[616] | 1 | % function ParamOut=particle_tracking(Param) |
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| 2 | % |
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| 3 | % Method: |
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| 4 | |
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| 5 | % Organization of image indices: |
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| 6 | |
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| 7 | %INPUT: |
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| 8 | % num_i1: matrix of image indices i |
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| 9 | % num_j1: matrix of image indices j, must be the same size as num_i1 |
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| 10 | % num_i2 and num_j2: not used for a function acting on images |
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| 11 | % Series: matlab structure containing parameters, as defined by the interface UVMAT/series |
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| 12 | % Series.RootPath{1}: path to the image series |
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| 13 | % Series.RootFile{1}: root file name |
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| 14 | % Series.FileExt{1}: image file extension |
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| 15 | % Series.NomType{1}: nomenclature type for file in |
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| 16 | % |
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| 17 | % Method: |
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| 18 | % Series.NbSlice: %number of slices defined on the interface |
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| 19 | % global A rangx0 rangy0 minA maxA; % make current image A accessible in workspace |
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| 20 | % global hfig1 hfig2 scalar |
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| 21 | % global Abackg nbpart lum diam |
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| 22 | %%%%%%%%%%%%%%ù |
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| 23 | % |
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| 24 | %%%%%%%%%%% GENERAL TO ALL SERIES ACTION FCTS %%%%%%%%%%%%%%%%%%%%%%%%%%% |
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| 25 | % |
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| 26 | %OUTPUT |
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| 27 | % ParamOut: sets options in the GUI series.fig needed for the function |
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| 28 | % |
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| 29 | %INPUT: |
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| 30 | % In run mode, the input parameters are given as a Matlab structure Param copied from the GUI series. |
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| 31 | % In batch mode, Param is the name of the corresponding xml file containing the same information |
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| 32 | % when Param.Action.RUN=0 (as activated when the current Action is selected |
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| 33 | % in series), the function ouput paramOut set the activation of the needed GUI elements |
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| 34 | % |
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| 35 | % Param contains the elements:(use the menu bar command 'export/GUI config' in series to |
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| 36 | % see the current structure Param) |
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| 37 | % .InputTable: cell of input file names, (several lines for multiple input) |
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| 38 | % each line decomposed as {RootPath,SubDir,Rootfile,NomType,Extension} |
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| 39 | % .OutputSubDir: name of the subdirectory for data outputs |
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| 40 | % .OutputDirExt: directory extension for data outputs |
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| 41 | % .Action: .ActionName: name of the current activated function |
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| 42 | % .ActionPath: path of the current activated function |
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| 43 | % .ActionExt: fct extension ('.m', Matlab fct, '.sh', compiled Matlab fct |
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| 44 | % .RUN =0 for GUI input, =1 for function activation |
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| 45 | % .RunMode='local','background', 'cluster': type of function use |
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| 46 | % |
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| 47 | % .IndexRange: set the file or frame indices on which the action must be performed |
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| 48 | % .FieldTransform: .TransformName: name of the selected transform function |
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| 49 | % .TransformPath: path of the selected transform function |
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| 50 | % .InputFields: sub structure describing the input fields withfields |
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| 51 | % .FieldName: name(s) of the field |
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| 52 | % .VelType: velocity type |
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| 53 | % .FieldName_1: name of the second field in case of two input series |
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| 54 | % .VelType_1: velocity type of the second field in case of two input series |
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| 55 | % .Coord_y: name of y coordinate variable |
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| 56 | % .Coord_x: name of x coordinate variable |
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| 57 | % .ProjObject: %sub structure describing a projection object (read from ancillary GUI set_object) |
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| 58 | %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% |
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| 59 | |
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[810] | 60 | %======================================================================= |
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| 61 | % Copyright 2008-2014, LEGI UMR 5519 / CNRS UJF G-INP, Grenoble, France |
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| 62 | % http://www.legi.grenoble-inp.fr |
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| 63 | % Joel.Sommeria - Joel.Sommeria (A) legi.cnrs.fr |
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| 64 | % |
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| 65 | % This file is part of the toolbox UVMAT. |
