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function xout=crp_big(varargin)
%CRP_BIG Creates a cross recurrence plot/ recurrence plot.
% CRP_BIG(X [,Y] [,param1,param2,...]) creates a cross
% recurrence plot/ recurrence plot. Results can be
% stored into the workspace. In contrast to CRP, long
% data series can be used. Results can be stored into
% the workspace.
%
% R=CRP_BIG(X,M,T,E) uses the dimension M, delay T
% and the size of neighbourhood E and creates a recurrence
% plot of X.
%
% R=CRP_BIG(X,Y,'order') creates an order matrix plot
% with normalization of the data.
%
% R=CRP_BIG(X,Y,'distance','nonormalize') creates a
% distance coded matrix plot without normalization
% of the data.
%
% Allows to change the parameters interactively by
% using a GUI.
%
% The source-data X and test-data Y can be one- or
% a two-coloumn vectors (then, in the first column
% have to be the time); if the test-data Y is not
% specified, a simple recurrence plot is created.
%
% Parameters: dimension M, delay T and the size of
% neighbourhood E are the first three numbers after
% the data series; further parameters can be used
% to switch between various methods of finding the
% neighbours of the phasespace trajectory, to suppress
% the normalization of the data and to suppress the
% GUI (useful in order to use this programme by other
% programmes).
%
% Methods of finding the neighbours/ of plot.
% maxnorm - Maximum norm.
% euclidean - Euclidean norm.
% minnorm - Minimum norm.
% nrmnorm - Euclidean norm between normalized vectors
% (all vectors have the length one).
% rr - Maximum norm, fixed recurrence rate.
% fan - Fixed amount of nearest neighbours.
% inter - Interdependent neighbours.
% omatrix - Order matrix.
% opattern - Order patterns recurrence plot.
% distance - Distance coded matrix (global CRP, Euclidean norm).
%
% Normalization of the data series.
% normalize - Normalization of the data.
% nonormalize - No normalization of the data.
%
% Suppressing the GUI.
% gui - Creates the GUI and the output plot.
% nogui - Suppresses the GUI and the output plot.
% silent - Suppresses all output.
%
% Parameters not needed to be specified.
%
% Current limitation: for higher speed in
% output the whole matrix of the recurrence
% plot is in the work space - this limits
% the application of long data series.
%
% Examples: a = sqrt(100 ^ 2 - (-71:71) .^ 2); b = 1:100;
% b(101:100 + length(a)) = -(a) + 170;
% b(end+1:end+100) = 100:-1:1;
% Copyright (c) 2008-2009
% Norbert Marwan, Potsdam Institute for Climate Impact Research, Germany
% http://www.pik-potsdam.de
%
% Copyright (c) 1998-2008
% Norbert Marwan, Potsdam University, Germany
% http://www.agnld.uni-potsdam.de
%
% $Date$
% $Revision$
%
% $Log$
% Revision 5.15 2012/10/22 14:18:33 marwan
% bug fix: normalisation of data when data contains Inf
%
% Revision 5.14 2010/06/29 12:48:16 marwan
% bug in checking the lengths of x and y
%
% Revision 5.13 2009/03/24 08:31:17 marwan
% copyright address changed
%
% Revision 5.12 2008/07/02 11:59:43 marwan
% bug fix for logical data vectors
%
% Revision 5.11 2007/07/18 17:18:44 marwan
% integer values in the arguments supported
%
% Revision 5.10 2007/05/15 17:33:13 marwan
% new neighbourhood criterion: fixed RR
%
% Revision 5.9 2007/03/29 13:17:51 marwan
% uint8 of order patterns and order matrix
%
% Revision 5.8 2006/10/24 14:16:16 marwan
% minor change: sigma in title line of RP shown only for normalised data
%
% Revision 5.7 2006/03/29 13:07:55 marwan
% problems regarding OPRPs and embedding resolved
%
% Revision 5.6 2006/02/06 13:46:17 marwan
% plugin for order patterns recurrence plots supported
%
% Revision 5.5 2005/11/23 07:30:30 marwan
% modified interdependent algorithm
% bug in showing RP fixed
%
% Revision 5.4 2005/11/09 08:58:13 marwan
% bug fix in interdependent neighbours method
%
% Revision 5.3 2005/06/15 15:16:00 marwan
% RP matrix transposed for "interdependent neighbourhood"
%
% Revision 5.2 2005/04/15 09:02:32 marwan
% minor bugfix in plugin section
%
% Revision 5.1 2005/04/08 09:52:27 marwan
% plugin added
%
% Revision 4.8.1.6 2005/03/16 12:21:54 marwan
% add hint in help text for joint recurrence plots
%
% Revision 4.8.1.5 2005/03/16 11:19:02 marwan
% help text modified
%
% Revision 4.8.1.4 2005/01/25 10:14:01 marwan
% bug in order pattern RP and order matrix (matrix transposed)
%
% Revision 4.8.1.3 2004/12/23 07:49:03 marwan
% bug in order patterns RP fixed (empty order patterns)
%
% Revision 4.8.1.2 2004/11/15 12:52:35 marwan
% bug fix in choice of neighbourhood (enabling and disabling parameters)
%
% Revision 4.8.1.1 2004/11/12 08:39:03 marwan
% bug fix in order patterns representation
%
% Revision 4.8 2004/11/11 12:18:13 marwan
% order patterns recurrence plot added
%
% Revision 4.7 2004/11/10 07:04:40 marwan
% initial import
%
%
% This program is part of the new generation XXII series.
