Skip to main content
  • Home
  • Development
  • Documentation
  • Donate
  • Operational login
  • Browse the archive

swh logo
SoftwareHeritage
Software
Heritage
Archive
Features
  • Search

  • Downloads

  • Save code now

  • Add forge now

  • Help

https://github.com/jrethore/ufreckles
21 April 2026, 21:14:19 UTC
  • Code
  • Branches (4)
  • Releases (0)
  • Visits
    • Branches
    • Releases
    • HEAD
    • refs/heads/master
    • refs/heads/v2.0
    • refs/heads/v2.1
    • refs/heads/v2.2
    No releases to show
  • 5ade5ef
  • /
  • Solvers
  • /
  • Solve3D.m
Raw File Download Save again
Take a new snapshot of a software origin

If the archived software origin currently browsed is not synchronized with its upstream version (for instance when new commits have been issued), you can explicitly request Software Heritage to take a new snapshot of it.

Use the form below to proceed. Once a request has been submitted and accepted, it will be processed as soon as possible. You can then check its processing state by visiting this dedicated page.
swh spinner

Processing "take a new snapshot" request ...

To reference or cite the objects present in the Software Heritage archive, permalinks based on SoftWare Hash IDentifiers (SWHIDs) must be used.
Select below a type of object currently browsed in order to display its associated SWHID and permalink.

  • content
  • directory
  • revision
  • snapshot
origin badgecontent badge
swh:1:cnt:7af6a73a037b863325ce00e35f22de85403e52b5
origin badgedirectory badge
swh:1:dir:fcec02119f5eabdf66a8a56995eff72a1adea5f4
origin badgerevision badge
swh:1:rev:c38c036275d400217c433acd624a7e968a09fb55
origin badgesnapshot badge
swh:1:snp:e93363e05fc035dd2687d48111453842fa57bff8

This interface enables to generate software citations, provided that the root directory of browsed objects contains a citation.cff or codemeta.json file.
Select below a type of object currently browsed in order to generate citations for them.

  • content
  • directory
  • revision
  • snapshot
(requires biblatex-software package)
Generating citation ...
(requires biblatex-software package)
Generating citation ...
(requires biblatex-software package)
Generating citation ...
(requires biblatex-software package)
Generating citation ...
Tip revision: c38c036275d400217c433acd624a7e968a09fb55 authored by Julien Réthoré on 16 June 2025, 12:35:44 UTC
update june 2025
Tip revision: c38c036
Solve3D.m
function [U]=Solve3D(Uini,nmod,iscale)
clear MedianFilter
if nargin<3,iscale=1;end
pscale=2^(iscale-1);
ttic=cputime;
load(fullfile('TMP','params'),'param');
param0=param;
[~,filreso,~]=fileparts(param0.result_file);
save(fullfile('TMP',sprintf('%s-scale-%d-restart',filreso,iscale)),'param');
roi=param0.roi;
if iscell(param0.deformed_image)
    nim=length(param0.deformed_image);
else
    nim=1;
end
if isfield(param0,'restart')
    restart=param0.restart;
else
    restart=1;
end
if restart
    nmax=nim;
else
    if iscale==1
        nmax=nim;
    else
        if nim<2
            nmax=nim;
        else
            nmax=2;
        end
    end
end
inorm=false;
if isfield(param0,'normalize_grey_level')
    inorm=param0.normalize_grey_level;
end
reg_type='none';
mfilter=0;
if isfield(param0,'regularization_type')
    reg_type=param0.regularization_type;
    if iscale>1&&~(strcmp(reg_type,'none'))
        reg_type='tiko';
    end
    if strcmp(param0.regularization_type,'median')
        reg_type='median';
        mfilter=1;
        lmed=1;
        if isfield(param0,'regularization_parameter')
            lmed=param0.regularization_parameter;
        end
    elseif strcmp(param0.regularization_type,'tiko')
        mfilter=1;lmed=1;
    end
end
maxiter=param0.iter_max;
conv=param0.convergance_limit;
load(fullfile('TMP',sprintf('%d_params',nmod)),'param');
disp(sprintf('Starting resolution for scale %d...',iscale));
mesh_file=fullfile('TMP',sprintf('%d_3d_mesh_%d.mat',nmod,iscale-1));
load(mesh_file,'rflag','rint','xo','yo','zo','Nnodes','Nelems','Smesh','conn','elt','ng','ns');
invmap=~rflag;
pstep=1;
if isfield(param0,'psample')
    pstep=param0.psample;
end
face_elts=[];
face_nodes=[];
if isfield(param,'enrichment')&&(iscale==1)
    if iscell(param.levelset_file)
        error('not coded yet');
    else
        ncrack=1;
    end
    for ic=1:ncrack
        if ncrack==1,lvl7file=param.levelset_file;end
        load(lvl7file,'crack','front','zone');
        [iface_nodes,iface_elts,crackn]=TreatmentofEnrichment3D(ic,nmod,crack,front,zone);
        clear front
        face_elts=[face_elts,iface_elts];
        face_nodes=[face_nodes,iface_nodes];
    end
    if size(Uini,1)==(3*prod(Nnodes))
        Uini=[Uini;zeros(3*numel(face_nodes),size(Uini,2))];
    end
    
