resilient I/O fix

This reverts commit 10fc263675.

.gitignore

@@ -83,6 +83,7 @@ ltmain.sh
 .Trashes
 ehthumbs.db
 Thumbs.db
+.dirstamp
 
 # build directory #
 ###################
@@ -97,11 +98,8 @@ build.sh
 
 # Eigen source #
 ################
-lib/Eigen/*
+Grid/Eigen
-
+Eigen/*
-# FFTW source #
-################
-lib/fftw/*
 
 # libtool macros #
 ##################
@@ -112,21 +110,7 @@ m4/libtool.m4
 ################
 gh-pages/
 
-# Buck files #
-##############
-.buck*
-buck-out
-BUCK
-make-bin-BUCK.sh
-
 # generated sources #
 #####################
-lib/qcd/spin/gamma-gen/*.h
+Grid/qcd/spin/gamma-gen/*.h
-lib/qcd/spin/gamma-gen/*.cc
+Grid/qcd/spin/gamma-gen/*.cc
-lib/version.h
-
-# vs code editor files #
-########################
-.vscode/
-.vscode/settings.json
-settings.json

.travis.yml

@@ -9,6 +9,11 @@ matrix:
     - os:        osx
       osx_image: xcode8.3
       compiler: clang
+      env: PREC=single
+    - os:        osx
+      osx_image: xcode8.3
+      compiler: clang
+      env: PREC=double
       
 before_install:
     - export GRIDDIR=`pwd`
@@ -16,7 +21,7 @@ before_install:
     - if [[ "$TRAVIS_OS_NAME" == "linux" ]] && [[ "$CC" == "clang" ]]; then export PATH="${GRIDDIR}/clang/bin:${PATH}"; fi
     - if [[ "$TRAVIS_OS_NAME" == "linux" ]] && [[ "$CC" == "clang" ]]; then export LD_LIBRARY_PATH="${GRIDDIR}/clang/lib:${LD_LIBRARY_PATH}"; fi
     - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then brew update; fi
-    - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then brew install libmpc; fi
+    - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then brew install libmpc openssl; fi
     
 install:
     - export CWD=`pwd`
@@ -33,6 +38,7 @@ install:
     - which $CXX
     - $CXX --version
     - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then export LDFLAGS='-L/usr/local/lib'; fi
+    - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then export EXTRACONF='--with-openssl=/usr/local/opt/openssl'; fi
     
 script:
     - ./bootstrap.sh
@@ -49,12 +55,7 @@ script:
     - make -j4
     - make install
     - cd $CWD/build
-    - ../configure --enable-precision=single --enable-simd=SSE4 --enable-comms=none --with-lime=$CWD/build/lime/install
+    - ../configure --enable-precision=$PREC --enable-simd=SSE4 --enable-comms=none --with-lime=$CWD/build/lime/install ${EXTRACONF}
-    - make -j4 
-    - ./benchmarks/Benchmark_dwf --threads 1 --debug-signals
-    - echo make clean
-    - ../configure --enable-precision=double --enable-simd=SSE4 --enable-comms=none --with-lime=$CWD/build/lime/install
     - make -j4 
     - ./benchmarks/Benchmark_dwf --threads 1 --debug-signals
     - make check
-

Grid/GridCore.h

@@ -48,6 +48,7 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 #include <Grid/serialisation/Serialisation.h>
 #include <Grid/threads/Threads.h>
 #include <Grid/util/Util.h>
+#include <Grid/util/Sha.h>
 #include <Grid/communicator/Communicator.h> 
 #include <Grid/cartesian/Cartesian.h>    
 #include <Grid/tensors/Tensors.h>      

Grid/Grid_Eigen_Dense.h

@@ -1,4 +1,9 @@
 #pragma once
+// Force Eigen to use MKL if Grid has been configured with --enable-mkl
+#ifdef USE_MKL
+#define EIGEN_USE_MKL_ALL
+#endif
+
 #if defined __GNUC__
 #pragma GCC diagnostic push
 #pragma GCC diagnostic ignored "-Wdeprecated-declarations"

Grid/Makefile.am

@@ -21,6 +21,32 @@ if BUILD_HDF5
   extra_headers+=serialisation/Hdf5Type.h
 endif
 
+all: version-cache
+
+version-cache:
+	@if [ `git status --porcelain | grep -v '??' | wc -l` -gt 0 ]; then\
+		a="uncommited changes";\
+	else\
+		a="clean";\
+	fi;\
+	echo "`git log -n 1 --format=format:"#define GITHASH \\"%H:%d $$a\\"%n" HEAD`" > vertmp;\
+	if [ -e version-cache ]; then\
+		d=`diff vertmp version-cache`;\
+		if [ "$${d}" != "" ]; then\
+			mv vertmp version-cache;\
+			rm -f Version.h;\
+		fi;\
+	else\
+		mv vertmp version-cache;\
+		rm -f Version.h;\
+	fi;\
+	rm -f vertmp
+
+Version.h:
+	cp version-cache Version.h
+
+.PHONY: version-cache
+
 #
 # Libraries
 #
@@ -30,8 +56,8 @@ include Eigen.inc
 lib_LIBRARIES = libGrid.a
 
 CCFILES += $(extra_sources)
-HFILES  += $(extra_headers)
+HFILES  += $(extra_headers) Config.h Version.h
 
 libGrid_a_SOURCES              = $(CCFILES)
-libGrid_adir                   = $(pkgincludedir)
+libGrid_adir                   = $(includedir)/Grid
-nobase_dist_pkginclude_HEADERS = $(HFILES) $(eigen_files) Config.h
+nobase_dist_pkginclude_HEADERS = $(HFILES) $(eigen_files) $(eigen_unsupp_files)

Grid/algorithms/LinearOperator.h

@@ -380,6 +380,12 @@ namespace Grid {
     template<class Field> class OperatorFunction {
     public:
       virtual void operator() (LinearOperatorBase<Field> &Linop, const Field &in, Field &out) = 0;
+      virtual void operator() (LinearOperatorBase<Field> &Linop, const std::vector<Field> &in,std::vector<Field> &out) {
+	assert(in.size()==out.size());
+	for(int k=0;k<in.size();k++){
+	  (*this)(Linop,in[k],out[k]);
+	}
+      };
     };
 
     template<class Field> class LinearFunction {
@@ -421,7 +427,7 @@ namespace Grid {
   // Hermitian operator Linear function and operator function
   ////////////////////////////////////////////////////////////////////////////////////////////
     template<class Field>
-      class HermOpOperatorFunction : public OperatorFunction<Field> {
+    class HermOpOperatorFunction : public OperatorFunction<Field> {
       void operator() (LinearOperatorBase<Field> &Linop, const Field &in, Field &out) {
 	Linop.HermOp(in,out);
       };

Grid/algorithms/SparseMatrix.h

@@ -55,6 +55,14 @@ namespace Grid {
     template<class Field> class CheckerBoardedSparseMatrixBase : public SparseMatrixBase<Field> {
     public:
       virtual GridBase *RedBlackGrid(void)=0;
+
+      //////////////////////////////////////////////////////////////////////
+      // Query the even even properties to make algorithmic decisions
+      //////////////////////////////////////////////////////////////////////
+      virtual RealD  Mass(void)        { return 0.0; };
+      virtual int    ConstEE(void)     { return 0; }; // Disable assumptions unless overridden
+      virtual int    isTrivialEE(void) { return 0; }; // by a derived class that knows better
+
       // half checkerboard operaions
       virtual  void Meooe    (const Field &in, Field &out)=0;
       virtual  void Mooee    (const Field &in, Field &out)=0;

Grid/algorithms/iterative/BlockConjugateGradient.h

@@ -33,7 +33,7 @@ directory
 
 namespace Grid {
 
-enum BlockCGtype { BlockCG, BlockCGrQ, CGmultiRHS };
+enum BlockCGtype { BlockCG, BlockCGrQ, CGmultiRHS, BlockCGVec, BlockCGrQVec };
 
 //////////////////////////////////////////////////////////////////////////
 // Block conjugate gradient. Dimension zero should be the block direction
@@ -42,7 +42,6 @@ template <class Field>
 class BlockConjugateGradient : public OperatorFunction<Field> {
  public:
 
-
   typedef typename Field::scalar_type scomplex;
 
   int blockDim ;
@@ -54,21 +53,15 @@ class BlockConjugateGradient : public OperatorFunction<Field> {
   RealD Tolerance;
   Integer MaxIterations;
   Integer IterationsToComplete; //Number of iterations the CG took to finish. Filled in upon completion
+  Integer PrintInterval; //GridLogMessages or Iterative
   
   BlockConjugateGradient(BlockCGtype cgtype,int _Orthog,RealD tol, Integer maxit, bool err_on_no_conv = true)
-    : Tolerance(tol), CGtype(cgtype),   blockDim(_Orthog),  MaxIterations(maxit), ErrorOnNoConverge(err_on_no_conv)
+    : Tolerance(tol), CGtype(cgtype),   blockDim(_Orthog),  MaxIterations(maxit), ErrorOnNoConverge(err_on_no_conv),PrintInterval(100)
   {};
 
 ////////////////////////////////////////////////////////////////////////////////////////////////////
 // Thin QR factorisation (google it)
 ////////////////////////////////////////////////////////////////////////////////////////////////////
-void ThinQRfact (Eigen::MatrixXcd &m_rr,
-		 Eigen::MatrixXcd &C,
-		 Eigen::MatrixXcd &Cinv,
-		 Field & Q,
-		 const Field & R)
-{
-  int Orthog = blockDim; // First dimension is block dim; this is an assumption
   ////////////////////////////////////////////////////////////////////////////////////////////////////
   //Dimensions
   // R_{ferm x Nblock} =  Q_{ferm x Nblock} x  C_{Nblock x Nblock} -> ferm x Nblock
@@ -85,22 +78,20 @@ void ThinQRfact (Eigen::MatrixXcd &m_rr,
   // Cdag C = Rdag R ; passes.
   // QdagQ  = 1      ; passes
   ////////////////////////////////////////////////////////////////////////////////////////////////////
+void ThinQRfact (Eigen::MatrixXcd &m_rr,
+		 Eigen::MatrixXcd &C,
+		 Eigen::MatrixXcd &Cinv,
+		 Field & Q,
+		 const Field & R)
+{
+  int Orthog = blockDim; // First dimension is block dim; this is an assumption
   sliceInnerProductMatrix(m_rr,R,R,Orthog);
 
   // Force manifest hermitian to avoid rounding related
   m_rr = 0.5*(m_rr+m_rr.adjoint());
 