%
% This program is free software; you can redistribute it and/or
% modify it under the terms of the GNU General Public License
% as published by the Free Software Foundation; either version 2
% of the License, or any later version.
warning off
global errcode props nonorm
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% programme properties
errcode=0;
init_properties
hCRP=[];hCtrl=[];nogui=[];obj=[];mflag=[];
set(0,'ShowHidden','On')
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% check and read the input
error(nargchk(1,9,nargin));
if nargout>1, error('Too many output arguments'), end
check_meth={'ma','eu','mi','nr','rr','fa','in','om','op','di'}; % maxnorm, euclidean, nrmnorm, fan, distance
check_norm={'non','nor'}; % nonormalize, normalize
check_gui={'gui','nog','sil'}; % gui, nogui, silent
% transform any int to double
intclasses = {'uint8';'uint16';'uint32';'uint64';'int8';'int16';'int32';'int64';'logical'};
flagClass = [];
for i = 1:length(intclasses)
i_int=find(cellfun('isclass',varargin,intclasses{i}));
if ~isempty(i_int)
for j = 1:length(i_int)
varargin{i_int(j)} = double(varargin{i_int(j)});
end
if ~isempty(flagClass)
disp(['Warning: Input arguments at position [',num2str(flagClass'),'] contain integer values']);
disp(['(now converted to double).'])
end
if isnumeric(varargin{1})==1 % read commandline input
varargin{9}=[];
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i_double=find(cellfun('isclass',varargin,'double'));
i_char=find(cellfun('isclass',varargin,'char'));
% check the text input parameters for method, gui and normalization
temp_meth=0;
temp_norm=0;
temp_gui=0;
if ~isempty(i_char)
for i=1:length(i_char),
varargin{i_char(i)}(4)='0';
temp_meth=temp_meth+strcmpi(varargin{i_char(i)}(1:2),check_meth');
temp_norm=temp_norm+strcmpi(varargin{i_char(i)}(1:3),check_norm');
temp_gui=temp_gui+strcmpi(varargin{i_char(i)}(1:3),check_gui');
end
method=min(find(temp_meth));
nonorm=min(find(temp_norm))-1;
nogui=min(find(temp_gui))-1;
if isempty(method), method=1; end
if isempty(nonorm), nonorm=1; end
if isempty(nogui), nogui=0; end
if method>length(check_meth), method=length(check_meth); end
if nonorm>1, nonorm=1; end
if nogui>2, nogui=2; end
else
method=1; nonorm=1; nogui=0;
end
if nogui==0 & nargout>0, nogui=1; end
% get the parameters for creating RP
if max(size(varargin{1}))<=3
error('To less values in data X.')