end
load(fullfile('TMP',sprintf('sample0_%d',iscale-1)),'sizeim');
switch param0.stack_format
    case 'bin'
        fidi=fopen(fullfile('TMP',sprintf('dsample0_%d',iscale-1)));
        im0=fread(fidi,prod(sizeim));
        fclose(fidi);
        im0=reshape(im0,sizeim);
    case 'mat'
        load(fullfile('TMP',sprintf('sample0_%d',iscale-1)),'im0');
end
[mean0,std0]=mexImScalling3D(int64(im0));
mean1=0;std1=1;
dynamic=max(im0(:))-min(im0(:));
F=zeros(3*prod(Nnodes)+3*numel(face_nodes),1);
M=0;
im1=0;
restart_file='';
if isfield(param0,'restart_file')
    restart_file=param0.restart_file;
end
if isempty(restart_file)
    imin=1;
    U=Uini;
else
    load(param0.restart_file,'U','ijm')
    imin=ijm;
    Uini=U;
end
if ~strcmp(reg_type,'none')&&~strcmp(reg_type,'median')
    lc=(min(sizeim)/10);
    lm=lc;
    if isfield(param0,'regularization_parameter')
        lm=param0.regularization_parameter/pscale;
    end
    ki=1/lc;
    V=repmat(cos(2*pi*(xo)*ki).*cos(2*pi*(yo)*ki).*cos(2*pi*(zo)*ki),3,1);
    if isfield(param,'enrichment')&&(iscale==1)
        V=[V;zeros(3*numel(face_nodes),1)];
    end
        hh=min(sqrt(diff(xo(conn(:,1:2)),[],2).^2+diff(yo(conn(:,1:2)),[],2).^2+diff(zo(conn(:,1:2)),[],2).^2));
    if param0.regularization_parameter>5*hh
        mfilter=0;
    end
end
fid=fopen(fullfile('TMP',sprintf('%d_error_%d.mat',nmod,iscale-1)),'w');
if dynamic>255
    fwrite(fid,255);
else
    fwrite(fid,dynamic);
end
model=param;
save(fullfile('TMP',sprintf('%s-scale-%d-restart',filreso,iscale)),'model','rint','Nnodes','Nelems','xo','yo','zo','conn','elt','ng','ns','-append');
for ijm=imin:nmax
    