-#if 0
-  std::cout << " Calling Cholesky  ldlt on m_rr "  << m_rr <<std::endl;
-  Eigen::MatrixXcd L_ldlt = m_rr.ldlt().matrixL(); 
-  std::cout << " Called Cholesky  ldlt on m_rr "  << L_ldlt <<std::endl;
-  auto  D_ldlt = m_rr.ldlt().vectorD(); 
-  std::cout << " Called Cholesky  ldlt on m_rr "  << D_ldlt <<std::endl;
-#endif
-
-  //  std::cout << " Calling Cholesky  llt on m_rr "  <<std::endl;
   Eigen::MatrixXcd L    = m_rr.llt().matrixL(); 
-  //  std::cout << " Called Cholesky  llt on m_rr "  << L <<std::endl;
+
   C    = L.adjoint();
   Cinv = C.inverse();
   ////////////////////////////////////////////////////////////////////////////////////////////////////
@@ -112,6 +103,25 @@ void ThinQRfact (Eigen::MatrixXcd &m_rr,
   ////////////////////////////////////////////////////////////////////////////////////////////////////
   sliceMulMatrix(Q,Cinv,R,Orthog);
 }
+// see comments above
+void ThinQRfact (Eigen::MatrixXcd &m_rr,
+		 Eigen::MatrixXcd &C,
+		 Eigen::MatrixXcd &Cinv,
+		 std::vector<Field> & Q,
+		 const std::vector<Field> & R)
+{
+  InnerProductMatrix(m_rr,R,R);
+
+  m_rr = 0.5*(m_rr+m_rr.adjoint());
+
+  Eigen::MatrixXcd L    = m_rr.llt().matrixL(); 
+
+  C    = L.adjoint();
+  Cinv = C.inverse();
+
+  MulMatrix(Q,Cinv,R);
+}
+
 ////////////////////////////////////////////////////////////////////////////////////////////////////
 // Call one of several implementations
 ////////////////////////////////////////////////////////////////////////////////////////////////////
@@ -119,14 +129,20 @@ void operator()(LinearOperatorBase<Field> &Linop, const Field &Src, Field &Psi)
 {
   if ( CGtype == BlockCGrQ ) {
     BlockCGrQsolve(Linop,Src,Psi);
-  } else if (CGtype == BlockCG ) {
-    BlockCGsolve(Linop,Src,Psi);
   } else if (CGtype == CGmultiRHS ) {
     CGmultiRHSsolve(Linop,Src,Psi);
   } else {
     assert(0);
   }
 }
+virtual void operator()(LinearOperatorBase<Field> &Linop, const std::vector<Field> &Src, std::vector<Field> &Psi) 
+{
+  if ( CGtype == BlockCGrQVec ) {
+    BlockCGrQsolveVec(Linop,Src,Psi);
+  } else {
+    assert(0);
+  }
+}
 
 ////////////////////////////////////////////////////////////////////////////
 // BlockCGrQ implementation:
@@ -139,7 +155,8 @@ void BlockCGrQsolve(LinearOperatorBase<Field> &Linop, const Field &B, Field &X)
 {
   int Orthog = blockDim; // First dimension is block dim; this is an assumption
   Nblock = B._grid->_fdimensions[Orthog];
-
+/* FAKE */
+  Nblock=8;
   std::cout<<GridLogMessage<<" Block Conjugate Gradient : Orthog "<<Orthog<<" Nblock "<<Nblock<<std::endl;
 
   X.checkerboard = B.checkerboard;
@@ -202,15 +219,10 @@ void BlockCGrQsolve(LinearOperatorBase<Field> &Linop, const Field &B, Field &X)
   std::cout << GridLogMessage<<"BlockCGrQ algorithm initialisation " <<std::endl;
 
   //1.  QC = R = B-AX, D = Q     ; QC => Thin QR factorisation (google it)
-
   Linop.HermOp(X, AD);
   tmp = B - AD;  
-  //std::cout << GridLogMessage << " initial tmp " << norm2(tmp)<< std::endl;
+
   ThinQRfact (m_rr, m_C, m_Cinv, Q, tmp);
-  //std::cout << GridLogMessage << " initial Q " << norm2(Q)<< std::endl;
-  //std::cout << GridLogMessage << " m_rr " << m_rr<<std::endl;
-  //std::cout << GridLogMessage << " m_C " << m_C<<std::endl;
-  //std::cout << GridLogMessage << " m_Cinv " << m_Cinv<<std::endl;
   D=Q;
 
   std::cout << GridLogMessage<<"BlockCGrQ computed initial residual and QR fact " <<std::endl;
@@ -232,14 +244,12 @@ void BlockCGrQsolve(LinearOperatorBase<Field> &Linop, const Field &B, Field &X)
     MatrixTimer.Start();
     Linop.HermOp(D, Z);      
     MatrixTimer.Stop();
-    //std::cout << GridLogMessage << " norm2 Z " <<norm2(Z)<<std::endl;
 
     //4. M  = [D^dag Z]^{-1}
     sliceInnerTimer.Start();
     sliceInnerProductMatrix(m_DZ,D,Z,Orthog);
     sliceInnerTimer.Stop();
     m_M       = m_DZ.inverse();
-    //std::cout << GridLogMessage << " m_DZ " <<m_DZ<<std::endl;
     
     //5. X  = X + D MC
     m_tmp     = m_M * m_C;
@@ -257,6 +267,7 @@ void BlockCGrQsolve(LinearOperatorBase<Field> &Linop, const Field &B, Field &X)
     
     //7. D  = Q + D S^dag
     m_tmp = m_S.adjoint();
+
     sliceMaddTimer.Start();
     sliceMaddMatrix(D,m_tmp,D,Q,Orthog);
     sliceMaddTimer.Stop();
@@ -317,152 +328,6 @@ void BlockCGrQsolve(LinearOperatorBase<Field> &Linop, const Field &B, Field &X)
   IterationsToComplete = k;
 }
 //////////////////////////////////////////////////////////////////////////
-// Block conjugate gradient; Original O'Leary Dimension zero should be the block direction
-//////////////////////////////////////////////////////////////////////////
-void BlockCGsolve(LinearOperatorBase<Field> &Linop, const Field &Src, Field &Psi) 
-{
-  int Orthog = blockDim; // First dimension is block dim; this is an assumption
-  Nblock = Src._grid->_fdimensions[Orthog];
-
-  std::cout<<GridLogMessage<<" Block Conjugate Gradient : Orthog "<<Orthog<<" Nblock "<<Nblock<<std::endl;
-
-  Psi.checkerboard = Src.checkerboard;
-  conformable(Psi, Src);
-
-  Field P(Src);
-  Field AP(Src);
-  Field R(Src);
-  
-  Eigen::MatrixXcd m_pAp    = Eigen::MatrixXcd::Identity(Nblock,Nblock);
-  Eigen::MatrixXcd m_pAp_inv= Eigen::MatrixXcd::Identity(Nblock,Nblock);
-  Eigen::MatrixXcd m_rr     = Eigen::MatrixXcd::Zero(Nblock,Nblock);
-  Eigen::MatrixXcd m_rr_inv = Eigen::MatrixXcd::Zero(Nblock,Nblock);
-
-  Eigen::MatrixXcd m_alpha      = Eigen::MatrixXcd::Zero(Nblock,Nblock);
-  Eigen::MatrixXcd m_beta   = Eigen::MatrixXcd::Zero(Nblock,Nblock);
-
-  // Initial residual computation & set up
-  std::vector<RealD> residuals(Nblock);
-  std::vector<RealD> ssq(Nblock);
-
-  sliceNorm(ssq,Src,Orthog);
-  RealD sssum=0;
-  for(int b=0;b<Nblock;b++) sssum+=ssq[b];
-
-  sliceNorm(residuals,Src,Orthog);
-  for(int b=0;b<Nblock;b++){ assert(std::isnan(residuals[b])==0); }
-
-  sliceNorm(residuals,Psi,Orthog);
-  for(int b=0;b<Nblock;b++){ assert(std::isnan(residuals[b])==0); }
-
-  // Initial search dir is guess
-  Linop.HermOp(Psi, AP);
-  
-
-  /************************************************************************
-   * Block conjugate gradient (Stephen Pickles, thesis 1995, pp 71, O Leary 1980)
-   ************************************************************************
-   * O'Leary : R = B - A X
-   * O'Leary : P = M R ; preconditioner M = 1
-   * O'Leary : alpha = PAP^{-1} RMR
-   * O'Leary : beta  = RMR^{-1}_old RMR_new
-   * O'Leary : X=X+Palpha
-   * O'Leary : R_new=R_old-AP alpha
-   * O'Leary : P=MR_new+P beta
-   */
-
-  R = Src - AP;  
-  P = R;
-  sliceInnerProductMatrix(m_rr,R,R,Orthog);
-
-  GridStopWatch sliceInnerTimer;
-  GridStopWatch sliceMaddTimer;
-  GridStopWatch MatrixTimer;
-  GridStopWatch SolverTimer;
-  SolverTimer.Start();
-
-  int k;
-  for (k = 1; k <= MaxIterations; k++) {
-
-    RealD rrsum=0;
-    for(int b=0;b<Nblock;b++) rrsum+=real(m_rr(b,b));
-
-    std::cout << GridLogIterative << "\titeration "<<k<<" rr_sum "<<rrsum<<" ssq_sum "<< sssum
-	      <<" / "<<std::sqrt(rrsum/sssum) <<std::endl;
-
-    MatrixTimer.Start();
-    Linop.HermOp(P, AP);
-    MatrixTimer.Stop();
-
-    // Alpha
-    sliceInnerTimer.Start();
-    sliceInnerProductMatrix(m_pAp,P,AP,Orthog);
-    sliceInnerTimer.Stop();
-    m_pAp_inv = m_pAp.inverse();
-    m_alpha   = m_pAp_inv * m_rr ;
-
-    // Psi, R update
-    sliceMaddTimer.Start();
-    sliceMaddMatrix(Psi,m_alpha, P,Psi,Orthog);     // add alpha *  P to psi
-    sliceMaddMatrix(R  ,m_alpha,AP,  R,Orthog,-1.0);// sub alpha * AP to resid
-    sliceMaddTimer.Stop();
-
-    // Beta
-    m_rr_inv = m_rr.inverse();
-    sliceInnerTimer.Start();
-    sliceInnerProductMatrix(m_rr,R,R,Orthog);
-    sliceInnerTimer.Stop();
-    m_beta = m_rr_inv *m_rr;
-
-    // Search update
-    sliceMaddTimer.Start();
-    sliceMaddMatrix(AP,m_beta,P,R,Orthog);
-    sliceMaddTimer.Stop();
-    P= AP;
-
-    /*********************
-     * convergence monitor
-     *********************
-     */
-    RealD max_resid=0;
-    RealD rr;
-    for(int b=0;b<Nblock;b++){
-      rr = real(m_rr(b,b))/ssq[b];
-      if ( rr > max_resid ) max_resid = rr;
-    }
-    
-    if ( max_resid < Tolerance*Tolerance ) { 
-
-      SolverTimer.Stop();
-
-      std::cout << GridLogMessage<<"BlockCG converged in "<<k<<" iterations"<<std::endl;
-      for(int b=0;b<Nblock;b++){
-	std::cout << GridLogMessage<< "\t\tblock "<<b<<" computed resid "
-		  << std::sqrt(real(m_rr(b,b))/ssq[b])<<std::endl;
-      }
-      std::cout << GridLogMessage<<"\tMax residual is "<<std::sqrt(max_resid)<<std::endl;
-
-      Linop.HermOp(Psi, AP);
-      AP = AP-Src;
-      std::cout << GridLogMessage <<"\t True residual is " << std::sqrt(norm2(AP)/norm2(Src)) <<std::endl;
-
-      std::cout << GridLogMessage << "Time Breakdown "<<std::endl;
-      std::cout << GridLogMessage << "\tElapsed    " << SolverTimer.Elapsed()     <<std::endl;
-      std::cout << GridLogMessage << "\tMatrix     " << MatrixTimer.Elapsed()     <<std::endl;
-      std::cout << GridLogMessage << "\tInnerProd  " << sliceInnerTimer.Elapsed() <<std::endl;
-      std::cout << GridLogMessage << "\tMaddMatrix " << sliceMaddTimer.Elapsed()  <<std::endl;
-	    
-      IterationsToComplete = k;
-      return;
-    }
-
-  }
-  std::cout << GridLogMessage << "BlockConjugateGradient did NOT converge" << std::endl;
-
-  if (ErrorOnNoConverge) assert(0);
-  IterationsToComplete = k;
-}
-//////////////////////////////////////////////////////////////////////////
 // multiRHS conjugate gradient. Dimension zero should be the block direction
 // Use this for spread out across nodes
 //////////////////////////////////////////////////////////////////////////
@@ -600,6 +465,233 @@ void CGmultiRHSsolve(LinearOperatorBase<Field> &Linop, const Field &Src, Field &
   IterationsToComplete = k;
 }
 