end
x=double(varargin{1});
% if isempty(varargin{2}) | ~isnumeric(varargin{2}), y=x; end
% if ~isempty(varargin{2}) & isnumeric(varargin{2}), y=double(varargin{2}); end
if isempty(varargin{2}) | ~isnumeric(varargin{2}), y=x;
else, y=double(varargin{2}); end
if (isnumeric(varargin{2}) & max(size(varargin{2}))==1) | ~isnumeric(varargin{2})
y=x;
if ~isempty(varargin{i_double(2)}), m=varargin{i_double(2)}(1); else m=1; end
if ~isempty(varargin{i_double(3)}), t=varargin{i_double(3)}(1); else t=1; end
if ~isempty(varargin{i_double(4)}), e=varargin{i_double(4)}(1); else e=.1; end
else
if ~isempty(varargin{i_double(3)}), m=varargin{i_double(3)}(1); else m=1; end
if ~isempty(varargin{i_double(4)}), t=varargin{i_double(4)}(1); else t=1; end
if ~isempty(varargin{i_double(5)}), e=varargin{i_double(5)}(1); else e=.1; end
end
if e<0, e=1; disp('Warning: The threshold size E cannot be negative and is now set to 1.'), end
if t<1, t=1; disp('Warning: The delay T cannot be smaller than one and is now set to 1.'), end
t=round(t); m=round(m); mflag=method;
if m < 1, m = 1; end
if t < 1, t = 1; end
m=1;
disp('Warning: For order matrix a dimension of one is used.')
end
m=2;
disp(['Warning: For order patterns recurrence plots the dimension must',10,...
'be larger than one. ',...
'Embedding dimension is set to ',num2str(m),'.'])
end
if ~isempty(find(isnan(x)))
disp('Warning: NaN detected (in first variable) - will be cleared.')
for k=1:size(x,2), x(find(isnan(x(:,k))),:)=[]; end
end
if ~isempty(find(isnan(y)))
disp('Warning: NaN detected (in second variable) - will be cleared.')
for k=1:size(y,2), y(find(isnan(y(:,k))),:)=[]; end
end
if size(x,1)<size(x,2), x=x'; end
if size(y,1)<size(y,2), y=y'; end
Nx=length(x); Ny=length(y);
NX=Nx-t*(m-1);NY=Ny-t*(m-1);
if (NX<1 | NY<1) & nogui==0;
errordlg('The embedding vectors cannot be created. Dimension M and/ or delay T are to big. Please use smaller values.','Dimension/ delay to big')
waitforbuttonpress
end
if size(x,2)>=2
xscale=x(:,1);
if ~isempty(find(diff(xscale)<0)), error('First column of the first vector must be monotonically non-decreasing.'),end
idx = find(~isinf(x(:,2)));
if nonorm==1, x=(x(:,2)-mean(x(idx,2)))/std(x(idx,2)); else x=x(:,2); end
idx = find(~isinf(x));
if nonorm==1, x=(x-mean(x(idx)))/std(x(idx)); end
if size(y,2)>=2
yscale=y(:,1);
if ~isempty(find(diff(yscale)<0)), error('First column of the second vector must be monotonically non-decreasing.'),end
idx = find(~isinf(y(:,2)));
if nonorm==1, y=(y(:,2)-mean(y(idx,2)))/std(y(idx,2)); else y=y(:,2); end
idx = find(~isinf(y));
if nonorm==1, y=(y-mean(y(idx)))/std(y(idx)); end
yscale=(1:length(y))';
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end
ds=eye(m);
else % read input from the GUI
action=varargin{1};
nogui=0;
h=get(gcf,'Name');h=h(findstr(h,'(')+1:findstr(h,')')-1);
hCRP=findobj('Name',['Cross Recurrence Plot (' h ')']);
hCtrl=findobj('Name',['Control (' h ')']);
h=str2num(h);
xshuttle=get(findobj('Parent',hCRP,'Tag','DataPlot2'),'UserData');
if ~isempty(xshuttle)
xscale=xshuttle(:,1);
x=xshuttle(:,2);
yshuttle=get(findobj('Parent',hCRP,'Tag','DataPlot1'),'UserData');
yscale=yshuttle(:,1);
y=yshuttle(:,2);
if ~isempty(hCtrl)
if get(findobj('Tag','Unthresh','Parent',hCtrl),'Value')
mflag=length(check_meth);
else
mflag=get(findobj('Tag','Method','Parent',hCtrl),'Value');
end
m=get(findobj('Tag','Dim','Parent',hCtrl),'Value');
t=str2num(get(findobj('Tag','Delay','Parent',hCtrl),'String'));
e=str2num(get(findobj('Tag','Size','Parent',hCtrl),'String'));
if e<0, e=1;
errordlg('The threshold size E cannot be negative.','Threshold size to small')
waitforbuttonpress
set(findobj('Tag','Size','Parent',hCtrl),'String','1')
action='';
end
if t<1, t=1;
errordlg('The delay T cannot be smaller than one.','Delay to small')
waitforbuttonpress
set(findobj('Tag','Delay','Parent',hCtrl),'String','1')
action='';
end
ds = get(findobj('Tag','Dim','Parent',hCtrl),'UserData');
if mflag==8 | mflag==9 | mflag==length(check_meth)
set(findobj('Tag','Size','Parent',hCtrl),'enable','off');
set(findobj('Tag','Sizetext','Parent',hCtrl),'enable','off');
else
set(findobj('Tag','Size','Parent',hCtrl),'enable','on');
set(findobj('Tag','Sizetext','Parent',hCtrl),'enable','on');
end
nonorm = get(findobj('Tag','nonorm','Parent',hCtrl),'UserData');
m=1; ds = 1;
disp('Warning: For order matrix a dimension of one is used.')