    display(sprintf('Image %d/%d',ijm,nim));
    res=1;
    ii=1;
    if ~restart&&ijm>2
        Ui=2*U(:,ijm-1)-U(:,ijm-2);
    else
        Ui=Uini(:,ijm);
    end
    merrorp=Inf;
    while ( res>conv && ii< maxiter)
        [merror,disc]=Assemble(ijm);
        if (ii==1)&&(ijm==imin)
            switch reg_type
                case 'tiko'
                    CreateGradBasisFunction3D(iscale,nmod);
                    R=AssembleRegularizationOperator3D(nmod,iscale,isfield(param,'coupling_parameter'));
                    a=(V'*M*V)/(V'*R*V);
                    a=a*(2*lm/lc)^2;
                    R=a*R;
                    P=sparse(size(M,1),size(M,2));
                case 'equilibrium_gap'
                    CreateGradBasisFunction3D(iscale,nmod);
                    Rb=AssembleRegularizationOperator3D(nmod,iscale,1);
                    D=diag(abs(diag(Rb))>0);
                    a=(V'*D*M*V)/(V'*Rb*V);
                    a=a*(2*lm/lc)^2;
                    Rb=a*Rb;
                    disp(sprintf('    Equilibrium Gap regularization...'));
                    LoadMat(nmod);
                    AssembleMechanicalOperator(iscale,nmod,ijm)
                    AssembleEquilibriumGapOperator(iscale,nmod,1)
                    load(fullfile('TMP',sprintf('%d_kk_operator_%d',nmod,iscale-1)),'K');
                    R=K;
                    clear K
                    a=(V'*M*V)/(V'*R*V);
                    a=a*(2*lm/lc)^4;
                    R=a*R;
                    R=R+Rb;
                    P=sparse(size(M,1),size(M,2));
                case 'constitutive_gap'
                    disp(sprintf('    Constitutive Gap regularization...'));
                    CreateGradBasisFunction3D(iscale,nmod);
                    LoadMat(nmod);
                    AssembleMechanicalOperator(iscale,nmod,ijm)
                    AssembleEquilibriumGapOperator(iscale,nmod,0)
                    load(fullfile('TMP',sprintf('%d_k_operator_%d',nmod,iscale-1)),'K');
                    load(fullfile('TMP',sprintf('%d_kk_operator_%d',nmod,iscale-1)),'select');
                    R=K;
                    clear K
                    P=diag(1.e9*sparse((~diag(select))).*diag(R));
                    a=(V'*M*V)/(V'*R*V);
                    a=a*(2*lm/lc)^2;
                    R=a*R;
                    P=a*P;
                otherwise
                    R=sparse(size(M,1),size(M,2));
                    P=sparse(size(M,1),size(M,2));
                    
            end
            M=M+R+P;
            try
                M1 = ichol(M,struct('type','ict','droptol',1e-3));
                M2 = M1';
            catch err
                disp([err.identifier ' : ' err.message ' => using diagonal compensation'])
                diagcomp=((sum(abs(M),2)./diag(M))-2)/100;
                try
                    M1 = ichol(M,struct('type','ict','droptol',1e-3,'diagcomp',max(diagcomp)));
                    M2 = M1';
                catch err
                    disp([err.identifier ' : ' err.message ' => removing zero diag'])
                    ido=isnan(diagcomp);
                    M(ido,ido)=1;
                    disp([err.identifier ' : ' err.message ' => using lumped operator'])
                    M=full(sum(M,2));
                    M1=[];
                    M2=[];
                end
            end
        end
        F=F-R*Ui;
        if issparse(M)
            F=F+M*Ui;
            dU=pcg(M,F,1e-6,1000,M1,M2,Ui);
            dU=dU-Ui;
        else
            dU=F./M;
        end
        disp(sprintf('At iteration # %d',ii));
        disp(sprintf('Discrepancy wrt dyn. =%6.2f %%',merror*100/dynamic));
        nU0=max(1,norm(Ui+dU(:)));
        res=norm(dU(:))/nU0;
        disp(sprintf('|dU|=%f',res));
        if mfilter
            res=min(res,abs(merrorp-merror)/abs(merror));
        end
        Ui=Ui+dU;
        ii=ii+1;
        if mfilter
            Ui=MedianFilter(Ui,mesh_file,lmed);
        end
        merrorp=merror;
        U(:,ijm)=Ui;
        save(fullfile('TMP',sprintf('%s-scale-%d-restart',filreso,iscale)),'U','ijm','-append');
    end
%     if mfilter
%         Uii=zeros(size(Ui));
%         Nnn=prod(Nnodes);
%         for ii1=1:prod(Nelems)
%             if mfilter
%                 for iin=1:elt(ii1)
%                     nod=conn(ii1,iin);
%                     if abs(Uii(nod))==0
%                         ee=sum(conn==nod,2)>0;
%                         ee=conn(ee,:);
%                         ee=unique(ee(:));
%                         Uii(nod)=median(Ui(ee));
%                         Uii(nod+Nnn)=median(Ui(ee+Nnn));
%                         Uii(nod+2*Nnn)=median(Ui(ee+2*Nnn));
%                     end
%                 end
%                 Ui=Uii;
%                 U(:,ijm)=Ui;
%                 save(fullfile('TMP',sprintf('%s-scale-%d-restart',filreso,iscale)),'U','-append');
%             end
%         end
%     end
    if dynamic>255
        disc=255*disc/dynamic;
    end
    fwrite(fid,abs(disc));
    
