%%'check_data_files': check the existence, type and status of the files selected by series.fig %------------------------------------------------------------------------ % function GUI_input=check_data_files(Param) % %%%%%%%%%%% GENERAL TO ALL SERIES ACTION FCTS %%%%%%%%%%%%%%%%%%%%%%%%%%% %OUTPUT % GUI_input=list of options in the GUI series.fig needed for the function % %INPUT: % In run mode, the input parameters are given as a Matlab structure Param copied from the GUI series. % In batch mode, Param is the name of the corresponding xml file containing the same information % In the absence of input (as activated when the current Action is selected % in series), the function ouput GUI_input set the activation of the needed GUI elements % % Param contains the elements:(use the menu bar command 'export/GUI config' in series to see the current structure Param) % .InputTable: cell of input file names, (several lines for multiple input) % each line decomposed as {RootPath,SubDir,Rootfile,NomType,Extension} % .OutputSubDir: name of the subdirectory for data outputs % .OutputDir: directory for data outputs, including path % .Action: .ActionName: name of the current activated function % .ActionPath: path of the current activated function % .IndexRange: set the file or frame indices on which the action must be performed % .FieldTransform: .TransformName: name of the selected transform function % .TransformPath: path of the selected transform function % .TransformHandle: corresponding function handle % .InputFields: sub structure describing the input fields withfields % .FieldName: name of the field % .VelType: velocity type % .FieldName_1: name of the second field in case of two input series % .VelType_1: velocity type of the second field in case of two input series % .ProjObject: %sub structure describing a projection object (read from ancillary GUI set_object) %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% %======================================================================= % Copyright 2008-2016, LEGI UMR 5519 / CNRS UGA G-INP, Grenoble, France % http://www.legi.grenoble-inp.fr % Joel.Sommeria - Joel.Sommeria (A) legi.cnrs.fr % % 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 (see LICENSE.txt) for more details. %======================================================================= function ParamOut=check_data_files(Param) %% input preparation mode (no RUN) if isstruct(Param) && isequal(Param.Action.RUN,0) ParamOut.AllowInputSort='off';% allow alphabetic sorting of the list of input file SubDir (options 'off'/'on', 'off' by default) ParamOut.WholeIndexRange='off';% prescribes the file index ranges from min to max (options 'off'/'on', 'off' by default) ParamOut.NbSlice='on';%nbre of slices ('off' by default) ParamOut.VelType='off';% menu for selecting the velocity type (options 'off'/'one'/'two', 'off' by default) ParamOut.FieldName='off';% menu for selecting the field (s) in the input file(options 'off'/'one'/'two', 'off' by default) ParamOut.FieldTransform = 'off';%can use a transform function ParamOut.ProjObject='off';%can use projection object(option 'off'/'on', ParamOut.Mask='off';%can use mask option (option 'off'/'on', 'off' by default) ParamOut.OutputSubDirMode='none'; %(options 'none'/'custom'/'auto'/'first'/'last','auto' by default) % 'none' =no output files return end %%%%%%%%%%%% STANDARD PART %%%%%%%%%%%% %% read input parameters from an xml file if input is a file name (batch mode) checkrun=1; if ischar(Param) Param=xml2struct(Param);% read Param as input file (batch case) checkrun=0; end hseries=findobj(allchild(0),'Tag','series'); RUNHandle=findobj(hseries,'Tag','RUN');%handle of RUN button in GUI series WaitbarHandle=findobj(hseries,'Tag','Waitbar');%handle of waitbar in GUI series %% root input file(s) and type RootPath=Param.InputTable(:,1); RootFile=Param.InputTable(:,3); SubDir=Param.InputTable(:,2); NomType=Param.InputTable(:,4); FileExt=Param.InputTable(:,5); [filecell,i1_series,i2_series,j1_series,j2_series]=get_file_series(Param); if isempty(i1_series) return end %%%%%%%%%%%% % The cell array filecell is the list of input file names, while % filecell{iview,fileindex}: % iview: line in the table corresponding to a given file series % fileindex: file index within the file series, % i1_series(iview,ref_j,ref_i)... are the corresponding arrays of indices i1,i2,j1,j2, depending on the input line iview and the two reference indices ref_i,ref_j % i1_series(iview,fileindex) expresses