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
  • /
  • RBMSolver.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:55bd8a7e3c32dc69cc476adf6d585528558a9970
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
RBMSolver.m
function [U,A]=RBMSolver(Uini,iscale,nmod,L)
if nargin<4,dokk=1;
else dokk=0;end
ttic=cputime;
load(fullfile('TMP','params'),'param');
param0=param;
onflight=0;
if isfield(param0,'onflight')
    onflight=param0.onflight;
end
if onflight
    global phiy phix Xi Yi wdetJ inde on phidf
end
load(fullfile('TMP',sprintf('%d_params',nmod)),'param');
psample=1;
if isfield(param0,'sampling_factor')
    psample=param0.sampling_factor;
end
ncamr=1;
dotopo=(~isfield(param,'topography'))&&isfield(param0,'calibration_data');
docrosscorrelation=0;
if ~isfield(param0,'deformed_image')
    mreader=VideoReader(param0.reference_image);
    nbf=mreader.NumberOfFrames-1;
    if isfield(param0,'number_of_frames')
        nbf=param0.number_of_frames;
    end
    dim=1;
    if isfield(param0,'video_sampling')
        dim=param0.video_sampling;
    end
    frames=2:dim:nbf;
    nim=length(frames);
    ncamd=1;
else
    if iscell(param0.deformed_image)
        nim=size(param0.deformed_image,2);
        ncamd=size(param0.deformed_image,1);
    else
        nim=1;
        ncamd=1;
    end
end
if ncamr==1
    indcam=ncamd:-1:1;
else
    if docrosscorrelation
        indo=(ncamd:-1:1)';
        indcam=indo';
        for ic=1:ncamd-1
            indo=circshift(indo,1);
            indcam=[indcam;indo'];
        end
    else
        indcam=(1:ncamd)';
    end
end
restart=1;
if isfield(param0,'restart')
    restart=param0.restart;
end
reverse=0;
if isfield(param0,'reverse_image')
    reverse=param0.reverse_image;
end
disct=0;
maxiter=param0.iter_max;
conv=param0.convergance_limit;
disp(sprintf('Starting resolution for scale %d...',iscale));

pscale=2^(iscale-1);

im1=0;
pixint=1;
U=Uini;
A=zeros(size(L,2),size(U,2));
fid=fopen(fullfile('TMP',sprintf('%d_error_%d.mat',nmod,iscale-1)),'w');
if restart
    nmax=nim;
else
    if iscale==1
        nmax=nim;
    else
        if nim<2+dotopo
            nmax=nim;
        else
            nmax=2+dotopo;
        end
        if isfield(param0,'time_step')
            nmax=param0.time_step;
        end
    end
end
for ijm=1:nmax
    display(sprintf('Image %d/%d',ijm,nmax));
    for icamr=1:ncamr
        
        if ijm==1||ncamr>1
            load(fullfile('TMP',sprintf('sample%d_%d',(icamr-1),iscale-1)),'im0','sizeim','roi');
            dynamic=max(im0(:))-min(im0(:));
            ndim=length(sizeim);
            if ~onflight
                
                load(fullfile('TMP',sprintf('%d_phix_%d',nmod*10^(icamr-1),(iscale-1))),'on');
                load(fullfile('TMP',sprintf('%d_phix_%d',nmod*10^(icamr-1),10*(iscale-1))),'phix','Xi','Yi','wdetJ');
                load(fullfile('TMP',sprintf('%d_phiy_%d',nmod*10^(icamr-1),10*(iscale-1))),'phiy');
                load(fullfile('TMP',sprintf('%d_phidf_%d',nmod*10^(icamr-1),iscale-1)),'phidf');
            end
            load(fullfile('TMP',sprintf('%d_operator_%d',nmod*10^(icamr-1),iscale-1)),'M','R','P');
            M=L'*((M+R+P)*L);
            load(fullfile('TMP',sprintf('%d_mask_%d',nmod,iscale-1)),'mask');
            if ijm==1&&icamr==1, fwrite(fid,0);fwrite(fid,min(255,dynamic));end
            if iscale==1
                if strcmp(param.basis,'fem')||strcmp(param.basis,'nurbs')||strcmp(param.basis,'btri')
                    mesh_file=fullfile('TMP',sprintf('%d_mesh_%d',nmod*10^(icamr-1),iscale-1));
                    load(mesh_file,'ng');
                    if (ng>0)||isfield(param,'gp_file')||isfield(param,'extrusion_parameters')||strcmp(param.basis,'nurbs')||strcmp(param.basis,'btri')
                        load(fullfile('TMP',sprintf('sample%d',(icamr-1))),'im0','sizeim');
                        [im00]=mexInterpSpline((Xi-1)*psample+roi(1),(Yi-1)*psample+roi(3),im0);
                        im0=im00;
                        pixint=0;
                    end
                end
            end
            mean0=mean(im0(:));
            std0=std(im0(:));
            im0=im0-mean0;
        end
        for icamd=1:size(indcam,2)
            iz=indcam(icamr,icamd)+(icamr-1)*size(indcam,2)*docrosscorrelation;
            res=1;
            ii=1;
            if restart
                Ui=Uini(:,ijm,iz);
            Pi=zeros(size(L,2),1);
            else
                if ijm==1
                    Ui=Uini(:,ijm,iz);
            Pi=zeros(size(L,2),1);
                    if dotopo&&(indcam(icamr,icamd)==icamr)
                        Ui=0*Ui;
                        res=0;
                        disc=zeros(numel(im0),1);
                    end
                elseif ijm<3+dotopo
                    Ui=Uini(:,ijm,iz);
                else
%                    DU=U(:,ijm-1,iz)-U(:,ijm-2,iz);
                    DP=A(:,ijm-1)-A(:,ijm-2);
%                    if incremental
%                        Ui=DU;
%                    else
%                        Ui=U(:,ijm-1,iz)+DU;
                        Pi=A(:,ijm-1)+DP;
 Ui=Uini(:,ijm,iz)+L*Pi;
 %                    end
                    
                end
                
            end
            
            while ( res>conv && ii< maxiter)
                                
