Merge branch 'hotfix/v0.5.1'

Double precision compile fix

.gitignore

@@ -5,6 +5,7 @@
 *.o
 *.obj
 
+
 # Editor files #
 ################
 *~
@@ -47,7 +48,6 @@ Config.h.in
 config.log
 config.status
 .deps
-*.inc
 
 # http://www.gnu.org/software/autoconf #
 ########################################
@@ -63,7 +63,19 @@ config.sub
 config.guess
 INSTALL
 .dirstamp
-ltmain.sh
+
+# Packages #
+############
+# it's better to unpack these files and commit the raw source
+# git has its own built in compression methods
+*.7z
+*.dmg
+*.gz
+*.iso
+*.jar
+*.rar
+*.tar
+*.zip
  
 # Logs and databases #
 ######################
@@ -89,16 +101,3 @@ build*/*
 #####################
 *.xcodeproj/*
 build.sh
-
-# Eigen source #
-################
-lib/Eigen/*
-
-# FFTW source #
-################
-lib/fftw/*
-
-# libtool macros #
-##################
-m4/lt*
-m4/libtool.m4

.travis.yml

@@ -9,6 +9,10 @@ matrix:
     - os:        osx
       osx_image: xcode7.2
       compiler: clang
+    - os:        osx
+      osx_image: xcode7.2
+      compiler: gcc
+      env: VERSION=-5
     - compiler: gcc
       addons:
         apt:
@@ -19,8 +23,6 @@ matrix:
             - libmpfr-dev
             - libgmp-dev
             - libmpc-dev
-            - libopenmpi-dev
-            - openmpi-bin
             - binutils-dev
       env: VERSION=-4.9
     - compiler: gcc
@@ -33,8 +35,6 @@ matrix:
             - libmpfr-dev
             - libgmp-dev
             - libmpc-dev
-            - libopenmpi-dev
-            - openmpi-bin
             - binutils-dev
       env: VERSION=-5
     - compiler: clang
@@ -47,8 +47,6 @@ matrix:
             - libmpfr-dev
             - libgmp-dev
             - libmpc-dev
-            - libopenmpi-dev
-            - openmpi-bin
             - binutils-dev
       env: CLANG_LINK=http://llvm.org/releases/3.8.0/clang+llvm-3.8.0-x86_64-linux-gnu-ubuntu-14.04.tar.xz
     - compiler: clang
@@ -61,8 +59,6 @@ matrix:
             - libmpfr-dev
             - libgmp-dev
             - libmpc-dev
-            - libopenmpi-dev
-            - openmpi-bin
             - binutils-dev
       env: CLANG_LINK=http://llvm.org/releases/3.7.0/clang+llvm-3.7.0-x86_64-linux-gnu-ubuntu-14.04.tar.xz
       
@@ -73,7 +69,6 @@ before_install:
     - 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 [[ "$TRAVIS_OS_NAME" == "osx" ]]; then brew install openmpi; fi
     - if [[ "$TRAVIS_OS_NAME" == "osx" ]] && [[ "$CC" == "gcc" ]]; then brew install gcc5; fi
     
 install:
@@ -87,20 +82,13 @@ install:
     - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then export LDFLAGS='-L/usr/local/lib'; fi
     
 script:
-    - ./bootstrap.sh
+    - ./scripts/reconfigure_script
     - mkdir build
     - cd build
-    - ../configure --enable-precision=single --enable-simd=SSE4 --enable-comms=none
+    - ../configure CXXFLAGS="-msse4.2 -O3 -std=c++11" LIBS="-lmpfr -lgmp" --enable-precision=single --enable-simd=SSE4 --enable-comms=none
     - make -j4
     - ./benchmarks/Benchmark_dwf --threads 1
-    - echo make clean
+    - make clean
-    - ../configure --enable-precision=double --enable-simd=SSE4 --enable-comms=none
+    - ../configure CXXFLAGS="-msse4.2 -O3 -std=c++11" LIBS="-lmpfr -lgmp" --enable-precision=double --enable-simd=SSE4 --enable-comms=none
     - make -j4
     - ./benchmarks/Benchmark_dwf --threads 1
-    - echo make clean
-    - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then export CXXFLAGS='-DMPI_UINT32_T=MPI_UNSIGNED -DMPI_UINT64_T=MPI_UNSIGNED_LONG'; fi
-    - ../configure --enable-precision=single --enable-simd=SSE4 --enable-comms=mpi-auto
-    - make -j4
-    - if [[ "$TRAVIS_OS_NAME" == "linux" ]]; then mpirun.openmpi -n 2 ./benchmarks/Benchmark_dwf --threads 1 --mpi 2.1.1.1; fi
-    - if [[ "$TRAVIS_OS_NAME" == "osx" ]]; then mpirun -n 2 ./benchmarks/Benchmark_dwf --threads 1 --mpi 2.1.1.1; fi
-

Makefile.am

@@ -1,5 +1,5 @@
 # additional include paths necessary to compile the C++ library
-SUBDIRS = lib benchmarks tests
+AM_CXXFLAGS = -I$(top_srcdir)/
+SUBDIRS = lib tests benchmarks
 
-AM_CXXFLAGS += -I$(top_builddir)/include
+filelist: $(SUBDIRS)
-ACLOCAL_AMFLAGS = -I m4

README.md

@@ -1,28 +1,8 @@
-# Grid
+# Grid [![Build Status](https://travis-ci.org/paboyle/Grid.svg?branch=master)](https://travis-ci.org/paboyle/Grid)
-<table>
+Data parallel C++ mathematical object library
-<tr>
-    <td>Last stable release</td>
-    <td><a href="https://travis-ci.org/paboyle/Grid">
-    <img src="https://travis-ci.org/paboyle/Grid.svg?branch=master"></a>
-    </td>
-</tr>
-<tr>
-    <td>Development branch</td>
-    <td><a href="https://travis-ci.org/paboyle/Grid">
-    <img src="https://travis-ci.org/paboyle/Grid.svg?branch=develop"></a>
-    </td>
-</tr>
-</table>
 
-**Data parallel C++ mathematical object library.**
+Last update 2015/7/30
 
-Please send all pull requests to the `develop` branch.
-
-License: GPL v2.
-
-Last update 2016/08/03.
-
-### Description
 This library provides data parallel C++ container classes with internal memory layout
 that is transformed to map efficiently to SIMD architectures. CSHIFT facilities
 are provided, similar to HPF and cmfortran, and user control is given over the mapping of
@@ -42,75 +22,37 @@ optimally use MPI, OpenMP and SIMD parallelism under the hood. This is a signifi
 for most programmers.
 
 The layout transformations are parametrised by the SIMD vector length. This adapts according to the architecture.
-Presently SSE4 (128 bit) AVX, AVX2 (256 bit) and IMCI and AVX512 (512 bit) targets are supported (ARM NEON and BG/Q QPX on the way).
+Presently SSE4 (128 bit) AVX, AVX2 (256 bit) and IMCI and AVX512 (512 bit) targets are supported (ARM NEON on the way).
 
-These are presented as `vRealF`, `vRealD`, `vComplexF`, and `vComplexD` internal vector data types. These may be useful in themselves for other programmers.
+These are presented as 
-The corresponding scalar types are named `RealF`, `RealD`, `ComplexF` and `ComplexD`.
+
+     vRealF, vRealD, vComplexF, vComplexD 
+
+internal vector data types. These may be useful in themselves for other programmers.
+The corresponding scalar types are named
+
+     RealF, RealD, ComplexF, ComplexD
 
 MPI, OpenMP, and SIMD parallelism are present in the library.
-Please see https://arxiv.org/abs/1512.03487 for more detail.
 
-### Installation
+   You can give `configure' initial values for configuration parameters
-First, start by cloning the repository:
+by setting variables in the command line or in the environment.  Here
+are examples:
 
-``` bash
+     ./configure CXX=clang++ CXXFLAGS="-std=c++11 -O3 -msse4" --enable-simd=SSE4
-git clone https://github.com/paboyle/Grid.git
-```
 
-Then enter the cloned directory and set up the build system:
+     ./configure CXX=clang++ CXXFLAGS="-std=c++11 -O3 -mavx" --enable-simd=AVX
 
-``` bash
+     ./configure CXX=clang++ CXXFLAGS="-std=c++11 -O3 -mavx2" --enable-simd=AVX2
-cd Grid
-./bootstrap.sh
-```
 
-Now you can execute the `configure` script to generate makefiles (here from a build directory):
+     ./configure CXX=icpc CXXFLAGS="-std=c++11 -O3 -mmic" --enable-simd=AVX512 --host=none
      
-``` bash
+Note: Before running configure it could be necessary to execute the script 
-mkdir build; cd build
-../configure --enable-precision=double --enable-simd=AVX --enable-comms=mpi-auto --prefix=<path>
-```
        
-where `--enable-precision=` set the default precision (`single` or `double`),
+       script/filelist
-`--enable-simd=` set the SIMD type (see possible values below), `--enable-
-comms=` set the protocol used for communications (`none`, `mpi`, `mpi-auto` or
-`shmem`), and `<path>` should be replaced by the prefix path where you want to
-install Grid. The `mpi-auto` communication option set `configure` to determine
-automatically how to link to MPI. Other options are available, use `configure
---help` to display them. Like with any other program using GNU autotool, the
-`CXX`, `CXXFLAGS`, `LDFLAGS`, ... environment variables can be modified to
-customise the build.
 
-Finally, you can build and install Grid:
 
-``` bash
-make; make install
-```
      
-To minimise the build time, only the tests at the root of the `tests` directory are built by default. If you want to build tests in the sub-directory `<subdir>` you can execute:
+For developers:
+Use reconfigure_script in the scripts/ directory to create the autotools environment 
 
-``` bash
-make -C tests/<subdir> tests
-```
-
-### Possible SIMD types
-
-The following options can be use with the `--enable-simd=` option to target different SIMD instruction sets:
-
-| String      | Description                            |
-| ----------- | -------------------------------------- |
-| `GEN`       | generic portable vector code           |
-| `SSE4`      | SSE 4.2 (128 bit)                      |
-| `AVX`       | AVX (256 bit)                          |
-| `AVXFMA4`   | AVX (256 bit) + FMA                    |
-| `AVX2`      | AVX 2 (256 bit)                        |
-| `AVX512`    | AVX 512 bit                            |
-| `AVX512MIC` | AVX 512 bit for Intel MIC architecture |
-| `ICMI`      | Intel ICMI instructions (512 bit)      |
-
-Alternatively, some CPU codenames can be directly used:
-
-| String      | Description                            |
-| ----------- | -------------------------------------- |
-| `KNC`       | [Intel Knights Corner](http://ark.intel.com/products/codename/57721/Knights-Corner) |
-| `KNL`       | [Intel Knights Landing](http://ark.intel.com/products/codename/48999/Knights-Landing) |

benchmarks/Benchmark_comms.cc

@@ -25,7 +25,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 using namespace std;
 using namespace Grid;
@@ -194,128 +194,7 @@ int main (int argc, char ** argv)
     }
   }  
 