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| 66 | % |
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| 67 | % UVMAT is free software; you can redistribute it and/or modify |
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| 68 | % it under the terms of the GNU General Public License as published |
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| 69 | % by the Free Software Foundation; either version 2 of the license, |
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| 70 | % or (at your option) any later version. |
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| 71 | % |
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| 72 | % UVMAT is distributed in the hope that it will be useful, |
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| 73 | % but WITHOUT ANY WARRANTY; without even the implied warranty of |
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| 74 | % MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the |
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| 75 | % GNU General Public License (see LICENSE.txt) for more details. |
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| 76 | %======================================================================= |
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| 77 | |
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[616] | 78 | function ParamOut=particle_tracking(Param) |
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| 79 | |
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| 80 | %% set the input elements needed on the GUI series when the action is selected in the menu ActionName |
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| 81 | if isstruct(Param) && isequal(Param.Action.RUN,0) |
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| 82 | % general settings of the GUI: |
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| 83 | ParamOut.AllowInputSort='off';% allow alphabetic sorting of the list of input file SubDir (options 'off'/'on', 'off' by default) |
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| 84 | ParamOut.WholeIndexRange='off';% prescribes the file index ranges from min to max (options 'off'/'on', 'off' by default) |
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| 85 | ParamOut.NbSlice='off'; %nbre of slices ('off' by default) |
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| 86 | ParamOut.VelType='off';% menu for selecting the velocity type (options 'off'/'one'/'two', 'off' by default) |
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| 87 | ParamOut.FieldName='off';% menu for selecting the field (s) in the input file(options 'off'/'one'/'two', 'off' by default) |
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| 88 | ParamOut.FieldTransform = 'off';%can use a transform function |
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| 89 | ParamOut.ProjObject='off';%can use projection object(option 'off'/'on', |
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| 90 | ParamOut.Mask='off';%can use mask option (option 'off'/'on', 'off' by default) |
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| 91 | ParamOut.OutputDirExt='.track';%set the output dir extension |
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| 92 | ParamOut.OutputFileMode='NbSlice';% '=NbInput': 1 output file per input file index, '=NbInput_i': 1 file per input file index i, '=NbSlice': 1 file per slice |
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| 93 | filecell=get_file_series(Param);%check existence of the first input file |
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| 94 | if ~exist(filecell{1,1},'file') |
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| 95 | msgbox_uvmat('WARNING','the first input file does not exist') |
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| 96 | end |
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| 97 | % parameters specific to the function 'particle_tracking' |
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[804] | 98 | Par.Nblock=10;%size of image subblocks for background determination, =[]: no sublock |
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| 99 | Par.ThreshLum=70;% luminosity threshold for particle detection, < 0 for black particles, >0 for white particles |
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| 100 | ParamOut.ActionInput=Par; |
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[618] | 101 | return |
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[616] | 102 | end |
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| 103 | |
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| 104 | %%%%%%%%%%%% STANDARD RUN PART %%%%%%%%%%%% |
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| 105 | ParamOut=[]; |
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| 106 | %% read input parameters from an xml file if input is a file name (batch mode) |
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| 107 | checkrun=1; |
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| 108 | if ischar(Param) |
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| 109 | Param=xml2struct(Param);% read Param as input file (batch case) |
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| 110 | checkrun=0; |
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| 111 | end |
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[804] | 112 | hseries=findobj(allchild(0),'Tag','series'); |
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| 113 | RUNHandle=findobj(hseries,'Tag','RUN');%handle of RUN button in GUI series |
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| 114 | WaitbarHandle=findobj(hseries,'Tag','Waitbar');%handle of waitbar in GUI series |
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[616] | 115 | |
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| 116 | %% define the directory for result file |
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| 117 | OutputDir=[Param.OutputSubDir Param.OutputDirExt]; |
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| 118 | |
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| 119 | %% root input file(s) name, type and index series |
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| 120 | RootPath=Param.InputTable{1,1}; |
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| 121 | RootFile=Param.InputTable{1,3}; |
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| 122 | SubDir=Param.InputTable{1,2}; |
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| 123 | NomType=Param.InputTable{1,4}; |
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| 124 | FileExt=Param.InputTable{1,5}; |
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| 125 | [filecell,i1_series,i2_series,j1_series,j2_series]=get_file_series(Param); |
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| 126 | %%%%%%%%%%%% |