end
m=2;
errordlg(['For order patterns recurrence plots the',10,'dimension must be larger than one.'],'Dimension too small')
set(findobj('Tag','Dim','Parent',hCtrl),'Value',m)
end
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Nx=length(x); Ny=length(y);
NX=Nx-t*(m-1);NY=Ny-t*(m-1);
if (NX<1 | NY<1) & strcmpi(action,'apply');
errordlg('The embedding vectors cannot be created. Dimension M and/ or delay T are to big. Please use smaller values.','Dimension/ delay to big')
waitforbuttonpress
action='';
end
end
end
clear xshuttle yshuttle
cm_old=get(hCRP,'Colormap');
cm=[{hsv(256)}; {hot(256)}; {gray(256)};...
{french(256)}; {bone(256)}; {copper(256)}; {pink(256)};...
{flag(256)}; {lines(256)}; {colorcube(256)};...
{jet(256)}; {prism(256)}; {cool(256)};...
{autumn(256)}; {spring(256)}; {winter(256)};...
{summer(256)}; {flipud(gray(2))}; {flipud(cm_old)}];
if isempty(findobj('Tag','CRPFig')) & nogui==0
action='init';
end
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% splash the GPL
splash_gpl('crp')
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% nogui
if nogui>0
hCRP=9999;
if nogui~=2
tx(5)={'maximum norm fixed RR'};
tx(6)={'fixed amount of nearest neighbours'};
tx(7)={'interdependent neighbours'};
tx(8)={'order matrix'};
tx(9)={'order pattern'};
tx(10)={'distance plot'};
disp(['use method: ', char(tx(method))]);
if nonorm==1, disp('normalize data'); else disp('do not normalize data'); end
end
action='compute';
if (NX<1 | NY<1)
disp('Warning: The embedding vectors cannot be created.')
disp('Dimension M and/ or delay T are to big. Please use smaller values.')
action='';
end
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% switch routines
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switch(action)
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% initialization
case 'init'
errcode=1;
xshuttle(:,1)=xscale;
yshuttle(:,1)=yscale;
xshuttle(:,2)=x;
yshuttle(:,2)=y;
ds=eye(m);
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% create GUI
errcode=2;
root_ud=get(0,'UserData');
if isstruct(root_ud)
if isfield(root_ud,'crp')
if ~isempty(root_ud.crp)
root_ud.crp=[root_ud.crp max(root_ud.crp)+1];
else
root_ud.crp=1;
end
h=num2str(root_ud.crp(end));
else
root_ud.crp=1;
h=num2str(1);
end
else
root_ud.old=root_ud;
root_ud.crp=1;
h=num2str(1);
end
set(0,'UserData',root_ud)
%%%%%%%%%%%%%%%%% CRP Figure
h_axes=create_CRPfig(h,xshuttle,yshuttle);
if nargout>0, xout=haxes; end
%%%%%%%%%%%%%%%%% Control Figure
errcode=3;
create_Ctrlfig('crp_big',h,ds,m,t,e,method)
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% vectorswitch
case 'vectorswitch'
vectorswitch
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% fit dimension display
case 'fitdim'
errcode=5;
ds2=eye(m);
if m>length(ds)
ds2(1:length(ds),1:length(ds))=ds;
else
ds2=ds(1:m,1:m);
end
ds=ds2; clear ds2
set(findobj('Tag','Dim','Parent',gcf),'UserData', ds);
for i=1:20
if i>m, set(findobj('Tag',['DimShift' num2str(i)],'Parent',gcf), 'Enable', 'off');
else, set(findobj('Tag',['DimShift' num2str(i)],'Parent',gcf), 'Enable', 'on'); end
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% unthresh
case 'unthresh'
errcode=6;
switch_unthresholded(hCRP)
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% stretch
case 'stretch'
errcode=7;
stretch(hCRP,xscale,yscale,Nx,Ny)
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% change colormap
case 'log'
errcode=82;
change_colormapscale(hCRP,cm)
case 'colormap'
errcode=81;
change_colormap(hCtrl,hCRP,cm)
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% store
case 'store'
errcode=9;
X=get(findobj('Tag','CRPData','Parent',findobj('Parent',hCRP,'Tag','CRPPlot')),'UserData');
if isempty(X)
warndlg('The CRP matrix is still empty. Please start the computation before storing.','Empty CRP')
waitforbuttonpress
else
assignin('base','X', double(X))
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% handlevisON
case 'handlevisON'
set(hCRP, 'HandleVis','on')
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% close
case 'close'
errcode=101;
close_all
case 'smartclose'
errcode=102;
if ishandle(hCRP) & ishandle(hCtrl)
smart_close(hCRP,hCtrl)
end
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% computation
case 'compute'
errcode=11;
txt_cross='Cross ';
if size(x)==size(y)
if x==y, txt_cross=''; end
end
if nogui==0
setptr([hCRP,hCtrl],'watch')
h=findobj('Tag','Apply','Parent',hCtrl);
obj.children=get(hCtrl,'Children');
obj.enable=get(obj.children,'Enable');
set(obj.children,'Enable','off')
set(h(1),'String','Stop',...
