varargout{ilist+1}),'on') set(handles.ProjObject_frame,'Visible','on') set(handles.GetMask,'Visible','on'); end case 'PARAMETER' set(handles.PARAMETERS_frame,'Visible','on') set(handles.PARAMETERS_title,'Visible','on') set(handles.ParamKey,'Visible','on') %set(handles.ParamVal,'Visible','on') Param_str=varargout{ilist+1}; Param_list=[Param_list; {Param_str}]; end end if ~isempty(Param_list) set(handles.ParamKey,'String',Param_list) set(handles.ParamVal,'Visible','on') end %------------------------------------------------------------------------ % --- Executes on selection change in FieldMenu. function FieldMenu_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ field_str=get(handles.FieldMenu,'String'); field_index=get(handles.FieldMenu,'Value'); field=field_str{field_index(1)}; if isequal(field,'get_field...') hget_field=findobj(allchild(0),'name','get_field'); if ~isempty(hget_field) delete(hget_field)%delete opened versions of get_field end %hseries=get(handles.FieldMenu,'parent'); SeriesData=get(handles.figure1,'UserData'); filename=SeriesData.CurrentInputFile; if exist(filename,'file') get_field(filename) end elseif isequal(field,'more...') str=calc_field; [ind_answer,v] = listdlg('PromptString','Select a file:',... 'SelectionMode','single',... 'ListString',str); % edit the choice in the fields and action menu scalar=cell2mat(str(ind_answer)); update_menu(handles.FieldMenu,scalar) end %------------------------------------------------------------------------ % --- Executes on selection change in FieldMenu_1. function FieldMenu_1_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ field_str=get(handles.FieldMenu_1,'String'); field_index=get(handles.FieldMenu_1,'Value'); field=field_str{field_index}; if isequal(field,'get_field...') hget_field=findobj(allchild(0),'name','get_field_1'); if ~isempty(hget_field) delete(hget_field) end %hseries=get(handles.FieldMenu,'parent'); SeriesData=get(handles.figure1,'UserData'); filename=SeriesData.CurrentInputFile_1; if exist(filename,'file') hget_field=get_field(filename); set(hget_field,'name','get_field_1') end elseif isequal(field,'more...') str=calc_field; [ind_answer,v] = listdlg('PromptString','Select a file:',... 'SelectionMode','single',... 'ListString',str); % edit the choice in the fields and action menu scalar=cell2mat(str(ind_answer)); update_menu(handles.FieldMenu_1,scalar) end %----------------------------- function mouse_up_gui(ggg,eventdata,handles) if isequal(get(ggg,'SelectionType'),'alt') display('global CurData, UserData of GUI series') global CurData CurData=get(ggg,'UserData'); evalin('base','global CurData');%make CurData global in the workspace evalin('base','CurData'); %display CurData in the workspace commandwindow % plot_text(CurData) end %%%%%%%%%%%%% function [ind_remove]=find_pairs(dirpair,ind_i,last_i) indsel=ind_i; indiff=diff(ind_i); %test index increment to detect multiplets (several pairs with the same index ind_i) and holes in the series indiff=[1 indiff last_i-ind_i(end)+1];%for testing gaps with the imposed bounds if ~isempty(indiff) indiff2=diff(indiff); indiffp=[indiff2 1]; indiffm=[1 indiff2]; ind_multi_m=find((indiff==0)&(indiffm<0))-1;%indices of first members of multiplets ind_multi_p=find((indiff==0)&(indiffp>0));%indices of last members of multiplets %for each multiplet, select the most recent file ind_remove=[]; for