source: trunk/src/civ_uvmat.m @ 310

Last change on this file since 310 was 309, checked in by sommeria, 13 years ago

many bugs corrected, cleaning of civ.m, resize of the GUI civ

File size: 37.6 KB
Line 
1%'civ_matlab': Matlab version of the PIV programs CivX
2% --- call the sub-functions:
3%   civ: PIV function itself
4%   fix: removes false vectors after detection by various criteria
5%   patch: make interpolation-smoothing
6%------------------------------------------------------------------------
7% function [Data,errormsg,result_conv]= civ_uvmat(Param,ncfile)
8%
9%OUTPUT
10% Data=structure containing the PIV results and information on the processing parameters
11% errormsg=error message char string, default=''
12% resul_conv: image inter-correlation function for the last grid point (used for tests)
13%
14%INPUT:
15% Param: input images and processing parameters
16% ncfile: name of a netcdf file to be created for the result (extension .nc)
17%
18%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19%  Copyright  2011, LEGI / CNRS-UJF-INPG, joel.sommeria@legi.grenoble-inp.fr.
20%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21%     This is part of the toolbox UVMAT.
22%
23%     UVMAT is free software; you can redistribute it and/or modify
24%     it under the terms of the GNU General Public License as published by
25%     the Free Software Foundation; either version 2 of the License, or
26%     (at your option) any later version.
27%
28%     UVMAT is distributed in the hope that it will be useful,
29%     but WITHOUT ANY WARRANTY; without even the implied warranty of
30%     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
31%     GNU General Public License (open UVMAT/COPYING.txt) for more details.
32%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
33
34function [Data,errormsg,result_conv]= civ_uvmat(Param,ncfile)
35errormsg='';
36Data.ListGlobalAttribute={'Conventions','Program','CivStage'};
37Data.Conventions='uvmat/civdata';% states the conventions used for the description of field variables and attributes
38Data.Program='civ_uvmat';
39Data.CivStage=0;%default
40ListVarCiv1={'Civ1_X','Civ1_Y','Civ1_U','Civ1_V','Civ1_C','Civ1_F'}; %variables to read
41ListVarFix1={'Civ1_X','Civ1_Y','Civ1_U','Civ1_V','Civ1_C','Civ1_F','Civ1_FF'};
42mask='';
43maskname='';%default
44test_civx=0;%default
45test_civ1=0;%default
46test_patch1=0;%default
47
48%% Civ1
49if isfield (Param,'Civ1')
50    test_civ1=1;% test for further use of civ1 results
51    par_civ1=Param.Civ1;
52    image1=imread(par_civ1.filename_ima_a);
53    image2=imread(par_civ1.filename_ima_b);
54    ibx2=ceil(par_civ1.Bx/2);
55    iby2=ceil(par_civ1.By/2);
56    isx2=ceil(par_civ1.Searchx/2);
57    isy2=ceil(par_civ1.Searchy/2);
58    shiftx=par_civ1.Shiftx;
59    shifty=par_civ1.Shifty;
60    miniy=max(1+isy2+shifty,1+iby2);
61    minix=max(1+isx2-shiftx,1+ibx2);
62    maxiy=min(size(image1,1)-isy2+shifty,size(image1,1)-iby2);
63    maxix=min(size(image1,2)-isx2-shiftx,size(image1,2)-ibx2);
64    if ~isfield(par_civ1,'PointCoord')   
65        [GridX,GridY]=meshgrid(minix:par_civ1.Dx:maxix,miniy:par_civ1.Dy:maxiy);
66        par_civ1.PointCoord(:,1)=reshape(GridX,[],1);
67        par_civ1.PointCoord(:,2)=reshape(GridY,[],1);
68    end
69    if par_civ1.CheckMask && isfield(par_civ1,'MaskName') && ~isempty(par_civ1.MaskName)
70        maskname=par_civ1.MaskName;
71        mask=imread(maskname);
72    end
73    % caluclate velocity data (y and v in indices, reverse to y component)
74    [xtable ytable utable vtable ctable F result_conv errormsg] = civ (image1,image2,ibx2,iby2,isx2,isy2,shiftx,-shifty,par_civ1.PointCoord,par_civ1.Rho, mask);
75    list_param=(fieldnames(par_civ1))';
76    list_remove={'pxcmx','pxcmy','npx','npy','gridflag','maskflag','term_a','term_b','T0'};
77    index_remove=zeros(size(list_param));
78    for name=list_remove %loop on the list of names
79        index_remove=index_remove +strcmp(name{1},list_param);%index of the current name = name{1}
80    end
81    list_param(find(index_remove,1))=[];
82    Civ1_param=list_param;%initialisation
83    for ilist=1:length(list_param)
84        Civ1_param{ilist}=['Civ1_' list_param{ilist}];
85        Data.(['Civ1_' list_param{ilist}])=par_civ1.(list_param{ilist});
86    end
87    if isfield(Data,'Civ1_gridname') && strcmp(Data.Civ1_gridname(1:6),'noFile')
88        Data.Civ1_gridname='';
89    end
90    if isfield(Data,'Civ1_maskname') && strcmp(Data.Civ1_maskname(1:6),'noFile')
91        Data.Civ1_maskname='';
92    end
93    Data.ListGlobalAttribute=[Data.ListGlobalAttribute Civ1_param {'Civ1_Time','Civ1_Dt'}];
94    Data.Civ1_Time=str2double(par_civ1.T0);
95    Data.Civ1_Dt=str2double(par_civ1.Dt);
96    Data.ListVarName={'Civ1_X','Civ1_Y','Civ1_U','Civ1_V','Civ1_C','Civ1_F'};%  cell array containing the names of the fields to record
97    Data.VarDimName={'nbvec1','nbvec1','nbvec1','nbvec1','nbvec1','nbvec1'};
98    Data.VarAttribute{1}.Role='coord_x';
99    Data.VarAttribute{2}.Role='coord_y';
100    Data.VarAttribute{3}.Role='vector_x';
101    Data.VarAttribute{4}.Role='vector_y';
102    Data.VarAttribute{5}.Role='warnflag';
103    Data.Civ1_X=reshape(xtable,[],1);
104    Data.Civ1_Y=reshape(size(image1,1)-ytable+1,[],1);
105    Data.Civ1_U=reshape(utable,[],1);
106    Data.Civ1_V=reshape(-vtable,[],1);
107    Data.Civ1_C=reshape(ctable,[],1);
108    Data.Civ1_F=reshape(F,[],1);
109    Data.CivStage=1;
110else
111    Data=nc2struct(ncfile,'ListGlobalAttribute','absolut_time_T0'); %look for the constant 'absolut_time_T0' to detect old civx data format
112    if ~isempty(Data.absolut_time_T0')%read civx file
113        test_civx=1;% test for old civx data format
114        [Data,vardetect,ichoice]=nc2struct(ncfile);%read the variables in the netcdf file
115    else
116        if isfield(Param,'Fix1')
117            Data=nc2struct(ncfile,ListVarCiv1);%read civ1 data in the existing netcdf file
118        else
119            Data=nc2struct(ncfile,ListVarFix1);%read civ1 and fix1 data in the existing netcdf file
120        end
121    end
122    if isfield(Data,'Txt')
123        msgbox_uvmat('ERROR',Data.Txt)
124        return
125    end
126end
127
128%% Fix1