end
disp(sprintf('Enlapsed time for resolution = %6.2f s',cputime -ttic));
fclose(fid);
    function [mdisc,disc]=Assemble(kkk)
        mdisc=0;
        F=0*F;
        %        Fels=zeros(size(conn,1),3*size(conn,2));
        roip=(roi-1)/pscale+1;
%        roip(1:2:end)=floor(roip(1:2:end));
%        roip(2:2:end)=ceil(roip(2:2:end));
        if (kkk==imin)&&(ii==1)
            do_matrix=true;
            nind=(3*6)^2*sum(elt==6)+(3*8)^2*(sum(elt==8)-numel(face_elts))+(2*3*8)^2*numel(face_elts);
            indig=zeros(nind,1);
            indjg=zeros(nind,1);
            val=zeros(nind,1);
            disc=zeros(length(elt),1);
            nel=0;
        else
            do_matrix=false;
        end
        Nn=prod(Nnodes);
        nenr=numel(face_nodes);
        if ii==1
            if nim==1
                fildef=param0.deformed_image;
            else
                fildef=param0.deformed_image{kkk};
            end
            clear im1
            if isfield(param0,'stack_size')
                imsiz0=param0.stack_size;
                fidi=fopen(fildef,'r');
                im1=fread(fidi,prod(imsiz0));
                im1=reshape(im1,imsiz0);
                fclose(fidi);
            else
                [~, ~, ext] = fileparts(fildef);
                switch ext
                    case '.mat'
                        load(fildef,'jm3');
                        im1=(jm3);
                        clear jm3
                    case {'.tif','.tiff'}
                        im1=readTIFFasRAW(fildef);
                end
            end
            if iscale>1
                for ip=1:(iscale-1)
                    scale=2;
                    imsiz0=size(im1);
                    imsiz1=floor(imsiz0/2);
                    nn=2*imsiz1;
                    if nn(1)<imsiz0(1)
                        im1((nn(1)+1):end,:,:)=[];
                    end
                    if nn(2)<imsiz0(2)
                        im1(:,(nn(2)+1):end,:)=[];
                    end
                    if nn(3)<imsiz0(3)
                        im1(:,:,(nn(3)+1):end)=[];
                    end
                    
                    im1=reshape(im1,scale,prod(nn)/scale);
                    im1=mean(im1,1);
                    nn(1)=nn(1)/scale;
                    im1=reshape(im1,nn);
                    
                    im1=permute(im1,[2,3,1]);
                    im1=reshape(im1,scale,prod(nn)/scale);
                    im1=mean(im1,1);
                    nn(2)=nn(2)/scale;
                    im1=reshape(im1,nn([2,3,1]));
                    im1=permute(im1,[3,1,2]);
                    
                    im1=permute(im1,[3,1,2]);
                    im1=reshape(im1,scale,prod(nn)/scale);
                    im1=mean(im1,1);
                    nn(3)=nn(3)/scale;
                    im1=reshape(im1,nn([3,1,2]));
                    im1=permute(im1,[2,3,1]);
                end
            end
            Urbti=round(mean(Ui(0*Nn+(1:Nn))));
            Vrbti=round(mean(Ui(1*Nn+(1:Nn))));
            Wrbti=round(mean(Ui(2*Nn+(1:Nn))));
            [mean1,std1]=mexImScalling3D(int64(im1(max(1,Urbti+roip(1)):min(size(im1,1),Urbti+roip(2)),...
                max(1,Vrbti+roip(3)):min(size(im1,2),Vrbti+roip(4)),...
                max(1,Wrbti+roip(5)):min(size(im1,3),Wrbti+roip(6)))));
            
            
            
        end
        if ng>0
            if any(elt==4)
                [xgt,ygt,zgt,wgt]=GetGaussPointsTetrahedron(ng,ns);
                Nt=[1-xgt-ygt-zgt,xgt,ygt,zgt];
                