i=1:length(ind_multi_m) ind_pairs=ind_multi_m(i):ind_multi_p(i); for imulti=1:length(ind_pairs) datepair(imulti)=datenum(dirpair(ind_pairs(imulti)).date);%dates of creation end [datenew,indsort2]=sort(datepair); %sort the multiplet by creation date ind_s=indsort2(1:end-1);% ind_remove=[ind_remove ind_pairs(ind_s)];%remove these indices, leave the last one end end %------------------------------------------------------------------------ % --- determine the list of index pairs of processing file function [num_i1,num_i2,num_j1,num_j2,num_i_out,num_j_out]=find_file_indices(num_i,num_j,ind_shift,NomType,mode) %------------------------------------------------------------------------ num_i1=num_i;% set of first image numbers by default num_i2=num_i; num_j1=num_j; num_j2=num_j; num_i_out=num_i; num_j_out=num_j; if isequal (NomType,'_i1-i2_j') || isequal (NomType,'_i1-i2') num_i1_line=num_i+ind_shift(3);% set of first image numbers num_i2_line=num_i+ind_shift(4); % adjust the first and last field number indsel=find(num_i1_line >= 1); num_i_out=num_i(indsel); num_i1_line=num_i1_line(indsel); num_i2_line=num_i2_line(indsel); num_j1=meshgrid(num_j,ones(size(num_i1_line))); num_j2=meshgrid(num_j,ones(size(num_i1_line))); [xx,num_i1]=meshgrid(num_j,num_i1_line); [xx,num_i2]=meshgrid(num_j,num_i2_line); elseif isequal (NomType,'_i_j1-j2') || isequal (NomType,'#_ab') if isequal(mode,'bursts') %case of bursts (png_old or png_2D) num_j1=ind_shift(1)*ones(size(num_i)); num_j2=ind_shift(2)*ones(size(num_i)); else num_j1_col=num_j+ind_shift(1);% set of first image numbers num_j2_col=num_j+ind_shift(2); % adjust the first field number indsel=find((num_j1_col >= 1)); num_j_out=num_j(indsel); num_j1_col=num_j1_col(indsel); num_j2_col=num_j2_col(indsel); [num_i1,num_j1]=meshgrid(num_i,num_j1_col); [num_i2,num_j2]=meshgrid(num_i,num_j2_col); end end %------------------------------------------------------------------------ % ---- find the times corresponding to the first and last indices of a series function displ_time(handles,times) %------------------------------------------------------------------------ hseries=get(handles.last_i,'parent'); SeriesData=get(hseries,'UserData');% first_i=str2num(get(handles.first_i,'String')); first_j=str2num(get(handles.first_j,'String')); last_i=str2num(get(handles.last_i,'String')); last_j=str2num(get(handles.last_j,'String')); % index_civ=get(handles.list_pair_civ,'Value'); % NomType=get(handles.NomType,'String'); NomType=SeriesData.NomType; mode_list=get(handles.mode,'String'); index_mode=get(handles.mode,'Value'); mode=mode_list{index_mode}; % ind_shift=0;%default time_first=[]; time_last=[]; if ~isfield(SeriesData,'Time') SeriesData.Time{1}=[]; end for iview=1:length(NomType) time_first_cell{iview}='?'; time_last_cell{iview}='?';%default time=SeriesData.Time{iview}; if isequal(NomType{iview},'_i1-i2_j')|isequal(NomType{iview},'_i_j1-j2')|isequal(NomType{iview},'#_ab')|isequal(NomType{iview},'_i1-i2') if isfield(SeriesData,'displ_num')& ~isempty(SeriesData.displ_num) ind_shift=SeriesData.displ_num(iview,:); if isequal(mode,'bursts') first_j=0; last_j=0; end first_i1=first_i +ind_shift(3); first_i2 =first_i +ind_shift(4); first_j1 =first_j +ind_shift(1); first_j2 =first_j +ind_shift(2); last_i1=last_i +ind_shift(3); last_i2 =last_i +ind_shift(4); last_j1 =last_j +ind_shift(1); last_j2 =last_j +ind_shift(2); siz=size(SeriesData.Time{1}); if first_i1>=1 && first_j1>=1 && siz(1)>=last_i2 && siz(2)>=last_j2 time_first=(time(first_i1,first_j1)+time(first_i2,first_j2))/2; time_last=(time(last_i1,last_j1)+time(last_i2,last_j2))/2; else%read the time in the nc files RootPath=get(handles.RootPath,'String'); RootFile=get(handles.RootFile,'String'); SubDir=get(handles.SubDir,'String'); %VelType=get(handles.VelType,'String'); VelType_str=get(handles.VelTypeMenu,'String'); VelType_val=get(handles.VelTypeMenu,'Value'); VelType=VelType_str{VelType_val}; filebase=fullfile(RootPath{1},RootFile{1}); [filefirst]=name_generator(filebase,first_i1,first_j1,'.nc',NomType{iview},1,first_i2,first_j2,SubDir{iview}); if exist(filefirst,'file') Attrib=nc2struct(filefirst,[]); if isfield(Attrib,'Time') time_first=Attrib.Time; else if isfield(Attrib,'absolut_time_T0') time_first=Attrib.absolut_time_T0; end if isfield(Attrib,'absolut_time_T0_2')&&~(isequal(VelType,'civ1')||isequal(VelType,'interp1')||isequal(VelType,'filter1')) time_first=Attrib.absolut_time_T0_2; end end end [filelast]=name_generator(filebase,last_i1,last_j1,'.nc',NomType{iview},1,last_i2,last_j2,SubDir{iview}); if exist(filelast,'file') Attrib=nc2struct(filelast,[]); if isfield(Attrib,'Time') time_last=Attrib.Time; else if isfield(Attrib,'absolut_time_T0') time_last=Attrib.absolut_time_T0; end if isfield(Attrib,'absolut_time_T0_2')&&~(isequal(VelType,'civ1')||isequal(VelType,'interp1')||isequal(VelType,'filter1')) time_last=Attrib.absolut_time_T0_2; end end end end end else siz=size(times); if siz(1)>=last_i && siz(2)>=last_j && first_i>=1 && first_j>=1 time_first=times(first_i,first_j); time_last=times(last_i,last_j); end end time_first_cell{iview}=num2str(time_first,4); time_last_cell{iview}=num2str(time_last,4); end set(handles.time_first,'Value',1) set(handles.time_last,'Value',1) set(handles.time_first,'String',time_first_cell); set(handles.time_last,'String',time_last_cell); %------------------------------------------------------------------------ % --- Executes on button press in GetObject. function GetObject_Callback(hObject, eventdata, handles) %------------------------------------------------------------------------ hseries=get(handles.GetObject,'parent'); SeriesData=get(hseries,'UserData'); value=get(handles.GetObject,'Value'); if value set(handles.GetObject,'BackgroundColor',[1 1 0])%put unactivated buttons to yellow % DataInit.ParentButton=handles.GetObject; hset_object=findobj(allchild(0),'tag','set_object');%find the set_object interface handle if ishandle(hset_object) uistack(hset_object,'top') %[SeriesData.hset_object,SeriesData.sethandles]=set_object(DataInit); %open the set_object interface else %get the object file defaultname=get(handles.RootPath,'String'); if isempty(defaultname) defaultname={''}; end [FileName, PathName, filterindex] = uigetfile( ... {'*.xml;*.mat', ' (*.xml,*.mat)'; '*.xml', '.xml files '; ... '*.mat', '.mat matlab files '}, ... 