129%                 if Param.CheckCiv1==1
130%                     Param.Civ1=Param.Civ1;
131%                 end
132%                 if Param.CheckFix1==1
133%                     Param.Fix1=Param.Fix1;
134%                     fix1.WarnFlags=[];
135%                     if get(handles.CheckFmin2,'Value')
136%                         fix1.WarnFlags=[fix1.WarnFlags -2];
137%                     end
138%                     if get(handles.CheckF3,'Value')
139%                         fix1.WarnFlags=[fix1.WarnFlags 3];
140%                     end
141%                     fix1.LowerBoundCorr=thresh_vecC1;
142%                     if get(handles.num_MinVel,'Value')
143%                         fix1.UppperBoundVel=thresh_vel1;
144%                     else
145%                         fix1.LowerBoundVel=thresh_vel1;
146%                     end
147%                     if get(handles.CheckMask,'Value')
148%                         fix1.MaskName=maskname;
149%                     end
150%                     Param.Fix1=fix1;
151%                 end
152%                 if Param.CheckPatch1==1
153%                     if strcmp(compare,'stereo PIV')
154%                         filebase_A=filecell.filebase;
155%                         [pp,ff]=fileparts(filebase_A);
156%                         filebase_B=fullfile(pp,get(handles.RootName_1,'String'));
157%                         %TO CHECK: filecell.nc.civ1{ifile,j},filecell.ncA.civ1{ifile,j} have been switched according to Matias Duran
158%                         RUN_STLIN(filecell.nc.civ1{ifile,j},filecell.ncA.civ1{ifile,j},'civ1',filecell.st{ifile,j},...
159%                             str2num(nx_patch1),str2num(ny_patch1),str2num(thresh_patch1),[filebase_A '.xml'],[filebase_B '.xml'])
160%                     else
161%                         Param.Patch1.Rho=rho_patch1;
162%                         Param.Patch1.Threshold=thresh_patch1;
163%                         Param.Patch1.SubDomain=subdomain_patch1;
164%                     end
165%                 end
166%                 if Param.CheckCiv2==1
167%                     Param.Civ2=Param.Civ2;
168%                 end
169%                 if Param.CheckFix2==1
170%                     fix2.WarnFlags=[];
171%                     if get(handles.CheckFmin2,'Value')
172%                         fix2.WarnFlags=[fix2.WarnFlags -2];
173%                     end
174%                     if get(handles.CheckF4,'Value')
175%                         fix2.WarnFlags=[fix2.WarnFlags 4];
176%                     end
177%                     if get(handles.CheckF3,'Value')
178%                         fix2.WarnFlags=[fix2.WarnFlags 3];
179%                     end
180%                     fix2.LowerBoundCorr=thresh_vec2C;
181%                     if get(handles.num_MinVel,'Value')
182%                         fix2.UppperBoundVel=thresh_vel2;
183%                     else
184%                         fix2.LowerBoundVel=thresh_vel2;
185%                     end
186%                     if get(handles.CheckMask,'Value')
187%                         fix2.MaskName=maskname;
188%                     end
189%                     Param.Fix2=fix2;
190%                 end
191%                 if Param.CheckPatch2==1
192%                     if strcmp(compare,'stereo PIV')
193%                         filebase_A=filecell.filebase;
194%                         [pp,ff]=fileparts(filebase_A);
195%                         filebase_B=fullfile(pp,get(handles.RootName_1,'String'));
196%                         RUN_STLIN(filecell.ncA.civ2{ifile,j},filecell.nc.civ2{ifile,j},'civ2',filecell.st{ifile,j},...
197%                             str2num(nx_patch2),str2num(ny_patch2),str2num(thresh_patch2),[filebase_A '.xml'],[filebase_B '.xml'])
198%                     else
199%                         Param.Patch2.Rho=rho_patch2;
200%                         Param.Patch2.Threshold=thresh_patch2;
201%                         Param.Patch2.SubDomain=subdomain_patch2;
202%                     end
203%                 end
204
205if isfield (Param,'Fix1')
206    ListFixParam=fieldnames(Param.Fix1);
207    for ilist=1:length(ListFixParam)
208        ParamName=ListFixParam{ilist};
209        ListName=['Fix1_' ParamName];
210        eval(['Data.ListGlobalAttribute=[Data.ListGlobalAttribute ''' ParamName '''];'])
211        eval(['Data.' ListName '=Param.Fix1.' ParamName ';'])
212    end
213%     Data.ListGlobalAttribute=[Data.ListGlobalAttribute {'Fix1_WarnFlags','Fix1_TreshCorr','Fix1_TreshVel','Fix1_UpperBoundTest'}];
214%     Data.Fix1_WarnFlags=Param.Fix1.WarnFlags;
215%     Data.Fix1_ThreshCorr=Param.Fix1.ThreshCorr;
216%     Data.Fix1_ThreshVel=Param.Fix1.ThreshVel;
217%     Data.Fix1_UpperBoundTest=Param.Fix1.UpperBoundTest;
218
219    if test_civx
220        if ~isfield(Data,'fix')
221            Data.ListGlobalAttribute=[Data.ListGlobalAttribute 'fix'];
222            Data.fix=1;
223            Data.ListVarName=[Data.ListVarName {'vec_FixFlag'}];
224            Data.VarDimName=[Data.VarDimName {'nb_vectors'}];
225        end
226        Data.vec_FixFlag=fix(Param.Fix1,Data.vec_F,Data.vec_C,Data.vec_U,Data.vec_V,Data.vec_X,Data.vec_Y);
227    else
228        Data.ListVarName=[Data.ListVarName {'Civ1_FF'}];
229        Data.VarDimName=[Data.VarDimName {'nbvec1'}];
230        nbvar=length(Data.ListVarName);
231        Data.VarAttribute{nbvar}.Role='errorflag';   
232        Data.Civ1_FF=fix(Param.Fix1,Data.Civ1_F,Data.Civ1_C,Data.Civ1_U,Data.Civ1_V);
233        Data.CivStage=2;   
234    end
235end   
236%% Patch1
237if isfield (Param,'Patch1')
238    test_patch1=1;
239    Data.ListGlobalAttribute=[Data.ListGlobalAttribute {'Patch1_Rho','Patch1_Threshold','Patch1_SubDomain'}];
240    Data.Patch1_Rho=str2double(Param.Patch1.Rho);
241    Data.Patch1_Threshold=str2double(Param.Patch1.Threshold);
242    Data.Patch1_SubDomain=str2double(Param.Patch1.SubDomain);
243    Data.ListVarName=[Data.ListVarName {'Civ1_U_Diff','Civ1_V_Diff','Civ1_X_SubRange','Civ1_Y_SubRange','Civ1_NbSites','Civ1_X_tps','Civ1_Y_tps','Civ1_U_tps','Civ1_V_tps'}];
244    Data.VarDimName=[Data.VarDimName {'NbVec1','NbVec1',{'NbSubDomain1','Two'},{'NbSubDomain1','Two'},'NbSubDomain1',...