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| 127 | % The cell array filecell is the list of input file names, while |
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| 128 | % filecell{iview,fileindex}: |
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| 129 | % iview: line in the table corresponding to a given file series |
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| 130 | % fileindex: file index within the file series, |
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| 131 | % 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 |
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| 132 | % i1_series(iview,fileindex) expresses the same indices as a 1D array in file indices |
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| 133 | %%%%%%%%%%%% |
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| 134 | nbview=numel(i1_series);%number of input file series (lines in InputTable) |
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| 135 | nbfield_j=size(i1_series{1},1); %nb of fields for the j index (bursts or volume slices) |
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| 136 | nbfield_i=size(i1_series{1},2); %nb of fields for the i index |
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| 137 | nbfield=nbfield_j*nbfield_i; %total number of fields |
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| 138 | |
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[618] | 139 | %% frame index for movie or multimage file input |
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| 140 | if ~isempty(j1_series{1}) |
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| 141 | frame_index=j1_series{1}; |
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| 142 | else |
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| 143 | frame_index=i1_series{1}; |
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| 144 | end |
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| 145 | |
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[616] | 146 | %% check the input file type |
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[784] | 147 | [FileInfo,VideoObject]=get_file_info(filecell{1,1}); |
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[783] | 148 | FileType=FileInfo.FileType; |
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[616] | 149 | ImageTypeOptions={'image','multimage','mmreader','video'}; |
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| 150 | if isempty(find(strcmp(FileType,ImageTypeOptions))) |
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| 151 | disp('input file not images') |
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| 152 | return |
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| 153 | end |
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| 154 | |
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| 155 | %% calibration data and timing: read the ImaDoc files |
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| 156 | [XmlData,NbSlice_calib,time,errormsg]=read_multimadoc(RootPath,SubDir,RootFile,FileExt,i1_series,i2_series,j1_series,j2_series); |
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| 157 | |
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| 158 | %%%%%%%%%%%% SPECIFIC PART (to edit) %%%%%%%%%%%% |
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| 159 | %filter for particle center of mass(luminosity) |
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[804] | 160 | Nblock=Param.ActionInput.Nblock; |
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| 161 | ThreshLum=Param.ActionInput.ThreshLum;% luminosity threshold for particle detection, < 0 for black particles, >0 for white particles |
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| 162 | %AbsThreshold=30; %threshold below which a pixel is considered belonging to a float |
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[619] | 163 | % |
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[616] | 164 | hh=ones(5,5); |
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| 165 | hh(1,1)=0; |
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| 166 | hh(1,5)=0;% sum luminosity on the 5x5 domain without corners |
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| 167 | hh(5,1)=0; |
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| 168 | hh(5,5)=0; |
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| 169 | hdx=[-2:1:2]; |
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| 170 | hdy=[-2:1:2]; |
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| 171 | [hdX,hdY]=meshgrid(hdx,hdy); |
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| 172 | hdX(1,1)=0; |
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| 173 | hdX(1,5)=0;% sum luminosity on the 5x5 domain -corners |
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| 174 | hdX(5,1)=0; |
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| 175 | hdX(5,5)=0; |
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| 176 | hdY(1,1)=0; |
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| 177 | hdY(1,5)=0;% sum luminosity on the 5x5 domain -corners |
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| 178 | hdY(5,1)=0; |
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| 179 | hdY(5,5)=0; |
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| 180 | |
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| 181 | %% mask to reduce the working area (optional) |
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| 182 | CheckMask=0; |
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| 183 | if isfield(Param,'CheckMask') && isequal(Param.CheckMask,1) |
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| 184 | [maskname,TestMask]=name_generator([filebase '_1mask'],1,1,'.png','_i'); |
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| 185 | MaskIma=imread(maskname); |
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| 186 | Mask=MaskIma>=200;%=1 for good points, 0 for bad |
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| 187 | CheckMask=1; |
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| 188 | end |
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| 189 | |
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[619] | 190 | %%%%%% MAIN LOOP ON FRAMES %%%%%% |
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[616] | 191 | for ifile=1:nbfield |
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| 192 | if checkrun |
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[804] | 193 | update_waitbar(WaitbarHandle,ifile/nbfield) |
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| 194 | if ~isempty(RUNHandle) &&ishandle(RUNHandle) && ~strcmp(get(RUNHandle,'BusyAction'),'queue') |
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| 195 | disp('program stopped by user') |
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| 196 | return |