                Ux=phix*Ui;
                Uy=phiy*Ui;
                NestedResidual(ijm);
                disc=mask*disc;
                merror=std(disc(on))/dynamic;
                
                F=phidf'*(wdetJ*disc);
                F=L'*(F-R*Ui);
                if isfield(param0,'solver')
                    solv=param0.solver;
                    
                    if strcmp(solv,'lu')
                        if ii==1
                            [LT,UT]=lu(sparse(M));
                        end
                        dU=UT\(LT\F);
                    elseif strcmp(solv,'chol')
                        if ii==1
                            Rc=chol(sparse(M));
                        end
                        dU=Rc\(Rc'\F);
                    end
                else
                    dU=M\F;
                end
                
                Pi=Pi+dU;
                dU=L*dU;
                
                disp(sprintf('At iteration # %d',ii));
                disp(sprintf('Discrepancy wrt dyn. =%6.2f %%',merror*100));
                if ii==1
                    nU0=max(sqrt(length(Ui)),norm(Ui+dU(:)));
                else
                    if length(dU)>10
                        res=norm(dU(:))/nU0;
                    else
                        res=max(abs(dU)./Ui);
                    end
                    disp(sprintf('|dU|=%f',res));
                    
                end
                Ui=Ui+dU;
                %display(sprintf('uncertainty at iteration %d : %f\n',ii,sqrt(0.5*(var(Ui((1:size(U,1)/2)))+var(Ui(size(U,1)/2+(1:size(U,1)/2)))))))
                ii=ii+1;
            end
            U(:,ijm,iz)=Ui;
            A(:,ijm)=Pi;
            disct=disct+disc'*mask*disc;
            if dynamic>255
                disc=255*disc/dynamic;
            end
            fwrite(fid,(abs(disc)));
            if pixint&&iscale==1
                disc(~on)=0;
                VTKExportIntMap(sprintf('camr-%d-camd-%d-scale-%d-%d',icamr,icamd,iscale,ijm),'error',roi(1)-1+(1:sizeim(1)),roi(3)-1+(1:sizeim(2)),reshape(uint8(abs(disc)),sizeim),1);
            end
        end
    end
end
disp(sprintf('Enlapsed time for resolution = %6.2f s',cputime -ttic));
fclose(fid);
    function NestedResidual(kkk)
        if ii==1
            if ~isfield(param0,'deformed_image')
                im1=double(readim(mreader,frames(kkk)));
            else
                if ~iscell(param0.deformed_image)
                    fildef=param0.deformed_image;
                    im1=double(readim(fildef));
                else
                    fildef=param0.deformed_image{indcam(icamr,icamd),kkk};
                    im1=double(readim(fildef));
                end
            end
            if length(size(im1))==3
                im1=mean(im1,3);
            end
            if reverse
                im1=im1';
            end
            
        end
        %                                   if iscale==1
        %                                            figure
        %                                            scatter(Xi,Yi,10+0*Uy,Uy)
        %         %                                  imagesc(reshape(Ux,sizeim*pscale))
        %                                            pause
        %                                   end
        sizeim1=size(im1);
        disc=(mexInterpSpline((Xi-1)*psample+Ux+roi(1),(Yi-1)*psample+Uy+roi(3),im1));
        %        disc=mexInterpSpline((Xi+Ux+roi(1)-1),(Yi+Uy+roi(3)-1),im1);
        if iscale>1
            disc=reshape(disc,sizeim*pscale);
            NestedCoarseImage(pscale);
        end
        
        maske=disc<0;
        mean1=mean(disc(:));
        std1=std(disc(:));
        disc=disc-mean1;
        st=std0/std1;
        disc=(im0(:)-st*disc(:));
        disc(maske)=0;
        
        
        function NestedCoarseImage(scale)
            
            imsiz0=size(disc);
            imsiz1=floor(imsiz0/2);
            nn=2*imsiz1;
            ndim=length(nn);
            if ndim==2
                disc=disc(1:nn(1),1:nn(2));
            elseif ndim==3
                disc=disc(1:nn(1),1:nn(2),1:nn(3));
            end
            
            disc=reshape(disc,scale,prod(nn)/scale);
            disc=mean(disc,1);
            nn(1)=nn(1)/scale;
            disc=reshape(disc,nn);
            
            if ndim==2
                disc=disc';
                disc=reshape(disc,scale,prod(nn)/scale);
                disc=mean(disc,1);
                nn(2)=nn(2)/scale;
                disc=reshape(disc,nn([2,1]));
                disc=disc';
                %toc();
            elseif ndim==3
                disc=permute(disc,[2,3,1]);
                disc=reshape(disc,scale,prod(nn)/scale);
                disc=mean(disc,1);
                nn(2)=nn(2)/scale;
                disc=reshape(disc,nn([2,3,1]));
                disc=permute(disc,[3,1,2]);
                
                disc=permute(disc,[3,1,2]);
                disc=reshape(disc,scale,prod(nn)/scale);
                disc=mean(disc,1);
                nn(3)=nn(3)/scale;
                disc=reshape(disc,nn([3,1,2]));
                disc=permute(disc,[2,3,1]);
            end
            
        end
    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