-#if 0
 
-  std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-  std::cout<<GridLogMessage << "= Benchmarking sequential persistent halo exchange in "<<nmu<<" dimensions"<<std::endl;
-  std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-  std::cout<<GridLogMessage << "  L  "<<"\t\t"<<" Ls  "<<"\t\t"<<"bytes"<<"\t\t"<<"MB/s uni"<<"\t\t"<<"MB/s bidi"<<std::endl;
-
-
-  for(int lat=4;lat<=32;lat+=2){
-    for(int Ls=1;Ls<=16;Ls*=2){
-
-      std::vector<int> latt_size  ({lat,lat,lat,lat});
-
-      GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-
-      std::vector<std::vector<HalfSpinColourVectorD> > xbuf(8,std::vector<HalfSpinColourVectorD>(lat*lat*lat*Ls));
-      std::vector<std::vector<HalfSpinColourVectorD> > rbuf(8,std::vector<HalfSpinColourVectorD>(lat*lat*lat*Ls));
-
-
-      int ncomm;
-      int bytes=lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD);
-
-
-      std::vector<CartesianCommunicator::CommsRequest_t> empty;
-      std::vector<std::vector<CartesianCommunicator::CommsRequest_t> > requests_fwd(Nd,empty);
-      std::vector<std::vector<CartesianCommunicator::CommsRequest_t> > requests_bwd(Nd,empty);
-
-      for(int mu=0;mu<4;mu++){
-	ncomm=0;
-	if (mpi_layout[mu]>1 ) {
-	  ncomm++;
-
-	  int comm_proc;
-	  int xmit_to_rank;
-	  int recv_from_rank;
-
-	  comm_proc=1;
-	  Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
-	  Grid.SendToRecvFromInit(requests_fwd[mu],
-				  (void *)&xbuf[mu][0],
-				  xmit_to_rank,
-				  (void *)&rbuf[mu][0],
-				  recv_from_rank,
-				  bytes);
-
-	  comm_proc = mpi_layout[mu]-1;
-	  Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
-	  Grid.SendToRecvFromInit(requests_bwd[mu],
-				  (void *)&xbuf[mu+4][0],
-				  xmit_to_rank,
-				  (void *)&rbuf[mu+4][0],
-				  recv_from_rank,
-				  bytes);
-
-	}
-      }
-
-      {
-	double start=usecond();
-	for(int i=0;i<Nloop;i++){
-	  
-	  for(int mu=0;mu<4;mu++){
-	    
-	    if (mpi_layout[mu]>1 ) {
-	      
-	      Grid.SendToRecvFromBegin(requests_fwd[mu]);
-	      Grid.SendToRecvFromComplete(requests_fwd[mu]);
-	      Grid.SendToRecvFromBegin(requests_bwd[mu]);
-	      Grid.SendToRecvFromComplete(requests_bwd[mu]);
-	    }
-	  }
-	  Grid.Barrier();
-	}
-	
-	double stop=usecond();
-	
-	double dbytes    = bytes;
-	double xbytes    = Nloop*dbytes*2.0*ncomm;
-	double rbytes    = xbytes;
-	double bidibytes = xbytes+rbytes;
-	
-	double time = stop-start;
-	
-	std::cout<<GridLogMessage << lat<<"\t\t"<<Ls<<"\t\t"<<bytes<<"\t\t"<<xbytes/time<<"\t\t"<<bidibytes/time<<std::endl;
-
-      }
-
-
-      {
-	double start=usecond();
-	for(int i=0;i<Nloop;i++){
-	  
-	  for(int mu=0;mu<4;mu++){
-	    
-	    if (mpi_layout[mu]>1 ) {
-	      
-	      Grid.SendToRecvFromBegin(requests_fwd[mu]);
-	      Grid.SendToRecvFromBegin(requests_bwd[mu]);
-	      Grid.SendToRecvFromComplete(requests_fwd[mu]);
-	      Grid.SendToRecvFromComplete(requests_bwd[mu]);
-	    }
-	  }
-	  Grid.Barrier();
-	}
-	
-	double stop=usecond();
-	
-	double dbytes    = bytes;
-	double xbytes    = Nloop*dbytes*2.0*ncomm;
-	double rbytes    = xbytes;
-	double bidibytes = xbytes+rbytes;
-	
-	double time = stop-start;
-	
-	std::cout<<GridLogMessage << lat<<"\t\t"<<Ls<<"\t\t"<<bytes<<"\t\t"<<xbytes/time<<"\t\t"<<bidibytes/time<<std::endl;
-
-      }
-
-    }
-  }
-
-#endif
 
   Grid_finalize();
 }

benchmarks/Benchmark_dwf.cc

@@ -26,7 +26,8 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-#include <Grid/Grid.h>
+#include <Grid.h>
+#include <PerfCount.h>
 
 using namespace std;
 using namespace Grid;
@@ -45,9 +46,9 @@ struct scal {
   };
 
 bool overlapComms = false;
-typedef WilsonFermion5D<DomainWallVec5dImplR> WilsonFermion5DR;
+typedef WilsonFermion5D<DomainWallRedBlack5dImplR> WilsonFermion5DR;
-typedef WilsonFermion5D<DomainWallVec5dImplF> WilsonFermion5DF;
+typedef WilsonFermion5D<DomainWallRedBlack5dImplF> WilsonFermion5DF;
-typedef WilsonFermion5D<DomainWallVec5dImplD> WilsonFermion5DD;
+typedef WilsonFermion5D<DomainWallRedBlack5dImplD> WilsonFermion5DD;
 
 
 int main (int argc, char ** argv)
@@ -70,8 +71,8 @@ int main (int argc, char ** argv)
 
   std::cout << GridLogMessage << "Making s innermost grids"<<std::endl;
   GridCartesian         * sUGrid   = SpaceTimeGrid::makeFourDimDWFGrid(GridDefaultLatt(),GridDefaultMpi());
-  GridRedBlackCartesian * sUrbGrid = SpaceTimeGrid::makeFourDimRedBlackGrid(sUGrid);
   GridCartesian         * sFGrid   = SpaceTimeGrid::makeFiveDimDWFGrid(Ls,UGrid);
+  std::cout << GridLogMessage << "Making s innermost rb grids"<<std::endl;
   GridRedBlackCartesian * sFrbGrid = SpaceTimeGrid::makeFiveDimDWFRedBlackGrid(Ls,UGrid);
 
   std::vector<int> seeds4({1,2,3,4});
@@ -86,6 +87,8 @@ int main (int argc, char ** argv)
   LatticeFermion    tmp(FGrid);
   LatticeFermion    err(FGrid);
 
+  ColourMatrix cm = Complex(1.0,0.0);
+
   LatticeGaugeField Umu(UGrid); 
   random(RNG4,Umu);
 
@@ -124,20 +127,21 @@ int main (int argc, char ** argv)
   RealD mass=0.1;
   RealD M5  =1.8;
 
+  typename DomainWallFermionR::ImplParams params; 
+  params.overlapCommsCompute = overlapComms;
+  
   RealD NP = UGrid->_Nprocessors;
 
   for(int doasm=1;doasm<2;doasm++){
 
     QCD::WilsonKernelsStatic::AsmOpt=doasm;
 
-  DomainWallFermionR Dw(Umu,*FGrid,*FrbGrid,*UGrid,*UrbGrid,mass,M5);
+  DomainWallFermionR Dw(Umu,*FGrid,*FrbGrid,*UGrid,*UrbGrid,mass,M5,params);
   
-  std::cout<<GridLogMessage << "Naive wilson implementation "<<std::endl;
   std::cout<<GridLogMessage << "Calling Dw"<<std::endl;
-  int ncall =100;
+  int ncall =10;
   if (1) {
 
-    Dw.ZeroCounters();
     double t0=usecond();
     for(int i=0;i<ncall;i++){
       __SSC_START;
@@ -156,17 +160,16 @@ int main (int argc, char ** argv)
     std::cout<<GridLogMessage << "mflop/s per node =  "<< flops/(t1-t0)/NP<<std::endl;
     err = ref-result; 
     std::cout<<GridLogMessage << "norm diff   "<< norm2(err)<<std::endl;
-    Dw.Report();
+    //    Dw.Report();
   }
 
   if (1)
   {
-    typedef WilsonFermion5D<DomainWallVec5dImplR> WilsonFermion5DR;
+    typedef WilsonFermion5D<DomainWallRedBlack5dImplR> WilsonFermion5DR;
     LatticeFermion ssrc(sFGrid);
     LatticeFermion sref(sFGrid);
     LatticeFermion sresult(sFGrid);
-
+    WilsonFermion5DR sDw(1,Umu,*sFGrid,*sFrbGrid,*sUGrid,M5,params);
-    WilsonFermion5DR sDw(Umu,*sFGrid,*sFrbGrid,*sUGrid,*sUrbGrid,M5);
   
     for(int x=0;x<latt4[0];x++){
     for(int y=0;y<latt4[1];y++){
@@ -178,9 +181,8 @@ int main (int argc, char ** argv)
       peekSite(tmp,src,site);
       pokeSite(tmp,ssrc,site);
     }}}}}
-    std::cout<<GridLogMessage<< "src norms "<< norm2(src)<<" " <<norm2(ssrc)<<std::endl;
+
     double t0=usecond();
-    sDw.ZeroCounters();
     for(int i=0;i<ncall;i++){
       __SSC_START;
       sDw.Dhop(ssrc,sresult,0);
@@ -190,10 +192,10 @@ int main (int argc, char ** argv)
     double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
     double flops=1344*volume*ncall;
 
-    std::cout<<GridLogMessage << "Called Dw s_inner "<<ncall<<" times in "<<t1-t0<<" us"<<std::endl;
+    std::cout<<GridLogMessage << "Called Dw sinner "<<ncall<<" times in "<<t1-t0<<" us"<<std::endl;
     std::cout<<GridLogMessage << "mflop/s =   "<< flops/(t1-t0)<<std::endl;
     std::cout<<GridLogMessage << "mflop/s per node =  "<< flops/(t1-t0)/NP<<std::endl;
-    sDw.Report();
+    //  sDw.Report();
   
     if(0){
       for(int i=0;i< PerformanceCounter::NumTypes(); i++ ){
@@ -206,7 +208,6 @@ int main (int argc, char ** argv)
       }
     }
 
-    std::cout<<GridLogMessage<< "res norms "<< norm2(result)<<" " <<norm2(sresult)<<std::endl;
 
 
     RealF sum=0;
@@ -220,13 +221,11 @@ int main (int argc, char ** argv)
       peekSite(normal,result,site);
       peekSite(simd,sresult,site);
       sum=sum+norm2(normal-simd);
-      if (norm2(normal-simd) > 1.0e-6 ) {
+      //      std::cout << "site "<<x<<","<<y<<","<<z<<","<<t<<","<<s<<" "<<norm2(normal-simd)<<std::endl;
-  std::cout << "site "<<x<<","<<y<<","<<z<<","<<t<<","<<s<<" "<<norm2(normal-simd)<<std::endl;
+      //      std::cout << "site "<<x<<","<<y<<","<<z<<","<<t<<","<<s<<" "<<normal<<std::endl;
-  std::cout << "site "<<x<<","<<y<<","<<z<<","<<t<<","<<s<<" normal "<<normal<<std::endl;
+      //      std::cout << "site "<<x<<","<<y<<","<<z<<","<<t<<","<<s<<" "<<simd<<std::endl;
-  std::cout << "site "<<x<<","<<y<<","<<z<<","<<t<<","<<s<<" simd   "<<simd<<std::endl;
-      }
     }}}}}
-    std::cout<<GridLogMessage<<" difference between normal and simd is "<<sum<<std::endl;
+    std::cout<<" difference between normal and simd is "<<sum<<std::endl;
 
 
     if (1) {
@@ -250,21 +249,17 @@ int main (int argc, char ** argv)
       sr_e = zero;
       sr_o = zero;
 