+void InnerProductMatrix(Eigen::MatrixXcd &m , const std::vector<Field> &X, const std::vector<Field> &Y){
+  for(int b=0;b<Nblock;b++){
+  for(int bp=0;bp<Nblock;bp++) {
+    m(b,bp) = innerProduct(X[b],Y[bp]);  
+  }}
+}
+void MaddMatrix(std::vector<Field> &AP, Eigen::MatrixXcd &m , const std::vector<Field> &X,const std::vector<Field> &Y,RealD scale=1.0){
+  // Should make this cache friendly with site outermost, parallel_for
+  // Deal with case AP aliases with either Y or X
+  std::vector<Field> tmp(Nblock,X[0]);
+  for(int b=0;b<Nblock;b++){
+    tmp[b]   = Y[b];
+    for(int bp=0;bp<Nblock;bp++) {
+      tmp[b] = tmp[b] + (scale*m(bp,b))*X[bp]; 
+    }
+  }
+  for(int b=0;b<Nblock;b++){
+    AP[b] = tmp[b];
+  }
+}
+void MulMatrix(std::vector<Field> &AP, Eigen::MatrixXcd &m , const std::vector<Field> &X){
+  // Should make this cache friendly with site outermost, parallel_for
+  for(int b=0;b<Nblock;b++){
+    AP[b] = zero;
+    for(int bp=0;bp<Nblock;bp++) {
+      AP[b] += (m(bp,b))*X[bp]; 
+    }
+  }
+}
+double normv(const std::vector<Field> &P){
+  double nn = 0.0;
+  for(int b=0;b<Nblock;b++) {
+    nn+=norm2(P[b]);
+  }
+  return nn;
+}
+
+////////////////////////////////////////////////////////////////////////////
+// BlockCGrQvec implementation:
+//--------------------------
+// X is guess/Solution
+// B is RHS
+// Solve A X_i = B_i    ;        i refers to Nblock index
+////////////////////////////////////////////////////////////////////////////
+void BlockCGrQsolveVec(LinearOperatorBase<Field> &Linop, const std::vector<Field> &B, std::vector<Field> &X) 
+{
+  Nblock = B.size();
+  assert(Nblock == X.size());
+
+  std::cout<<GridLogMessage<<" Block Conjugate Gradient Vec rQ : Nblock "<<Nblock<<std::endl;
+
+  for(int b=0;b<Nblock;b++){ 
+    X[b].checkerboard = B[b].checkerboard;
+    conformable(X[b], B[b]);
+    conformable(X[b], X[0]); 
+  }
+
+  Field Fake(B[0]);
+
+  std::vector<Field> tmp(Nblock,Fake);
+  std::vector<Field>   Q(Nblock,Fake);
+  std::vector<Field>   D(Nblock,Fake);
+  std::vector<Field>   Z(Nblock,Fake);
+  std::vector<Field>  AD(Nblock,Fake);
+
+  Eigen::MatrixXcd m_DZ     = Eigen::MatrixXcd::Identity(Nblock,Nblock);
+  Eigen::MatrixXcd m_M      = Eigen::MatrixXcd::Identity(Nblock,Nblock);
+  Eigen::MatrixXcd m_rr     = Eigen::MatrixXcd::Zero(Nblock,Nblock);
+
+  Eigen::MatrixXcd m_C      = Eigen::MatrixXcd::Zero(Nblock,Nblock);
+  Eigen::MatrixXcd m_Cinv   = Eigen::MatrixXcd::Zero(Nblock,Nblock);
+  Eigen::MatrixXcd m_S      = Eigen::MatrixXcd::Zero(Nblock,Nblock);
+  Eigen::MatrixXcd m_Sinv   = Eigen::MatrixXcd::Zero(Nblock,Nblock);
+
+  Eigen::MatrixXcd m_tmp    = Eigen::MatrixXcd::Identity(Nblock,Nblock);
+  Eigen::MatrixXcd m_tmp1   = Eigen::MatrixXcd::Identity(Nblock,Nblock);
+
+  // Initial residual computation & set up
+  std::vector<RealD> residuals(Nblock);
+  std::vector<RealD> ssq(Nblock);
+
+  RealD sssum=0;
+  for(int b=0;b<Nblock;b++){ ssq[b] = norm2(B[b]);}
+  for(int b=0;b<Nblock;b++) sssum+=ssq[b];
+
+  for(int b=0;b<Nblock;b++){ residuals[b] = norm2(B[b]);}
+  for(int b=0;b<Nblock;b++){ assert(std::isnan(residuals[b])==0); }
+
+  for(int b=0;b<Nblock;b++){ residuals[b] = norm2(X[b]);}
+  for(int b=0;b<Nblock;b++){ assert(std::isnan(residuals[b])==0); }
+
+  /************************************************************************
+   * Block conjugate gradient rQ (Sebastien Birk Thesis, after Dubrulle 2001)
+   ************************************************************************
+   * Dimensions:
+   *
+   *   X,B==(Nferm x Nblock)
+   *   A==(Nferm x Nferm)
+   *  
+   * Nferm = Nspin x Ncolour x Ncomplex x Nlattice_site
+   * 
+   * QC = R = B-AX, D = Q     ; QC => Thin QR factorisation (google it)
+   * for k: 
+   *   Z  = AD
+   *   M  = [D^dag Z]^{-1}
+   *   X  = X + D MC
+   *   QS = Q - ZM
+   *   D  = Q + D S^dag
+   *   C  = S C
+   */
+  ///////////////////////////////////////
+  // Initial block: initial search dir is guess
+  ///////////////////////////////////////
+  std::cout << GridLogMessage<<"BlockCGrQvec algorithm initialisation " <<std::endl;
+
+  //1.  QC = R = B-AX, D = Q     ; QC => Thin QR factorisation (google it)
+  for(int b=0;b<Nblock;b++) {
+    Linop.HermOp(X[b], AD[b]);
+    tmp[b] = B[b] - AD[b];  
+  }
+
+  ThinQRfact (m_rr, m_C, m_Cinv, Q, tmp);
+
+  for(int b=0;b<Nblock;b++) D[b]=Q[b];
+
+  std::cout << GridLogMessage<<"BlockCGrQ vec computed initial residual and QR fact " <<std::endl;
+
+  ///////////////////////////////////////
+  // Timers
+  ///////////////////////////////////////
+  GridStopWatch sliceInnerTimer;
+  GridStopWatch sliceMaddTimer;
+  GridStopWatch QRTimer;
+  GridStopWatch MatrixTimer;
+  GridStopWatch SolverTimer;
+  SolverTimer.Start();
+
+  int k;
+  for (k = 1; k <= MaxIterations; k++) {
+
+    //3. Z  = AD
+    MatrixTimer.Start();
+    for(int b=0;b<Nblock;b++) Linop.HermOp(D[b], Z[b]);      
+    MatrixTimer.Stop();
+
+    //4. M  = [D^dag Z]^{-1}
+    sliceInnerTimer.Start();
+    InnerProductMatrix(m_DZ,D,Z);
+    sliceInnerTimer.Stop();
+    m_M       = m_DZ.inverse();
+    
+    //5. X  = X + D MC
+    m_tmp     = m_M * m_C;
+    sliceMaddTimer.Start();
+    MaddMatrix(X,m_tmp, D,X);     
+    sliceMaddTimer.Stop();
+
+    //6. QS = Q - ZM
+    sliceMaddTimer.Start();
+    MaddMatrix(tmp,m_M,Z,Q,-1.0);
+    sliceMaddTimer.Stop();
+    QRTimer.Start();
+    ThinQRfact (m_rr, m_S, m_Sinv, Q, tmp);
+    QRTimer.Stop();
+    
+    //7. D  = Q + D S^dag
+    m_tmp = m_S.adjoint();
+    sliceMaddTimer.Start();
+    MaddMatrix(D,m_tmp,D,Q);
+    sliceMaddTimer.Stop();
+
+    //8. C  = S C
+    m_C = m_S*m_C;
+    
+    /*********************
+     * convergence monitor
+     *********************
+     */
+    m_rr = m_C.adjoint() * m_C;
+
+    RealD max_resid=0;
+    RealD rrsum=0;
+    RealD rr;
+
+    for(int b=0;b<Nblock;b++) {
+      rrsum+=real(m_rr(b,b));
+      rr = real(m_rr(b,b))/ssq[b];
+      if ( rr > max_resid ) max_resid = rr;
+    }
+
+    std::cout << GridLogIterative << "\t Block Iteration "<<k<<" ave resid "<< sqrt(rrsum/sssum) << " max "<< sqrt(max_resid) <<std::endl;
+
+    if ( max_resid < Tolerance*Tolerance ) { 
+
+      SolverTimer.Stop();
+
+      std::cout << GridLogMessage<<"BlockCGrQ converged in "<<k<<" iterations"<<std::endl;
+
+      for(int b=0;b<Nblock;b++){
+	std::cout << GridLogMessage<< "\t\tblock "<<b<<" computed resid "<< std::sqrt(real(m_rr(b,b))/ssq[b])<<std::endl;
+      }
+      std::cout << GridLogMessage<<"\tMax residual is "<<std::sqrt(max_resid)<<std::endl;
+
+      for(int b=0;b<Nblock;b++) Linop.HermOp(X[b], AD[b]);
+      for(int b=0;b<Nblock;b++) AD[b] = AD[b]-B[b];
+      std::cout << GridLogMessage <<"\t True residual is " << std::sqrt(normv(AD)/normv(B)) <<std::endl;
+
+      std::cout << GridLogMessage << "Time Breakdown "<<std::endl;
+      std::cout << GridLogMessage << "\tElapsed    " << SolverTimer.Elapsed()     <<std::endl;
+      std::cout << GridLogMessage << "\tMatrix     " << MatrixTimer.Elapsed()     <<std::endl;
+      std::cout << GridLogMessage << "\tInnerProd  " << sliceInnerTimer.Elapsed() <<std::endl;
+      std::cout << GridLogMessage << "\tMaddMatrix " << sliceMaddTimer.Elapsed()  <<std::endl;
+      std::cout << GridLogMessage << "\tThinQRfact " << QRTimer.Elapsed()  <<std::endl;
+	    
+      IterationsToComplete = k;
+      return;
+    }
+
+  }
+  std::cout << GridLogMessage << "BlockConjugateGradient(rQ) did NOT converge" << std::endl;
+
+  if (ErrorOnNoConverge) assert(0);
+  IterationsToComplete = k;
+}
+
+
+
 };
 
 }

Grid/algorithms/iterative/ConjugateGradient.h

@@ -133,7 +133,7 @@ class ConjugateGradient : public OperatorFunction<Field> {
       LinalgTimer.Stop();
 
       std::cout << GridLogIterative << "ConjugateGradient: Iteration " << k
-                << " residual " << cp << " target " << rsq << std::endl;
+                << " residual^2 " << sqrt(cp/ssq) << " target " << Tolerance << std::endl;
 
       // Stopping condition
       if (cp <= rsq) {

Grid/algorithms/iterative/Deflation.h

@@ -30,22 +30,23 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 
 namespace Grid { 
 
-struct ZeroGuesser {
+template<class Field>
+class ZeroGuesser: public LinearFunction<Field> {
 public:
-  template<class Field> 
+  virtual void operator()(const Field &src, Field &guess) { guess = zero; };
-  void operator()(const Field &src,Field &guess) { guess = Zero(); };
 };
-struct SourceGuesser {
+
+template<class Field>
+class SourceGuesser: public LinearFunction<Field> {
 public:
-  template<class Field> 
+  virtual void operator()(const Field &src, Field &guess) { guess = src; };
-  void operator()(const Field &src,Field &guess) { guess = src; };
 };
 
 ////////////////////////////////
 // Fine grid deflation
 ////////////////////////////////
 template<class Field>
-struct DeflatedGuesser {
+class DeflatedGuesser: public LinearFunction<Field> {
 private:
   const std::vector<Field> &evec;
   const std::vector<RealD> &eval;
@@ -54,7 +55,7 @@ public:
 
   DeflatedGuesser(const std::vector<Field> & _evec,const std::vector<RealD> & _eval) : evec(_evec), eval(_eval) {};
 