245             {'NbVec1Sub','NbSubDomain1'},{'NbVec1Sub','NbSubDomain1'},{'Nbtps1','NbSubDomain1'},{'Nbtps1','NbSubDomain1'}}];
246    nbvar=length(Data.ListVarName);
247    Data.VarAttribute{nbvar-1}.Role='vector_x';
248    Data.VarAttribute{nbvar}.Role='vector_y';
249    Data.Civ1_U_Diff=zeros(size(Data.Civ1_X));
250    Data.Civ1_V_Diff=zeros(size(Data.Civ1_X));
251    if isfield(Data,'Civ1_FF')
252        ind_good=find(Data.Civ1_FF==0);
253    else
254        ind_good=1:numel(Data.Civ1_X);
255    end
256    [Data.Civ1_X_SubRange,Data.Civ1_Y_SubRange,Data.Civ1_NbSites,FFres,Ures, Vres,Data.Civ1_X_tps,Data.Civ1_Y_tps,Data.Civ1_U_tps,Data.Civ1_V_tps]=...
257                            patch(Data.Civ1_X(ind_good)',Data.Civ1_Y(ind_good)',Data.Civ1_U(ind_good)',Data.Civ1_V(ind_good)',Data.Patch1_Rho,Data.Patch1_Threshold,Data.Patch1_SubDomain);
258      Data.Civ1_U_Diff(ind_good)=Data.Civ1_U(ind_good)-Ures;
259      Data.Civ1_V_Diff(ind_good)=Data.Civ1_V(ind_good)-Vres;
260      Data.Civ1_FF(ind_good)=FFres;
261      Data.CivStage=3;                             
262end   
263
264%% Civ2
265if isfield (Param,'Civ2')
266    par_civ2=Param.Civ2;
267    if ~test_civ1 || ~strcmp(par_civ1.filename_ima_a,par_civ2.filename_ima_a)
268            image1=imread(par_civ2.filename_ima_a);%read first image if not already done for civ1
269    end
270    if ~test_civ1|| ~strcmp(par_civ1.filename_ima_b,par_civ2.filename_ima_b)
271            image2=imread(par_civ2.filename_ima_b);%read second image if not already done for civ1
272    end
273%     stepx=str2double(par_civ2.dx);
274%     stepy=str2double(par_civ2.dy);
275    ibx2=ceil(str2double(par_civ2.ibx)/2);
276    iby2=ceil(str2double(par_civ2.iby)/2);
277    isx2=ibx2+2;
278    isy2=iby2+2;
279    %get the previous guess for displacement
280    if ~test_patch1
281        [Guess,VelType]=read_civdata(ObjectName,InputField,ParamIn.VelType);%TO DEVELOP
282    else
283        Data.Civ1_U_Diff=zeros(size(Data.Civ1_X));
284        Data.Civ1_V_Diff=zeros(size(Data.Civ1_X));
285        if isfield(Data,'Civ1_FF')
286            ind_good=find(Data.Civ1_FF==0);
287        else
288            ind_good=1:numel(Data.Civ1_X);
289        end
290            [Data.Civ1_X_SubRange,Data.Civ1_Y_SubRange,Data.Civ1_NbSites,FFres,Ures, Vres,Data.Civ1_X_tps,Data.Civ1_Y_tps,Data.Civ1_U_tps,Data.Civ1_V_tps]=...