'Pick an xml object file (or use uvmat to create it)',defaultname{1}); fileinput=[PathName FileName];%complete file name testblank=findstr(fileinput,' ');%look for blanks if ~isempty(testblank) msgbox_uvmat('ERROR','forbidden input file name: contain blanks') return end sizf=size(fileinput); if (~ischar(fileinput)||~isequal(sizf(1),1)),return;end %read the file t=xmltree(fileinput); data=convert(t); if ~isfield(data,'Style') data.Style='points'; end if ~isfield(data,'ProjMode') data.ProjMode='projection'; end transform_menu=get(handles.transform_fct,'String'); ichoice=get(handles.transform_fct,'Value'); % if isequal(transform_menu{ichoice},'px'); % data.CoordType='px'; % else % data.CoordType='phys'; % end data.desable_plot=1; [SeriesData.hset_object,SeriesData.sethandles]=set_object(data);% call the set_object interface end else set(handles.GetObject,'BackgroundColor',[0.7 0.7 0.7])%put activated buttons to green % if isfield(SeriesData,'hset_object')&& ishandle(SeriesData.hset_object) % close(SeriesData.hset_object) % end end set(hseries,'UserData',SeriesData) %-------------------------------------------------------------- function GetMask_Callback(hObject, eventdata, handles) value=get(handles.GetMask,'Value'); if value msgbox_uvmat('ERROR','not implemented yet') end %-------------------------------------------------------------- %------------------------------------------------------------------- %'uv_ncbrowser': interactively calls the netcdf file browser 'get_field.m' function ncbrowser_uvmat(hObject, eventdata) %------------------------------------------------------------------- bla=get(gcbo,'String'); ind=get(gcbo,'Value'); filename=cell2mat(bla(ind)); blank=find(filename==' '); filename=filename(1:blank-1); get_field(filename) % ------------------------------------------------------------------ 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)), msgbox_uvmat('ERROR','Please put the help file uvmat_doc.html in the sub-directory /uvmat_doc of the UVMAT package') else addpath (fullfile(pathelp,'uvmat_doc')) web([helpfile '#series']) end %------------------------------------------------------------------- % --- Executes on selection change in transform_fct. function transform_fct_Callback(hObject, eventdata, handles) %------------------------------------------------------------------- global nb_transform % huvmat=get(handles.transform_fct,'parent'); menu=get(handles.transform_fct,'String'); ind_coord=get(handles.transform_fct,'Value'); coord_option=menu{ind_coord}; list_transform=get(handles.transform_fct,'UserData'); ff=functions(list_transform{end}); if isequal(coord_option,'more...'); coord_fct=''; 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', ff.file); if isequal(PathName(end),'/')||isequal(PathName(end),'\') PathName(end)=[]; end transform_selected =fullfile(PathName,FileName); if ~exist(transform_selected,'file') return end [ppp,transform,xt_fct]=fileparts(FileName);% removes extension .m if ~isequal(ext_fct,'.m') msgbox_uvmat('ERROR','a Matlab function .m must be introduced'); return end menu=update_menu(handles.transform_fct,transform);%add the selected fct to the menu ind_coord=get(handles.transform_fct,'Value'); addpath(PathName) list_transform{ind_coord}=str2func(transform);% create the function handle corresponding to the newly seleced function set(handles.transform_fct,'UserData',list_transform) rmpath(PathName) % save the new menu in the personal file 'uvmat_perso.mat' dir_perso=prefdir;%personal Matalb directory profil_perso=fullfile(dir_perso,'uvmat_perso.mat'); if exist(profil_perso,'file') for ilist=nb_transform+1:numel(list_transform) ff=functions(list_transform{ilist}); transform_fct{ilist-nb_transform}=ff.file; end save (profil_perso,'transform_fct','-append'); %store the root name for future opening of uvmat end end %check the current path to the selected function