'ToolTip','Stops the computation.',...
'Enable','on',...
'Callback','set(gcbo,''String'',''Stopped'')')
end
[plugin_exist, plugin_name, plugin_path] = is_crp_plugin;
if plugin_exist & ( mflag < 4 | mflag == 9 | mflag == 10 ) & length(x) == length(y) & ~ispc % if plugin exist and method is MAX, MIN, EUC ord DIS
maxN=sqrt(m)*max(NX,NY);
if maxN>800
n=round(log(maxN/350)/log(2)); % orig war 150
if plugin_exist & ( mflag < 4 | mflag == 8 | mflag == 9 ) & length(x) == length(y), n=round(log(maxN/550)/log(2)); end
maxN=maxN/(2^n);
maxN=round(maxN);NX0=NX;NY0=NY;smax=sqrt(m)*(max(abs(x))+max(abs(y)));
else
maxN=round(sqrt(m)*800);NX0=NX;NY0=NY;smax=sqrt(m)*(max(abs(x))+max(abs(y)));
end
s_norm=sqrt(m)*abs(max(x(:))-min(x(:)));
set(findobj('Tag','Status','Parent',findobj('Parent',hCRP,'Tag','CRPPlot')),'Visible','on')
set(findobj('Tag','CRPData','Parent',findobj('Parent',hCRP,'Tag','CRPPlot')),'Visible','off')
set(findobj('Tag','Status','Parent',findobj('Parent',hCRP,'Tag','CRPPlot')),'String','Create CRP matrix'),drawnow
X=uint8(zeros(NY+(m-1)*t,NX+(m-1)*t));
if mflag == length(check_meth)
X = double(X);
end
set(findobj('Tag','Status','Parent',findobj('Parent',hCRP,'Tag','CRPPlot')),'String','Build Embedding Vectors'),drawnow
if m*Nx>maxN
ax=ceil(m*Nx/maxN);
Nx2=ceil(Nx/ax);
x(Nx+1:Nx2*ax+t*(m-1))=x(Nx);
else
ax=1; Nx2=Nx;
end
x(Nx+1:Nx2*ax+t*(m-1))=x(Nx);
x0=x;
if m*Ny>maxN
ay=ceil(m*Ny/maxN);
Ny2=ceil(Ny/ay);
else
ay=1; Ny2=Ny;
end
y(Ny+1:Ny2*ay+t*(m-1))=y(Ny);
y0=y;
if ~nonorm, unit = ''; else unit = '\sigma'; end
set(findobj('Tag','Status','Parent',findobj('Parent',hCRP,'Tag','CRPPlot')),'String','Compute CRP'),drawnow
if nogui==0
% set(hCRP,'Renderer','OpenGL')
h1=axes('Parent',hCRP,'pos',[.3 .34 .4 .02],'xtick',[],'ytick',[],'box','on','NextPlot','add');
h2=fill([0 0 0 0],[0 0 1 1],[.2 .3 1],'Parent',h1,'LineStyle','None');
set(h1,'xtick',[],'ytick',[],'box','on','xlim',[0 1],'layer','top')
end
k=0;
for i=1:ax,
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if nogui==0
h=findobj('Tag','Apply','Parent',hCtrl);
if strcmpi(get(h(1),'String'),'stopped')
set(h(1),'String','Apply',...