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[616] | 197 | end |
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| 198 | end |
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[804] | 199 | j1=1; |
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[618] | 200 | if ~isempty(j1_series)&&~isequal(j1_series,{[]}) |
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| 201 | j1=j1_series{1}(ifile); |
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| 202 | end |
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| 203 | filename=fullfile_uvmat(RootPath,SubDir,RootFile,FileExt,NomType,i1_series{1}(ifile),[],j1); |
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[619] | 204 | A=read_image(filename,FileType,VideoObject,frame_index(ifile));% read the current frame |
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[616] | 205 | if ndims(A)==3;%color images |
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[618] | 206 | A=sum(double(A),3);% take the sum of color components |
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[616] | 207 | end |
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| 208 | if ThreshLum<0 |
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| 209 | A=max(max(A))-A;%take the negative |
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| 210 | end |
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[618] | 211 | if CheckMask |
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[616] | 212 | A=A.*Mask; |
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| 213 | end |
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| 214 | if isempty(Nblock) |
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| 215 | A=A-min(min(A));%substract absolute mean |
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| 216 | else |
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| 217 | Aflagmin=sparse(imregionalmin(A));%Amin=1 for local image minima |
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| 218 | Amin=A.*Aflagmin;%values of A at local minima |
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| 219 | % local background: find all the local minima in image subblocks |
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| 220 | sumblock= inline('sum(sum(x(:)))'); |
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| 221 | Backgi=blkproc(Amin,[Nblock Nblock],sumblock);% take the sum in blocks |
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| 222 | Bmin=blkproc(Aflagmin,[Nblock Nblock],sumblock);% find the number of minima in blocks |
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| 223 | Backgi=Backgi./Bmin; % find the average of minima in blocks |
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| 224 | % Backg=Backg+Backgi; |
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| 225 | Backg=Backgi; |
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| 226 | A=A-imresize(Backg/nburst(1),size(A),'bilinear');% interpolate to the initial size image and substract |
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| 227 | end |
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[618] | 228 | Aflagmax=sparse(imregionalmax(A));%find local maxima |
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| 229 | Plum=imfilter(A,hh);% sum A on 5x% domains |
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[616] | 230 | Plum=Aflagmax.*Plum;% Plum gives the particle luminosity at each particle location, 0 elsewhere |
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| 231 | %make statistics on particles,restricted to a subdomain Sub |
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| 232 | [Js,Is,lum]=find(Plum);%particle luminosity |
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| 233 | Plum=(Plum>ThreshLum).*Plum;% introduce a threshold for particle luminosity |
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| 234 | Aflagmax=Aflagmax.*(Plum>ThreshLum); |
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| 235 | [Js,Is,lum]=find(Plum);%particle luminosity |
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| 236 | nbtotal=size(Is) |
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| 237 | nbtotal=nbtotal(1); |
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| 238 | %particle size |
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[618] | 239 | Parea=Aflagmax.*(Plum./A); %particle luminosity/max luminosity=area |
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[616] | 240 | Pdiam=sqrt(Parea); |
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| 241 | [Js,Is,diam]=find(Pdiam);%particle location |
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| 242 | |
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| 243 | %%%%%%%%%%%%%%%%%%%%% |
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| 244 | |
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| 245 | %nbre of particles per block |
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| 246 | % nbpart=blkproc(Aflagmax,[Nblock Nblock],sumblock);% |
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| 247 | % npb=size(nbpart); |
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| 248 | % rangxb=[0.5 (npb(2)-0.5)]*Nblock; % pixel x coordinates for image display |
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| 249 | % rangyb=[(npb(1)-0.5) 0.5]*Nblock; % pixel y coordinates for image display |
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| 250 | % image(rangxb,rangyb,nbpart); |
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| 251 | |
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| 252 | % get the particle centre of mass |
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[618] | 253 | dx=imfilter(A,hdX); |
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| 254 | dy=imfilter(A,-hdY); |
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[616] | 255 | dx=Aflagmax.*(dx./Plum); |
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| 256 | dy=Aflagmax.*(dy./Plum); |
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| 257 | dx=dx/pxcm; |
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| 258 | dy=dy/pycm; |
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| 259 | I=([1:npxy(2)]-0.5)/pxcm; %x pos |
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| 260 | J=([npxy(1):-1:1]-0.5)/pycm; %y pos |
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| 261 | [Ipos,Jpos]=meshgrid(I,J); |
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| 262 | Ipos=reshape(Ipos,1,npxy(2)*npxy(1)); |
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| 263 | Jpos=reshape(Jpos,1,npxy(2)*npxy(1)); |
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| 264 | dx=reshape(dx,1,npxy(2)*npxy(1)); |
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| 265 | dy=reshape(dy,1,npxy(2)*npxy(1)); |
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| 266 | Aflag=reshape(Aflagmax,1,npxy(2)*npxy(1)); |