-      sDw.ZeroCounters();
-      sDw.stat.init("DhopEO");
       double t0=usecond();
       for(int i=0;i<ncall;i++){
 	sDw.DhopEO(ssrc_o,sr_e,DaggerNo);
       }
       double t1=usecond();
-      sDw.stat.print();
 
       double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
       double flops=(1344.0*volume*ncall)/2;
 
       std::cout<<GridLogMessage << "sDeo mflop/s =   "<< flops/(t1-t0)<<std::endl;
       std::cout<<GridLogMessage << "sDeo mflop/s per node   "<< flops/(t1-t0)/NP<<std::endl;
-      sDw.Report();
 
       sDw.DhopEO(ssrc_o,sr_e,DaggerNo);
       sDw.DhopOE(ssrc_e,sr_o,DaggerNo);
@@ -273,9 +268,9 @@ int main (int argc, char ** argv)
       pickCheckerboard(Even,ssrc_e,sresult);
       pickCheckerboard(Odd ,ssrc_o,sresult);
       ssrc_e = ssrc_e - sr_e;
-      std::cout<<GridLogMessage << "sE norm diff   "<< norm2(ssrc_e)<< "  vec nrm"<<norm2(sr_e) <<std::endl;
+      std::cout<<GridLogMessage << "sE norm diff   "<< norm2(ssrc_e)<<std::endl;
       ssrc_o = ssrc_o - sr_o;
-      std::cout<<GridLogMessage << "sO norm diff   "<< norm2(ssrc_o)<< "  vec nrm"<<norm2(sr_o) <<std::endl;
+      std::cout<<GridLogMessage << "sO norm diff   "<< norm2(ssrc_o)<<std::endl;
     }
 
 
@@ -301,7 +296,6 @@ int main (int argc, char ** argv)
     ref = -0.5*ref;
   }
   Dw.Dhop(src,result,1);
-  std::cout << GridLogMessage << "Naive wilson implementation Dag" << std::endl;
   std::cout<<GridLogMessage << "Called DwDag"<<std::endl;
   std::cout<<GridLogMessage << "norm result "<< norm2(result)<<std::endl;
   std::cout<<GridLogMessage << "norm ref    "<< norm2(ref)<<std::endl;
@@ -323,7 +317,6 @@ int main (int argc, char ** argv)
   std::cout<<GridLogMessage << "src_o"<<norm2(src_o)<<std::endl;
 
   {
-    Dw.ZeroCounters();
     double t0=usecond();
     for(int i=0;i<ncall;i++){
       Dw.DhopEO(src_o,r_e,DaggerNo);
@@ -335,7 +328,6 @@ int main (int argc, char ** argv)
 
     std::cout<<GridLogMessage << "Deo mflop/s =   "<< flops/(t1-t0)<<std::endl;
     std::cout<<GridLogMessage << "Deo mflop/s per node   "<< flops/(t1-t0)/NP<<std::endl;
-    Dw.Report();
   }
   Dw.DhopEO(src_o,r_e,DaggerNo);
   Dw.DhopOE(src_e,r_o,DaggerNo);

benchmarks/Benchmark_dwf_ntpf.cc

@@ -26,7 +26,8 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-#include <Grid/Grid.h>
+#include <Grid.h>
+#include <PerfCount.h>
 
 using namespace std;
 using namespace Grid;

benchmarks/Benchmark_dwf_sweep.cc

@@ -26,7 +26,8 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-#include <Grid/Grid.h>
+#include <Grid.h>
+#include <PerfCount.h>
 
 using namespace std;
 using namespace Grid;
@@ -51,7 +52,7 @@ int main (int argc, char ** argv)
 {
   Grid_init(&argc,&argv);
 
-  const int Ls=8;
+  const int Ls=16;
   int threads = GridThread::GetThreads();
   std::cout<<GridLogMessage << "Grid is setup to use "<<threads<<" threads"<<std::endl;
 
@@ -61,8 +62,6 @@ int main (int argc, char ** argv)
     QCD::WilsonKernelsStatic::AsmOpt=0;
   }
 
-  std::cout<<GridLogMessage << "=========================================================================="<<std::endl;
-  std::cout<<GridLogMessage << "= Benchmarking DWF"<<std::endl;
   std::cout<<GridLogMessage << "=========================================================================="<<std::endl;
   std::cout<<GridLogMessage << "Volume \t\t\tProcs \t Dw \t eoDw \t sDw \t eosDw (Mflop/s)  "<<std::endl;
   std::cout<<GridLogMessage << "=========================================================================="<<std::endl;
@@ -127,6 +126,7 @@ void benchDw(std::vector<int> & latt4, int Ls, int threads,int report )
 
   ColourMatrix cm = Complex(1.0,0.0);
 
+
   LatticeGaugeField Umu5d(FGrid); 
 
   // replicate across fifth dimension
@@ -145,10 +145,11 @@ void benchDw(std::vector<int> & latt4, int Ls, int threads,int report )
   }
 
 #ifdef CHECK
-  if (1) {
+  if (1)
-
+  {
     ref = zero;
     for(int mu=0;mu<Nd;mu++){
+
       tmp = U[mu]*Cshift(src,mu+1,1);
       ref=ref + tmp - Gamma(Gmu[mu])*tmp;
 
@@ -192,7 +193,8 @@ void benchDw(std::vector<int> & latt4, int Ls, int threads,int report )
     Counter.Report();
   }
   
-  if ( ! report ) {
+  if ( ! report ) 
+    {
       double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
       double flops=1344*volume*ncall;
       std::cout <<"\t"<<NP<< "\t"<<flops/(t1-t0)<< "\t";
@@ -230,9 +232,10 @@ void benchDw(std::vector<int> & latt4, int Ls, int threads,int report )
       std::cout<< flops/(t1-t0);
     }
   }
+  
 }
 
-#define CHECK_SDW
+#undef CHECK_SDW
 void benchsDw(std::vector<int> & latt4, int Ls, int threads, int report )
 {
 
@@ -240,9 +243,7 @@ void benchsDw(std::vector<int> & latt4, int Ls, int threads, int report )
   GridRedBlackCartesian * UrbGrid = SpaceTimeGrid::makeFourDimRedBlackGrid(UGrid);
   GridCartesian         * FGrid   = SpaceTimeGrid::makeFiveDimGrid(Ls,UGrid);
   GridRedBlackCartesian * FrbGrid = SpaceTimeGrid::makeFiveDimRedBlackGrid(Ls,UGrid);
-
   GridCartesian         * sUGrid   = SpaceTimeGrid::makeFourDimDWFGrid(latt4,GridDefaultMpi());
-  GridRedBlackCartesian * sUrbGrid = SpaceTimeGrid::makeFourDimRedBlackGrid(sUGrid);
   GridCartesian         * sFGrid   = SpaceTimeGrid::makeFiveDimDWFGrid(Ls,UGrid);
   GridRedBlackCartesian * sFrbGrid = SpaceTimeGrid::makeFiveDimDWFRedBlackGrid(Ls,UGrid);
 
@@ -276,14 +277,15 @@ void benchsDw(std::vector<int> & latt4, int Ls, int threads, int report )
     }
   }
 
+
   RealD mass=0.1;
   RealD M5  =1.8;
 
-  typedef WilsonFermion5D<DomainWallVec5dImplR> WilsonFermion5DR;
+    typedef WilsonFermion5D<DomainWallRedBlack5dImplR> WilsonFermion5DR;
     LatticeFermion ssrc(sFGrid);
     LatticeFermion sref(sFGrid);
     LatticeFermion sresult(sFGrid);
-  WilsonFermion5DR sDw(Umu,*sFGrid,*sFrbGrid,*sUGrid,*sUrbGrid,M5);
+    WilsonFermion5DR sDw(1,Umu,*sFGrid,*sFrbGrid,*sUGrid,M5);
   
     for(int x=0;x<latt4[0];x++){
     for(int y=0;y<latt4[1];y++){
@@ -318,11 +320,13 @@ void benchsDw(std::vector<int> & latt4, int Ls, int threads, int report )
     if ( report ) {
       Counter.Report();
     } else { 
+
       double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
       double flops=1344*volume*ncall;
       std::cout<<"\t"<< flops/(t1-t0);
     }
 
+
     LatticeFermion sr_eo(sFGrid);
     LatticeFermion serr(sFGrid);
     
@@ -355,6 +359,7 @@ void benchsDw(std::vector<int> & latt4, int Ls, int threads, int report )
     if ( report ) { 
       CounterSdw.Report();
     } else {
+
       double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
       double flops=(1344.0*volume*ncall)/2;
       std::cout<<"\t"<< flops/(t1-t0);

benchmarks/Benchmark_memory_asynch.cc

@@ -26,7 +26,7 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 using namespace std;
 using namespace Grid;

benchmarks/Benchmark_memory_bandwidth.cc

@@ -26,7 +26,7 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 using namespace std;
 using namespace Grid;

benchmarks/Benchmark_su3.cc

@@ -26,7 +26,7 @@ Author: Peter Boyle <peterboyle@Peters-MacBook-Pro-2.local>
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 using namespace std;
 using namespace Grid;

benchmarks/Benchmark_wilson.cc

@@ -26,7 +26,7 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 using namespace std;
 using namespace Grid;

benchmarks/Benchmark_wilson_sweep.cc

@@ -1,117 +0,0 @@
-/*************************************************************************************
-    Grid physics library, www.github.com/paboyle/Grid 
-    Source file: ./benchmarks/Benchmark_wilson.cc
-    Copyright (C) 2015
-Author: Peter Boyle <paboyle@ph.ed.ac.uk>
-Author: paboyle <paboyle@ph.ed.ac.uk>
-Author: Richard Rollins <rprollins@users.noreply.github.com>
-    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 */
-#include <Grid/Grid.h>
-
-using namespace std;
-using namespace Grid;
-using namespace Grid::QCD;
-
-template<class d>
-struct scal {
-  d internal;
-};
-
-Gamma::GammaMatrix Gmu [] = {
-  Gamma::GammaX,
-  Gamma::GammaY,
-  Gamma::GammaZ,
-  Gamma::GammaT
-};
-
-bool overlapComms = false;
-
-void bench_wilson (
-		   LatticeFermion &    src,
-		   LatticeFermion & result,
-		   WilsonFermionR &     Dw,
-		   double const     volume,
-		   int const           dag );
-
-int main (int argc, char ** argv)
-{
-  Grid_init(&argc,&argv);
-  if( GridCmdOptionExists(argv,argv+argc,"--asynch") ){ overlapComms = true; }
-  typename WilsonFermionR::ImplParams params;
-  params.overlapCommsCompute = overlapComms;
-
-  std::vector<int> simd_layout = GridDefaultSimd(Nd,vComplex::Nsimd());
-  std::vector<int> mpi_layout  = GridDefaultMpi();
-  std::vector<int> seeds({1,2,3,4});
-  RealD mass = 0.1;
-
-  std::cout<<GridLogMessage << "============================================================================="<< std::endl;
-  std::cout<<GridLogMessage << "= Benchmarking Wilson" << std::endl;
-  std::cout<<GridLogMessage << "============================================================================="<< std::endl;
-  std::cout<<GridLogMessage << "Volume\t\t\tWilson/MFLOPs\tWilsonDag/MFLOPs" << std::endl;
-  std::cout<<GridLogMessage << "============================================================================="<< std::endl;
-
-  int Lmax = 32;
-  int dmin = 0;
-  if ( getenv("LMAX") ) Lmax=atoi(getenv("LMAX"));
-  if ( getenv("DMIN") ) dmin=atoi(getenv("DMIN"));
-  for (int L=8; L<=Lmax; L*=2)
-    {
-      std::vector<int> latt_size = std::vector<int>(4,L);
-      for(int d=4; d>dmin; d--)
-	{
-	  if ( d<=3 ) { latt_size[d] *= 2; }
-
-	  std::cout << GridLogMessage;
-	  std::copy( latt_size.begin(), --latt_size.end(), std::ostream_iterator<int>( std::cout, std::string("x").c_str() ) );
-	  std::cout << latt_size.back() << "\t\t";
-
-	  GridCartesian           Grid(latt_size,simd_layout,mpi_layout);
-	  GridRedBlackCartesian RBGrid(latt_size,simd_layout,mpi_layout);
-
-	  GridParallelRNG  pRNG(&Grid); pRNG.SeedFixedIntegers(seeds);
-	  LatticeGaugeField Umu(&Grid); random(pRNG,Umu);
-	  LatticeFermion    src(&Grid); random(pRNG,src);
-	  LatticeFermion result(&Grid); result=zero;
-
-	  double volume = std::accumulate(latt_size.begin(),latt_size.end(),1,std::multiplies<int>());
-
-	  WilsonFermionR Dw(Umu,Grid,RBGrid,mass,params);
-      
-	  bench_wilson(src,result,Dw,volume,DaggerNo);
-	  bench_wilson(src,result,Dw,volume,DaggerYes);
-	  std::cout << std::endl;
-	}
-    }
-
-  std::cout<<GridLogMessage << "============================================================================="<< std::endl;
-  Grid_finalize();
-}
-
-void bench_wilson (
-		   LatticeFermion &    src,
-		   LatticeFermion & result,
-		   WilsonFermionR &     Dw,
-		   double const     volume,
-		   int const           dag )
-{
-  int ncall    = 1000;
-  double t0    = usecond();
-  for(int i=0; i<ncall; i++) { Dw.Dhop(src,result,dag); }
-  double t1    = usecond();
-  double flops = 1344 * volume * ncall;
-  std::cout << flops/(t1-t0) << "\t\t";
-}