-  void operator()(const Field &src,Field &guess) { 
+  virtual void operator()(const Field &src,Field &guess) {
     guess = zero;
     assert(evec.size()==eval.size());
     auto N = evec.size();
@@ -62,11 +63,12 @@ public:
       const Field& tmp = evec[i];
       axpy(guess,TensorRemove(innerProduct(tmp,src)) / eval[i],tmp,guess);
     }
+    guess.checkerboard = src.checkerboard;
   }
 };
 
 template<class FineField, class CoarseField>
-class LocalCoherenceDeflatedGuesser {
+class LocalCoherenceDeflatedGuesser: public LinearFunction<FineField> {
 private:
   const std::vector<FineField>   &subspace;
   const std::vector<CoarseField> &evec_coarse;
@@ -92,6 +94,7 @@ public:
       axpy(guess_coarse,TensorRemove(innerProduct(tmp,src_coarse)) / eval_coarse[i],tmp,guess_coarse);
     }
     blockPromote(guess_coarse,guess,subspace);
+    guess.checkerboard = src.checkerboard;
   };
 };
 

Grid/algorithms/iterative/LocalCoherenceLanczos.h

@@ -286,8 +286,10 @@ public:
 
   void Orthogonalise(void ) {
     CoarseScalar InnerProd(_CoarseGrid);
-    blockOrthogonalise(InnerProd,subspace);std::cout << GridLogMessage <<" Gramm-Schmidt pass 1"<<std::endl;
+    std::cout << GridLogMessage <<" Gramm-Schmidt pass 1"<<std::endl;
-    blockOrthogonalise(InnerProd,subspace);std::cout << GridLogMessage <<" Gramm-Schmidt pass 2"<<std::endl;
+    blockOrthogonalise(InnerProd,subspace);
+    std::cout << GridLogMessage <<" Gramm-Schmidt pass 2"<<std::endl;
+    blockOrthogonalise(InnerProd,subspace);
   };
 
   template<typename T>  static RealD normalise(T& v) 
@@ -333,7 +335,7 @@ public:
     // create a smoother and see if we can get a cheap convergence test and smooth inside the IRL
     //////////////////////////////////////////////////////////////////////////////////////////////////
     Chebyshev<FineField>                          ChebySmooth(cheby_smooth);
-    ProjectedFunctionHermOp<Fobj,CComplex,nbasis> ChebyOp (ChebySmooth,_FineOp,_subspace);
+    ProjectedFunctionHermOp<Fobj,CComplex,nbasis> ChebyOp (ChebySmooth,_FineOp,subspace);
     ImplicitlyRestartedLanczosSmoothedTester<Fobj,CComplex,nbasis> ChebySmoothTester(ChebyOp,ChebySmooth,_FineOp,subspace,relax);
 
     for(int k=0;k<evec_coarse.size();k++){
@@ -374,14 +376,14 @@ public:
 		  RealD MaxIt, RealD betastp, int MinRes)
   {
     Chebyshev<FineField>                          Cheby(cheby_op);
-    ProjectedHermOp<Fobj,CComplex,nbasis>         Op(_FineOp,_subspace);
+    ProjectedHermOp<Fobj,CComplex,nbasis>         Op(_FineOp,subspace);
-    ProjectedFunctionHermOp<Fobj,CComplex,nbasis> ChebyOp (Cheby,_FineOp,_subspace);
+    ProjectedFunctionHermOp<Fobj,CComplex,nbasis> ChebyOp (Cheby,_FineOp,subspace);
     //////////////////////////////////////////////////////////////////////////////////////////////////
     // create a smoother and see if we can get a cheap convergence test and smooth inside the IRL
     //////////////////////////////////////////////////////////////////////////////////////////////////
 
     Chebyshev<FineField>                                           ChebySmooth(cheby_smooth);
-    ImplicitlyRestartedLanczosSmoothedTester<Fobj,CComplex,nbasis> ChebySmoothTester(ChebyOp,ChebySmooth,_FineOp,_subspace,relax);
+    ImplicitlyRestartedLanczosSmoothedTester<Fobj,CComplex,nbasis> ChebySmoothTester(ChebyOp,ChebySmooth,_FineOp,subspace,relax);
 
     evals_coarse.resize(Nm);
     evec_coarse.resize(Nm,_CoarseGrid);