291                                patch(Data.Civ1_X(ind_good)',Data.Civ1_Y(ind_good)',Data.Civ1_U(ind_good)',Data.Civ1_V(ind_good)',Data.Patch1_Rho,Data.Patch1_Threshold,Data.Patch1_SubDomain);
292        end
293%     shiftx=str2num(par_civ1.shiftx);
294%     shifty=str2num(par_civ1.shifty);
295% TO GET shift from par_civ2.filename_nc1
296    % shiftx=velocity interpolated at position
297    miniy=max(1+isy2+shifty,1+iby2);
298    minix=max(1+isx2-shiftx,1+ibx2);
299    maxiy=min(size(image1,1)-isy2+shifty,size(image1,1)-iby2);
300    maxix=min(size(image1,2)-isx2-shiftx,size(image1,2)-ibx2);
301    [GridX,GridY]=meshgrid(minix:par_civ2.Dx:maxix,miniy:par_civ2.Dy:maxiy);
302    PointCoord(:,1)=reshape(GridX,[],1);
303    PointCoord(:,2)=reshape(GridY,[],1);
304    if ~isempty(par_civ2.maskname)&& ~strcmp(maskname,par_civ2.maskname)% mask exist, not already read in civ1
305        mask=imread(par_civ2.maskname);
306    end
307    % caluclate velocity data (y and v in indices, reverse to y component)
308    [xtable ytable utable vtable ctable F] = civ (image1,image2,ibx2,iby2,isx2,isy2,shiftx,-shifty,PointCoord,str2num(par_civ1.rho),mask);
309    list_param=(fieldnames(par_civ1))';
310    list_remove={'pxcmx','pxcmy','npx','npy','gridflag','maskflag','term_a','term_b','T0'};
311    index=zeros(size(list_param));
312    for ilist=1:length(list_remove)
313        index=strcmp(list_remove{ilist},list_param);
314        if ~isempty(find(index,1))
315            list_param(index)=[];
316        end
317    end
318    for ilist=1:length(list_param)
319        Civ1_param{ilist}=['Civ1_' list_param{ilist}];
320        eval(['Data.Civ1_' list_param{ilist} '=Param.Civ1.' list_param{ilist} ';'])
321    end
322    if isfield(Data,'Civ1_gridname') && strcmp(Data.Civ1_gridname(1:6),'noFile')
323        Data.Civ1_gridname='';
324    end
325    if isfield(Data,'Civ1_maskname') && strcmp(Data.Civ1_maskname(1:6),'noFile')
326        Data.Civ1_maskname='';
327    end
328    Data.ListGlobalAttribute=[Data.ListGlobalAttribute Civ1_param {'Civ1_Time','Civ1_Dt'}];
329    Data.Civ1_Time=str2double(par_civ1.T0);
330    Data.Civ1_Dt=str2double(par_civ1.Dt);
331    Data.ListVarName={'Civ1_X','Civ1_Y','Civ1_U','Civ1_V','Civ1_C','Civ1_F'};%  cell array containing the names of the fields to record
332    Data.VarDimName={'nbvec1','nbvec1','nbvec1','nbvec1','nbvec1','nbvec1'};
333    Data.VarAttribute{1}.Role='coord_x';
334    Data.VarAttribute{2}.Role='coord_y';
335    Data.VarAttribute{3}.Role='vector_x';
336    Data.VarAttribute{4}.Role='vector_y';
337    Data.VarAttribute{5}.Role='warnflag';
338    Data.Civ1_X=reshape(xtable,[],1);
339    Data.Civ1_Y=reshape(size(image1,1)-ytable+1,[],1);
340    Data.Civ1_U=reshape(utable,[],1);
341    Data.Civ1_V=reshape(-vtable,[],1);
342    Data.Civ1_C=reshape(ctable,[],1);
343    Data.Civ1_F=reshape(F,[],1);
344    Data.CivStage=Data.CivStage+1;
345end
346
347%% Fix2
348if isfield (Param,'Fix2')
349    ListFixParam=fieldnames(Param.Fix2);
350    for ilist=1:length(ListFixParam)
351        ParamName=ListFixParam{ilist};
352        ListName=['Fix1_' ParamName];
353        eval(['Data.ListGlobalAttribute=[Data.ListGlobalAttribute ''' ParamName '''];'])
354        eval(['Data.' ListName '=Param.Fix2.' ParamName ';'])
355    end
356    if test_civx
357        if ~isfield(Data,'fix2')
358            Data.ListGlobalAttribute=[Data.ListGlobalAttribute 'fix2'];
359            Data.fix2=1;
360            Data.ListVarName=[Data.ListVarName {'vec2_FixFlag'}];
361            Data.VarDimName=[Data.VarDimName {'nb_vectors2'}];
362        end
363        Data.vec_FixFlag=fix(Param.Fix2,Data.vec2_F,Data.vec2_C,Data.vec2_U,Data.vec2_V,Data.vec2_X,Data.vec2_Y);
364    else
365        Data.ListVarName=[Data.ListVarName {'Civ2_FF'}];
366        Data.VarDimName=[Data.VarDimName {'nbvec2'}];
367        nbvar=length(Data.ListVarName);
368        Data.VarAttribute{nbvar}.Role='errorflag';   
369        Data.Civ2_FF=fix(Param.Fix2,Data.Civ2_F,Data.Civ2_C,Data.Civ2_U,Data.Civ2_V);
370        Data.CivStage=5;   
371    end
372   
373end   
374
375%% Patch2
376if isfield (Param,'Patch2')
377    Data.ListGlobalAttribute=[Data.ListGlobalAttribute {'Patch2_Rho','Patch2_Threshold','Patch2_SubDomain'}];
378    Data.Patch2_Rho=str2double(Param.Patch2.Rho);
379    Data.Patch2_Threshold=str2double(Param.Patch2.Threshold);
380    Data.Patch2_SubDomain=str2double(Param.Patch2.SubDomain);
381    Data.ListVarName=[Data.ListVarName {'Civ2_U_Diff','Civ2_V_Diff','Civ2_X_SubRange','Civ2_Y_SubRange','Civ2_NbSites','Civ2_X_tps','Civ2_Y_tps','Civ2_U_tps','Civ2_V_tps'}];
382    Data.VarDimName=[Data.VarDimName {'NbVec2','NbVec2',{'NbSubDomain2','Two'},{'NbSubDomain2','Two'},'NbSubDomain2',...
383             {'NbVec2Sub','NbSubDomain2'},{'NbVec2Sub','NbSubDomain2'},{'Nbtps2','NbSubDomain2'},{'Nbtps2','NbSubDomain2'}}];
384    nbvar=length(Data.ListVarName);
385    Data.VarAttribute{nbvar-1}.Role='vector_x';
386    Data.VarAttribute{nbvar}.Role='vector_y';
387    Data.Civ2_U_Diff=zeros(size(Data.Civ2_X));
388    Data.Civ2_V_Diff=zeros(size(Data.Civ2_X));
389    if isfield(Data,'Civ2_FF')
390        ind_good=find(Data.Civ2_FF==0);
391    else
392        ind_good=1:numel(Data.Civ2_X);
393    end
394    [Data.Civ2_X_SubRange,Data.Civ2_Y_SubRange,Data.Civ2_NbSites,FFres,Ures, Vres,Data.Civ2_X_tps,Data.Civ2_Y_tps,Data.Civ2_U_tps,Data.Civ2_V_tps]=...
