function [Pstar,Pinf] = compute_Pinf_Pstar(mf,T,R,Q,qz_criterium, restrict_columns)
% function [Z,ST,QT,R1,Pstar,Pinf] = schur_statespace_transformation(mf,T,R,Q,qz_criterium, restrict_columns)
% Kitagawa transformation of state space system with a quasi-triangular
% transition matrix with unit roots at the top, but excluding zero columns of the transition matrix.
% Computation of Pstar and Pinf for Durbin and Koopman Diffuse filter
%
% The transformed state space is
%     y = [ss; z; x];
%     s = static variables (zero columns of T)
%     z = unit roots
%     x = stable roots
%     ss = s - z = stationarized static variables
%
% INPUTS
%   mf           [integer]    vector of indices of observed variables in
%                             state vector
%   T            [double]     matrix of transition
%   R            [double]     matrix of structural shock effects
%   Q            [double]     matrix of covariance of structural shocks
%   qz_criterium [double]     numerical criterium for unit roots
%
% OUTPUTS
%   Pstar        [double]     matrix of covariance of stationary part
%   Pinf         [double]     matrix of covariance initialization for
%                             nonstationary part
%
% ALGORITHM
%   Real Schur transformation of transition equation
%
% SPECIAL REQUIREMENTS
%   None

% Copyright (C) 2006-2018 Dynare Team
%
% This file is part of Dynare.
%
% Dynare 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 3 of the License, or
% (at your option) any later version.
%
% Dynare is distributed in the hope that it will be useful,
% but WITHOUT ANY WARRANTY; without even the implied warranty of
% MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
% GNU General Public License for more details.
%
% You should have received a copy of the GNU General Public License
% along with Dynare.  If not, see <https://www.gnu.org/licenses/>.

np = size(T,1);
if iszero(Q)
    % this may happen if users set Q=0 and use heteroskedastic shocks to set
    % variances period by period
    % this in practice triggers a form of conditional filter where states
    % are initialized at st. state with zero variances
    Pstar=T*0;
    Pinf=T*0;
    return
end

if nargin == 6
    indx = restrict_columns;
    indx0=find(~ismember([1:np],indx));
else
    indx=(find(max(abs(T))>=1.e-10));
    indx0=(find(max(abs(T))<1.e-10));
end
np0=length(indx0);
Tbkp = T;
T0=T(indx0,indx); % static variables vs. dynamic ones
R0=R(indx0,:);    % matrix of shocks for static variables

% Perform Kitagawa transformation only for non-zero columns of T
T=T(indx,indx);
R=R(indx,:);
np = size(T,1);
[QT,ST] = schur(T);
e1 = abs(ordeig(ST)) > 2-qz_criterium;
[QT,ST] = ordschur(QT,ST,e1);
k = find(abs(ordeig(ST)) > 2-qz_criterium);
nk = length(k);
nk1 = nk+1;
Pstar = zeros(np,np);
R1 = QT'*R;
B = R1*Q*R1';
i = np;
while i >= nk+2
    if ST(i,i-1) == 0
        if i == np
            c = zeros(np-nk,1);
        else
            c = ST(nk1:i,:)*(Pstar(:,i+1:end)*ST(i,i+1:end)')+...
                ST(i,i)*ST(nk1:i,i+1:end)*Pstar(i+1:end,i);
        end
        q = eye(i-nk)-ST(nk1:i,nk1:i)*ST(i,i);
        Pstar(nk1:i,i) = q\(B(nk1:i,i)+c);
        Pstar(i,nk1:i-1) = Pstar(nk1:i-1,i)';
        i = i - 1;
    else
        if i == np
            c = zeros(np-nk,1);
            c1 = zeros(np-nk,1);
        else
            c = ST(nk1:i,:)*(Pstar(:,i+1:end)*ST(i,i+1:end)')+...
                ST(i,i)*ST(nk1:i,i+1:end)*Pstar(i+1:end,i)+...
                ST(i,i-1)*ST(nk1:i,i+1:end)*Pstar(i+1:end,i-1);
            c1 = ST(nk1:i,:)*(Pstar(:,i+1:end)*ST(i-1,i+1:end)')+...
                 ST(i-1,i-1)*ST(nk1:i,i+1:end)*Pstar(i+1:end,i-1)+...
                 ST(i-1,i)*ST(nk1:i,i+1:end)*Pstar(i+1:end,i);
        end
        q = [eye(i-nk)-ST(nk1:i,nk1:i)*ST(i,i) -ST(nk1:i,nk1:i)*ST(i,i-1);...
             -ST(nk1:i,nk1:i)*ST(i-1,i) eye(i-nk)-ST(nk1:i,nk1:i)*ST(i-1,i-1)];
        z =  q\[B(nk1:i,i)+c;B(nk1:i,i-1)+c1];
        Pstar(nk1:i,i) = z(1:(i-nk));
        Pstar(nk1:i,i-1) = z(i-nk+1:end);
        Pstar(i,nk1:i-1) = Pstar(nk1:i-1,i)';
        Pstar(i-1,nk1:i-2) = Pstar(nk1:i-2,i-1)';
        i = i - 2;
    end
end
if i == nk+1
    c = ST(nk+1,:)*(Pstar(:,nk+2:end)*ST(nk1,nk+2:end)')+ST(nk1,nk1)*ST(nk1,nk+2:end)*Pstar(nk+2:end,nk1);
    Pstar(nk1,nk1)=(B(nk1,nk1)+c)/(1-ST(nk1,nk1)*ST(nk1,nk1));
end