Grid/algorithms/iterative/SchurRedBlack.h

@@ -0,0 +1,473 @@
+    /*************************************************************************************
+
+    Grid physics library, www.github.com/paboyle/Grid 
+
+    Source file: ./lib/algorithms/iterative/SchurRedBlack.h
+
+    Copyright (C) 2015
+
+Author: Peter Boyle <paboyle@ph.ed.ac.uk>
+
+    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
+    (at your option) any later version.
+
+    This program 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 this program; if not, write to the Free Software Foundation, Inc.,
+    51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA.
+
+    See the full license in the file "LICENSE" in the top level distribution directory
+    *************************************************************************************/
+    /*  END LEGAL */
+#ifndef GRID_SCHUR_RED_BLACK_H
+#define GRID_SCHUR_RED_BLACK_H
+
+
+  /*
+   * Red black Schur decomposition
+   *
+   *  M = (Mee Meo) =  (1             0 )   (Mee   0               )  (1 Mee^{-1} Meo)
+   *      (Moe Moo)    (Moe Mee^-1    1 )   (0   Moo-Moe Mee^-1 Meo)  (0   1         )
+   *                =         L                     D                     U
+   *
+   * L^-1 = (1              0 )
+   *        (-MoeMee^{-1}   1 )   
+   * L^{dag} = ( 1       Mee^{-dag} Moe^{dag} )
+   *           ( 0       1                    )
+   * L^{-d}  = ( 1      -Mee^{-dag} Moe^{dag} )
+   *           ( 0       1                    )
+   *
+   * U^-1 = (1   -Mee^{-1} Meo)
+   *        (0    1           )
+   * U^{dag} = ( 1                 0)
+   *           (Meo^dag Mee^{-dag} 1)
+   * U^{-dag} = (  1                 0)
+   *            (-Meo^dag Mee^{-dag} 1)
+   ***********************
+   *     M psi = eta
+   ***********************
+   *Odd
+   * i)                 D_oo psi_o =  L^{-1}  eta_o
+   *                        eta_o' = (D_oo)^dag (eta_o - Moe Mee^{-1} eta_e)
+   *
+   * Wilson:
+   *      (D_oo)^{\dag} D_oo psi_o = (D_oo)^dag L^{-1}  eta_o
+   * Stag:
+   *      D_oo psi_o = L^{-1}  eta =    (eta_o - Moe Mee^{-1} eta_e)
+   *
+   * L^-1 eta_o= (1              0 ) (e
+   *             (-MoeMee^{-1}   1 )   
+   *
+   *Even
+   * ii)  Mee psi_e + Meo psi_o = src_e
+   *
+   *   => sol_e = M_ee^-1 * ( src_e - Meo sol_o )...
+   *
+   * 
+   * TODO: Other options:
+   * 
+   * a) change checkerboards for Schur e<->o
+   *
+   * Left precon by Moo^-1
+   * b) Doo^{dag} M_oo^-dag Moo^-1 Doo psi_0 =  (D_oo)^dag M_oo^-dag Moo^-1 L^{-1}  eta_o
+   *                              eta_o'     = (D_oo)^dag  M_oo^-dag Moo^-1 (eta_o - Moe Mee^{-1} eta_e)
+   *
+   * Right precon by Moo^-1
+   * c) M_oo^-dag Doo^{dag} Doo Moo^-1 phi_0 = M_oo^-dag (D_oo)^dag L^{-1}  eta_o
+   *                              eta_o'     = M_oo^-dag (D_oo)^dag (eta_o - Moe Mee^{-1} eta_e)
+   *                              psi_o = M_oo^-1 phi_o
+   * TODO: Deflation 
+   */
+namespace Grid {
+
+  ///////////////////////////////////////////////////////////////////////////////////////////////////////
+  // Use base class to share code
+  ///////////////////////////////////////////////////////////////////////////////////////////////////////
+  ///////////////////////////////////////////////////////////////////////////////////////////////////////
+  // Take a matrix and form a Red Black solver calling a Herm solver
+  // Use of RB info prevents making SchurRedBlackSolve conform to standard interface
+  ///////////////////////////////////////////////////////////////////////////////////////////////////////
+  template<class Field> class SchurRedBlackBase {
+  protected:
+    typedef CheckerBoardedSparseMatrixBase<Field> Matrix;
+    OperatorFunction<Field> & _HermitianRBSolver;
+    int CBfactorise;
+    bool subGuess;
+  public:
+
+    SchurRedBlackBase(OperatorFunction<Field> &HermitianRBSolver, const bool initSubGuess = false)  :
+    _HermitianRBSolver(HermitianRBSolver) 
+    { 
+      CBfactorise = 0;
+      subtractGuess(initSubGuess);
+    };
+    void subtractGuess(const bool initSubGuess)
+    {
+      subGuess = initSubGuess;
+    }
+    bool isSubtractGuess(void)
+    {
+      return subGuess;
+    }
+
+    /////////////////////////////////////////////////////////////
+    // Shared code
+    /////////////////////////////////////////////////////////////
+    void operator() (Matrix & _Matrix,const Field &in, Field &out){
+      ZeroGuesser<Field> guess;
+      (*this)(_Matrix,in,out,guess);
+    }
+    void operator()(Matrix &_Matrix, const std::vector<Field> &in, std::vector<Field> &out) 
+    {
+      ZeroGuesser<Field> guess;
+      (*this)(_Matrix,in,out,guess);
+    }
+
+    template<class Guesser>
+    void operator()(Matrix &_Matrix, const std::vector<Field> &in, std::vector<Field> &out,Guesser &guess) 
+    {
+      GridBase *grid = _Matrix.RedBlackGrid();
+      GridBase *fgrid= _Matrix.Grid();
+      int nblock = in.size();
+
+      std::vector<Field> src_o(nblock,grid);
+      std::vector<Field> sol_o(nblock,grid);
+      
+      std::vector<Field> guess_save;
+
+      Field resid(fgrid);
+      Field tmp(grid);
+
+      ////////////////////////////////////////////////
+      // Prepare RedBlack source
+      ////////////////////////////////////////////////
+      for(int b=0;b<nblock;b++){
+	RedBlackSource(_Matrix,in[b],tmp,src_o[b]);
+      }
+      ////////////////////////////////////////////////
+      // Make the guesses
+      ////////////////////////////////////////////////
+      if ( subGuess ) guess_save.resize(nblock,grid);
+
+      for(int b=0;b<nblock;b++){
+	guess(src_o[b],sol_o[b]); 
+
+	if ( subGuess ) { 
+	  guess_save[b] = sol_o[b];
+	}
+      }
+      //////////////////////////////////////////////////////////////
+      // Call the block solver
+      //////////////////////////////////////////////////////////////
+      std::cout<<GridLogMessage << "SchurRedBlackBase calling the solver for "<<nblock<<" RHS" <<std::endl;
+      RedBlackSolve(_Matrix,src_o,sol_o);
+
+      ////////////////////////////////////////////////
+      // A2A boolean behavioural control & reconstruct other checkerboard
+      ////////////////////////////////////////////////
+      for(int b=0;b<nblock;b++) {
+
+	if (subGuess)   sol_o[b] = sol_o[b] - guess_save[b];
+
+	///////// Needs even source //////////////
+	pickCheckerboard(Even,tmp,in[b]);
+	RedBlackSolution(_Matrix,sol_o[b],tmp,out[b]);
+
+	/////////////////////////////////////////////////
+	// Check unprec residual if possible
+	/////////////////////////////////////////////////
+	if ( ! subGuess ) {
+	  _Matrix.M(out[b],resid); 
+	  resid = resid-in[b];
+	  RealD ns = norm2(in[b]);
+	  RealD nr = norm2(resid);
+	
+	  std::cout<<GridLogMessage<< "SchurRedBlackBase solver true unprec resid["<<b<<"] "<<std::sqrt(nr/ns) << std::endl;
+	} else {
+	  std::cout<<GridLogMessage<< "SchurRedBlackBase Guess subtracted after solve["<<b<<"] " << std::endl;
+	}
+
+      }
+    }
+    template<class Guesser>
+    void operator() (Matrix & _Matrix,const Field &in, Field &out,Guesser &guess){
+
+      // FIXME CGdiagonalMee not implemented virtual function
+      // FIXME use CBfactorise to control schur decomp
+      GridBase *grid = _Matrix.RedBlackGrid();
+      GridBase *fgrid= _Matrix.Grid();
+
+      Field resid(fgrid);
+      Field src_o(grid);
+      Field src_e(grid);
+      Field sol_o(grid);
+
+      ////////////////////////////////////////////////
+      // RedBlack source
+      ////////////////////////////////////////////////
+      RedBlackSource(_Matrix,in,src_e,src_o);
+
+      ////////////////////////////////
+      // Construct the guess
+      ////////////////////////////////
+      Field   tmp(grid);
+      guess(src_o,sol_o);
+
+      Field  guess_save(grid);
+      guess_save = sol_o;
+
+      //////////////////////////////////////////////////////////////
+      // Call the red-black solver
+      //////////////////////////////////////////////////////////////
+      RedBlackSolve(_Matrix,src_o,sol_o);
+
+      ////////////////////////////////////////////////
+      // Fionn A2A boolean behavioural control
+      ////////////////////////////////////////////////
+      if (subGuess)      sol_o= sol_o-guess_save;
+
+      ///////////////////////////////////////////////////
+      // RedBlack solution needs the even source
+      ///////////////////////////////////////////////////
+      RedBlackSolution(_Matrix,sol_o,src_e,out);
+
+      // Verify the unprec residual
+      if ( ! subGuess ) {
+        _Matrix.M(out,resid); 
+        resid = resid-in;
+        RealD ns = norm2(in);
+        RealD nr = norm2(resid);
+
+        std::cout<<GridLogMessage << "SchurRedBlackBase solver true unprec resid "<< std::sqrt(nr/ns) << std::endl;
+      } else {
+        std::cout << GridLogMessage << "SchurRedBlackBase Guess subtracted after solve." << std::endl;
+      }
+    }     
+    
+    /////////////////////////////////////////////////////////////
+    // Override in derived. Not virtual as template methods
+    /////////////////////////////////////////////////////////////
+    virtual void RedBlackSource  (Matrix & _Matrix,const Field &src, Field &src_e,Field &src_o)                =0;
+    virtual void RedBlackSolution(Matrix & _Matrix,const Field &sol_o, const Field &src_e,Field &sol)          =0;
+    virtual void RedBlackSolve   (Matrix & _Matrix,const Field &src_o, Field &sol_o)                           =0;
+    virtual void RedBlackSolve   (Matrix & _Matrix,const std::vector<Field> &src_o,  std::vector<Field> &sol_o)=0;
+
+  };
+
+  template<class Field> class SchurRedBlackStaggeredSolve : public SchurRedBlackBase<Field> {
+  public:
+    typedef CheckerBoardedSparseMatrixBase<Field> Matrix;
+
+    SchurRedBlackStaggeredSolve(OperatorFunction<Field> &HermitianRBSolver, const bool initSubGuess = false) 
+      :    SchurRedBlackBase<Field> (HermitianRBSolver,initSubGuess) 
+    {
+    }
+
+    //////////////////////////////////////////////////////
+    // Override RedBlack specialisation
+    //////////////////////////////////////////////////////
+    virtual void RedBlackSource(Matrix & _Matrix,const Field &src, Field &src_e,Field &src_o)
+    {
+      GridBase *grid = _Matrix.RedBlackGrid();
+      GridBase *fgrid= _Matrix.Grid();
+
+      Field   tmp(grid);
+      Field  Mtmp(grid);
+
+      pickCheckerboard(Even,src_e,src);
+      pickCheckerboard(Odd ,src_o,src);
+
+      /////////////////////////////////////////////////////
+      // src_o = (source_o - Moe MeeInv source_e)
+      /////////////////////////////////////////////////////
+      _Matrix.MooeeInv(src_e,tmp);     assert(  tmp.checkerboard ==Even);
+      _Matrix.Meooe   (tmp,Mtmp);      assert( Mtmp.checkerboard ==Odd);     
+      tmp=src_o-Mtmp;                  assert(  tmp.checkerboard ==Odd);     
+
+      _Matrix.Mooee(tmp,src_o); // Extra factor of "m" in source from dumb choice of matrix norm.
+    }
+    virtual void RedBlackSolution(Matrix & _Matrix,const Field &sol_o, const Field &src_e_c,Field &sol)
+    {
+      GridBase *grid = _Matrix.RedBlackGrid();
+      GridBase *fgrid= _Matrix.Grid();
+
+      Field   tmp(grid);
+      Field   sol_e(grid);
+      Field   src_e(grid);
+
+      src_e = src_e_c; // Const correctness
+
+      ///////////////////////////////////////////////////
+      // sol_e = M_ee^-1 * ( src_e - Meo sol_o )...
+      ///////////////////////////////////////////////////
+      _Matrix.Meooe(sol_o,tmp);        assert(  tmp.checkerboard   ==Even);
+      src_e = src_e-tmp;               assert(  src_e.checkerboard ==Even);
+      _Matrix.MooeeInv(src_e,sol_e);   assert(  sol_e.checkerboard ==Even);
+     
+      setCheckerboard(sol,sol_e); assert(  sol_e.checkerboard ==Even);
+      setCheckerboard(sol,sol_o); assert(  sol_o.checkerboard ==Odd );
+    }
+    virtual void RedBlackSolve   (Matrix & _Matrix,const Field &src_o, Field &sol_o)
+    {
+      SchurStaggeredOperator<Matrix,Field> _HermOpEO(_Matrix);
+      this->_HermitianRBSolver(_HermOpEO,src_o,sol_o);  assert(sol_o.checkerboard==Odd);
+    };
+    virtual void RedBlackSolve   (Matrix & _Matrix,const std::vector<Field> &src_o,  std::vector<Field> &sol_o)
+    {
+      SchurStaggeredOperator<Matrix,Field> _HermOpEO(_Matrix);
+      this->_HermitianRBSolver(_HermOpEO,src_o,sol_o); 
+    }
+  };
+  template<class Field> using SchurRedBlackStagSolve = SchurRedBlackStaggeredSolve<Field>;
+
+  ///////////////////////////////////////////////////////////////////////////////////////////////////////
+  // Site diagonal has Mooee on it.
+  ///////////////////////////////////////////////////////////////////////////////////////////////////////
+  template<class Field> class SchurRedBlackDiagMooeeSolve : public SchurRedBlackBase<Field> {
+  public:
+    typedef CheckerBoardedSparseMatrixBase<Field> Matrix;
+
+    SchurRedBlackDiagMooeeSolve(OperatorFunction<Field> &HermitianRBSolver, const bool initSubGuess = false)  
+      : SchurRedBlackBase<Field> (HermitianRBSolver,initSubGuess) {};
+
+
+    //////////////////////////////////////////////////////
+    // Override RedBlack specialisation
+    //////////////////////////////////////////////////////
+    virtual void RedBlackSource(Matrix & _Matrix,const Field &src, Field &src_e,Field &src_o)
+    {
+      GridBase *grid = _Matrix.RedBlackGrid();
+      GridBase *fgrid= _Matrix.Grid();
+
+      Field   tmp(grid);
+      Field  Mtmp(grid);
+
+      pickCheckerboard(Even,src_e,src);
+      pickCheckerboard(Odd ,src_o,src);
+
+      /////////////////////////////////////////////////////
+      // src_o = Mdag * (source_o - Moe MeeInv source_e)
+      /////////////////////////////////////////////////////
+      _Matrix.MooeeInv(src_e,tmp);     assert(  tmp.checkerboard ==Even);
+      _Matrix.Meooe   (tmp,Mtmp);      assert( Mtmp.checkerboard ==Odd);     
+      tmp=src_o-Mtmp;                  assert(  tmp.checkerboard ==Odd);     
+
+      // get the right MpcDag
+      SchurDiagMooeeOperator<Matrix,Field> _HermOpEO(_Matrix);
+      _HermOpEO.MpcDag(tmp,src_o);     assert(src_o.checkerboard ==Odd);       
+
+    }
+    virtual void RedBlackSolution(Matrix & _Matrix,const Field &sol_o, const Field &src_e,Field &sol)
+    {
+      GridBase *grid = _Matrix.RedBlackGrid();
+      GridBase *fgrid= _Matrix.Grid();
+
+      Field   tmp(grid);
+      Field  sol_e(grid);
+      Field  src_e_i(grid);
+      ///////////////////////////////////////////////////
+      // sol_e = M_ee^-1 * ( src_e - Meo sol_o )...
+      ///////////////////////////////////////////////////
+      _Matrix.Meooe(sol_o,tmp);          assert(  tmp.checkerboard   ==Even);
+      src_e_i = src_e-tmp;               assert(  src_e_i.checkerboard ==Even);
+      _Matrix.MooeeInv(src_e_i,sol_e);   assert(  sol_e.checkerboard ==Even);
+     
+      setCheckerboard(sol,sol_e); assert(  sol_e.checkerboard ==Even);
+      setCheckerboard(sol,sol_o); assert(  sol_o.checkerboard ==Odd );
+    }
+    virtual void RedBlackSolve   (Matrix & _Matrix,const Field &src_o, Field &sol_o)
+    {
+      SchurDiagMooeeOperator<Matrix,Field> _HermOpEO(_Matrix);
+      this->_HermitianRBSolver(_HermOpEO,src_o,sol_o);  assert(sol_o.checkerboard==Odd);
+    };
+    virtual void RedBlackSolve   (Matrix & _Matrix,const std::vector<Field> &src_o,  std::vector<Field> &sol_o)
+    {
+      SchurDiagMooeeOperator<Matrix,Field> _HermOpEO(_Matrix);
+      this->_HermitianRBSolver(_HermOpEO,src_o,sol_o); 
+    }
+  };
+
+  ///////////////////////////////////////////////////////////////////////////////////////////////////////
+  // Site diagonal is identity, right preconditioned by Mee^inv
+  // ( 1 - Meo Moo^inv Moe Mee^inv  ) phi =( 1 - Meo Moo^inv Moe Mee^inv  ) Mee psi =  = eta  = eta
+  //=> psi = MeeInv phi
+  ///////////////////////////////////////////////////////////////////////////////////////////////////////
+  template<class Field> class SchurRedBlackDiagTwoSolve : public SchurRedBlackBase<Field> {
+  public:
+    typedef CheckerBoardedSparseMatrixBase<Field> Matrix;
+
+    /////////////////////////////////////////////////////
+    // Wrap the usual normal equations Schur trick
+    /////////////////////////////////////////////////////
+  SchurRedBlackDiagTwoSolve(OperatorFunction<Field> &HermitianRBSolver, const bool initSubGuess = false)  
+    : SchurRedBlackBase<Field>(HermitianRBSolver,initSubGuess) {};
+
+    virtual void RedBlackSource(Matrix & _Matrix,const Field &src, Field &src_e,Field &src_o)
+    {
+      GridBase *grid = _Matrix.RedBlackGrid();
+      GridBase *fgrid= _Matrix.Grid();
+
+      SchurDiagTwoOperator<Matrix,Field> _HermOpEO(_Matrix);
+      
+      Field   tmp(grid);
+      Field  Mtmp(grid);
+
+      pickCheckerboard(Even,src_e,src);
+      pickCheckerboard(Odd ,src_o,src);
+    
+      /////////////////////////////////////////////////////
+      // src_o = Mdag * (source_o - Moe MeeInv source_e)
+      /////////////////////////////////////////////////////
+      _Matrix.MooeeInv(src_e,tmp);     assert(  tmp.checkerboard ==Even);
+      _Matrix.Meooe   (tmp,Mtmp);      assert( Mtmp.checkerboard ==Odd);     
+      tmp=src_o-Mtmp;                  assert(  tmp.checkerboard ==Odd);     
+
+      // get the right MpcDag
+      _HermOpEO.MpcDag(tmp,src_o);     assert(src_o.checkerboard ==Odd);       
+    }
+
+    virtual void RedBlackSolution(Matrix & _Matrix,const Field &sol_o, const Field &src_e,Field &sol)
+    {
+      GridBase *grid = _Matrix.RedBlackGrid();
+      GridBase *fgrid= _Matrix.Grid();
+
+      Field   sol_o_i(grid);
+      Field   tmp(grid);
+      Field   sol_e(grid);
+
+      ////////////////////////////////////////////////
+      // MooeeInv due to pecond
+      ////////////////////////////////////////////////
+      _Matrix.MooeeInv(sol_o,tmp);
+      sol_o_i = tmp;
+
+      ///////////////////////////////////////////////////
+      // sol_e = M_ee^-1 * ( src_e - Meo sol_o )...
+      ///////////////////////////////////////////////////
+      _Matrix.Meooe(sol_o_i,tmp);    assert(  tmp.checkerboard   ==Even);
+      tmp = src_e-tmp;               assert(  src_e.checkerboard ==Even);
+      _Matrix.MooeeInv(tmp,sol_e);   assert(  sol_e.checkerboard ==Even);
+     
+      setCheckerboard(sol,sol_e);    assert(  sol_e.checkerboard ==Even);
+      setCheckerboard(sol,sol_o_i);  assert(  sol_o_i.checkerboard ==Odd );
+    };
+
+    virtual void RedBlackSolve   (Matrix & _Matrix,const Field &src_o, Field &sol_o)
+    {
+      SchurDiagTwoOperator<Matrix,Field> _HermOpEO(_Matrix);
+      this->_HermitianRBSolver(_HermOpEO,src_o,sol_o);
+    };
+    virtual void RedBlackSolve   (Matrix & _Matrix,const std::vector<Field> &src_o,  std::vector<Field> &sol_o)
+    {
+      SchurDiagTwoOperator<Matrix,Field> _HermOpEO(_Matrix);
+      this->_HermitianRBSolver(_HermOpEO,src_o,sol_o); 
+    }
+  };
+}
+#endif