395                            patch(Data.Civ2_X(ind_good)',Data.Civ2_Y(ind_good)',Data.Civ2_U(ind_good)',Data.Civ2_V(ind_good)',Data.Patch2_Rho,Data.Patch2_Threshold,Data.Patch2_SubDomain);
396      Data.Civ2_U_Diff(ind_good)=Data.Civ2_U(ind_good)-Ures;
397      Data.Civ2_V_Diff(ind_good)=Data.Civ2_V(ind_good)-Vres;
398      Data.Civ2_FF(ind_good)=FFres;
399      Data.CivStage=6;                             
400end   
401
402%% write result in a netcdf file if requested
403if exist('ncfile','var')
404    errormsg=struct2nc(ncfile,Data);
405end
406
407
408%'RUN_FIX': function for fixing velocity fields:
409%-----------------------------------------------
410% RUN_FIX(filename,field,flagindex,thresh_vecC,thresh_vel,iter,flag_mask,maskname,fileref,fieldref)
411%
412%filename: name of the netcdf file (used as input and output)
413%field: structure specifying the names of the fields to fix (depending on civ1 or civ2)
414    %.vel_type='civ1' or 'civ2';
415    %.nb=name of the dimension common to the field to fix ('nb_vectors' for civ1);
416    %.fixflag=name of fix flag variable ('vec_FixFlag' for civ1)
417%flagindex: flag specifying which values of vec_f are removed:
418        % if flagindex(1)=1: vec_f=-2 vectors are removed
419        % if flagindex(2)=1: vec_f=3 vectors are removed
420        % if flagindex(3)=1: vec_f=2 vectors are removed (if iter=1) or vec_f=4 vectors are removed (if iter=2)
421%iter=1 for civ1 fields and iter=2 for civ2 fields
422%thresh_vecC: threshold in the image correlation vec_C
423%flag_mask: =1 mask used to remove vectors (0 else)
424%maskname: name of the mask image file for fix
425%thresh_vel: threshold on velocity, or on the difference with the reference file fileref if exists
426%inf_sup=1: remove values smaller than threshold thresh_vel, =2, larger than threshold
427%fileref: .nc file name for a reference velocity (='': refrence 0 used)
428%fieldref: 'civ1','filter1'...feld used in fileref
429
430function FF=fix(Param,F,C,U,V,X,Y)
431FF=zeros(size(F));%default
432Param
433
434%criterium on warn flags
435FlagName={'CheckFmin2','CheckF2','CheckF3','CheckF4'};
436FlagVal=[-2 2 3 4];
437for iflag=1:numel(FlagVal)
438    if Param.(CheckFlag(iflag))
439        FF=(FF==1| F==FlagVal(iflag));
440% if isfield (Param,'WarnFlags')
441%     for iflag=1:numel(Param.WarnFlags)
442%         FF=(FF==1| F==Param.WarnFlags(iflag));
443%     end
444% end
445    end
446end
447%criterium on correlation values
448if isfield (Param,'MinCorr')
449    FF=FF==1 | C<Param.MinCorr;
450end
451return
452
453
454if isfield (Param,'LowerBoundVel')&& ~isequal(Param.LowerBoundVel,0)
455    thresh=Param.LowerBoundVel*Param.LowerBoundVel;
456    FF=FF==1 | (U.*U+V.*V)<thresh;
457end
458if isfield (Param,'UpperBoundVel')&& ~isequal(Param.UpperBoundVel,0)
459    thresh=Param.UpperBoundVel*Param.UpperBoundVel;
460    FF=FF==1 | (U.*U+V.*V)>thresh;
461end
462if isfield(Param,'MaskName')
463   M=imread(Param.MaskName);
464   nxy=size(M);
465   M=reshape(M,1,[]);
466   rangx0=[0.5 nxy(2)-0.5];
467   rangy0=[0.5 nxy(1)-0.5];
468   vec_x1=X-U/2;%beginning points
469   vec_x2=X+U/2;%end points of vectors
470   vec_y1=Y-V/2;%beginning points
471   vec_y2=Y+V/2;%end points of vectors
472   indx=1+round((nxy(2)-1)*(vec_x1-rangx0(1))/(rangx0(2)-rangx0(1)));% image index x at abcissa vec_x1
473   indy=1+round((nxy(1)-1)*(vec_y1-rangy0(1))/(rangy0(2)-rangy0(1)));% image index y at ordinate vec_y1   
474   test_in=~(indx < 1 |indy < 1 | indx > nxy(2) |indy > nxy(1)); %=0 out of the mask image, 1 inside
475   indx=indx.*test_in+(1-test_in); %replace indx by 1 out of the mask range
476   indy=indy.*test_in+(1-test_in); %replace indy by 1 out of the mask range
477   ICOMB=((indx-1)*nxy(1)+(nxy(1)+1-indy));%determine the indices in the image reshaped in a Matlab vector
478   Mvalues=M(ICOMB);
479   flag7b=((20 < Mvalues) & (Mvalues < 200))| ~test_in';
480   indx=1+round((nxy(2)-1)*(vec_x2-rangx0(1))/(rangx0(2)-rangx0(1)));% image index x at abcissa vec_x2
481   indy=1+round((nxy(1)-1)*(vec_y2-rangy0(1))/(rangy0(2)-rangy0(1)));% image index y at ordinate vec_y2
482   test_in=~(indx < 1 |indy < 1 | indx > nxy(2) |indy > nxy(1)); %=0 out of the mask image, 1 inside
483   indx=indx.*test_in+(1-test_in); %replace indx by 1 out of the mask range
484   indy=indy.*test_in+(1-test_in); %replace indy by 1 out of the mask range
485   ICOMB=((indx-1)*nxy(1)+(nxy(1)+1-indy));%determine the indices in the image reshaped in a Matlab vector
486   Mvalues=M(ICOMB);
487   flag7e=((Mvalues > 20) & (Mvalues < 200))| ~test_in';
488   FF=FF==1 |(flag7b|flag7e)';
489end
490%    flag7=0;
491% end   
492
493
494FF=double(FF);
495%