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| 267 | ind=find(Aflag);% select particle positions |
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| 268 | XPart{ifile}=Ipos(ind)+dx(ind); |
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| 269 | YPart{ifile}=Jpos(ind)+dy(ind); |
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| 270 | end |
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| 271 | hold off |
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| 272 | |
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| 273 | size(XPart{1}) |
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| 274 | |
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| 275 | %%%%%%%%%%%%%%%%%%%%%%%%%%%%% |
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| 276 | %Trajectoires |
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| 277 | %%%%%%%%%%%%%%%%%%%%%%%%%%%%% |
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| 278 | for ifile=1:nbfield |
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| 279 | |
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| 280 | [XPart{ifile},YPart{ifile}]=phys_XYZ(Calib,XPart{ifile},YPart{ifile}); |
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| 281 | |
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| 282 | end |
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| 283 | |
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| 284 | if nbfield>2 |
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| 285 | figpart=figure |
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| 286 | hold on |
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| 287 | plot(XPart{1}(:),YPart{1}(:),'r+') |
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| 288 | plot(XPart{2}(:),YPart{2}(:),'b+') |
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| 289 | plot(XPart{3}(:),YPart{3}(:),'y+') |
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| 290 | legend('particules image 1','particules image 2','particules image 3'); |
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| 291 | xlabel('x (cm)'); |
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| 292 | ylabel('y (cm)'); |
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| 293 | title('Position des particules') |
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| 294 | else |
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| 295 | figpart=figure |
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| 296 | hold on |
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| 297 | plot(XPart{1}(:),YPart{1}(:),'r+') |
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| 298 | plot(XPart{2}(:),YPart{2}(:),'b+') |
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| 299 | legend('particules image 1','particules image 2'); |
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| 300 | xlabel('x (cm)'); |
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| 301 | ylabel('y (cm)'); |
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| 302 | title('Position des particules') |
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| 303 | end |
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| 304 | |
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| 305 | % prompt={'Ymin (cm)','Ymax( cm)','Xmin (cm)','Xmax (cm)'}; |
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| 306 | % Rep=inputdlg(prompt,'Experiment'); |
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| 307 | % Ymin=str2double(Rep(1)); |
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| 308 | % Ymax=str2double(Rep(2)); |
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| 309 | % Xmin=str2double(Rep(3)); |
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| 310 | % Xmax=str2double(Rep(4)); |
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| 311 | |
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| 312 | Ymin=6; |
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| 313 | Ymax=14; |
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| 314 | Xmin=15; |
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| 315 | Xmax=35; |
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| 316 | |
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| 317 | plot(Xmin,Ymin,'g+') |
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| 318 | plot(Xmin,Ymax,'g+') |
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| 319 | plot(Xmax,Ymin,'g+') |
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| 320 | plot(Xmax,Ymax,'g+') |
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| 321 | |
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| 322 | |
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| 323 | for ima=2:nbfield |
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| 324 | t{1}=0*ones(size(XPart{1},2),1); |
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| 325 | burst(1)=0; |
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| 326 | burst(2)=0.018; |
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| 327 | burst(3)=0.036; |
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| 328 | % nburst=strcat('burst',num2str(ima-1),'-',num2str(ima),' (s)'); |
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| 329 | % prompt={'burst (s)'}; |
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| 330 | % Rep=inputdlg(prompt,nburst); |
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| 331 | % burst(ima)=str2double(Rep(1)); |
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| 332 | t{ima}=(burst(ima)+burst(ima-1))*ones(size(XPart{ima},2),1); |
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| 333 | end |
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| 334 | |
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| 335 | |
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| 336 | |
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| 337 | for ima=1:nbfield |
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| 338 | |
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| 339 | IndY{ima}=find(YPart{ima}>Ymin & YPart{ima}<Ymax & XPart{ima}>Xmin & XPart{ima}<Xmax); |
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| 340 | XPart{ima}=XPart{ima}(IndY{ima}); |
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| 341 | YPart{ima}=YPart{ima}(IndY{ima}); |
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| 342 | |
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| 343 | |
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| 344 | end |
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| 345 | |
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| 346 | |
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| 347 | |
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| 348 | %%%%%%%%%%%%%%%%%%%%%%% |
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| 349 | % Calcul de v1 |