Grid/communicator/Communicator_mpi3.cc

@@ -50,8 +50,6 @@ void CartesianCommunicator::Init(int *argc, char ***argv)
       assert(0);
   }
 
-  Grid_quiesce_nodes();
-
   // Never clean up as done once.
   MPI_Comm_dup (MPI_COMM_WORLD,&communicator_world);
 
@@ -124,10 +122,8 @@ CartesianCommunicator::CartesianCommunicator(const std::vector<int> &processors,
   // split the communicator
   //////////////////////////////////////////////////////////////////////////////////////////////////////
   //  int Nparent = parent._processors ; 
-  //  std::cout << " splitting from communicator "<<parent.communicator <<std::endl;
   int Nparent;
   MPI_Comm_size(parent.communicator,&Nparent);
-  //  std::cout << " Parent size  "<<Nparent <<std::endl;
 
   int childsize=1;
   for(int d=0;d<processors.size();d++) {
@@ -136,8 +132,6 @@ CartesianCommunicator::CartesianCommunicator(const std::vector<int> &processors,
   int Nchild = Nparent/childsize;
   assert (childsize * Nchild == Nparent);
 
-  //  std::cout << " child size  "<<childsize <<std::endl;
-
   std::vector<int> ccoor(_ndimension); // coor within subcommunicator
   std::vector<int> scoor(_ndimension); // coor of split within parent
   std::vector<int> ssize(_ndimension); // coor of split within parent

Grid/communicator/SharedMemoryMPI.cc

@@ -132,7 +132,6 @@ int Log2Size(int TwoToPower,int MAXLOG2)
 }
 void GlobalSharedMemory::OptimalCommunicator(const std::vector<int> &processors,Grid_MPI_Comm & optimal_comm)
 {
-#undef HYPERCUBE 
 #ifdef HYPERCUBE
   ////////////////////////////////////////////////////////////////
   // Assert power of two shm_size.
@@ -175,7 +174,7 @@ void GlobalSharedMemory::OptimalCommunicator(const std::vector<int> &processors,
 
   std::string hname(name);
   std::cout << "hostname "<<hname<<std::endl;
-  std::cout << "R " << R << " I " << I << " N "<< N<<
+  std::cout << "R " << R << " I " << I << " N "<< N
             << " hypercoor 0x"<<std::hex<<hypercoor<<std::dec<<std::endl;
 
   //////////////////////////////////////////////////////////////////
@@ -414,7 +413,7 @@ void GlobalSharedMemory::SharedMemoryAllocate(uint64_t bytes, int flags)
     assert(((uint64_t)ptr&0x3F)==0);
     close(fd);
     WorldShmCommBufs[r] =ptr;
-    std::cout << "Set WorldShmCommBufs["<<r<<"]="<<ptr<< "("<< bytes<< "bytes)"<<std::endl;
+    //    std::cout << "Set WorldShmCommBufs["<<r<<"]="<<ptr<< "("<< bytes<< "bytes)"<<std::endl;
   }
   _ShmAlloc=1;
   _ShmAllocBytes  = bytes;
@@ -456,7 +455,7 @@ void GlobalSharedMemory::SharedMemoryAllocate(uint64_t bytes, int flags)
     assert(((uint64_t)ptr&0x3F)==0);
     close(fd);
     WorldShmCommBufs[r] =ptr;
-    std::cout << "Set WorldShmCommBufs["<<r<<"]="<<ptr<< "("<< bytes<< "bytes)"<<std::endl;
+    //    std::cout << "Set WorldShmCommBufs["<<r<<"]="<<ptr<< "("<< bytes<< "bytes)"<<std::endl;
   }
   _ShmAlloc=1;
   _ShmAllocBytes  = bytes;
@@ -500,7 +499,7 @@ void GlobalSharedMemory::SharedMemoryAllocate(uint64_t bytes, int flags)
 #endif
       void * ptr =  mmap(NULL,size, PROT_READ | PROT_WRITE, mmap_flag, fd, 0);
       
-      std::cout << "Set WorldShmCommBufs["<<r<<"]="<<ptr<< "("<< size<< "bytes)"<<std::endl;
+      //      std::cout << "Set WorldShmCommBufs["<<r<<"]="<<ptr<< "("<< size<< "bytes)"<<std::endl;
       if ( ptr == (void * )MAP_FAILED ) {       
 	perror("failed mmap");     
 	assert(0);    

Grid/lattice/Lattice_reduction.h

@@ -274,6 +274,115 @@ template<class vobj> inline void sliceSum(const Lattice<vobj> &Data,std::vector<
   }
 }
 
+template<class vobj>
+static void mySliceInnerProductVector( std::vector<ComplexD> & result, const Lattice<vobj> &lhs,const Lattice<vobj> &rhs,int orthogdim)
+{
+  // std::cout << GridLogMessage << "Start mySliceInnerProductVector" << std::endl;
+
+  typedef typename vobj::scalar_type scalar_type;
+  std::vector<scalar_type> lsSum;
+  localSliceInnerProductVector(result, lhs, rhs, lsSum, orthogdim);
+  globalSliceInnerProductVector(result, lhs, lsSum, orthogdim);
+  // std::cout << GridLogMessage << "End mySliceInnerProductVector" << std::endl;
+}
+
+template <class vobj>
+static void localSliceInnerProductVector(std::vector<ComplexD> &result, const Lattice<vobj> &lhs, const Lattice<vobj> &rhs, std::vector<typename vobj::scalar_type> &lsSum, int orthogdim)
+{
+  // std::cout << GridLogMessage << "Start prep" << std::endl;
+  typedef typename vobj::vector_type   vector_type;
+  typedef typename vobj::scalar_type   scalar_type;
+  GridBase  *grid = lhs._grid;
+  assert(grid!=NULL);
+  conformable(grid,rhs._grid);
+
+  const int    Nd = grid->_ndimension;
+  const int Nsimd = grid->Nsimd();
+
+  assert(orthogdim >= 0);
+  assert(orthogdim < Nd);
+
+  int fd=grid->_fdimensions[orthogdim];
+  int ld=grid->_ldimensions[orthogdim];
+  int rd=grid->_rdimensions[orthogdim];
+  // std::cout << GridLogMessage << "Start alloc" << std::endl;
+
+  std::vector<vector_type,alignedAllocator<vector_type> > lvSum(rd); // will locally sum vectors first
+  lsSum.resize(ld,scalar_type(0.0));                    // sum across these down to scalars
+  std::vector<iScalar<scalar_type>> extracted(Nsimd);   // splitting the SIMD  
+  // std::cout << GridLogMessage << "End alloc" << std::endl;
+
+  result.resize(fd); // And then global sum to return the same vector to every node for IO to file
+  for(int r=0;r<rd;r++){
+    lvSum[r]=zero;
+  }
+
+  int e1=    grid->_slice_nblock[orthogdim];
+  int e2=    grid->_slice_block [orthogdim];
+  int stride=grid->_slice_stride[orthogdim];
+  // std::cout << GridLogMessage << "End prep" << std::endl;
+  // std::cout << GridLogMessage << "Start parallel inner product, _rd = " << rd << std::endl;
+  vector_type vv;
+  parallel_for(int r=0;r<rd;r++)
+  {
+
+    int so=r*grid->_ostride[orthogdim]; // base offset for start of plane 
+
+    for(int n=0;n<e1;n++){
+      for(int b=0;b<e2;b++){
+        int ss = so + n * stride + b;
+        vv = TensorRemove(innerProduct(lhs._odata[ss], rhs._odata[ss]));
+        lvSum[r] = lvSum[r] + vv;
+      }
+    }
+  }
+  // std::cout << GridLogMessage << "End parallel inner product" << std::endl;
+
+  // Sum across simd lanes in the plane, breaking out orthog dir.
+  std::vector<int> icoor(Nd);
+  for(int rt=0;rt<rd;rt++){
+
+    iScalar<vector_type> temp; 
+    temp._internal = lvSum[rt];
+    extract(temp,extracted);
+
+    for(int idx=0;idx<Nsimd;idx++){
+
+      grid->iCoorFromIindex(icoor,idx);
+
+      int ldx =rt+icoor[orthogdim]*rd;
+
+      lsSum[ldx]=lsSum[ldx]+extracted[idx]._internal;
+
+    }
+  }
+  // std::cout << GridLogMessage << "End sum over simd lanes" << std::endl;
+}
+template <class vobj>
+static void globalSliceInnerProductVector(std::vector<ComplexD> &result, const Lattice<vobj> &lhs, std::vector<typename vobj::scalar_type> &lsSum, int orthogdim)
+{
+  typedef typename vobj::scalar_type scalar_type;
+  GridBase *grid = lhs._grid;
+  int fd = result.size();
+  int ld = lsSum.size();
+  // sum over nodes.
+  std::vector<scalar_type> gsum;
+  gsum.resize(fd, scalar_type(0.0));
+  // std::cout << GridLogMessage << "Start of gsum[t] creation:" << std::endl;
+  for(int t=0;t<fd;t++){
+    int pt = t/ld; // processor plane
+    int lt = t%ld;
+    if ( pt == grid->_processor_coor[orthogdim] ) {
+      gsum[t]=lsSum[lt];
+    }
+  }
+  // std::cout << GridLogMessage << "End of gsum[t] creation:" << std::endl;
+  // std::cout << GridLogMessage << "Start of GlobalSumVector:" << std::endl;
+  grid->GlobalSumVector(&gsum[0], fd);
+  // std::cout << GridLogMessage << "End of GlobalSumVector:" << std::endl;
+
+  result = gsum;
+}
 template<class vobj>
 static void sliceInnerProductVector( std::vector<ComplexD> & result, const Lattice<vobj> &lhs,const Lattice<vobj> &rhs,int orthogdim) 
 {