496% % criterium on velocity values
497% delta_u=Field.U;%default without ref file
498% delta_v=Field.V;
499% if exist('fileref','var') && ~isempty(fileref)
500%     if ~exist(fileref,'file')
501%         error='reference file not found in RUN_FIX.m';
502%         display(error);
503%         return
504%     end
505%     FieldRef=read_civxdata(fileref,[],fieldref);   
506%     if isfield(FieldRef,'FF')
507%         index_true=find(FieldRef.FF==0);
508%         FieldRef.X=FieldRef.X(index_true);
509%         FieldRef.Y=FieldRef.Y(index_true);
510%         FieldRef.U=FieldRef.U(index_true);
511%         FieldRef.V=FieldRef.V(index_true);
512%     end
513%     if ~isfield(FieldRef,'X') || ~isfield(FieldRef,'Y') || ~isfield(FieldRef,'U') || ~isfield(FieldRef,'V')
514%         error='reference file is not a velocity field in RUN_FIX.m '; %bad input file
515%         return
516%     end
517%     if length(FieldRef.X)<=1
518%         errordlg('reference field with one vector or less in RUN_FIX.m')
519%         return
520%     end
521%     vec_U_ref=griddata_uvmat(FieldRef.X,FieldRef.Y,FieldRef.U,Field.X,Field.Y);  %interpolate vectors in the ref field
522%     vec_V_ref=griddata_uvmat(FieldRef.X,FieldRef.Y,FieldRef.V,Field.X,Field.Y);  %interpolate vectors in the ref field to the positions  of the main field     
523%     delta_u=Field.U-vec_U_ref;%take the difference with the interpolated ref field
524%     delta_v=Field.V-vec_V_ref;
525% end
526% thresh_vel_x=thresh_vel;
527% thresh_vel_y=thresh_vel;
528% if isequal(inf_sup,1)
529%     flag5=abs(delta_u)<thresh_vel_x & abs(delta_v)<thresh_vel_y &(flag1~=1)&(flag2~=1)&(flag3~=1)&(flag4~=1);
530% elseif isequal(inf_sup,2)
531%     flag5=(abs(delta_u)>thresh_vel_x | abs(delta_v)>thresh_vel_y) &(flag1~=1)&(flag2~=1)&(flag3~=1)&(flag4~=1);
532% end
533%
534%             % flag7 introduce a grey mask, matrix M
535
536% flagmagenta=flag1|flag2|flag3|flag4|flag5|flag7;
537% fixflag_unit=Field.FF-10*floor(Field.FF/10); %unity term of fix_flag
538
539
540
541%------------------------------------------------------------------------
542% patch function
543function [SubRangx,SubRangy,nbpoints,FF,U_smooth,V_smooth,X_tps,Y_tps,U_tps,V_tps] =patch(X,Y,U,V,Rho,Threshold,SubDomain)
544%subdomain decomposition
545warning off
546U=reshape(U,[],1);
547V=reshape(V,[],1);
548X=reshape(X,[],1);
549Y=reshape(Y,[],1);
550nbvec=numel(X);
551NbSubDomain=ceil(nbvec/SubDomain);
552MinX=min(X);
553MinY=min(Y);
554MaxX=max(X);
555MaxY=max(Y);
556RangX=MaxX-MinX;
557RangY=MaxY-MinY;
558AspectRatio=RangY/RangX;
559NbSubDomainX=max(floor(sqrt(NbSubDomain/AspectRatio)),1);
560NbSubDomainY=max(floor(sqrt(NbSubDomain*AspectRatio)),1);
561NbSubDomain=NbSubDomainX*NbSubDomainY;
562SizX=RangX/NbSubDomainX;%width of subdomains
563SizY=RangY/NbSubDomainY;%height of subdomains
564CentreX=linspace(MinX+SizX/2,MaxX-SizX/2,NbSubDomainX);
565CentreY=linspace(MinY+SizY/2,MaxY-SizY/2,NbSubDomainY);
566[CentreX,CentreY]=meshgrid(CentreX,CentreY);
567CentreY=reshape(CentreY,1,[]);
568CentreX=reshape(CentreX,1,[]);
569rho=SizX*SizY*Rho/1000000;%optimum rho increase as the area of the subdomain (division by 10^6 to reach good values with the default GUI input)
570U_tps_sub=zeros(length(X),NbSubDomain);%default spline
571V_tps_sub=zeros(length(X),NbSubDomain);%default spline
572U_smooth=zeros(length(X),1);
573V_smooth=zeros(length(X),1);
574
575nb_select=zeros(length(X),1);
576FF=zeros(length(X),1);
577test_empty=zeros(1,NbSubDomain);
578for isub=1:NbSubDomain
579    SubRangx(isub,:)=[CentreX(isub)-SizX/2 CentreX(isub)+SizX/2];
580    SubRangy(isub,:)=[CentreY(isub)-SizY/2 CentreY(isub)+SizY/2];
581    ind_sel_previous=[];
582    ind_sel=0;
583    while numel(ind_sel)>numel(ind_sel_previous) %increase the subdomain during four iterations at most
584        ind_sel_previous=ind_sel;
585        ind_sel=find(X>SubRangx(isub,1) & X<SubRangx(isub,2) & Y>SubRangy(isub,1) & Y<SubRangy(isub,2));
586        % if no vector in the subdomain, skip the subdomain
587        if isempty(ind_sel)
588            test_empty(isub)=1;   
589            U_tps(1,isub)=0;%define U_tps and V_tps by default
590            V_tps(1,isub)=0;
591            break
592            % if too few selected vectors, increase the subrange for next iteration
593        elseif numel(ind_sel)<SubDomain/4 && ~isequal( ind_sel,ind_sel_previous);
594            SubRangx(isub,1)=SubRangx(isub,1)-SizX/4;
595            SubRangx(isub,2)=SubRangx(isub,2)+SizX/4;
596            SubRangy(isub,1)=SubRangy(isub,1)-SizY/4;
597            SubRangy(isub,2)=SubRangy(isub,2)+SizY/4;
598        else
599            [U_smooth_sub,U_tps_sub]=tps_coeff(X(ind_sel),Y(ind_sel),U(ind_sel),rho);