benchmarks/Benchmark_zmm.cc

@@ -25,7 +25,8 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-#include <Grid/Grid.h>
+#include <Grid.h>
+#include <PerfCount.h>
 
 
 using namespace Grid;
@@ -40,20 +41,14 @@ int main(int argc,char **argv)
   std::ofstream os("zmm.dat");
 
   os << "#V Ls Lxy Lzt C++ Asm OMP L1 " <<std::endl;
-  std::cout<<GridLogMessage << "====================================================================="<<std::endl;
-  std::cout<<GridLogMessage << "= Benchmarking ZMM"<<std::endl;
-  std::cout<<GridLogMessage << "====================================================================="<<std::endl;
-  std::cout<<GridLogMessage << "Volume \t\t\t\tC++DW/MFLOPs\tASM-DW/MFLOPs\tdiff"<<std::endl;
-  std::cout<<GridLogMessage << "====================================================================="<<std::endl;
   for(int L=4;L<=32;L+=4){
     for(int m=1;m<=2;m++){
       for(int Ls=8;Ls<=16;Ls+=8){
 	std::vector<int> grid({L,L,m*L,m*L});
-  std::cout << GridLogMessage <<"\t";
 	for(int i=0;i<4;i++) { 
 	  std::cout << grid[i]<<"x";
 	}
-	std::cout << Ls<<"\t\t";
+	std::cout << Ls<<std::endl;
 	bench(os,grid,Ls);
       }
     }
@@ -110,6 +105,7 @@ int bench(std::ofstream &os, std::vector<int> &latt4,int Ls)
   RealD M5  =1.8;
   DomainWallFermionR Dw(Umu,*FGrid,*FrbGrid,*UGrid,*UrbGrid,mass,M5);
 
+  std::cout<<GridLogMessage << "Calling Dw"<<std::endl;
   int ncall=50;
   double t0=usecond();
   for(int i=0;i<ncall;i++){
@@ -121,7 +117,7 @@ int bench(std::ofstream &os, std::vector<int> &latt4,int Ls)
   double flops=1344*volume/2;
 
   mfc = flops*ncall/(t1-t0);
-  std::cout<<mfc<<"\t\t";
+  std::cout<<GridLogMessage << "Called C++ Dw"<< " mflop/s =   "<< mfc<<std::endl;
 
   QCD::WilsonKernelsStatic::AsmOpt=1;
   t0=usecond();
@@ -130,7 +126,7 @@ int bench(std::ofstream &os, std::vector<int> &latt4,int Ls)
   }
   t1=usecond();
   mfa = flops*ncall/(t1-t0);
-  std::cout<<mfa<<"\t\t";
+  std::cout<<GridLogMessage << "Called ASM Dw"<< " mflop/s =   "<< mfa<<std::endl;
   /*
   int dag=DaggerNo;
   t0=usecond();
@@ -168,7 +164,8 @@ int bench(std::ofstream &os, std::vector<int> &latt4,int Ls)
   //resulta = (-0.5) * resulta;
 
   diff = resulto-resulta;
-  std::cout<<norm2(diff)<<std::endl;
+  std::cout<<GridLogMessage << "diff "<< norm2(diff)<<std::endl;
+  std::cout<<std::endl;
   return 0;
 }
 

benchmarks/Make.inc

@@ -0,0 +1,39 @@
+
+bin_PROGRAMS = Benchmark_comms Benchmark_dwf Benchmark_dwf_ntpf Benchmark_dwf_sweep Benchmark_memory_asynch Benchmark_memory_bandwidth Benchmark_su3 Benchmark_wilson Benchmark_zmm
+
+
+Benchmark_comms_SOURCES=Benchmark_comms.cc
+Benchmark_comms_LDADD=-lGrid
+
+
+Benchmark_dwf_SOURCES=Benchmark_dwf.cc
+Benchmark_dwf_LDADD=-lGrid
+
+
+Benchmark_dwf_ntpf_SOURCES=Benchmark_dwf_ntpf.cc
+Benchmark_dwf_ntpf_LDADD=-lGrid
+
+
+Benchmark_dwf_sweep_SOURCES=Benchmark_dwf_sweep.cc
+Benchmark_dwf_sweep_LDADD=-lGrid
+
+
+Benchmark_memory_asynch_SOURCES=Benchmark_memory_asynch.cc
+Benchmark_memory_asynch_LDADD=-lGrid
+
+
+Benchmark_memory_bandwidth_SOURCES=Benchmark_memory_bandwidth.cc
+Benchmark_memory_bandwidth_LDADD=-lGrid
+
+
+Benchmark_su3_SOURCES=Benchmark_su3.cc
+Benchmark_su3_LDADD=-lGrid
+
+
+Benchmark_wilson_SOURCES=Benchmark_wilson.cc
+Benchmark_wilson_LDADD=-lGrid
+
+
+Benchmark_zmm_SOURCES=Benchmark_zmm.cc
+Benchmark_zmm_LDADD=-lGrid
+

benchmarks/Makefile.am

@@ -1 +1,8 @@
+# additional include paths necessary to compile the C++ library
+AM_CXXFLAGS = -I$(top_srcdir)/lib
+AM_LDFLAGS = -L$(top_builddir)/lib
+
+#
+# Test code
+#
 include Make.inc

bootstrap.sh

@@ -1,19 +0,0 @@
-#!/usr/bin/env bash
-
-EIGEN_URL='http://bitbucket.org/eigen/eigen/get/3.2.9.tar.bz2'
-FFTW_URL=http://www.fftw.org/fftw-3.3.4.tar.gz
-
-echo "-- deploying Eigen source..."
-wget ${EIGEN_URL} --no-check-certificate
-./scripts/update_eigen.sh `basename ${EIGEN_URL}`
-rm `basename ${EIGEN_URL}`
-
-echo "-- copying fftw prototypes..."
-wget ${FFTW_URL}
-./scripts/update_fftw.sh `basename ${FFTW_URL}`
-rm `basename ${FFTW_URL}`
-
-echo '-- generating Make.inc files...'
-./scripts/filelist
-echo '-- generating configure script...'
-autoreconf -fvi

configure.ac

@@ -1,265 +1,202 @@
+#                         -*- Autoconf -*-
+# Process this file with autoconf to produce a configure script.
+#
+# Project Grid package  
+# 
+# Time-stamp: <2015-07-10 17:46:21 neo>
+
 AC_PREREQ([2.63])
-AC_INIT([Grid], [0.5.1-dev], [https://github.com/paboyle/Grid], [Grid])
+AC_INIT([Grid], [1.0], [paboyle@ph.ed.ac.uk])
-AC_CANONICAL_BUILD
+AC_CANONICAL_SYSTEM
-AC_CANONICAL_HOST
-AC_CANONICAL_TARGET
 AM_INIT_AUTOMAKE(subdir-objects)
 AC_CONFIG_MACRO_DIR([m4])
 AC_CONFIG_SRCDIR([lib/Grid.h])
 AC_CONFIG_HEADERS([lib/Config.h])
 m4_ifdef([AM_SILENT_RULES], [AM_SILENT_RULES([yes])])
 
+AC_MSG_NOTICE([
 
-############### Checks for programs
+:::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
+Configuring $PACKAGE v$VERSION  for $host
+:::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::::
+])
+
+# Checks for programs.
 AC_LANG(C++)
-CXXFLAGS="-O3 $CXXFLAGS"
 AC_PROG_CXX
-AC_PROG_RANLIB
-
-############ openmp  ###############
 AC_OPENMP
+AC_PROG_RANLIB
+#AX_CXX_COMPILE_STDCXX_11(noext, mandatory)
+AX_EXT
 
-ac_openmp=no
+# Checks for libraries.
+#AX_GCC_VAR_ATTRIBUTE(aligned)
 
-if test "${OPENMP_CXXFLAGS}X" != "X"; then
+# Checks for header files.
-ac_openmp=yes
-AM_CXXFLAGS="$OPENMP_CXXFLAGS $AM_CXXFLAGS"
-AM_LDFLAGS="$OPENMP_CXXFLAGS $AM_LDFLAGS"
-fi
-
-############### Checks for header files
 AC_CHECK_HEADERS(stdint.h)
 AC_CHECK_HEADERS(mm_malloc.h)
 AC_CHECK_HEADERS(malloc/malloc.h)
 AC_CHECK_HEADERS(malloc.h)
 AC_CHECK_HEADERS(endian.h)
 AC_CHECK_HEADERS(execinfo.h)
+AC_CHECK_HEADERS(gmp.h)
 AC_CHECK_DECLS([ntohll],[], [], [[#include <arpa/inet.h>]])
 AC_CHECK_DECLS([be64toh],[], [], [[#include <arpa/inet.h>]])
 
-############### Checks for typedefs, structures, and compiler characteristics
+# Checks for typedefs, structures, and compiler characteristics.
 AC_TYPE_SIZE_T
 AC_TYPE_UINT32_T
 AC_TYPE_UINT64_T
 
-############### GMP and MPFR #################
+# Checks for library functions.
-AC_ARG_WITH([gmp],
+echo
-    [AS_HELP_STRING([--with-gmp=prefix],
+echo Checking libraries 
-    [try this for a non-standard install prefix of the GMP library])],
+echo :::::::::::::::::::::::::::::::::::::::::::
-    [AM_CXXFLAGS="-I$with_gmp/include $AM_CXXFLAGS"]
-    [AM_LDFLAGS="-L$with_gmp/lib $AM_LDFLAGS"])
-AC_ARG_WITH([mpfr],
-    [AS_HELP_STRING([--with-mpfr=prefix],
-    [try this for a non-standard install prefix of the MPFR library])],
-    [AM_CXXFLAGS="-I$with_mpfr/include $AM_CXXFLAGS"]
-    [AM_LDFLAGS="-L$with_mpfr/lib $AM_LDFLAGS"])
 