Grid/lattice/Lattice_rng.h

@@ -251,7 +251,7 @@ namespace Grid {
 
       dist[0].reset();
       for(int idx=0;idx<words;idx++){
-  fillScalar(buf[idx],dist[0],_generators[0]);
+	fillScalar(buf[idx],dist[0],_generators[0]);
       }
 
       CartesianCommunicator::BroadcastWorld(0,(void *)&l,sizeof(l));
@@ -283,7 +283,7 @@ namespace Grid {
       RealF *pointer=(RealF *)&l;
       dist[0].reset();
       for(int i=0;i<2*vComplexF::Nsimd();i++){
-  fillScalar(pointer[i],dist[0],_generators[0]);
+	fillScalar(pointer[i],dist[0],_generators[0]);
       }
       CartesianCommunicator::BroadcastWorld(0,(void *)&l,sizeof(l));
     }
@@ -291,7 +291,7 @@ namespace Grid {
       RealD *pointer=(RealD *)&l;
       dist[0].reset();
       for(int i=0;i<2*vComplexD::Nsimd();i++){
-  fillScalar(pointer[i],dist[0],_generators[0]);
+	fillScalar(pointer[i],dist[0],_generators[0]);
       }
       CartesianCommunicator::BroadcastWorld(0,(void *)&l,sizeof(l));
     }
@@ -299,7 +299,7 @@ namespace Grid {
       RealF *pointer=(RealF *)&l;
       dist[0].reset();
       for(int i=0;i<vRealF::Nsimd();i++){
-  fillScalar(pointer[i],dist[0],_generators[0]);
+	fillScalar(pointer[i],dist[0],_generators[0]);
       }
       CartesianCommunicator::BroadcastWorld(0,(void *)&l,sizeof(l));
     }
@@ -317,6 +317,19 @@ namespace Grid {
       std::seed_seq src(seeds.begin(),seeds.end());
       Seed(src,0);
     }
+
+    void SeedUniqueString(const std::string &s){
+      std::vector<int> seeds;
+      std::stringstream sha;
+      seeds = GridChecksum::sha256_seeds(s);
+      for(int i=0;i<seeds.size();i++) { 
+        sha << std::hex << seeds[i];
+      }
+      std::cout << GridLogMessage << "Intialising serial RNG with unique string '" 
+                << s << "'" << std::endl;
+      std::cout << GridLogMessage << "Seed SHA256: " << sha.str() << std::endl;
+      SeedFixedIntegers(seeds);
+    }
   };
 
   class GridParallelRNG : public GridRNGbase {
@@ -377,6 +390,14 @@ namespace Grid {
       _time_counter += usecond()- inner_time_counter;
     };
 
+    void SeedUniqueString(const std::string &s){
+      std::vector<int> seeds;
+      seeds = GridChecksum::sha256_seeds(s);
+      std::cout << GridLogMessage << "Intialising parallel RNG with unique string '" 
+                << s << "'" << std::endl;
+      std::cout << GridLogMessage << "Seed SHA256: " << GridChecksum::sha256_string(seeds) << std::endl;
+      SeedFixedIntegers(seeds);
+    }
     void SeedFixedIntegers(const std::vector<int> &seeds){
 
       // Everyone generates the same seed_seq based on input seeds

Grid/lattice/Lattice_transfer.h

@@ -464,8 +464,10 @@ void InsertSliceLocal(const Lattice<vobj> &lowDim, Lattice<vobj> & higherDim,int
   assert(orthog>=0);
 
   for(int d=0;d<nh;d++){
-    assert(lg->_processors[d]  == hg->_processors[d]);
+    if ( d!=orthog ) {
-    assert(lg->_ldimensions[d] == hg->_ldimensions[d]);
+      assert(lg->_processors[d]  == hg->_processors[d]);
+      assert(lg->_ldimensions[d] == hg->_ldimensions[d]);
+    }
   }
 
   // the above should guarantee that the operations are local
@@ -485,7 +487,7 @@ void InsertSliceLocal(const Lattice<vobj> &lowDim, Lattice<vobj> & higherDim,int
 
 
 template<class vobj>
-void ExtractSliceLocal(Lattice<vobj> &lowDim, Lattice<vobj> & higherDim,int slice_lo,int slice_hi, int orthog)
+void ExtractSliceLocal(Lattice<vobj> &lowDim,const Lattice<vobj> & higherDim,int slice_lo,int slice_hi, int orthog)
 {
   typedef typename vobj::scalar_object sobj;
 
@@ -499,8 +501,10 @@ void ExtractSliceLocal(Lattice<vobj> &lowDim, Lattice<vobj> & higherDim,int slic
   assert(orthog>=0);
 
   for(int d=0;d<nh;d++){
-    assert(lg->_processors[d]  == hg->_processors[d]);
+    if ( d!=orthog ) {
-    assert(lg->_ldimensions[d] == hg->_ldimensions[d]);
+      assert(lg->_processors[d]  == hg->_processors[d]);
+      assert(lg->_ldimensions[d] == hg->_ldimensions[d]);
+    }
   }
 
   // the above should guarantee that the operations are local

Grid/log/Log.h

@@ -86,7 +86,7 @@ protected:
   Colours &Painter;
   int active;
   int timing_mode;
-  int topWidth{-1};
+  int topWidth{-1}, chanWidth{-1};
   static int timestamp;
   std::string name, topName;
   std::string COLOUR;
@@ -126,6 +126,7 @@ public:
     }
   }
   void setTopWidth(const int w) {topWidth = w;}
+  void setChanWidth(const int w) {chanWidth = w;}
 
   friend std::ostream& operator<< (std::ostream& stream, Logger& log){
 
@@ -136,13 +137,20 @@ public:
         stream << std::setw(log.topWidth);
       }
       stream << log.topName << log.background()<< " : ";
-      stream << log.colour() <<  std::left << log.name << log.background() << " : ";
+      stream << log.colour() <<  std::left;
+      if (log.chanWidth > 0)
+      {
+        stream << std::setw(log.chanWidth);
+      }
+      stream << log.name << log.background() << " : ";
       if ( log.timestamp ) {
 	log.StopWatch->Stop();
 	GridTime now = log.StopWatch->Elapsed();
+	
 	if ( log.timing_mode==1 ) log.StopWatch->Reset();
 	log.StopWatch->Start();
-	stream << log.evidence()<< std::setw(6)<<now << log.background() << " : " ;
+	stream << log.evidence()
+	       << now	       << log.background() << " : " ;
       }
       stream << log.colour();
       return stream;

Grid/parallelIO/BinaryIO.cc

@@ -0,0 +1,3 @@
+#include <Grid/GridCore.h>
+
+int Grid::BinaryIO::latticeWriteMaxRetry = -1;

Grid/parallelIO/BinaryIO.h

@@ -81,6 +81,7 @@ inline void removeWhitespace(std::string &key)
 ///////////////////////////////////////////////////////////////////////////////////////////////////
 class BinaryIO {
  public:
+  static int latticeWriteMaxRetry;
 
   /////////////////////////////////////////////////////////////////////////////
   // more byte manipulation helpers
@@ -370,7 +371,7 @@ PARALLEL_CRITICAL
 #endif
       } else {
 	std::cout << GridLogMessage <<"IOobject: C++ read I/O " << file << " : "
-                  << iodata.size() * sizeof(fobj) << " bytes" << std::endl;
+                  << iodata.size() * sizeof(fobj) << " bytes and offset " << offset << std::endl;
         std::ifstream fin;
 	fin.open(file, std::ios::binary | std::ios::in);
         if (control & BINARYIO_MASTER_APPEND)
@@ -582,7 +583,9 @@ PARALLEL_CRITICAL
     typedef typename vobj::scalar_object sobj;
     typedef typename vobj::Realified::scalar_type word;    word w=0;
     GridBase *grid = Umu._grid;
-    uint64_t lsites = grid->lSites();
+    uint64_t lsites = grid->lSites(), offsetCopy = offset;
+    int attemptsLeft = std::max(0, BinaryIO::latticeWriteMaxRetry);
+    bool checkWrite = (BinaryIO::latticeWriteMaxRetry >= 0);
 
     std::vector<sobj> scalardata(lsites); 
     std::vector<fobj>     iodata(lsites); // Munge, checksum, byte order in here
@@ -597,9 +600,35 @@ PARALLEL_CRITICAL
 
     grid->Barrier();
     timer.Stop();
+    while (attemptsLeft >= 0)
+    {
+      grid->Barrier();
+      IOobject(w,grid,iodata,file,offset,format,BINARYIO_WRITE|BINARYIO_LEXICOGRAPHIC,
+	             nersc_csum,scidac_csuma,scidac_csumb);
+      if (checkWrite)
+      {
+        std::vector<fobj> ckiodata(lsites);
+        uint32_t          cknersc_csum, ckscidac_csuma, ckscidac_csumb;
+        uint64_t          ckoffset = offsetCopy;
+
+        std::cout << GridLogMessage << "writeLatticeObject: read back object" << std::endl;
+        grid->Barrier();
+        IOobject(w,grid,ckiodata,file,ckoffset,format,BINARYIO_READ|BINARYIO_LEXICOGRAPHIC,
+	               cknersc_csum,ckscidac_csuma,ckscidac_csumb);
+        if ((cknersc_csum != nersc_csum) or (ckscidac_csuma != scidac_csuma) or (ckscidac_csumb != scidac_csumb))
+        {
+          std::cout << GridLogMessage << "writeLatticeObject: read test checksum failure, re-writing (" << attemptsLeft << " attempt(s) remaining)" << std::endl;
+          offset = offsetCopy;
+        }
+        else
+        {
+          std::cout << GridLogMessage << "writeLatticeObject: read test checksum correct" << std::endl;
+          break;
+        }
+      }
+      attemptsLeft--;
+    }
     
-    IOobject(w,grid,iodata,file,offset,format,BINARYIO_WRITE|BINARYIO_LEXICOGRAPHIC,
-	     nersc_csum,scidac_csuma,scidac_csumb);
 
     std::cout<<GridLogMessage<<"writeLatticeObject: unvectorize overhead "<<timer.Elapsed()  <<std::endl;
   }
@@ -725,5 +754,6 @@ PARALLEL_CRITICAL
     std::cout << GridLogMessage << "RNG state overhead " << timer.Elapsed() << std::endl;
   }
 };
+
 }
 #endif

Grid/parallelIO/IldgIO.h

@@ -233,7 +233,8 @@ class GridLimeReader : public BinaryIO {
 	//	std::cout << " ReadLatticeObject from offset "<<offset << std::endl;
 	BinarySimpleMunger<sobj,sobj> munge;
 	BinaryIO::readLatticeObject< vobj, sobj >(field, filename, munge, offset, format,nersc_csum,scidac_csuma,scidac_csumb);
-
+  std::cout << GridLogMessage << "SciDAC checksum A " << std::hex << scidac_csuma << std::dec << std::endl;
+  std::cout << GridLogMessage << "SciDAC checksum B " << std::hex << scidac_csumb << std::dec << std::endl;
 	/////////////////////////////////////////////
 	// Insist checksum is next record
 	/////////////////////////////////////////////
@@ -250,8 +251,7 @@ class GridLimeReader : public BinaryIO {
   ////////////////////////////////////////////
   // Read a generic serialisable object
   ////////////////////////////////////////////
-  template<class serialisable_object>
+  void readLimeObject(std::string &xmlstring,std::string record_name)
-  void readLimeObject(serialisable_object &object,std::string object_name,std::string record_name)
   {
     // should this be a do while; can we miss a first record??
     while ( limeReaderNextRecord(LimeR) == LIME_SUCCESS ) { 
@@ -266,15 +266,23 @@ class GridLimeReader : public BinaryIO {
 	limeReaderReadData((void *)&xmlc[0], &nbytes, LimeR);    
 	//	std::cout << GridLogMessage<< " readLimeObject matches XML " << &xmlc[0] <<std::endl;
 