600            [V_smooth_sub,V_tps_sub]=tps_coeff(X(ind_sel),Y(ind_sel),V(ind_sel),rho);
601            UDiff=U_smooth_sub-U(ind_sel);
602            VDiff=V_smooth_sub-V(ind_sel);
603            NormDiff=UDiff.*UDiff+VDiff.*VDiff;
604            FF(ind_sel)=20*(NormDiff>Threshold);%put FF value to 20 to identify the criterium of elimmination
605            ind_ind_sel=find(FF(ind_sel)==0); % select the indices of ind_sel corresponding to the remaining vectors
606            % no value exceeds threshold, the result is recorded
607            if isequal(numel(ind_ind_sel),numel(ind_sel))
608                U_smooth(ind_sel)=U_smooth(ind_sel)+U_smooth_sub;
609                V_smooth(ind_sel)=V_smooth(ind_sel)+V_smooth_sub;
610                nbpoints(isub)=numel(ind_sel);
611                X_tps(1:nbpoints(isub),isub)=X(ind_sel);
612                Y_tps(1:nbpoints(isub),isub)=Y(ind_sel);
613                U_tps(1:nbpoints(isub)+3,isub)=U_tps_sub;
614                V_tps(1:nbpoints(isub)+3,isub)=V_tps_sub;         
615                nb_select(ind_sel)=nb_select(ind_sel)+1;
616                 display('good')
617                break
618                % too few selected vectors, increase the subrange for next iteration
619            elseif numel(ind_ind_sel)<SubDomain/4 && ~isequal( ind_sel,ind_sel_previous);
620                SubRangx(isub,1)=SubRangx(isub,1)-SizX/4;
621                SubRangx(isub,2)=SubRangx(isub,2)+SizX/4;
622                SubRangy(isub,1)=SubRangy(isub,1)-SizY/4;
623                SubRangy(isub,2)=SubRangy(isub,2)+SizY/4;
624%                 display('fewsmooth')
625                % interpolation-smoothing is done again with the selected vectors
626            else
627                [U_smooth_sub,U_tps_sub]=tps_coeff(X(ind_sel(ind_ind_sel)),Y(ind_sel(ind_ind_sel)),U(ind_sel(ind_ind_sel)),rho);
628                [V_smooth_sub,V_tps_sub]=tps_coeff(X(ind_sel(ind_ind_sel)),Y(ind_sel(ind_ind_sel)),V(ind_sel(ind_ind_sel)),rho);
629                U_smooth(ind_sel(ind_ind_sel))=U_smooth(ind_sel(ind_ind_sel))+U_smooth_sub;
630                V_smooth(ind_sel(ind_ind_sel))=V_smooth(ind_sel(ind_ind_sel))+V_smooth_sub;
631                nbpoints(isub)=numel(ind_ind_sel);
632                X_tps(1:nbpoints(isub),isub)=X(ind_sel(ind_ind_sel));
633                Y_tps(1:nbpoints(isub),isub)=Y(ind_sel(ind_ind_sel));
634                U_tps(1:nbpoints(isub)+3,isub)=U_tps_sub;
635                V_tps(1:nbpoints(isub)+3,isub)=V_tps_sub;
636                nb_select(ind_sel(ind_ind_sel))=nb_select(ind_sel(ind_ind_sel))+1;
637                display('good2')
638                break
639            end
640        end
641    end
642end
643ind_empty=find(test_empty);
644%remove empty subdomains
645if ~isempty(ind_empty)
646    SubRangx(ind_empty,:)=[];
647    SubRangy(ind_empty,:)=[];
648    X_tps(:,ind_empty)=[];
649    Y_tps(:,ind_empty)=[];
650    U_tps(:,ind_empty)=[];
651    V_tps(:,ind_empty)=[];
652end
653nb_select(nb_select==0)=1;%ones(size(find(nb_select==0)));
654U_smooth=U_smooth./nb_select;
655V_smooth=V_smooth./nb_select;
656
657
658% 'civ': function piv.m adapted from PIVlab http://pivlab.blogspot.com/
659%--------------------------------------------------------------------------
660% function [xtable ytable utable vtable typevector] = civ (image1,image2,ibx,iby step, subpixfinder, mask, roi)
661%
662% OUTPUT:
663% xtable: set of x coordinates
664% ytable: set of y coordiantes
665% utable: set of u displacements (along x)
666% vtable: set of v displacements (along y)
667% ctable: max image correlation for each vector
668% typevector: set of flags, =1 for good, =0 for NaN vectors
669%
670%INPUT:
671% image1:first image (matrix)
672% image2: second image (matrix)
673% ibx2,iby2: half size of the correlation box along x and y, in px (size=(2*iby2+1,2*ibx2+1)
674% isx2,isy2: half size of the search box along x and y, in px (size=(2*isy2+1,2*isx2+1)
675% shiftx, shifty: shift of the search box (in pixel index, yshift reversed)
676% step: mesh of the measurement points (in px)
677% subpixfinder=1 or 2 controls the curve fitting of the image correlation
678% mask: =[] for no mask
679% roi: 4 element vector defining a region of interest: x position, y position, width, height, (in image indices), for the whole image, roi=[];
680function [xtable ytable utable vtable ctable F result_conv errormsg] = civ (image1,image2,ibx2,iby2,isx2,isy2,shiftx,shifty, GridIndices, subpixfinder,mask)
681%this funtion performs the DCC PIV analysis. Recent window-deformation
682%methods perform better and will maybe be implemented in the future.