-################## lapack ####################
-AC_ARG_ENABLE([lapack],
-    [AC_HELP_STRING([--enable-lapack=yes|no|prefix], [enable LAPACK])], 
-    [ac_LAPACK=${enable_lapack}],[ac_LAPACK=no])
-
-case ${ac_LAPACK} in
-    no)
-        ;;
-    yes)
-        AC_DEFINE([USE_LAPACK],[1],[use LAPACK]);;
-    *)
-        AM_CXXFLAGS="-I$ac_LAPACK/include $AM_CXXFLAGS"
-        AM_LDFLAGS="-L$ac_LAPACK/lib $AM_LDFLAGS"
-        AC_DEFINE([USE_LAPACK],[1],[use LAPACK])
-esac
-
-################## first-touch ####################
-AC_ARG_ENABLE([numa],
-    [AC_HELP_STRING([--enable-numa=yes|no|prefix], [enable first touch numa opt])], 
-    [ac_NUMA=${enable_NUMA}],[ac_NUMA=no])
-
-case ${ac_NUMA} in
-    no)
-        ;;
-    yes)
-        AC_DEFINE([GRID_NUMA],[1],[First touch numa locality]);;
-    *)
-        AC_DEFINE([GRID_NUMA],[1],[First touch numa locality]);;
-esac
-
-################## FFTW3 ####################
-AC_ARG_WITH([fftw],    
-            [AS_HELP_STRING([--with-fftw=prefix],
-            [try this for a non-standard install prefix of the FFTW3 library])],
-            [AM_CXXFLAGS="-I$with_fftw/include $AM_CXXFLAGS"]
-            [AM_LDFLAGS="-L$with_fftw/lib $AM_LDFLAGS"])
-
-################ Get compiler informations
-AC_LANG([C++])
-AX_CXX_COMPILE_STDCXX_11([noext],[mandatory])
-AX_COMPILER_VENDOR
-AC_DEFINE_UNQUOTED([CXX_COMP_VENDOR],["$ax_cv_cxx_compiler_vendor"],
-      [vendor of C++ compiler that will compile the code])
-AX_GXX_VERSION
-AC_DEFINE_UNQUOTED([GXX_VERSION],["$GXX_VERSION"],
-      [version of g++ that will compile the code])
-
-############### Checks for library functions
-CXXFLAGS_CPY=$CXXFLAGS
-LDFLAGS_CPY=$LDFLAGS
-CXXFLAGS="$AM_CXXFLAGS $CXXFLAGS"
-LDFLAGS="$AM_LDFLAGS $LDFLAGS"
 AC_CHECK_FUNCS([gettimeofday])
-AC_CHECK_LIB([gmp],[__gmpf_init],
-             [AC_CHECK_LIB([mpfr],[mpfr_init],
-                 [AC_DEFINE([HAVE_LIBMPFR], [1], [Define to 1 if you have the `MPFR' library (-lmpfr).])]
-                 [have_mpfr=true]
-                 [LIBS="$LIBS -lmpfr"],
-                 [AC_MSG_ERROR([MPFR library not found])])]
-   	     [AC_DEFINE([HAVE_LIBGMP], [1], [Define to 1 if you have the `GMP' library (-lgmp).])]
-             [have_gmp=true]
-             [LIBS="$LIBS -lgmp"],
-             [AC_MSG_WARN([**** GMP library not found, Grid can still compile but RHMC will not work ****])])
 
-if test "${ac_LAPACK}x" != "nox"; then
+#AC_CHECK_LIB([gmp],[__gmpf_init],,
-    AC_CHECK_LIB([lapack],[LAPACKE_sbdsdc],[],
+#        [AC_MSG_ERROR(GNU Multiple Precision GMP library was not found in your system.
-                 [AC_MSG_ERROR("LAPACK enabled but library not found")])
+#Please install or provide the correct path to your installation
-fi
+#Info at: http://www.gmplib.org)])
-AC_CHECK_LIB([fftw3],[fftw_execute],
-  [AC_DEFINE([HAVE_FFTW],[1],[Define to 1 if you have the `FFTW' library (-lfftw3).])]
-  [have_fftw=true]
-  [LIBS="$LIBS -lfftw3 -lfftw3f"],
-  [AC_MSG_WARN([**** FFTW library not found, Grid can still compile but FFT-based routines will not work ****])])
-CXXFLAGS=$CXXFLAGS_CPY
-LDFLAGS=$LDFLAGS_CPY
 
-############### SIMD instruction selection
+#AC_CHECK_LIB([mpfr],[mpfr_init],,
-AC_ARG_ENABLE([simd],[AC_HELP_STRING([--enable-simd=SSE4|AVX|AVXFMA4|AVXFMA|AVX2|AVX512|AVX512MIC|IMCI|KNL|KNC],\
+#        [AC_MSG_ERROR(GNU Multiple Precision MPFR library was not found in your system.
+#Please install or provide the correct path to your installation
+#Info at: http://www.mpfr.org/)])
+
+#
+# SIMD instructions selection
+#
+
+AC_ARG_ENABLE([simd],[AC_HELP_STRING([--enable-simd=SSE4|AVX|AVXFMA4|AVX2|AVX512|IMCI],\
 	[Select instructions to be SSE4.0, AVX 1.0, AVX 2.0+FMA, AVX 512, IMCI])],\
-	[ac_SIMD=${enable_simd}],[ac_SIMD=GEN])
+	[ac_SIMD=${enable_simd}],[ac_SIMD=DEBUG])
+
+supported=no
+
+ac_ZMM=no;
 
-case ${ax_cv_cxx_compiler_vendor} in
-  clang|gnu)
 case ${ac_SIMD} in
      SSE4)
-        AC_DEFINE([SSE4],[1],[SSE4 intrinsics])
+       echo Configuring for SSE4
-        SIMD_FLAGS='-msse4.2';;
+       AC_DEFINE([SSE4],[1],[SSE4 Intrinsics] )
+       if test x"$ax_cv_support_ssse3_ext" = x"yes"; then  dnl minimal support for SSE4
+         supported=yes
+       else
+  	AC_MSG_WARN([Your processor does not support SSE4 instructions])
+       fi
+     ;;
      AVX)
-        AC_DEFINE([AVX1],[1],[AVX intrinsics])
+       echo Configuring for AVX
-        SIMD_FLAGS='-mavx';;
+       AC_DEFINE([AVX1],[1],[AVX Intrinsics] )
+       if test x"$ax_cv_support_avx_ext" = x"yes"; then  dnl minimal support for AVX
+       supported=yes			  
+       else
+       	AC_MSG_WARN([Your processor does not support AVX instructions])
+       fi
+     ;;
      AVXFMA4)
-        AC_DEFINE([AVXFMA4],[1],[AVX intrinsics with FMA4])
+       echo Configuring for AVX
-        SIMD_FLAGS='-mavx -mfma4';;
+       AC_DEFINE([AVXFMA4],[1],[AVX Intrinsics with FMA4] )
-      AVXFMA)
+       if test x"$ax_cv_support_avx_ext" = x"yes"; then  dnl minimal support for AVX
-        AC_DEFINE([AVXFMA],[1],[AVX intrinsics with FMA3])
+       supported=yes			  
-        SIMD_FLAGS='-mavx -mfma';;
+       else
+       	AC_MSG_WARN([Your processor does not support AVX instructions])
+       fi
+     ;;
      AVX2)
-        AC_DEFINE([AVX2],[1],[AVX2 intrinsics])
+       echo Configuring for AVX2
-        SIMD_FLAGS='-mavx2 -mfma';;
+       AC_DEFINE([AVX2],[1],[AVX2 Intrinsics] )
-      AVX512|AVX512MIC|KNL)
+       if test x"$ax_cv_support_avx2_ext" = x"yes"; then  dnl minimal support for AVX2
-        AC_DEFINE([AVX512],[1],[AVX512 intrinsics])
+       supported=yes
-        SIMD_FLAGS='-mavx512f -mavx512pf -mavx512er -mavx512cd';;
+       else
-      IMCI|KNC)
+       AC_MSG_WARN([Your processor does not support AVX2 instructions])
-        AC_DEFINE([IMCI],[1],[IMCI intrinsics for Knights Corner])
+       fi
-        SIMD_FLAGS='';;
+     ;;
-      GEN)
-        AC_DEFINE([GENERIC_VEC],[1],[generic vector code])
-        SIMD_FLAGS='';;
-      QPX|BGQ)
-        AC_DEFINE([QPX],[1],[QPX intrinsics for BG/Q])
-        SIMD_FLAGS='';;
-      *)
-        AC_MSG_ERROR(["SIMD option ${ac_SIMD} not supported by the GCC/Clang compiler"]);;
-    esac;;
-  intel)
-    case ${ac_SIMD} in
-      SSE4)
-        AC_DEFINE([SSE4],[1],[SSE4 intrinsics])
-        SIMD_FLAGS='-msse4.2 -xsse4.2';;
-      AVX)
-        AC_DEFINE([AVX1],[1],[AVX intrinsics])
-        SIMD_FLAGS='-mavx -xavx';;
-      AVXFMA4)
-        AC_DEFINE([AVXFMA4],[1],[AVX intrinsics with FMA4])
-        SIMD_FLAGS='-mavx -mfma';;
-      AVXFMA)
-        AC_DEFINE([AVXFMA],[1],[AVX intrinsics with FMA4])
-        SIMD_FLAGS='-mavx -mfma';;
-      AVX2)
-        AC_DEFINE([AVX2],[1],[AVX2 intrinsics])
-        SIMD_FLAGS='-march=core-avx2 -xcore-avx2';;
      AVX512)
-        AC_DEFINE([AVX512],[1],[AVX512 intrinsics])
+       echo Configuring for AVX512 
-        SIMD_FLAGS='-xcore-avx512';;
+       AC_DEFINE([AVX512],[1],[AVX512 Intrinsics for Knights Landing] )
-      AVX512MIC|KNL)
+       supported="cross compilation"
-        AC_DEFINE([AVX512],[1],[AVX512 intrinsics for Knights Landing])
+       ac_ZMM=yes;
-        SIMD_FLAGS='-xmic-avx512';;
+     ;;
-      IMCI|KNC)
+     IMCI)
+       echo Configuring for IMCI
        AC_DEFINE([IMCI],[1],[IMCI Intrinsics for Knights Corner] )
-        SIMD_FLAGS='';;
+       supported="cross compilation"
-      GEN)
+       ac_ZMM=no;
-        AC_DEFINE([GENERIC_VEC],[1],[generic vector code])
+     ;;
-        SIMD_FLAGS='';;
+     NEONv8)
-      *)
+       echo Configuring for experimental ARMv8a support 
-        AC_MSG_ERROR(["SIMD option ${ac_SIMD} not supported by the Intel compiler"]);;
+       AC_DEFINE([NEONv8],[1],[NEON ARMv8 Experimental support ] )
-    esac;;
+       supported="cross compilation"
-  *)
+     ;;
-    AC_MSG_WARN([Compiler unknown, using generic vector code])
+     DEBUG)
-    AC_DEFINE([GENERIC_VEC],[1],[generic vector code]);;
+       echo Configuring without SIMD support - only for compiler DEBUGGING!
-esac
+       AC_DEFINE([EMPTY_SIMD],[1],[EMPTY_SIMD only for DEBUGGING] )
-AM_CXXFLAGS="$SIMD_FLAGS $AM_CXXFLAGS"
+      ;;     
-AM_CFLAGS="$SIMD_FLAGS $AM_CFLAGS"
-
-case ${ac_SIMD} in
-  AVX512|AVX512MIC|KNL)
-    AC_DEFINE([TEST_ZMM],[1],[compile ZMM test]);;
      *)
+     AC_MSG_ERROR([${ac_SIMD} flag unsupported as --enable-simd option\nRun ./configure --help for the list of options]); 
      ;;
 esac
 
-############### precision selection
+case ${ac_ZMM} in
+yes)
+	echo Enabling ZMM source code
+;;
+no)
+	echo Disabling ZMM source code
+;;
+esac
+
+AM_CONDITIONAL(BUILD_ZMM,[ test "X${ac_ZMM}X" == "XyesX" ])
+
 AC_ARG_ENABLE([precision],[AC_HELP_STRING([--enable-precision=single|double],[Select default word size of Real])],[ac_PRECISION=${enable_precision}],[ac_PRECISION=double])
 case ${ac_PRECISION} in
      single)
+       echo default precision is single
        AC_DEFINE([GRID_DEFAULT_PRECISION_SINGLE],[1],[GRID_DEFAULT_PRECISION is SINGLE] )
      ;;
      double)
+       echo default precision is double
        AC_DEFINE([GRID_DEFAULT_PRECISION_DOUBLE],[1],[GRID_DEFAULT_PRECISION is DOUBLE] )
      ;;
 esac
 