                Nt_r=[-1+0*xgt,1+0*xgt,0*ygt,0*zgt];
                Nt_s=[-1+0*xgt,0*xgt,1+0*ygt,0*zgt];
                Nt_t=[-1+0*xgt,0*xgt,0*ygt,1+0*zgt];
                %         Nt_r=Nt_r(:,[3,4,1,2]);
                %         Nt_s=Nt_s(:,[3,4,1,2]);
                %         Nt_t=Nt_t(:,[3,4,1,2]);
            end
            if any(elt==6)
                [xgw,ygw,zgw,wgw]=GetGaussPointsWedge(ng,ns);
                Nw=[0.5*(1-xgw-ygw).*(1-zgw),0.5*(xgw).*(1-zgw),0.5*(ygw).*(1-zgw),...
                    0.5*(1-xgw-ygw).*(1+zgw),0.5*(xgw).*(1+zgw),0.5*(ygw).*(1+zgw)];
                Nw_r=[-0.5*(1-zgw),0.5*(1-zgw),(0*ygw),...
                    -0.5*(1+zgw),0.5*(1+zgw),(0*ygw)];
                Nw_s=[-0.5*(1-zgw),(0*xgw),0.5*(1-zgw),...
                    -0.5*(1-zgw),(0*xgw),0.5*(1-zgw)];
                Nw_t=[-0.5*(1-xgw-ygw),-0.5*xgw,-0.5*ygw,...
                    0.5*(1-xgw-ygw),0.5*xgw,0.5*ygw];
            end
            if any(elt==8)
                [xgq,ygq,zgq,wgq]=GetGaussPointsHexaedron(ng,ns);
                Nq=[0.125*(1-xgq).*(1-ygq).*(1-zgq),0.125*(1+xgq).*(1-ygq).*(1-zgq),0.125*(1+xgq).*(1+ygq).*(1-zgq),0.125*(1-xgq).*(1+ygq).*(1-zgq),...
                    0.125*(1-xgq).*(1-ygq).*(1+zgq),0.125*(1+xgq).*(1-ygq).*(1+zgq),0.125*(1+xgq).*(1+ygq).*(1+zgq),0.125*(1-xgq).*(1+ygq).*(1+zgq)];
                Nq_r=[-0.125*(1-ygq).*(1-zgq),0.125*(1-ygq).*(1-zgq),0.125*(1+ygq).*(1-zgq),-0.125*(1+ygq).*(1-zgq),...
                    -0.125*(1-ygq).*(1+zgq),0.125*(1-ygq).*(1+zgq),0.125*(1+ygq).*(1+zgq),-0.125*(1+ygq).*(1+zgq)];
                Nq_s=[-0.125*(1-xgq).*(1-zgq),-0.125*(1+xgq).*(1-zgq),0.125*(1+xgq).*(1-zgq),0.125*(1-xgq).*(1-zgq),...
                    -0.125*(1-xgq).*(1+zgq),-0.125*(1+xgq).*(1+zgq),0.125*(1+xgq).*(1+zgq),0.125*(1-xgq).*(1+zgq)];
                Nq_t=[-0.125*(1-xgq).*(1-ygq),-0.125*(1+xgq).*(1-ygq),-0.125*(1+xgq).*(1+ygq),-0.125*(1-xgq).*(1+ygq),...
                    0.125*(1-xgq).*(1-ygq),0.125*(1+xgq).*(1-ygq),0.125*(1+xgq).*(1+ygq),0.125*(1-xgq).*(1+ygq)];
            end
            