683nbvec=size(GridIndices,1);
684xtable=zeros(nbvec,1);
685ytable=xtable;
686utable=xtable;
687vtable=xtable;
688ctable=xtable;
689F=xtable;
690result_conv=[];
691errormsg='';
692%warning off %MATLAB:log:logOfZero
693[npy_ima npx_ima]=size(image1);
694if ~isequal(size(image2),[npy_ima npx_ima])
695    errormsg='image pair with unequal size';
696    return
697end
698
699%% mask
700testmask=0;
701image1=double(image1);
702image2=double(image2);
703if exist('mask','var') && ~isempty(mask)
704   testmask=1;
705   if ~isequal(size(mask),[npy_ima npx_ima])
706        errormsg='mask must be an image with the same size as the images';
707        return
708   end
709    % Convention for mask
710    % mask >200 : velocity calculated
711    %  200 >=mask>150;velocity not calculated, interpolation allowed (bad spots)
712    % 150>=mask >100: velocity not calculated, nor interpolated
713    %  100>=mask> 20: velocity not calculated, impermeable (no flux through mask boundaries)
714    %  20>=mask: velocity=0
715    test_noflux=(mask<100) ;
716    test_undefined=(mask<200 & mask>=100 );
717    image1(test_undefined)=min(min(image1));% put image to zero in the undefined  area
718    image2(test_undefined)=min(min(image2));% put image to zero in the undefined  area
719end
720
721%% calculate correlations: MAINLOOP on velocity vectors
722corrmax=0;
723sum_square=1;% default
724for ivec=1:nbvec
725    iref=GridIndices(ivec,1);
726    jref=GridIndices(ivec,2);
727    testmask_ij=0;
728    test0=0;
729    if testmask
730        if mask(jref,iref)<=20
731           vector=[0 0];
732           test0=1;
733        else
734            mask_crop1=mask(jref-iby2:jref+iby2,iref-ibx2:iref+ibx2);
735            mask_crop2=mask(jref+shifty-isy2:jref+shifty+isy2,iref+shiftx-isx2:iref+shiftx+isx2);
736            if ~isempty(find(mask_crop1<=200 & mask_crop1>100,1)) || ~isempty(find(mask_crop2<=200 & mask_crop2>100,1));
737                testmask_ij=1;
738            end
739        end
740    end
741    if ~test0   
742        image1_crop=image1(jref-iby2:jref+iby2,iref-ibx2:iref+ibx2);%extract a subimage (correlation box) from images 1 
743        image2_crop=image2(jref+shifty-isy2:jref+shifty+isy2,iref+shiftx-isx2:iref+shiftx+isx2);%extract a larger subimage (search box) from image 2
744        image1_crop=image1_crop-mean(mean(image1_crop));%substract the mean
745        image2_crop=image2_crop-mean(mean(image2_crop));
746        %reference: Oliver Pust, PIV: Direct Cross-Correlation
747        result_conv= conv2(image2_crop,flipdim(flipdim(image1_crop,2),1),'valid');
748        corrmax= max(max(result_conv));
749        result_conv=(result_conv/corrmax)*255; %normalize, peak=always 255
750        %Find the correlation max, at 255
751        [y,x] = find(result_conv==255,1);
752        if ~isempty(y) && ~isempty(x)
753            try
754                if subpixfinder==1
755                    [vector,F(ivec)] = SUBPIXGAUSS (result_conv,x,y);
756                elseif subpixfinder==2
757                    [vector,F(ivec)] = SUBPIX2DGAUSS (result_conv,x,y);
758                end
759                sum_square=sum(sum(image1_crop.*image1_crop));
760                ctable(ivec)=corrmax/sum_square;% correlation value
761%                 if vector(1)>shiftx+isx2-ibx2+subpixfinder || vector(2)>shifty+isy2-iby2+subpixfinder
762%                     F(ivec)=-2;%vector reaches the border of the search zone
763%                 end
764            catch ME
765                vector=[0 0]; %if something goes wrong with cross correlation.....
766                F(ivec)=3;
767            end
768        else
769            vector=[0 0]; %if something goes wrong with cross correlation.....
770            F(ivec)=3;
771        end
772        if testmask_ij
773            F(ivec)=3;
774        end
775    end
776   
777    %Create the vector matrix x, y, u, v
778    xtable(ivec)=iref+vector(1)/2;% convec flow (velocity taken at the point middle from imgae1 and 2)
779    ytable(ivec)=jref+vector(2)/2;
780    utable(ivec)=vector(1)+shiftx;
781    vtable(ivec)=vector(2)+shifty;
782end
783result_conv=result_conv*corrmax/(255*sum_square);% keep the last correlation matrix for output
784
785
786function [vector,F] = SUBPIXGAUSS (result_conv,x,y)
787vector=[0 0]; %default
788F=0;
789[npy,npx]=size(result_conv);
790
791% if (x <= (size(result_conv,1)-1)) && (y <= (size(result_conv,1)-1)) && (x >= 1) && (y >= 1)
792    %the following 8 lines are copyright (c) 1998, Uri Shavit, Roi Gurka, Alex Liberzon, Technion – Israel Institute of Technology
793    %http://urapiv.wordpress.com
794    peaky = y;
795    if y <= npy-1 && y >= 1
796        f0 = log(result_conv(y,x));
797        f1 = real(log(result_conv(y-1,x)));
798        f2 = real(log(result_conv(y+1,x)));
799        peaky = peaky+ (f1-f2)/(2*f1-4*f0+2*f2);
800    else
801        F=-2; % warning flag for vector truncated by the limited search box
802    end
803    peakx=x;
804    if x <= npx-1 && x >= 1
805        f0 = log(result_conv(y,x));
806        f1 = real(log(result_conv(y,x-1)));
807        f2 = real(log(result_conv(y,x+1)));
808        peakx = peakx+ (f1-f2)/(2*f1-4*f0+2*f2);
809    else
810        F=-2; % warning flag for vector truncated by the limited search box
811    end
812    vector=[peakx-floor(npx/2)-1 peaky-floor(npy/2)-1];
813% else
814%     vector=[NaN NaN];
815% end
816
817function [vector,F] = SUBPIX2DGAUSS (result_conv,x,y)
818vector=[0 0]; %default
819F=-2;
820peaky=y;
821peakx=x;
822[npy,npx]=size(result_conv);
823if (x <= npx-1) && (y <= npy-1) && (x >= 1) && (y >= 1)
824    F=0;
825    for i=-1:1
826        for j=-1:1
827            %following 15 lines based on
828            %H. Nobach Æ M. Honkanen (2005)
829            %Two-dimensional Gaussian regression for sub-pixel displacement
830            %estimation in particle image velocimetry or particle position
831            %estimation in particle tracking velocimetry
832            %Experiments in Fluids (2005) 38: 511–515
833            c10(j+2,i+2)=i*log(result_conv(y+j, x+i));
834            c01(j+2,i+2)=j*log(result_conv(y+j, x+i));
835            c11(j+2,i+2)=i*j*log(result_conv(y+j, x+i));
836            c20(j+2,i+2)=(3*i^2-2)*log(result_conv(y+j, x+i));
837            c02(j+2,i+2)=(3*j^2-2)*log(result_conv(y+j, x+i));
838            %c00(j+2,i+2)=(5-3*i^2-3*j^2)*log(result_conv_norm(maxY+j, maxX+i));
839        end
840    end
841    c10=(1/6)*sum(sum(c10));
842    c01=(1/6)*sum(sum(c01));
843    c11=(1/4)*sum(sum(c11));
844    c20=(1/6)*sum(sum(c20));
845    c02=(1/6)*sum(sum(c02));
846    deltax=(c11*c01-2*c10*c02)/(4*c20*c02-c11^2);
847    deltay=(c11*c10-2*c01*c20)/(4*c20*c02-c11^2);
848    if abs(deltax)<1
849        peakx=x+deltax;
850    end
851    if abs(deltay)<1
852        peaky=y+deltay;
853    end
854end
855vector=[peakx-floor(npx/2)-1 peaky-floor(npy/2)-1];
856
857
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