func=functions(list_transform{ind_coord}); set(handles.path_transform,'String',fileparts(func.file)); %show the path to the senlected function %------------------------------------------------------------------------ % --- generates a series of file names with reference numbers between range1 and % --- range2 with increment incr. The reference number num_ref is the image number at the middle of the % --- image pair. The set of first numbers num1 of the image pairs is also % --- given as output function [num_i1,num_i2,num_j1,num_j2,nbmissing]=netseries_generator(filebase,subdir,mode,first_i,incr_i,last_i,first_j,incr_j,last_j) %------------------------------------------------------------------------ [Path,Name]=fileparts(filebase); filebasesub=fullfile(Path,subdir,Name); filecell={};%default num_i1=[]; num_i2=[]; num_j1=[]; num_j2=[]; ind0_i=first_i:incr_i:last_i; nbcolumn=length(ind0_i); ind0_j=first_j:incr_j:last_j; nbline=length(ind0_j); if isequal(mode,'#_ab') dirpair=dir([filebasesub '*_*.nc']); elseif isequal(mode,'bursts')|isequal(mode,'series(Dj)') dirpair=dir([filebasesub '_*_*-*.nc']); elseif isequal(mode,'series(Di)') dirpair=dir([filebasesub '_*-*_*.nc']); else msgbox_uvmat('ERROR','option *|* not yet implemented') return end if isempty(dirpair) msgbox_uvmat('ERROR','no pair detected in the selected range') return end if isequal(mode,'bursts')||isequal(mode,'#_ab') icount=0; for ifile=1:length(dirpair) [RootPath,RootFile,str_1,str_2,str_a,str_b,ext,nom_type]=name2display(dirpair(ifile).name); num1_r=str2num(str_1); if isequal(RootFile,Name) & ~isempty(num1_r) num_i1(ifile)=num1_r; num_a(ifile)=stra2num(str_a); num_b(ifile)=stra2num(str_b); end end test_range= (num_i1 >=first_i)&(num_i1<= last_i);% =1 when both numbers are in the range ind_i=((num_i1-first_i)/incr_i)+1;%indices i in the list of prescribed file indices select=find(test_range &(floor(ind_i)==ind_i));%selected indices of num_i1 in the file directory ind_i=ind_i(select);%set of selected indices ind_i [ind_i,indsort]=sort(ind_i);%sorted list of ind_i select=select(indsort); num_i1=num_i1(select); num_a=num_a(select); num_b=num_b(select); dirpair=dirpair(select); [ind_remove]=find_pairs(dirpair,ind_i,nbcolumn); ind_i(ind_remove)=[]; num_a(ind_remove)=[]; num_b(ind_remove)=[]; num_j1=zeros(1,nbcolumn);%default num_j2=num_j1; num_j1(ind_i)=num_a; num_j2(ind_i)=num_b; num_i1=first_i:incr_i:last_i; num_i2=num_i1; nbmissing=nbcolumn-length(ind_i); elseif isequal(mode,'series(Di)') %ind0_i=first_i:incr_i:last_i; %nbcolumn=length(ind0_i); %ind0_j=first_j:incr_j:last_j; %nbline=length(ind0_j); %dirpair=dir([filebasesub '_*-*_*.nc']); for ifile=1:length(dirpair) [RootPath,RootFile,str_1,str_2,str_a,str_b,ext,nom_type]=name2display(dirpair(ifile).name); num_i1_r(ifile)=str2num(str_1); num_i2_r(ifile)=str2num(str_2); num_j(ifile)=str2num(str_a); end num_i=floor((num_i1_r+num_i2_r)/2); %list of reference indices of the detected files test_range= (num_i >=first_i)&(num_i<= last_i)&(num_j >=first_j)&(num_j<= last_j);% =1 when both numbers are in the range ind_i=((num_i-first_i)/incr_i)+1;%indices i and j in the list of prescribed file indices ind_j=((num_j-first_j)/incr_j)+1; ind_ij=ind_j+nbline*(ind_i-1);%indices in the reshhaped series of prescribed file indices select=find(test_range &(floor(ind_i)==ind_i)&(floor(ind_j)==ind_j));%selected indices in the file directory ind_ij=ind_ij(select);%set