if np0
    ST1=ST;
    % Now I recover stationarized static variables using
    % ss = s-A*z
    % and
    % z-z(-1) (growth rates of unit roots) only depends on stationary variables
    Pstar = blkdiag(zeros(np0),Pstar);
    ST = [zeros(length(Pstar),length(indx0)) [T0*QT ;ST]];
    R1 = [R0; R1];
    % Build the matrix for stationarized variables
    STinf = ST(np0+1:np0+nk,np0+1:np0+nk);
    iSTinf = inv(STinf);
    ST0=ST;
    ST0(:,1:np0+nk)=0;  % stationarized static + 1st difference only respond to lagged stationary states
    ST00 = ST(1:np0,np0+1:np0+nk);
    %     A\B is the matrix division of A into B, which is roughly the
    %     same as INV(A)*B
    ST0(1:np0,np0+nk+1:end) = ST(1:np0,np0+nk+1:end)-ST00*(iSTinf*ST(np0+1:np0+nk,np0+nk+1:end)); % snip non-stationary part
    R10 = R1;
    R10(1:np0,:) = R1(1:np0,:)-ST00*(iSTinf*R1(np0+1:np0+nk,:)); % snip non-stationary part
    % Kill non-stationary part before projecting Pstar
    ST0(np0+1:np0+nk,:)=0;
    R10(np0+1:np0+nk,:)=0; % is this questionable???? IT HAS TO in order to match Michel's version!!!
    % project Pstar onto static x
    Pstar = ST0*Pstar*ST0'+R10*Q*R10';
    % QT(1:np0,np0+1:np0+nk) = QT(1:np0,np0+1:np0+nk)+ST(1:np0,np0+1:np0+nk);  %%% is this questionable ????
    % reorder QT entries
else
    STinf = ST(np0+1:np0+nk,np0+1:np0+nk);
end

% stochastic trends with no influence on observed variables are
% arbitrarily initialized to zero
Pinf = zeros(np,np);
Pinf(1:nk,1:nk) = eye(nk);
if np0
    STtriu = STinf-eye(nk);
    % A\B is the matrix division of A into B, which is roughly the
    % same as INV(A)*B
    STinf0 = ST00*(eye(nk)-iSTinf*STtriu);
    Pinf = blkdiag(zeros(np0),Pinf);
    QT = blkdiag(eye(np0),QT);
    QTinf = QT;
    QTinf(1:np0,np0+1:np0+nk) = STinf0;
    QTinf([indx0(:); indx(:)],:) = QTinf;
    STinf1 = [zeros(np0+np,np0) [STinf0; eye(nk); zeros(np-nk,nk)] zeros(np0+np,np-nk)];
    mf = ismember([indx0(:); indx(:)],mf);
    for k = 1:nk
        if norm(QTinf(mf,:)*ST([indx0(:); indx(:)],k+np0)) < 1e-8
            Pinf(k+np0,k+np0) = 0;
        end
    end
    Pinf = STinf1*Pinf*STinf1';
    QT([indx0(:); indx(:)],:) = QT;
else
    for k = 1:nk
        if norm(QT(mf,:)*ST(:,k)) < 1e-8
            Pinf(k+np0,k+np0) = 0;
        end
    end
end

Pinf = QT*Pinf*QT';
Pstar = QT*Pstar*QT';