        end
        for i1=1:prod(Nelems)
            %                        display(sprintf('elemen %d /%d\n',i1,prod(Nelems)));
            inods=conn(i1,1:elt(i1));
%             if mfilter
%                 Un=zeros(numel(inods),1);
%                 Vn=zeros(numel(inods),1);
%                 Wn=zeros(numel(inods),1);
%                 for in=1:elt(i1)
%                     ee=sum(conn==inods(in),2)>0;
%                     ee=conn(ee,:);
%                     ee=unique(ee(:));
%                     Un(in)=median(Ui(ee));
%                     Vn(in)=median(Ui(ee+1*Nn));
%                     Wn(in)=median(Ui(ee+2*Nn));
%                 end
%             else
                Un=Ui(inods+0*Nn);
                Vn=Ui(inods+1*Nn);
                Wn=Ui(inods+2*Nn);
%            end
            xn=xo(inods);
            yn=yo(inods);
            zn=zo(inods);
            inde=[];
            if ng==0||any(face_elts==i1)
                ipix=max(1,ceil(min(xn)-2)):min(sizeim(1),floor(max(xn)+2));
                jpix=max(1,ceil(min(yn)-2)):min(sizeim(2),floor(max(yn)+2));
                kpix=max(1,ceil(min(zn)-2)):min(sizeim(3),floor(max(zn)+2));
                im0e=double(im0(ipix,jpix,kpix));
                if pstep>1
                    %                     ipixo=int32(1:pstep:size(im0e,1))';
                    %                     jpixo=int32(1:pstep:size(im0e,2))';
                    %                     kpixo=int32(1:pstep:size(im0e,3))';
                    %                     [ypix,xpix,zpix]=meshgrid(jpix(jpixo),ipix(ipixo),kpix(kpixo));
                    [ypix,xpix,zpix]=meshgrid(jpix(1:pstep:end),ipix(1:pstep:end),kpix(1:pstep:end));
                else
                    
                    [ypix,xpix,zpix]=meshgrid(jpix,ipix,kpix);
                end
                if invmap||~(elt(i1)==8)
                    [xg,yg,zg,wg]=GetGaussPointsVoxels(elt(i1),xn,yn,zn,xpix(:),ypix(:),zpix(:));
                else
                    xg=-1+2*(xpix(:)-min(xn))/(max(xn)-min(xn));
                    yg=-1+2*(ypix(:)-min(yn))/(max(yn)-min(yn));
                    zg=-1+2*(zpix(:)-min(zn))/(max(zn)-min(zn));
                    switch elt(i1)
                        case 6
                            wg=~(xg<0|yg<0|1-xg-yg<0|abs(zg)>1);
                        case 4
                            wg=~(xg<0|yg<0|zg<0|1-xg-yg-zg<0);
                        case 8
                            wg=~(abs(xg)>1|abs(yg)>1|abs(zg)>1);
                    end
                end
                N=GetFiniteElementShapeFunctions3D(elt(i1),xg(:),yg(:),zg(:));
                if elt(i1)<8
                    N=N(:,1:elt(i1));
                end
                
                if any(face_elts==i1)
                    heaviside=double(crack(ipix+roi(1)-zone(1),jpix+roi(3)-zone(3),kpix+roi(5)-zone(5))>=0);
                    
                    for in=1:elt(i1)
                        ienr=find(face_nodes==inods(in));
                        if ~isempty(ienr)
                            hn=double(crackn(ienr)>=0);
                            N=[N,N(:,in).*(heaviside(:)-hn)];
                            inde=[inde,ienr];
                            Un=[Un;Ui(3*Nn+ienr+0*nenr)];
                            Vn=[Vn;Ui(3*Nn+ienr+1*nenr)];
                            Wn=[Wn;Ui(3*Nn+ienr+2*nenr)];
                        end
                    end
                end
                phidf=mexPhidf3D(im0e,N,pstep);
                if pstep>1
                    im0e=im0e(1:pstep:end,1:pstep:end,1:pstep:end);
                end
            else
                if elt(i1)==4
                    N=Nt;wg=wgt;
                    N_r=Nt_r;N_s=Nt_s;N_t=Nt_t;
                elseif elt(i1)==6
                    N=Nw;wg=wgw;
                    N_r=Nw_r;N_s=Nw_s;N_t=Nw_t;
                elseif elt(i1)==8
                    N=Nq;wg=wgq;
                    N_r=Nq_r;N_s=Nq_s;N_t=Nq_t;
                end
                xpix=N*xn;
                ypix=N*yn;
                zpix=N*zn;
                dxdr=N_r*xn;
                dydr=N_r*yn;
                dzdr=N_r*zn;
                dxds=N_s*xn;
                dyds=N_s*yn;
                dzds=N_s*zn;
                dxdt=N_t*xn;
                dydt=N_t*yn;
                dzdt=N_t*zn;
                detJ=dxdr.*dyds.*dzdt+dxds.*dydt.*dzdr+dxdt.*dydr.*dzds...
                    -dzdr.*dyds.*dxdt-dzds.*dydt.*dxdr-dzdt.*dydr.*dxds;
                wg=wg.*detJ;
                