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| 350 | %%%%%%%%%%%%%%%%%%%%%%% |
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| 351 | |
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| 352 | for i=1:size(XPart{1},2) |
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| 353 | MatPos{1}(i,1)=XPart{1}(i); |
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| 354 | MatPos{1}(i,2)=YPart{1}(i); |
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| 355 | MatPos{1}(i,3)=t{1}(i); |
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| 356 | %MatPos{1}(i,4)=i; |
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| 357 | end |
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| 358 | |
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| 359 | for j=1:size(XPart{2},2)-1 |
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| 360 | MatPos{1}(j+size(XPart{1},2),1)=XPart{2}(j); |
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| 361 | MatPos{1}(j+size(XPart{1},2),2)=YPart{2}(j); |
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| 362 | MatPos{1}(j+size(XPart{1},2),3)=t{2}(j); |
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| 363 | %MatPos{1}(j,4)=j+size(XPart{1},2); |
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| 364 | end |
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| 365 | |
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| 366 | % Dmax=inputdlg('Entrer la distance maximum (0.25 cm)','dmax (cm)',1) |
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| 367 | % dmax=str2num(Dmax{1}); |
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| 368 | dmax=0.23; |
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| 369 | |
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| 370 | result{1}=track(MatPos{1},dmax); |
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| 371 | |
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| 372 | izero=1; |
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| 373 | for itest=1:1:size(result{1},1)-1 |
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| 374 | if result{1}(itest+1,4)==result{1}(itest,4) |
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| 375 | vitu{1}(izero,1)=(result{1}(itest+1,1)-result{1}(itest,1))/burst(2); |
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| 376 | vitu{1}(izero,2)=result{1}(itest,4); |
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| 377 | vitv{1}(izero,1)=(result{1}(itest+1,2)-result{1}(itest,2))/burst(2); |
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| 378 | vitv{1}(izero,2)=result{1}(itest,4); |
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| 379 | MatPos{2}(izero,1)=result{1}(itest,1); |
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| 380 | MatPos{2}(izero,2)=result{1}(itest,2); |
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| 381 | izero=izero+1; |
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| 382 | end |
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| 383 | end |
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| 384 | |
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| 385 | |
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| 386 | vitfu{1}=vitu{1}; |
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| 387 | vitfv{1}=vitv{1}; |
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| 388 | |
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| 389 | |
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| 390 | %%%%%%%%%%%%%%%%%%%%%%% |
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| 391 | % Calcul de vi |
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| 392 | %%%%%%%%%%%%%%%%%%%%%%% |
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| 393 | |
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| 394 | |
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| 395 | if nbfield>2 |
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| 396 | for ima=2:nbfield-1 |
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| 397 | |
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| 398 | for i=1:size(MatPos{ima},1) |
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| 399 | MatPos{ima+1}(i,1)=MatPos{ima}(i,1)+(burst(ima+1)*vitfu{ima-1}(i)); |
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| 400 | MatPos{ima+1}(i,2)=MatPos{ima}(i,2)+(burst(ima+1)*vitfv{ima-1}(i)); |
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| 401 | MatPos{ima+1}(i,3)=t{ima}(i); |
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| 402 | end |
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| 403 | |
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| 404 | for j=1:size(XPart{ima+1},2)-1 |
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| 405 | MatPos{ima+1}(j+size(MatPos{ima},1),1)=XPart{ima+1}(j); |
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| 406 | MatPos{ima+1}(j+size(MatPos{ima},1),2)=YPart{ima+1}(j); |
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| 407 | MatPos{ima+1}(j+size(MatPos{ima},1),3)=t{ima+1}(j); |
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| 408 | end |
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| 409 | |
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| 410 | |
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| 411 | result{ima}=track(MatPos{ima+1},0.15); |
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| 412 | |
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| 413 | izero=1; |
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| 414 | for itest=1:1:size(result{ima},1)-1 |
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| 415 | if result{ima}(itest+1,4)==result{ima}(itest,4) |
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| 416 | vitu{ima}(izero,1)=(result{ima}(itest+1,1)-result{ima}(itest,1))/burst(ima+1); |
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| 417 | vitu{ima}(izero,2)=result{ima}(itest,4); |
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| 418 | vitv{ima}(izero,1)=(result{ima}(itest+1,2)-result{ima}(itest,2))/burst(ima+1); |
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| 419 | vitv{ima}(izero,2)=result{ima}(itest,4); |
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| 420 | MatPos{ima+2}(izero,1)=result{ima}(itest,1); |
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| 421 | MatPos{ima+2}(izero,2)=result{ima}(itest,2); |
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| 422 | izero=izero+1; |
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| 423 | end |
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| 424 | end |
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| 425 | |
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| 426 | i=vitu{ima}(1,2):1:vitu{ima}(end,2) |
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| 427 | |
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| 428 | vitfu{ima}(:,1)=vitfu{ima-1}(i,1)+vitu{ima}(:,1); |