-  std::string xmlstring(&xmlc[0]);
+   xmlstring = std::string(&xmlc[0]);
-	XmlReader RD(xmlstring, true, "");
-	read(RD,object_name,object);
 	return;
       }
 
     }  
     assert(0);
   }
+
+  template<class serialisable_object>
+  void readLimeObject(serialisable_object &object,std::string object_name,std::string record_name)
+  {
+    std::string xmlstring;
+
+    readLimeObject(xmlstring, record_name);
+	  XmlReader RD(xmlstring, true, "");
+	  read(RD,object_name,object);
+  }
 };
 
 class GridLimeWriter : public BinaryIO 
@@ -325,16 +333,11 @@ class GridLimeWriter : public BinaryIO
   ////////////////////////////////////////////
   // Write a generic serialisable object
   ////////////////////////////////////////////
-  template<class serialisable_object>
+  void writeLimeObject(int MB,int ME,XmlWriter &writer,std::string object_name,std::string record_name)
-  void writeLimeObject(int MB,int ME,serialisable_object &object,std::string object_name,std::string record_name)
   {
     if ( boss_node ) {
-      std::string xmlstring;
+      std::string xmlstring = writer.docString();
-      {
+
-	XmlWriter WR("","");
-	write(WR,object_name,object);
-	xmlstring = WR.XmlString();
-      }
       //    std::cout << "WriteLimeObject" << record_name <<std::endl;
       uint64_t nbytes = xmlstring.size();
       //    std::cout << " xmlstring "<< nbytes<< " " << xmlstring <<std::endl;
@@ -348,6 +351,20 @@ class GridLimeWriter : public BinaryIO
       limeDestroyHeader(h);
     }
   }
+
+  template<class serialisable_object>
+  void writeLimeObject(int MB,int ME,serialisable_object &object,std::string object_name,std::string record_name, const unsigned int scientificPrec = 0)
+  {
+    XmlWriter WR("","");
+
+    if (scientificPrec)
+    {
+      WR.scientificFormat(true);
+      WR.setPrecision(scientificPrec);
+    }
+    write(WR,object_name,object);
+    writeLimeObject(MB, ME, WR, object_name, record_name);
+  }
   ////////////////////////////////////////////////////
   // Write a generic lattice field and csum
   // This routine is Collectively called by all nodes
@@ -454,7 +471,8 @@ class ScidacWriter : public GridLimeWriter {
   // Write generic lattice field in scidac format
   ////////////////////////////////////////////////
   template <class vobj, class userRecord>
-  void writeScidacFieldRecord(Lattice<vobj> &field,userRecord _userRecord) 
+  void writeScidacFieldRecord(Lattice<vobj> &field,userRecord _userRecord,
+                              const unsigned int recordScientificPrec = 0) 
   {
     GridBase * grid = field._grid;
 
@@ -472,7 +490,7 @@ class ScidacWriter : public GridLimeWriter {
     //////////////////////////////////////////////
     if ( this->boss_node ) {
       writeLimeObject(1,0,header ,std::string("FieldMetaData"),std::string(GRID_FORMAT)); // Open message 
-      writeLimeObject(0,0,_userRecord,_userRecord.SerialisableClassName(),std::string(SCIDAC_RECORD_XML));
+      writeLimeObject(0,0,_userRecord,_userRecord.SerialisableClassName(),std::string(SCIDAC_RECORD_XML), recordScientificPrec);
       writeLimeObject(0,0,_scidacRecord,_scidacRecord.SerialisableClassName(),std::string(SCIDAC_PRIVATE_RECORD_XML));
     }
     // Collective call

Grid/perfmon/Timer.h

@@ -49,20 +49,38 @@ inline double usecond(void) {
 
 typedef  std::chrono::system_clock          GridClock;
 typedef  std::chrono::time_point<GridClock> GridTimePoint;
-typedef  std::chrono::milliseconds          GridMillisecs;
-typedef  std::chrono::microseconds          GridTime;
-typedef  std::chrono::microseconds          GridUsecs;
 
-inline std::ostream& operator<< (std::ostream & stream, const std::chrono::milliseconds & time)
+typedef  std::chrono::seconds               GridSecs;
+typedef  std::chrono::milliseconds          GridMillisecs;
+typedef  std::chrono::microseconds          GridUsecs;
+typedef  std::chrono::microseconds          GridTime;
+
+inline std::ostream& operator<< (std::ostream & stream, const GridSecs & time)
 {
-  stream << time.count()<<" ms";
+  stream << time.count()<<" s";
   return stream;
 }
-inline std::ostream& operator<< (std::ostream & stream, const std::chrono::microseconds & time)
+inline std::ostream& operator<< (std::ostream & stream, const GridMillisecs & now)
 {
-  stream << time.count()<<" usec";
+  GridSecs second(1);
+  auto     secs       = now/second ; 
+  auto     subseconds = now%second ;
+  auto     fill       = stream.fill();
+  stream << secs<<"."<<std::setw(3)<<std::setfill('0')<<subseconds.count()<<" s";
+  stream.fill(fill);
   return stream;
 }
+inline std::ostream& operator<< (std::ostream & stream, const GridUsecs & now)
+{
+  GridSecs second(1);
+  auto     seconds    = now/second ; 
+  auto     subseconds = now%second ;
+  auto     fill       = stream.fill();
+  stream << seconds<<"."<<std::setw(6)<<std::setfill('0')<<subseconds.count()<<" s";
+  stream.fill(fill);
+  return stream;
+}
+
 
 class GridStopWatch {
 private:
@@ -102,6 +120,9 @@ public:
     assert(running == false);
     return (uint64_t) accumulator.count();
   }
+  bool isRunning(void){
+    return running;
+  }
 };
 
 }

Grid/qcd/QCD.h

@@ -90,17 +90,20 @@ namespace QCD {
     // That probably makes for GridRedBlack4dCartesian grid.
 
     // s,sp,c,spc,lc
-    template<typename vtype> using iSinglet                   = iScalar<iScalar<iScalar<vtype> > >;
+
-    template<typename vtype> using iSpinMatrix                = iScalar<iMatrix<iScalar<vtype>, Ns> >;
+    template<typename vtype> using iSinglet                     = iScalar<iScalar<iScalar<vtype> > >;
-    template<typename vtype> using iColourMatrix              = iScalar<iScalar<iMatrix<vtype, Nc> > > ;
+    template<typename vtype> using iSpinMatrix                  = iScalar<iMatrix<iScalar<vtype>, Ns> >;
-    template<typename vtype> using iSpinColourMatrix          = iScalar<iMatrix<iMatrix<vtype, Nc>, Ns> >;
+    template<typename vtype> using iColourMatrix                = iScalar<iScalar<iMatrix<vtype, Nc> > > ;
-    template<typename vtype> using iLorentzColourMatrix       = iVector<iScalar<iMatrix<vtype, Nc> >, Nd > ;
+    template<typename vtype> using iSpinColourMatrix            = iScalar<iMatrix<iMatrix<vtype, Nc>, Ns> >;
-    template<typename vtype> using iDoubleStoredColourMatrix  = iVector<iScalar<iMatrix<vtype, Nc> >, Nds > ;
+    template<typename vtype> using iLorentzColourMatrix         = iVector<iScalar<iMatrix<vtype, Nc> >, Nd > ;
-    template<typename vtype> using iSpinVector                = iScalar<iVector<iScalar<vtype>, Ns> >;
+    template<typename vtype> using iDoubleStoredColourMatrix    = iVector<iScalar<iMatrix<vtype, Nc> >, Nds > ;
-    template<typename vtype> using iColourVector              = iScalar<iScalar<iVector<vtype, Nc> > >;
+    template<typename vtype> using iSpinVector                  = iScalar<iVector<iScalar<vtype>, Ns> >;
-    template<typename vtype> using iSpinColourVector          = iScalar<iVector<iVector<vtype, Nc>, Ns> >;
+    template<typename vtype> using iColourVector                = iScalar<iScalar<iVector<vtype, Nc> > >;
-    template<typename vtype> using iHalfSpinVector            = iScalar<iVector<iScalar<vtype>, Nhs> >;
+    template<typename vtype> using iSpinColourVector            = iScalar<iVector<iVector<vtype, Nc>, Ns> >;
-    template<typename vtype> using iHalfSpinColourVector      = iScalar<iVector<iVector<vtype, Nc>, Nhs> >;
+    template<typename vtype> using iHalfSpinVector              = iScalar<iVector<iScalar<vtype>, Nhs> >;
+    template<typename vtype> using iHalfSpinColourVector        = iScalar<iVector<iVector<vtype, Nc>, Nhs> >;
+    template<typename vtype> using iSpinColourSpinColourMatrix  = iScalar<iMatrix<iMatrix<iMatrix<iMatrix<vtype, Nc>, Ns>, Nc>, Ns> >;
+
 
     template<typename vtype> using iGparitySpinColourVector       = iVector<iVector<iVector<vtype, Nc>, Ns>, Ngp >;
     template<typename vtype> using iGparityHalfSpinColourVector   = iVector<iVector<iVector<vtype, Nc>, Nhs>, Ngp >;
@@ -132,6 +135,24 @@ namespace QCD {
     typedef iSpinColourMatrix<vComplexF>    vSpinColourMatrixF;
     typedef iSpinColourMatrix<vComplexD>    vSpinColourMatrixD;
     
+    // SpinColourSpinColour matrix
+    typedef iSpinColourSpinColourMatrix<Complex  >    SpinColourSpinColourMatrix;
+    typedef iSpinColourSpinColourMatrix<ComplexF >    SpinColourSpinColourMatrixF;
+    typedef iSpinColourSpinColourMatrix<ComplexD >    SpinColourSpinColourMatrixD;
+
+    typedef iSpinColourSpinColourMatrix<vComplex >    vSpinColourSpinColourMatrix;
+    typedef iSpinColourSpinColourMatrix<vComplexF>    vSpinColourSpinColourMatrixF;
+    typedef iSpinColourSpinColourMatrix<vComplexD>    vSpinColourSpinColourMatrixD;
+
+    // SpinColourSpinColour matrix
+    typedef iSpinColourSpinColourMatrix<Complex  >    SpinColourSpinColourMatrix;
+    typedef iSpinColourSpinColourMatrix<ComplexF >    SpinColourSpinColourMatrixF;
+    typedef iSpinColourSpinColourMatrix<ComplexD >    SpinColourSpinColourMatrixD;
+
+    typedef iSpinColourSpinColourMatrix<vComplex >    vSpinColourSpinColourMatrix;
+    typedef iSpinColourSpinColourMatrix<vComplexF>    vSpinColourSpinColourMatrixF;
+    typedef iSpinColourSpinColourMatrix<vComplexD>    vSpinColourSpinColourMatrixD;
+
     // LorentzColour
     typedef iLorentzColourMatrix<Complex  > LorentzColourMatrix;
     typedef iLorentzColourMatrix<ComplexF > LorentzColourMatrixF;
@@ -229,6 +250,9 @@ namespace QCD {
     typedef Lattice<vSpinColourMatrixF>     LatticeSpinColourMatrixF;
     typedef Lattice<vSpinColourMatrixD>     LatticeSpinColourMatrixD;
 
+    typedef Lattice<vSpinColourSpinColourMatrix>      LatticeSpinColourSpinColourMatrix;
+    typedef Lattice<vSpinColourSpinColourMatrixF>     LatticeSpinColourSpinColourMatrixF;
+    typedef Lattice<vSpinColourSpinColourMatrixD>     LatticeSpinColourSpinColourMatrixD;
 
     typedef Lattice<vLorentzColourMatrix>  LatticeLorentzColourMatrix;
     typedef Lattice<vLorentzColourMatrixF> LatticeLorentzColourMatrixF;