'ToolTip','Starts the computation - be patient.',...
'Callback','crp_big compute')
for i=1:length(obj.enable), set(obj.children(i),'Enable',obj.enable{i}); end
break
end
end
% make substring of data
x=x0(1+Nx2*(i-1):Nx2+Nx2*(i-1)+t*(m-1));
for j=1:ay,
y=y0(1+Ny2*(j-1):Ny2+Ny2*(j-1)+t*(m-1));
k=k+1;
Nx=length(x); Ny=length(y);
NX=Nx-t*(m-1);NY=Ny-t*(m-1);
if nogui==0
if k/10==fix(k/10), set(h2,'XData',[0 k/(ax*ay) k/(ax*ay) 0]), drawnow, end
end
% embedding vectors
ii=(1:NX)';jj=0:t:0+(m-1)*t;
ii=reshape(ii(:,ones(1,m))+jj(ones(NX,1),:),m*NX,1);
x1=x(ii);
x2=reshape(x1,NX,m);
ii=(1:NY)';jj=0:t:0+(m-1)*t;
ii=reshape(ii(:,ones(1,m))+jj(ones(NY,1),:),m*NY,1);
y1=y(ii);
y2=reshape(y1,NY,m);
y2=y2*ds; % switch vectors
%%
if plugin_exist & ( mflag < 4 | mflag == 8 | mflag == 9 ) & length(x) == length(y) % if plugin exist and method is MAX, MIN, EUC ord DIS
[X0 matext] = crp_plugin(x2, y2, 1, 1, e, mflag, hCRP, plugin_path, 1);
X(1+Ny2*(j-1):Ny2+Ny2*(j-1),1+Nx2*(i-1):Nx2+Nx2*(i-1))=X0;
X(NY0+1:end,:)=[];
X(:,NX0+1:end)=[];
NX=NX0; NY=NY0;
else
% use builtin implementation
[NX, mx] = size(x2);
[NY, my] = size(y2);
clear jx jy
switch(mflag)
%%%%%%%%%%%%%%%%% local CRP, fixed distance
errcode=111;
px = permute(x2, [ 1 3 2 ]);
py = permute(y2, [ 3 1 2 ]);
s1 = px(:,ones(1,NY),:) - py(ones(1,NX),:,:);
switch mflag
case 1
%%%%%%%%%%%%%%%%% maximum norm
matext=[num2str(round(100*e)/100) unit ' (fixed distance maximum norm)'];
case 5
%%%%%%%%%%%%%%%%% maximum norm, fixed RR
errcode=115;
s = max(abs(s1),[],3);
ss = sort(s(:));
idx = ceil(e * length(ss));
e = ss(idx);
matext=[num2str(round(100*e)/100) '\sigma (fixed distance maximum norm, fixed RR)'];
case 2
%%%%%%%%%%%%%%%%% euclidean norm
errcode=112;
s = sqrt(sum(s1.^2, 3));
matext=[num2str(round(100*e)/100) unit ' (fixed distance euclidean norm)'];
case 3
%%%%%%%%%%%%%%%%% minimum norm
errcode=113;
s = sum(abs(s1), 3);
matext=[num2str(round(100*e)/100) unit ' (fixed distance minimum norm)'];
X1=s/max(s(:))<(e/max(s(:)));
723
724
725
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728
729
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731
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733
734
735
736
737
738
739
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741
742
743
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745
746
747
748
X0=(uint8(X1))'; clear s s1 x1 y1 px py X1
X(1+Ny2*(j-1):Ny2+Ny2*(j-1),1+Nx2*(i-1):Nx2+Nx2*(i-1))=X0;
X(NY0+1:end,:)=[];
X(:,NX0+1:end)=[];
NX=NX0; NY=NY0;
% matext=[num2str(round(100*e)/100) '\sigma (fixed distance maximum norm)'];
%%%%%%%%%%%%%%%%% local CRP, normalized distance euclidean norm
case 4
errcode=114;
% set(findobj('Tag','Status','Parent',findobj('Parent',hCRP,'Tag','CRPPlot')),'String',['Normalize Embedding Vectors ',num2str(ax*(i-1)+j)]),drawnow
Dx=sqrt(sum(((x2(:,:)).^2)'))';
Dy=sqrt(sum(((y2(:,:)).^2)'))';
x1=x2./repmat(Dx,1,m);x2=x1;
y1=y2./repmat(Dy,1,m);y2=y1; clear Dx Dy y1 x1
px = permute(x2, [ 1 3 2 ]);
py = permute(y2, [ 3 1 2 ]);
s1 = px(:,ones(1,NY),:) - py(ones(1,NX),:,:);
s = sqrt(sum(s1.^2, 3));
X0=uint8((s/max(s(:)))<(e/max(s(:))))'; clear s s1 x1 y1 px py
X(1+Ny2*(j-1):Ny2+Ny2*(j-1),1+Nx2*(i-1):Nx2+Nx2*(i-1))=X0;
X(NY0+1:end,:)=[];
X(:,NX0+1:end)=[];
NX=NX0; NY=NY0;
matext=[num2str(round(100*e)/100) unit ' (normalized distance euclidean norm)'];
763
764
765
766
767
768
769
770
771
772
773
774
775
776
777
778
779
780
781
782
783
784
785
786
787
788
789
790
791
792
793
794
795
796
if e>=1
e=round(e)/100;
txt=['The value for fixed neigbours amount has to be smaller '...