-############### communication type selection
+#
-AC_ARG_ENABLE([comms],[AC_HELP_STRING([--enable-comms=none|mpi|mpi-auto|shmem],[Select communications])],[ac_COMMS=${enable_comms}],[ac_COMMS=none])
+# Comms selection
+#
+
+AC_ARG_ENABLE([comms],[AC_HELP_STRING([--enable-comms=none|mpi],[Select communications])],[ac_COMMS=${enable_comms}],[ac_COMMS=none])
 
 case ${ac_COMMS} in
      none)
+       echo Configuring for NO communications
        AC_DEFINE([GRID_COMMS_NONE],[1],[GRID_COMMS_NONE] )
      ;;
-     mpi-auto)
-       AC_DEFINE([GRID_COMMS_MPI],[1],[GRID_COMMS_MPI] )
-       LX_FIND_MPI
-       if test "x$have_CXX_mpi" = 'xno'; then AC_MSG_ERROR(["MPI not found"]); fi
-       AM_CXXFLAGS="$MPI_CXXFLAGS $AM_CXXFLAGS"
-       AM_CFLAGS="$MPI_CFLAGS $AM_CFLAGS"
-       AM_LDFLAGS="`echo $MPI_CXXLDFLAGS | sed -E 's/-l@<:@^ @:>@+//g'` $AM_LDFLAGS"
-       LIBS="`echo $MPI_CXXLDFLAGS | sed -E 's/-L@<:@^ @:>@+//g'` $LIBS"
-     ;;
      mpi)
+       echo Configuring for MPI communications
        AC_DEFINE([GRID_COMMS_MPI],[1],[GRID_COMMS_MPI] )
      ;;
      shmem)
+       echo Configuring for SHMEM communications
        AC_DEFINE([GRID_COMMS_SHMEM],[1],[GRID_COMMS_SHMEM] )
      ;;
      *)
      AC_MSG_ERROR([${ac_COMMS} unsupported --enable-comms option]); 
      ;;
 esac
+
 AM_CONDITIONAL(BUILD_COMMS_SHMEM,[ test "X${ac_COMMS}X" == "XshmemX" ])
-AM_CONDITIONAL(BUILD_COMMS_MPI,[ test "X${ac_COMMS}X" == "XmpiX" || test "X${ac_COMMS}X" == "Xmpi-autoX" ])
+AM_CONDITIONAL(BUILD_COMMS_MPI,[ test "X${ac_COMMS}X" == "XmpiX" ])
 AM_CONDITIONAL(BUILD_COMMS_NONE,[ test "X${ac_COMMS}X" == "XnoneX" ])
 
-############### RNG selection
+#
+# RNG selection
+#
 AC_ARG_ENABLE([rng],[AC_HELP_STRING([--enable-rng=ranlux48|mt19937],\
 	[Select Random Number Generator to be used])],\
 	[ac_RNG=${enable_rng}],[ac_RNG=ranlux48])
-
 case ${ac_RNG} in
      ranlux48)
      AC_DEFINE([RNG_RANLUX],[1],[RNG_RANLUX] )
@@ -272,8 +209,10 @@ case ${ac_RNG} in
      ;;
 esac
 
-############### timer option
+#
-AC_ARG_ENABLE([timers],[AC_HELP_STRING([--enable-timers],\
+# SDE timing mode
+#
+AC_ARG_ENABLE([timers],[AC_HELP_STRING([--enable-timers=yes|no],\
 	[Enable system dependent high res timers])],\
 	[ac_TIMERS=${enable_timers}],[ac_TIMERS=yes])
 case ${ac_TIMERS} in
@@ -288,75 +227,89 @@ case ${ac_TIMERS} in
      ;;
 esac
 
-############### Chroma regression test
+#
+# Chroma regression tests
+#
 AC_ARG_ENABLE([chroma],[AC_HELP_STRING([--enable-chroma],[Expect chroma compiled under c++11 ])],ac_CHROMA=yes,ac_CHROMA=no)
+
 case ${ac_CHROMA} in
-     yes|no)
+     yes)
+       echo Enabling tests regressing to Chroma
+     ;;
+     no)
+       echo Disabling tests regressing to Chroma
      ;;
      *)
      AC_MSG_ERROR([${ac_CHROMA} unsupported --enable-chroma option]); 
      ;;
 esac
+
 AM_CONDITIONAL(BUILD_CHROMA_REGRESSION,[ test "X${ac_CHROMA}X" == "XyesX" ])
 
-############### Doxygen
+#
-AC_PROG_DOXYGEN
+# Lapack
+#
+AC_ARG_ENABLE([lapack],[AC_HELP_STRING([--enable-lapack],[Enable lapack yes/no ])],[ac_LAPACK=${enable_lapack}],[ac_LAPACK=no])
 
-if test -n "$DOXYGEN"
+case ${ac_LAPACK} in
-then
+     yes)
-AC_CONFIG_FILES([docs/doxy.cfg])
+       echo Enabling lapack
-fi
+     ;;
+     no)
+       echo Disabling lapack
+     ;;
+     *)
+       echo Enabling lapack at ${ac_LAPACK}
+     ;;
+esac
 
-############### Ouput
+AM_CONDITIONAL(USE_LAPACK,[ test "X${ac_LAPACK}X" != "XnoX" ])
-cwd=`pwd -P`; cd ${srcdir}; abs_srcdir=`pwd -P`; cd ${cwd}
+AM_CONDITIONAL(USE_LAPACK_LIB,[ test "X${ac_LAPACK}X" != "XyesX" ])
-AM_CXXFLAGS="-I${abs_srcdir}/include $AM_CXXFLAGS"
+
-AM_CFLAGS="-I${abs_srcdir}/include $AM_CFLAGS"
+###################################################################
-AM_LDFLAGS="-L${cwd}/lib $AM_LDFLAGS"
+# Checks for doxygen support
-AC_SUBST([AM_CFLAGS])
+# if present enables the "make doxyfile" command
-AC_SUBST([AM_CXXFLAGS])
+#echo
-AC_SUBST([AM_LDFLAGS])
+#echo Checking doxygen support 
+#echo :::::::::::::::::::::::::::::::::::::::::::
+#AC_PROG_DOXYGEN
+
+#if test -n "$DOXYGEN"
+#then
+#AC_CONFIG_FILES([docs/doxy.cfg])
+#fi
+
+echo
+echo Creating configuration files
+echo :::::::::::::::::::::::::::::::::::::::::::
 AC_CONFIG_FILES(Makefile)
 AC_CONFIG_FILES(lib/Makefile)
 AC_CONFIG_FILES(tests/Makefile)
-AC_CONFIG_FILES(tests/IO/Makefile)
-AC_CONFIG_FILES(tests/core/Makefile)
-AC_CONFIG_FILES(tests/debug/Makefile)
-AC_CONFIG_FILES(tests/forces/Makefile)
-AC_CONFIG_FILES(tests/hmc/Makefile)
-AC_CONFIG_FILES(tests/solver/Makefile)
 AC_CONFIG_FILES(tests/qdpxx/Makefile)
 AC_CONFIG_FILES(benchmarks/Makefile)
 AC_OUTPUT
 
+
 echo "
 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 Summary of configuration for $PACKAGE v$VERSION
 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
 
------ PLATFORM ----------------------------------------
+The following features are enabled:
+
 - architecture (build)          : $build_cpu
 - os (build)                    : $build_os
 - architecture (target)         : $target_cpu
 - os (target)                   : $target_os
-- compiler vendor               : ${ax_cv_cxx_compiler_vendor}
-- compiler version              : ${ax_cv_gxx_version}
------ BUILD OPTIONS -----------------------------------
-- SIMD                          : ${ac_SIMD}
-- Threading                     : ${ac_openmp} 
-- Communications type           : ${ac_COMMS}
-- Default precision             : ${ac_PRECISION}
-- RNG choice                    : ${ac_RNG} 
-- GMP                           : `if test "x$have_gmp" = xtrue; then echo yes; else echo no; fi`
-- LAPACK                        : ${ac_LAPACK}
-- FFTW                          : `if test "x$have_fftw" = xtrue; then echo yes; else echo no; fi`
 - build DOXYGEN documentation   : `if test "x$enable_doc" = xyes; then echo yes; else echo no; fi`
 - graphs and diagrams           : `if test "x$enable_dot" = xyes; then echo yes; else echo no; fi`
------ BUILD FLAGS -------------------------------------
+- Supported SIMD flags          : $SIMD_FLAGS
-- CXXFLAGS:
+----------------------------------------------------------
-`echo ${AM_CXXFLAGS} ${CXXFLAGS} | tr ' ' '\n' | sed 's/^-/    -/g'`
+- enabled simd support          : ${ac_SIMD}   (config macro says supported: $supported )
-- LDFLAGS:
+- communications type           : ${ac_COMMS}
-`echo ${AM_LDFLAGS} ${LDFLAGS} | tr ' ' '\n' | sed 's/^-/    -/g'`
+- default precision             : ${ac_PRECISION}
-- LIBS:
+- RNG choice                    : ${ac_RNG} 
-`echo ${LIBS} | tr ' ' '\n' | sed 's/^-/    -/g'`
+- LAPACK	                : ${ac_LAPACK} 
--------------------------------------------------------
+
+
 "

include/Grid

@@ -1 +0,0 @@
-../lib

lib/Algorithms.h

@@ -29,28 +29,27 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef GRID_ALGORITHMS_H
 #define GRID_ALGORITHMS_H
 
-#include <Grid/algorithms/SparseMatrix.h>
+#include <algorithms/SparseMatrix.h>
-#include <Grid/algorithms/LinearOperator.h>
+#include <algorithms/LinearOperator.h>
-#include <Grid/algorithms/Preconditioner.h>
+#include <algorithms/Preconditioner.h>
 
-#include <Grid/algorithms/approx/Zolotarev.h>
+#include <algorithms/approx/Zolotarev.h>
-#include <Grid/algorithms/approx/Chebyshev.h>
+#include <algorithms/approx/Chebyshev.h>
-#include <Grid/algorithms/approx/Remez.h>
+#include <algorithms/approx/Remez.h>
-#include <Grid/algorithms/approx/MultiShiftFunction.h>
+#include <algorithms/approx/MultiShiftFunction.h>
 
-#include <Grid/algorithms/iterative/ConjugateGradient.h>
+#include <algorithms/iterative/ConjugateGradient.h>
-#include <Grid/algorithms/iterative/ConjugateResidual.h>
+#include <algorithms/iterative/ConjugateResidual.h>
-#include <Grid/algorithms/iterative/NormalEquations.h>
+#include <algorithms/iterative/NormalEquations.h>
-#include <Grid/algorithms/iterative/SchurRedBlack.h>
+#include <algorithms/iterative/SchurRedBlack.h>
 
-#include <Grid/algorithms/iterative/ConjugateGradientMultiShift.h>
+#include <algorithms/iterative/ConjugateGradientMultiShift.h>
-#include <Grid/algorithms/iterative/ConjugateGradientMixedPrec.h>
 
 // Lanczos support
-#include <Grid/algorithms/iterative/MatrixUtils.h>
+#include <algorithms/iterative/MatrixUtils.h>
-#include <Grid/algorithms/iterative/ImplicitlyRestartedLanczos.h>
+#include <algorithms/iterative/ImplicitlyRestartedLanczos.h>
 
-#include <Grid/algorithms/CoarsenedMatrix.h>
+#include <algorithms/CoarsenedMatrix.h>
 
 // Eigen/lanczos
 // EigCg

lib/AlignedAllocator.h

@@ -113,8 +113,9 @@ public:
 