                [gx,gy,gz]=mexGradLinear3D(xpix(:),ypix(:),zpix(:),im0);
                gx=diag(sparse(gx(:)));
                gy=diag(sparse(gy(:)));
                gz=diag(sparse(gz(:)));
                phidf=[gx*N,gy*N,gz*N];
                im0e=mexInterpLinear3D(xpix(:),ypix(:),zpix(:),im0);
            end
            xpix=xpix(:)+(N*Un)/pscale+roip(1)-1;
            ypix=ypix(:)+(N*Vn)/pscale+roip(3)-1;
            zpix=zpix(:)+(N*Wn)/pscale+roip(5)-1;
            xmin=max(floor(min(xpix))-2,1);xmax=min(ceil(max(xpix))+2,size(im1,1));
            ymin=max(floor(min(ypix))-2,1);ymax=min(ceil(max(ypix))+2,size(im1,2));
            zmin=max(floor(min(zpix))-2,1);zmax=min(ceil(max(zpix))+2,size(im1,3));
            im1el=double(im1(xmin:xmax,ymin:ymax,zmin:zmax));
            im1e=mexInterpLinear3D(xpix-xmin+1,ypix-ymin+1,zpix-zmin+1,im1el);
            %                         im1e=mexInterpLinear3D(xpix(:)+(N*Un)/pscale+roip(1)-1,...
            %                 ypix(:)+(N*Vn)/pscale+roip(3)-1,...
            %                 zpix(:)+(N*Wn)/pscale+roip(5)-1,...
            %                 im1);
            if inorm
                im0e=im0e-mean(im0e(:));
                im1e=im1e-mean(im1e(:));
                sc=max(1,std(im0e(:)))/max(1,std(im1e(:)));
                im1e=sc*im1e;
            else
                 im0e=im0e-mean0;
                im1e=im1e-mean1;
                sc=max(1,std0)/max(1,std1);
                im1e=sc*im1e;
            end

            im1e=im0e(:)-im1e(:);
            wg=diag(sparse(wg(:)));
            indo=[inods,3*Nn+inde+0*nenr,inods+Nn,3*Nn+inde+1*nenr,inods+2*Nn,3*Nn+inde+2*nenr];
            if do_matrix
                [indj,indi]=meshgrid(indo,indo);
                ne=1:(3*size(N,2))^2;
                Mel=(wg*phidf);
                Mel=phidf'*Mel;
                indig(nel+ne)=indi(:);
                indjg(nel+ne)=indj(:);
                val(nel+ne)=Mel(:);
                nel=nel+numel(Mel);
            end
            
            Fel=wg*(im1e(:));
            Fel=phidf'*Fel;
            %            Fels(i1,[1:elt(i1),size(conn,2)+(1:elt(i1)),2*size(conn,2)+(1:elt(i1))])=Fel;
            F(indo(:))=F(indo(:))+Fel(:);
            mdisce=sum(wg*abs(im1e(:)))/sum(diag(wg));
            mdisc=mdisc+mdisce;
            disc(i1)=mdisce;
        end
        mdisc=mdisc/length(elt);
        if do_matrix
            if nel<length(indig)
                indig(nel+1:length(indig))=[];
                indjg(nel+1:length(indjg))=[];
                val(nel+1:length(val))=[];
            end
            M=sparse(indig,indjg,val,3*(Nn+nenr),3*(Nn+nenr));
        end
        %        F=full(sparse([conn,Nn+conn,2*Nn+conn],ones(size(Fels)),Fels,3*Nn,1));
    end
end

back to top

Software Heritage — Copyright (C) 2015–2026, The Software Heritage developers. License: GNU AGPLv3+.
The source code of Software Heritage itself is available on our development forge.
The source code files archived by Software Heritage are available under their own copyright and licenses.
Terms of use: Archive access, API— Content policy— Contact— JavaScript license information— Web API