'than one. Continue the computation with a value of ' ...
num2str(e)];
if nogui==0
warndlg(txt,'Threshold value mismatch');
drawnow
waitforbuttonpress
set(findobj('Tag','Size','Parent',gcf),'String',num2str(e))
end
end
px = permute(x2, [ 1 3 2 ]);
py = permute(y2, [ 3 1 2 ]);
s1 = px(:,ones(1,NY),:) - py(ones(1,NX),:,:);
s = sqrt(sum(s1.^2, 3));
mine=round(NY*e);
[SS, JJ]=sort(s'); JJ=JJ';
X1(NX*NY)=uint8(0); X1(JJ(:,1:mine)+repmat([0:NY:NX*NY-1]',1,mine))=uint8(1);
X0=reshape(X1,NY,NX); clear X1 SS JJ s px py
X(1+Ny2*(j-1):Ny2+Ny2*(j-1),1+Nx2*(i-1):Nx2+Nx2*(i-1))=X0;
X(NY0+1:end,:)=[];
X(:,NX0+1:end)=[];
matext=[num2str(round(1000*e)/10) '% (fixed neighbours amount)'];
NX=NX0; NY=NY0;
%%%%%%%%%%%%%%%%% local CRP, interdependent neigbours
800
801
802
803
804
805
806
807
808
809
810
811
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816
817
818
819
820
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823
824
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if e>=1
e=round(e)/100;
txt=['The value for fixed neigbours amount has to be smaller '...
'than one. Continue the computation with a value of ' ...
num2str(e)];
if nogui==0
warndlg(txt,'Threshold value mismatch');
drawnow
waitforbuttonpress
set(findobj('Tag','Size','Parent',gcf),'String',num2str(e))
end
end
px = permute(x2, [ 1 3 2 ]);
py = permute(y2, [ 1 3 2 ]);
px2 = permute(x2, [ 3 1 2 ]);
py2 = permute(y2, [ 3 1 2 ]);
s1 = px(:,ones(1,NX),:) - px2(ones(1,NX),:,:);
sx = sqrt(sum(s1.^2, 3));
s1 = py(:,ones(1,NY),:) - py2(ones(1,NY),:,:);
sy = sqrt(sum(s1.^2, 3));
mine=round(min(NX,NY)*e);
[SSx, JJx]=sort(sx); %SSx(1,:)=[]; JJx(1,:)=[];
[SSy, JJy]=sort(sy); %SSy(1,:)=[]; JJy(1,:)=[];
eey=mean(SSy(mine:mine+1,:));
eex=mean(SSx(mine:mine+1,:));
JJx((JJx(1:mine,ii)>min(NX,NY)),ii)=i;
X0(ii,JJx(1:mine,ii)) = sy(ii,JJx(1:mine,ii))<=eey(ii);
JJy((JJy(1:mine,ii)>min(NX,NY)),ii)=i;
X0(ii,JJy(1:mine,ii)) = sx(ii,JJy(1:mine,ii))<=eex(ii);
X(1+Ny2*(j-1):Ny2+Ny2*(j-1),1+Nx2*(i-1):Nx2+Nx2*(i-1))=X0';
clear X1 SS* JJ* s sx sy s1 px py eex eey
matext=[num2str(round(1000*e)/10) '% (interdependent neighbours)'];
set(findobj('Tag','Status','Parent',findobj('Parent',hCRP,'Tag','CRPPlot')),'String','Compute Order Matrix'),drawnow
px = permute(x2, [ 1 3 2 ]);
py = permute(y2, [ 3 1 2 ]);
X0 = uint8(px(:,ones(1,NY),:) >= py(ones(1,NX),:,:) - e);
if check_stop(hCRP,hCtrl,nogui,obj), return, end
X(1+Ny2*(j-1):Ny2+Ny2*(j-1),1+Nx2*(i-1):Nx2+Nx2*(i-1))=X0';
X(NY0+1:end,:)=[];
X(:,NX0+1:end)=[];
NX=NX0; NY=NY0;
set(findobj('Tag','Status','Parent',findobj('Parent',hCRP,'Tag','CRPPlot')),'String','Compute Order Patterns Matrix'),drawnow
% create a order pattern test
cmdStr = '';
for i3=2:m;
cmdStr = [cmdStr, ' permX(:,', num2str(i3-1) ,') < permX(:,', num2str(i3), ') + eps'];
if i3 < m, cmdStr = [cmdStr, ' &']; end
end
if m==1
cmdStr = '1';
disp('Warning: No order patterns for dimension one; please use higher dimension!')