 #endif
     _Tp tmp;
-#ifdef GRID_NUMA
+#undef FIRST_TOUCH_OPTIMISE
-#pragma omp parallel for schedule(static)
+#ifdef FIRST_TOUCH_OPTIMISE
+#pragma omp parallel for 
   for(int i=0;i<__n;i++){
     ptr[i]=tmp;
   }

lib/Cartesian.h

@@ -28,8 +28,8 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef GRID_CARTESIAN_H
 #define GRID_CARTESIAN_H
 
-#include <Grid/cartesian/Cartesian_base.h>
+#include <cartesian/Cartesian_base.h>
-#include <Grid/cartesian/Cartesian_full.h>
+#include <cartesian/Cartesian_full.h>
-#include <Grid/cartesian/Cartesian_red_black.h> 
+#include <cartesian/Cartesian_red_black.h> 
 
 #endif

lib/Communicator.h

@@ -28,6 +28,6 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef GRID_COMMUNICATOR_H
 #define GRID_COMMUNICATOR_H
 
-#include <Grid/communicator/Communicator_base.h>
+#include <communicator/Communicator_base.h>
 
 #endif

lib/Cshift.h

@@ -28,17 +28,17 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef _GRID_CSHIFT_H_
 #define _GRID_CSHIFT_H_
 
-#include <Grid/cshift/Cshift_common.h>
+#include <cshift/Cshift_common.h>
 
 #ifdef GRID_COMMS_NONE
-#include <Grid/cshift/Cshift_none.h>
+#include <cshift/Cshift_none.h>
 #endif
 
 #ifdef GRID_COMMS_MPI
-#include <Grid/cshift/Cshift_mpi.h>
+#include <cshift/Cshift_mpi.h>
 #endif 
 
 #ifdef GRID_COMMS_SHMEM
-#include <Grid/cshift/Cshift_mpi.h> // uses same implementation of communicator
+#include <cshift/Cshift_mpi.h> // uses same implementation of communicator
 #endif 
 #endif

lib/FFT.h

@@ -1,276 +0,0 @@
-
-    /*************************************************************************************
-
-    Grid physics library, www.github.com/paboyle/Grid 
-
-    Source file: ./lib/Cshift.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_FFT_H_
-#define _GRID_FFT_H_
-
-#ifdef HAVE_FFTW	
-#include <fftw3.h>
-#endif
-namespace Grid {
-
-  template<class scalar> struct FFTW { };
-
-#ifdef HAVE_FFTW	
-  template<> struct FFTW<ComplexD> {
-  public:
-
-    typedef fftw_complex FFTW_scalar;
-    typedef fftw_plan    FFTW_plan;
-
-    static FFTW_plan fftw_plan_many_dft(int rank, const int *n,int howmany,
-					FFTW_scalar *in, const int *inembed,		
-					int istride, int idist,		
-					FFTW_scalar *out, const int *onembed,		
-					int ostride, int odist,		
-					int sign, unsigned flags) {
-      return ::fftw_plan_many_dft(rank,n,howmany,in,inembed,istride,idist,out,onembed,ostride,odist,sign,flags);
-    }	  
-    
-    static void fftw_flops(const FFTW_plan p,double *add, double *mul, double *fmas){
-      ::fftw_flops(p,add,mul,fmas);
-    }
-
-    inline static void fftw_execute_dft(const FFTW_plan p,FFTW_scalar *in,FFTW_scalar *out) {
-      ::fftw_execute_dft(p,in,out);
-    }
-    inline static void fftw_destroy_plan(const FFTW_plan p) {
-      ::fftw_destroy_plan(p);
-    }
-  };
-
-  template<> struct FFTW<ComplexF> {
-  public:
-
-    typedef fftwf_complex FFTW_scalar;
-    typedef fftwf_plan    FFTW_plan;
-
-    static FFTW_plan fftw_plan_many_dft(int rank, const int *n,int howmany,
-					FFTW_scalar *in, const int *inembed,		
-					int istride, int idist,		
-					FFTW_scalar *out, const int *onembed,		
-					int ostride, int odist,		
-					int sign, unsigned flags) {
-      return ::fftwf_plan_many_dft(rank,n,howmany,in,inembed,istride,idist,out,onembed,ostride,odist,sign,flags);
-    }	  
-    
-    static void fftw_flops(const FFTW_plan p,double *add, double *mul, double *fmas){
-      ::fftwf_flops(p,add,mul,fmas);
-    }
-
-    inline static void fftw_execute_dft(const FFTW_plan p,FFTW_scalar *in,FFTW_scalar *out) {
-      ::fftwf_execute_dft(p,in,out);
-    }
-    inline static void fftw_destroy_plan(const FFTW_plan p) {
-      ::fftwf_destroy_plan(p);
-    }
-  };
-
-#endif
-
-#ifndef FFTW_FORWARD
-#define FFTW_FORWARD (-1)
-#define FFTW_BACKWARD (+1)
-#endif
-
-  class FFT { 
-  private:
-
-    GridCartesian *vgrid;
-    GridCartesian *sgrid;
-
-    int Nd;
-    double flops;
-    double flops_call;
-    uint64_t usec;
-
-    std::vector<int> dimensions;
-    std::vector<int> processors;
-    std::vector<int> processor_coor;
-
-  public:
-
-    static const int forward=FFTW_FORWARD;
-    static const int backward=FFTW_BACKWARD;
-
-    double Flops(void) {return flops;}
-    double MFlops(void) {return flops/usec;}
-
-    FFT ( GridCartesian * grid ) : 
-      vgrid(grid),
-      Nd(grid->_ndimension),
-      dimensions(grid->_fdimensions),
-      processors(grid->_processors),
-      processor_coor(grid->_processor_coor)
-    {
-      flops=0;
-      usec =0;
-      std::vector<int> layout(Nd,1);
-      sgrid = new GridCartesian(dimensions,layout,processors);
-    };
-
-    ~FFT ( void)  { 
-      delete sgrid; 
-    }
-    
-    template<class vobj>
-    void FFT_dim(Lattice<vobj> &result,const Lattice<vobj> &source,int dim, int inverse){
-
-      conformable(result._grid,vgrid);
-      conformable(source._grid,vgrid);
-
-      int L = vgrid->_ldimensions[dim];
-      int G = vgrid->_fdimensions[dim];
-
-      std::vector<int> layout(Nd,1);
-      std::vector<int> pencil_gd(vgrid->_fdimensions);
-
-      pencil_gd[dim] = G*processors[dim];    
-
-      // Pencil global vol LxLxGxLxL per node
-      GridCartesian pencil_g(pencil_gd,layout,processors);
-
-      // Construct pencils
-      typedef typename vobj::scalar_object sobj;
-      typedef typename sobj::scalar_type   scalar;
-
-      Lattice<vobj> ssource(vgrid); ssource =source;
-      Lattice<sobj> pgsource(&pencil_g);
-      Lattice<sobj> pgresult(&pencil_g); pgresult=zero;
-
-#ifndef HAVE_FFTW	
-      assert(0);
-#else 
-      typedef typename FFTW<scalar>::FFTW_scalar FFTW_scalar;
-      typedef typename FFTW<scalar>::FFTW_plan   FFTW_plan;
-
-      {
-	int Ncomp = sizeof(sobj)/sizeof(scalar);
-	int Nlow  = 1;
-	for(int d=0;d<dim;d++){
-	  Nlow*=vgrid->_ldimensions[d];
-	}
-
-	int rank = 1;  /* 1d transforms */
-	int n[] = {G}; /* 1d transforms of length G */
-	int howmany = Ncomp;
-	int odist,idist,istride,ostride;
-	idist   = odist   = 1;          /* Distance between consecutive FT's */
-	istride = ostride = Ncomp*Nlow; /* distance between two elements in the same FT */
-	int *inembed = n, *onembed = n;
-
-	
-	int sign = FFTW_FORWARD;
-	if (inverse) sign = FFTW_BACKWARD;
-
-	FFTW_plan p;
-	{
-	  FFTW_scalar *in = (FFTW_scalar *)&pgsource._odata[0];
-	  FFTW_scalar *out= (FFTW_scalar *)&pgresult._odata[0];
-	  p = FFTW<scalar>::fftw_plan_many_dft(rank,n,howmany,
-					       in,inembed,
-					       istride,idist,
-					       out,onembed,
-					       ostride, odist,
-					       sign,FFTW_ESTIMATE);
-	}
-
-	double add,mul,fma;
-	FFTW<scalar>::fftw_flops(p,&add,&mul,&fma);
-	flops_call = add+mul+2.0*fma;
-
-	GridStopWatch timer;
-
-	// Barrel shift and collect global pencil
-	for(int p=0;p<processors[dim];p++) { 
-
-	  for(int idx=0;idx<sgrid->lSites();idx++) { 
-
-	    std::vector<int> lcoor(Nd);
-    	    sgrid->LocalIndexToLocalCoor(idx,lcoor);
-
-	    sobj s;
-
-	    peekLocalSite(s,ssource,lcoor);
-
-	    lcoor[dim]+=p*L;
-	   
-	    pokeLocalSite(s,pgsource,lcoor);
-	  }
-
-	  ssource = Cshift(ssource,dim,L);
-	}
-	
-	// Loop over orthog coords
-	int NN=pencil_g.lSites();
-
-	GridStopWatch Timer;
-	Timer.Start();
-
-PARALLEL_FOR_LOOP
-	for(int idx=0;idx<NN;idx++) { 
-
-	  std::vector<int> lcoor(Nd);
-	  pencil_g.LocalIndexToLocalCoor(idx,lcoor);
-
-	  if ( lcoor[dim] == 0 ) {  // restricts loop to plane at lcoor[dim]==0
-	    FFTW_scalar *in = (FFTW_scalar *)&pgsource._odata[idx];
-	    FFTW_scalar *out= (FFTW_scalar *)&pgresult._odata[idx];
-	    FFTW<scalar>::fftw_execute_dft(p,in,out);
-	  }
-	}
-
-        Timer.Stop();
-	usec += Timer.useconds();
-	flops+= flops_call*NN;
-
-        int pc = processor_coor[dim];
-        for(int idx=0;idx<sgrid->lSites();idx++) { 
-	  std::vector<int> lcoor(Nd);
-	  sgrid->LocalIndexToLocalCoor(idx,lcoor);
-	  std::vector<int> gcoor = lcoor;
-	  // extract the result
-	  sobj s;
-	  gcoor[dim] = lcoor[dim]+L*pc;
-	  peekLocalSite(s,pgresult,gcoor);
-	  pokeLocalSite(s,result,lcoor);
-	}
-      	  
-	FFTW<scalar>::fftw_destroy_plan(p);
-      }
-#endif
-
-
-    }
-
-  };
-
-
-}
-
-#endif

lib/Grid.h

@@ -59,31 +59,29 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 ///////////////////
 // Grid headers
 ///////////////////
-#include <Grid/serialisation/Serialisation.h>
+#include <serialisation/Serialisation.h>
-#include "Config.h"
+#include <Config.h>
-#include <Grid/Timer.h>
+#include <Timer.h>
-#include <Grid/PerfCount.h>
+#include <PerfCount.h>
-#include <Grid/Log.h>
+#include <Log.h>
-#include <Grid/AlignedAllocator.h>
+#include <AlignedAllocator.h>
-#include <Grid/Simd.h>
+#include <Simd.h>
-#include <Grid/Threads.h>
+#include <Threads.h>
-#include <Grid/Lexicographic.h>
+#include <Lexicographic.h>
-#include <Grid/Init.h>
+#include <Communicator.h> 
-#include <Grid/Communicator.h> 
+#include <Cartesian.h>    
-#include <Grid/Cartesian.h>    
+#include <Tensors.h>      
-#include <Grid/Tensors.h>      
+#include <Lattice.h>      
-#include <Grid/Lattice.h>      
+#include <Cshift.h>       
-#include <Grid/Cshift.h>       
+#include <Stencil.h>      
-#include <Grid/Stencil.h>      
+#include <Algorithms.h>   
-#include <Grid/Algorithms.h>   
+#include <parallelIO/BinaryIO.h>
-#include <Grid/parallelIO/BinaryIO.h>
+#include <qcd/QCD.h>
-#include <Grid/qcd/QCD.h>
+#include <parallelIO/NerscIO.h>
-#include <Grid/parallelIO/NerscIO.h>
+#include <Init.h>
 