the same indices as a 1D array in file indices %%%%%%%%%%%% NbSlice=1;%default if isfield(Param.IndexRange,'NbSlice')&&~isempty(Param.IndexRange.NbSlice) NbSlice=Param.IndexRange.NbSlice; end nbview=numel(i1_series);%number of input file series (lines in InputTable) nbfield_j=size(i1_series{1},1); %nb of fields for the j index (bursts or volume slices) nbfield_i=size(i1_series{1},2); %nb of fields for the i index nbfield=nbfield_j*nbfield_i; %total number of fields nbfield_i=floor(nbfield/NbSlice);%total number of indexes in a slice (adjusted to an integer number of slices) nbfield=nbfield_i*NbSlice; %total number of fields after adjustement %determine the file type on each line from the first input file ImageTypeOptions={'image','multimage','mmreader','video'}; NcTypeOptions={'netcdf','civx','civdata'}; for iview=1:nbview [FileInfo{iview},Object{iview}]=get_file_info(filecell{iview,1}); FileType{iview}=FileInfo{iview}.FileType; CheckImage{iview}=~isempty(find(strcmp(FileType{iview},ImageTypeOptions)));% =1 for images CheckNc{iview}=~isempty(find(strcmp(FileType{iview},NcTypeOptions)));% =1 for netcdf files end %% MAIN LOOP ON VIEWS (INPUT LINES) for iview=1:nbview if isequal(FileType{iview},'mmreader')||isequal(FileType{iview},'video')||isequal(FileType{iview},'multimage') [FileInfo]=get_file_info(filecell{iview,1}); Tabchar{1}=filecell{iview,1};%info.Filename; Tabchar{2}=''; Tabchar{3}=[num2str(FileInfo.FrameRate) ' frames/s ']; message=''; else Tabchar={}; %LOOP ON SLICES for i_slice=1:NbSlice index_slice=i_slice:NbSlice:nbfield; filefound={}; datnum=zeros(1,nbfield_j); for ifile=1:nbfield_i update_waitbar(WaitbarHandle,ifile/nbfield_i) if ishandle(RUNHandle) && ~strcmp(get(RUNHandle,'BusyAction'),'queue') disp('program stopped by user') break end file=filecell{iview,index_slice(ifile)}; [Path,Name,ext]=fileparts(file); detect=exist(file,'file'); % check the existence of the file if detect==0 lastfield='not found'; else datfile=dir(file); if isfield(datfile,'datenum') datnum(ifile)=datfile.datenum; filefound(ifile)={datfile.name}; end lastfield=''; [FileInfo,Object]=get_file_info(file); FileType{iview}=FileInfo.FileType; if strcmp(FileType{iview},'civx')||strcmp(FileType{iview},'civdata') if isfield(FileInfo,'CivStage') liststage={'civ','fix','patch'}; stagechoice=1+mod(FileInfo.CivStage-1,3); iter=1+floor((FileInfo.CivStage-1)/3); lastfield=[liststage{stagechoice} num2str(iter)]; %liststage={'civ1','fix1','patch1','civ2','fix2','patch2'}; %lastfield=liststage{FileInfo.CivStage}; end end lastfield=[FileType{iview} ', ' lastfield]; end Tabchar(1,i_slice)={['slice #' num2str(i_slice)]}; Tabchar(ifile+1,i_slice)={[file '...' lastfield]}; end end if isempty(filefound) if NbSlice>1 message=['no set of ' num2str(NbSlice) ' (NbSlices) files found']; else message='no file found'; end else datnum=datnum(find(datnum));%keep the non zero values corresponding to existing files filefound=filefound(find(datnum)); [first,ind]=min(datnum); [last,indlast]=max(datnum); message={['oldest modification: ' filefound{ind} ' : ' datestr(first)];... ['latest modification: ' filefound{indlast} ' : ' datestr(last)]}; end if ~isempty(Tabchar) Tabchar=reshape(Tabchar,NbSlice*(nbfield_i+1),1); end end hfig=figure(iview); clf if iview>1 pos=get(iview-1,'Position'); pos(1)=pos(1)+(iview-1)*pos(1)/nbview; set(hfig,'Position',pos) end set(hfig,'name',['check_data_files:view= ' num2str(iview)]) set(hfig,'MenuBar','none')% suppress the menu bar set(hfig,'NumberTitle','off')%suppress the fig number in the title h=uicontrol('Style','listbox', 'Position', [20 20 500 300], 'String', Tabchar, 'Callback', {'open_uvmat'}); hh=uicontrol('Style','listbox', 'Position', [20 340 500 40], 'String', message); end % 'open_uvmat': open with uvmat the field selected in the list of 'series/check_data_files' %------------------------------------------------------------------------ %function open_uvmat(hObject, eventdata) % % INPUT: % hObject: handle of uicontrol object containing the list % eventdata: not used function open_uvmat(hObject, eventdata) %------------------------------------------------------------------------ list=get(hObject,'String'); index=get(hObject,'Value'); rootroot=get(hObject,'UserData'); filename=list{index}; ind_dot=strfind(filename,'...'); if ~isempty(ind_dot) filename=filename(1:ind_dot-1); end filename=fullfile(rootroot,filename); if exist(filename,'file')%visualise the vel field if it exists uvmat(filename) set(gcbo,'Value',1) end