end
% order patterns by permutation of the set of values
clear patt*
for i3=1:length(x2)
permX=perms(x2(i3,:));
orderPattern = find(eval(cmdStr));
if isempty(orderPattern) orderPattern = 0; end
pattX(i3) = orderPattern(1);
end
for i3=1:length(y2)
permX=perms(y2(i3,:));
orderPattern = find(eval(cmdStr));
if isempty(orderPattern) orderPattern = 0; end
pattY(i3) = orderPattern(1);
end
px = permute(pattX', [ 1 3 2 ]);
py = permute(pattY', [ 3 1 2 ]);
X0 = uint8(px(:,ones(1,length(y2)),:) == py(ones(1,length(x2)),:,:));
errcode=110+length(check_meth);
px = permute(x2, [ 1 3 2 ]);
py = permute(y2, [ 3 1 2 ]);
s1 = px(:,ones(1,NY),:) - py(ones(1,NX),:,:);
s = sqrt(sum(s1.^2, 3))';
X(1+Ny2*(j-1):Ny2+Ny2*(j-1),1+Nx2*(i-1):Nx2+Nx2*(i-1))=s;
X(NY0+1:end,:)=[];
X(:,NX0+1:end)=[];
NX=NX0; NY=NY0;
matext='';
if nogui==0
for i=1:length(obj.enable), set(obj.children(i),'Enable',obj.enable{i}); end
set(h(1),'String','Apply',...
'ToolTip','Starts the computation - be patient.',...
'Callback','crp_big compute')
setptr([hCRP,hCtrl],'arrow')
delete([ h2 h1]), clear h1 h2
end
%%%%%%%%%%%%%%%%% show CRP
if mflag==6
disp('Warning! Don''t use these results, because they are not correct.')
end
if nogui==0
set(hCRP,'Renderer','painters')
Shuttle.hCRP=hCRP;
Shuttle.hCtrl=hCtrl;
Shuttle.matext=matext;
Shuttle.xscale=xscale;
Shuttle.yscale=yscale;
Shuttle.mflag=mflag;
Shuttle.m=m;
Shuttle.t=t;
Shuttle.cm=cm;
Shuttle.txt_cross=txt_cross;
if isempty(X)
warn_str = ['Uuups! Empty matrix.',10,'I give up ...'];
if strcmpi(computer,'GLNXA64')
warn_str = [warn_str,10,'(Maybe non-appropriate plugin version due to different glibc.)']
end
warning(warn_str);
return
end
show_crp(X,Shuttle)
else
if nargout==1, xout=X;end
end
end
try, set(0,props.root), end
warning on
set(0,'ShowHidden','Off')
%%%%%%% error handling
if nargin, xout=NaN; end
try, if nogui==0
for i=1:length(obj.enable), set(obj.children(i),'Enable',obj.enable{i}); end
set(h(1),'String','Apply',...
'ToolTip','Starts the computation - be patient.',...
'Callback','crp compute')
setptr([hCRP,hCtrl],'arrow')
end, end
z=whos;x=lasterr;y=lastwarn;in=varargin{1};
print_error('crp_big',z,x,y,in,mflag,action)
try, set(0,props.root), end
end