of selected indices ind_ij [ind_ij,indsort]=sort(ind_ij);%sorted list of ind_ij select=select(indsort); num_i1_r=num_i1_r(select); num_i2_r=num_i2_r(select); dirpair=dirpair(select); [ind_remove]=find_pairs(dirpair,ind_ij,nbcolumn*nbline) ; ind_ij(ind_remove)=[]; num_i1_r(ind_remove)=[]; num_i2_r(ind_remove)=[]; num_i1=zeros(1,nbline*nbcolumn);%default num_i2=num_i1; num_i1(ind_ij)=num_i1_r; num_j2(ind_ij)=num_i2_r; num_i1=reshape(num_i1,nbline,nbcolumn); num_i2=reshape(num_i2,nbline,nbcolumn); num_j1=meshgrid(ind0_i,ind0_j); num_j2=num_j1; nbmissing=nbline*nbcolumn-length(ind_ij); elseif isequal(mode,'series(Dj)') for ifile=1:length(dirpair) [RootPath,RootFile,str_1,str_2,str_a,str_b,ext,nom_type]=name2display(dirpair(ifile).name); num_i(ifile)=str2num(str_1); num_a(ifile)=str2num(str_a); num_b(ifile)=str2num(str_b); end num_j=floor((num_a+num_b)/2); %list of reference indices of the detected files test_range= (num_i >=first_i)&(num_i<= last_i)&(num_j >=first_j)&(num_j<= last_j);% =1 when both numbers are in the range ind_i=((num_i-first_i)/incr_i)+1;%indices i and j in the list of prescribed file indices ind_j=((num_j-first_j)/incr_j)+1; ind_ij=ind_j+nbline*(ind_i-1);%indices in the reshhaped series of prescribed file indices select=find(test_range &(floor(ind_i)==ind_i)&(floor(ind_j)==ind_j));%selected indices in the file directory ind_ij=ind_ij(select);%set of selected indices ind_ij [ind_ij,indsort]=sort(ind_ij);%sorted list of ind_ij select=select(indsort); num_i=num_i(select); num_a=num_a(select); num_b=num_b(select); dirpair=dirpair(select); [ind_remove]=find_pairs(dirpair,ind_ij,nbcolumn*nbline) ; ind_ij(ind_remove)=[]; num_a(ind_remove)=[]; num_b(ind_remove)=[]; num_j1=zeros(1,nbline*nbcolumn);%default num_j2=num_j1; num_j1(ind_ij)=num_a; num_j2(ind_ij)=num_b; num_j1=reshape(num_j1,nbline,nbcolumn); num_j2=reshape(num_j2,nbline,nbcolumn); num_i1=meshgrid(ind0_i,ind0_j); num_i2=num_i1; nbmissing=nbline*nbcolumn-length(ind_ij); end %------------------------------------------------------------------------ % --- generates series of file indices corresponding to a file fileinput function [num_i1,num_i2,num_j1,num_j2]=find_indexseries(fileinput) %------------------------------------------------------------------------ num_i1=NaN;%default num_i2=NaN;%default num_j1=NaN;%default num_j2=NaN;%default % refresh input root name, indices, file extension and nomenclature [RootPath,RootFile,field_count,str2,str_a,str_b,FileExt,NomType,SubDir]=name2display(fileinput); if strcmp(SubDir,'') filebasesub=fullfile(RootPath,RootFile); else filebasesub=fullfile(RootPath,SubDir,RootFile); end dirpair=[]; %default switch NomType case '_1' dirpair=dir([filebasesub '_*' FileExt]); case '_1_1' dirpair=dir([filebasesub '_*_*' FileExt]); case '_i1-i2' dirpair=dir([filebasesub '_*-*' FileExt]); case '1_ab' dirpair=dir([filebasesub '*_*' FileExt]); case '_i_j1-j2' dirpair=dir([filebasesub '*_*-*' FileExt]); case '_i1-i2_j' dirpair=dir([filebasesub '*-*_*' FileExt]); end for ifile=1:length(dirpair) [RootPath,RF,str_1,str_2,str_a,str_b]=name2display(dirpair(ifile).name); num_i1(ifile)=str2double(str_1); num_i2(ifile)=str2double(str_2); if isnan(num_i2(ifile)) num_i2(ifile)=num_i1(ifile); end num_j1(ifile)=stra2num(str_a); if isnan(num_j1(ifile)) num_j1(ifile)=1; end num_j2(ifile)=stra2num(str_b); if isnan(num_j2(ifile)) num_j2(ifile)=num_j1(ifile); end end