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| 429 | vitfv{ima}(:,1)=vitfv{ima-1}(i,1)+vitv{ima}(:,1); |
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| 430 | vitfu{ima}(:,2)=vitu{ima}(:,2); |
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| 431 | vitfv{ima}(:,2)=vitv{ima}(:,2); |
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| 432 | |
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| 433 | vitfu{ima-1}=vitfu{ima-1}(i,1); |
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| 434 | vitfu{ima-1}(:,2)=i; |
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| 435 | vitfv{ima-1}=vitfv{ima-1}(i,1); |
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| 436 | vitfv{ima-1}(:,2)=i; |
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| 437 | i=1:1:size(vitfu{ima-1},1) |
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| 438 | xpos=MatPos{2}(i,1) |
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| 439 | ypos=MatPos{2}(i,2) |
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| 440 | end |
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| 441 | end |
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| 442 | |
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| 443 | |
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| 444 | |
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| 445 | figure |
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| 446 | hold on |
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| 447 | plot(MatPos{1}(:,1),MatPos{1}(:,2),'r+') |
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| 448 | plot(MatPos{2}(:,1),MatPos{2}(:,2),'b+') |
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| 449 | plot(MatPos{4}(:,1),MatPos{4}(:,2),'y+') |
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| 450 | quiver(xpos(:),ypos(:),vitfu{1}(:,1),vitfv{1}(:,1),'g') |
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| 451 | quiver(MatPos{4}(:,1),MatPos{4}(:,2),vitfu{2}(:,1),vitfv{2}(:,1),'k') |
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| 452 | legend('particules image 1','particules image 2', 'particules image 3','vitesse 1-2 (cm/s)','vitesse 2-3 (cm/s)'); |
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| 453 | xlabel('x (cm)'); |
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| 454 | ylabel('y (cm)'); |
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| 455 | title('Position et vitesse (cm/s) des particules') |
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| 456 | |
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| 457 | |
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| 458 | for i=1:size(vitfu{end},1) |
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| 459 | vitfuadd(i)=0; |
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| 460 | vitfvadd(i)=0; |
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| 461 | end |
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| 462 | |
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| 463 | |
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| 464 | |
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| 465 | for i=1:1:size(vitfu{end}(:,1)) |
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| 466 | |
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| 467 | for j=1:nbfield-1 |
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| 468 | vitfuadd(i)= vitfuadd(i)+vitfu{j}(i,1); |
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| 469 | vitfvadd(i)= vitfvadd(i)+vitfv{j}(i,1); |
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| 470 | xpos1(i)=MatPos{1}(i,1); |
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| 471 | ypos1(i)=MatPos{1}(i,2); |
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| 472 | xpos2(i)=MatPos{2}(i,1); |
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| 473 | ypos2(i)=MatPos{2}(i,2); |
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| 474 | |
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| 475 | end |
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| 476 | end |
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| 477 | sizexpos1=size(xpos1) |
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| 478 | |
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| 479 | vitfumoy=vitfuadd./(nbfield-1) |
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| 480 | vitfvmoy=vitfvadd./(nbfield-1) |
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| 481 | |
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| 482 | testresult1=result{1} |
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| 483 | testresult2=result{2} |
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| 484 | |
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| 485 | if nbfield>2 |
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| 486 | figure |
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| 487 | hold on |
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| 488 | plot(MatPos{1}(:,1),MatPos{1}(:,2),'r+') |
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| 489 | plot(MatPos{2}(:,1),MatPos{2}(:,2),'b+') |
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| 490 | quiver(xpos2(:),ypos2(:),vitfumoy(:),vitfvmoy(:),'g') |
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| 491 | legend('particules image 1','particules image 2', 'vitesse moyenne (cm/s)'); |
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| 492 | xlabel('x (cm)'); |
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| 493 | ylabel('y (cm)'); |
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| 494 | title('Position et vitesse (cm/s) des particules') |
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| 495 | |
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| 496 | else |
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| 497 | |
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| 498 | figure |
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| 499 | hold on |
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| 500 | plot(MatPos{1}(:,1),MatPos{1}(:,2),'r+') |
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| 501 | plot(MatPos{2}(:,1),MatPos{2}(:,2),'b+') |
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| 502 | quiver(MatPos{2}(:,1),MatPos{2}(:,2),vitfu{1}(:),vitfv{1}(:),'g') |
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| 503 | legend('particules image 1','particules image 2','vitesse 1-2 (cm/s)'); |
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| 504 | xlabel('x (cm)'); |
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| 505 | ylabel('y (cm)'); |
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| 506 | title('Position et vitesse (cm/s) des particules') |
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| 507 | |
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| 508 | vitfumoy=vitfu{1}; |
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| 509 | vitfvmoy=vitfv{1}; |
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| 510 | |
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| 511 | end |
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| 512 | |
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| 513 | VitData.NbDim=2; |
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| 514 | VitData.NbCoord=2; |
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| 515 | VitData.CoordType='phys'; |
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| 516 | VitData.dt=0.0185; |
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| 517 | VitData.CoordUnit='cm'; |
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| 518 | VitData.Z=0; |
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| 519 | VitData.ListDimName={'nb_vectors'}; |
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| 520 | VitData.DimValue=size(vitfumoy,2); |
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| 521 | VitData.ListVarName={'X' 'Y' 'U' 'V' 'F'}; |
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| 522 | VitData.VarDimIndex={[1] [1] [1] [1] [1]}; |
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| 523 | VitData.ListVarAttribute={'Role'}; |
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| 524 | VitData.Role={'coord_x' 'coord_y' 'vector_x' 'vector_y' 'warnflag'}; |
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| 525 | |
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| 526 | if nbfield>2 |
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| 527 | VitData.X=size(MatPos{4},1); |
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| 528 | VitData.Y=size(MatPos{4},2); |
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| 529 | else |
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| 530 | VitData.X=size(MatPos{2},1); |
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| 531 | VitData.Y=size(MatPos{2},2); |
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| 532 | end |
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| 533 | |
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| 534 | VitData.U=size(vitfumoy,2); |
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| 535 | VitData.V=size(vitfvmoy,2); |
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| 536 | VitData.Style='plane'; |
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| 537 | VitData.Time=[198.5203 198.5203]; |
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| 538 | VitData.Action=Series.Action; |
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| 539 | |
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| 540 | if nbfield>2 |
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| 541 | VitData.X=MatPos{4}(:,1)'; |
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| 542 | VitData.Y=MatPos{4}(:,2)'; |
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| 543 | else |
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| 544 | VitData.X=MatPos{2}(:,1)'; |
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| 545 | VitData.Y=MatPos{2}(:,2)'; |
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| 546 | end |
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| 547 | |
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| 548 | VitData.U=vitfumoy(:)'; |
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| 549 | VitData.V=vitfvmoy(:)'; |
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| 550 | |
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| 551 | if length(VitData.ListVarName) >= 4 & isequal(VitData.ListVarName(1:4), {'X' 'Y' 'U' 'V'}) |
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| 552 | VitData.ListAttribute={'nb_coord','nb_dim','dt','pixcmx','pixcmy','hart','civ','fix'}; |
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| 553 | VitData.nb_coord=2; |
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| 554 | VitData.nb_dim=2; |
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| 555 | VitData.dt=0.018; |
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| 556 | VitData.absolut_time_T0=0; |
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| 557 | VitData.pixcmx=1; %pix per cm (1 by default) |
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| 558 | VitData.pixcmy=1; %pix per cm (1 by default) |
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| 559 | VitData.hart=0; |
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| 560 | if isequal(VitData.CoordType,'px') |
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| 561 | VitData.civ=1; |
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| 562 | else |
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| 563 | VitData.civ=0; |
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| 564 | end |
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| 565 | VitData.fix=0; |
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| 566 | VitData.ListVarName(1:4)={'vec_X' 'vec_Y' 'vec_U' 'vec_V'}; |
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| 567 | VitData.vec_X=VitData.X; |
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| 568 | VitData.vec_Y=VitData.Y; |
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| 569 | VitData.vec_U=VitData.U; |
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| 570 | VitData.vec_V=VitData.V; |
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| 571 | end |
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| 572 | currentdir=pwd;%store the current working directory |
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| 573 | [Path_ima,Name]=fileparts(filebase);%Path of the image files (.civ) |
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| 574 | cd(Path_ima);%move to the directory of the images: needed to create the result dir by 'mkdir' |
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| 575 | dircur=pwd; %current working directory |
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| 576 | [m1,m2,m3]=mkdir('TRACK_test') |
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| 577 | cd(currentdir) |
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| 578 | [filename_nc,idetect]=name_generator(filebase,num_i1(1),num_j1(1),'.nc','_i_j1-j2',1,num_i1(1),num_j1(2),'TRACK_test') |
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| 579 | error=struct2nc(filename_nc,VitData); %save result file |
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| 580 | if isequal(error,0) |
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| 581 | [filename_nc ' written'] |
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| 582 | else |
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| 583 | warndlg_uvmat(error,'ERROR') |
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| 584 | end |
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| 585 | |
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