-#include <Grid/FFT.h>
+#include <qcd/hmc/NerscCheckpointer.h>
-
+#include <qcd/hmc/HmcRunner.h>
-#include <Grid/qcd/hmc/NerscCheckpointer.h>
-#include <Grid/qcd/hmc/HmcRunner.h>
 
 
 

lib/Init.cc

@@ -153,7 +153,6 @@ void GridParseLayout(char **argv,int argc,
     assert(ompthreads.size()==1);
     GridThread::SetThreads(ompthreads[0]);
   }
-
   if( GridCmdOptionExists(argv,argv+argc,"--cores") ){
     std::vector<int> cores(0);
     arg= GridCmdOptionPayload(argv,argv+argc,"--cores");
@@ -194,7 +193,7 @@ void Grid_init(int *argc,char ***argv)
     std::cout<<GridLogMessage<<"--mpi n.n.n.n   : default MPI decomposition"<<std::endl;    
     std::cout<<GridLogMessage<<"--threads n     : default number of OMP threads"<<std::endl;
     std::cout<<GridLogMessage<<"--grid n.n.n.n  : default Grid size"<<std::endl;    
-    std::cout<<GridLogMessage<<"--log list      : comma separted list of streams from Error,Warning,Message,Performance,Iterative,Integrator,Debug,Colours"<<std::endl;
+    std::cout<<GridLogMessage<<"--log list      : comma separted list of streams from Error,Warning,Message,Performance,Iterative,Integrator,Debug"<<std::endl;
     exit(EXIT_SUCCESS);
   }
 
@@ -204,6 +203,7 @@ void Grid_init(int *argc,char ***argv)
     GridLogConfigure(logstreams);
   }
 
+
   if( GridCmdOptionExists(*argv,*argv+*argc,"--debug-signals") ){
     Grid_debug_handler_init();
   }
@@ -234,34 +234,26 @@ void Grid_init(int *argc,char ***argv)
     std::cout<<GridLogMessage<<"\tvComplexD      : "<<sizeof(vComplexD)*8 <<"bits ; " <<GridCmdVectorIntToString(GridDefaultSimd(4,vComplexD::Nsimd()))<<std::endl;
   }
 
-  std::string COL_RED    = GridLogColours.colour["RED"];
-  std::string COL_PURPLE = GridLogColours.colour["PURPLE"];
-  std::string COL_BLACK  = GridLogColours.colour["BLACK"];
-  std::string COL_GREEN  = GridLogColours.colour["GREEN"];
-  std::string COL_BLUE   = GridLogColours.colour["BLUE"];
-  std::string COL_YELLOW = GridLogColours.colour["YELLOW"];
-  std::string COL_BACKGROUND = GridLogColours.colour["NORMAL"];
-
-  
   std::cout <<std::endl;
-  std::cout <<COL_RED  << "__|__|__|__|__"<<             "|__|__|_"<<COL_PURPLE<<"_|__|__|"<<                "__|__|__|__|__"<<std::endl; 
+  std::cout <<Logger::RED  << "__|__|__|__|__"<<             "|__|__|_"<<Logger::PURPLE<<"_|__|__|"<<                "__|__|__|__|__"<<std::endl; 
-  std::cout <<COL_RED  << "__|__|__|__|__"<<             "|__|__|_"<<COL_PURPLE<<"_|__|__|"<<                "__|__|__|__|__"<<std::endl; 
+  std::cout <<Logger::RED  << "__|__|__|__|__"<<             "|__|__|_"<<Logger::PURPLE<<"_|__|__|"<<                "__|__|__|__|__"<<std::endl; 
-  std::cout <<COL_RED  << "__|__|  |  |  "<<             "|  |  | "<<COL_PURPLE<<" |  |  |"<<                "  |  |  | _|__"<<std::endl; 
+  std::cout <<Logger::RED  << "__|__|  |  |  "<<             "|  |  | "<<Logger::PURPLE<<" |  |  |"<<                "  |  |  | _|__"<<std::endl; 
-  std::cout <<COL_RED  << "__|__         "<<             "        "<<COL_PURPLE<<"        "<<                "          _|__"<<std::endl; 
+  std::cout <<Logger::RED  << "__|__         "<<             "        "<<Logger::PURPLE<<"        "<<                "          _|__"<<std::endl; 
-  std::cout <<COL_RED  << "__|_  "<<COL_GREEN<<" GGGG   "<<COL_RED<<" RRRR   "<<COL_BLUE  <<" III    "<<COL_PURPLE<<"DDDD  "<<COL_PURPLE<<"    _|__"<<std::endl;
+  std::cout <<Logger::RED  << "__|_  "<<Logger::GREEN<<" GGGG   "<<Logger::RED<<" RRRR   "<<Logger::BLUE  <<" III    "<<Logger::PURPLE<<"DDDD  "<<Logger::PURPLE<<"    _|__"<<std::endl;
-  std::cout <<COL_RED  << "__|_  "<<COL_GREEN<<"G       "<<COL_RED<<" R   R  "<<COL_BLUE  <<"  I     "<<COL_PURPLE<<"D   D "<<COL_PURPLE<<"    _|__"<<std::endl;
+  std::cout <<Logger::RED  << "__|_  "<<Logger::GREEN<<"G       "<<Logger::RED<<" R   R  "<<Logger::BLUE  <<"  I     "<<Logger::PURPLE<<"D   D "<<Logger::PURPLE<<"    _|__"<<std::endl;
-  std::cout <<COL_RED  << "__|_  "<<COL_GREEN<<"G       "<<COL_RED<<" R   R  "<<COL_BLUE  <<"  I     "<<COL_PURPLE<<"D    D"<<COL_PURPLE<<"    _|__"<<std::endl;
+  std::cout <<Logger::RED  << "__|_  "<<Logger::GREEN<<"G       "<<Logger::RED<<" R   R  "<<Logger::BLUE  <<"  I     "<<Logger::PURPLE<<"D    D"<<Logger::PURPLE<<"    _|__"<<std::endl;
-  std::cout <<COL_BLUE << "__|_  "<<COL_GREEN<<"G  GG   "<<COL_RED<<" RRRR   "<<COL_BLUE  <<"  I     "<<COL_PURPLE<<"D    D"<<COL_GREEN <<"    _|__"<<std::endl;
+  std::cout <<Logger::BLUE << "__|_  "<<Logger::GREEN<<"G  GG   "<<Logger::RED<<" RRRR   "<<Logger::BLUE  <<"  I     "<<Logger::PURPLE<<"D    D"<<Logger::GREEN <<"    _|__"<<std::endl;
-  std::cout <<COL_BLUE << "__|_  "<<COL_GREEN<<"G   G   "<<COL_RED<<" R  R   "<<COL_BLUE  <<"  I     "<<COL_PURPLE<<"D   D "<<COL_GREEN <<"    _|__"<<std::endl;
+  std::cout <<Logger::BLUE << "__|_  "<<Logger::GREEN<<"G   G   "<<Logger::RED<<" R  R   "<<Logger::BLUE  <<"  I     "<<Logger::PURPLE<<"D   D "<<Logger::GREEN <<"    _|__"<<std::endl;
-  std::cout <<COL_BLUE << "__|_  "<<COL_GREEN<<" GGGG   "<<COL_RED<<" R   R  "<<COL_BLUE  <<" III    "<<COL_PURPLE<<"DDDD  "<<COL_GREEN <<"    _|__"<<std::endl;
+  std::cout <<Logger::BLUE << "__|_  "<<Logger::GREEN<<" GGGG   "<<Logger::RED<<" R   R  "<<Logger::BLUE  <<" III    "<<Logger::PURPLE<<"DDDD  "<<Logger::GREEN <<"    _|__"<<std::endl;
-  std::cout <<COL_BLUE << "__|__         "<<             "        "<<COL_GREEN <<"        "<<                "          _|__"<<std::endl; 
+  std::cout <<Logger::BLUE << "__|__         "<<             "        "<<Logger::GREEN <<"        "<<                "          _|__"<<std::endl; 
-  std::cout <<COL_BLUE << "__|__|__|__|__"<<             "|__|__|_"<<COL_GREEN <<"_|__|__|"<<                "__|__|__|__|__"<<std::endl; 
+  std::cout <<Logger::BLUE << "__|__|__|__|__"<<             "|__|__|_"<<Logger::GREEN <<"_|__|__|"<<                "__|__|__|__|__"<<std::endl; 
-  std::cout <<COL_BLUE << "__|__|__|__|__"<<             "|__|__|_"<<COL_GREEN <<"_|__|__|"<<                "__|__|__|__|__"<<std::endl; 
+  std::cout <<Logger::BLUE << "__|__|__|__|__"<<             "|__|__|_"<<Logger::GREEN <<"_|__|__|"<<                "__|__|__|__|__"<<std::endl; 
-  std::cout <<COL_BLUE << "  |  |  |  |  "<<             "|  |  | "<<COL_GREEN <<" |  |  |"<<                "  |  |  |  |  "<<std::endl; 
+  std::cout <<Logger::BLUE << "  |  |  |  |  "<<             "|  |  | "<<Logger::GREEN <<" |  |  |"<<                "  |  |  |  |  "<<std::endl; 
   std::cout << std::endl;
   std::cout << std::endl;
-  std::cout <<COL_YELLOW<< std::endl;
+  std::cout <<Logger::YELLOW<< std::endl;
   std::cout << "Copyright (C) 2015 Peter Boyle, Azusa Yamaguchi, Guido Cossu, Antonin Portelli and other authors"<<std::endl;
+  std::cout << "Colours by Tadahito Boyle "<<std::endl;
   std::cout << std::endl;
   std::cout << "This program is free software; you can redistribute it and/or modify"<<std::endl;
   std::cout << "it under the terms of the GNU General Public License as published by"<<std::endl;
@@ -272,8 +264,7 @@ void Grid_init(int *argc,char ***argv)
   std::cout << "but WITHOUT ANY WARRANTY; without even the implied warranty of"<<std::endl;
   std::cout << "MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the"<<std::endl;
   std::cout << "GNU General Public License for more details."<<std::endl;
-  std::cout << COL_BACKGROUND <<std::endl;
+  std::cout << Logger::BLACK <<std::endl;
-  std::cout << std::endl;
 }
 
   

lib/Lattice.h

@@ -28,6 +28,6 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef GRID_LATTICE_H
 #define GRID_LATTICE_H
 
-#include <Grid/lattice/Lattice_base.h>
+#include <lattice/Lattice_base.h>
 
 #endif

lib/Log.cc

@@ -25,8 +25,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #include <Grid.h>
@@ -35,43 +34,74 @@ namespace Grid {
 
 GridStopWatch Logger::StopWatch;
 std::ostream  Logger::devnull(0);
+std::string Logger::BLACK("\033[30m");
+std::string Logger::RED("\033[31m");
+std::string Logger::GREEN("\033[32m");
+std::string Logger::YELLOW("\033[33m");
+std::string Logger::BLUE("\033[34m");
+std::string Logger::PURPLE("\033[35m");
+std::string Logger::CYAN("\033[36m");
+std::string Logger::WHITE("\033[37m");
+std::string Logger::NORMAL("\033[0;39m");
+std::string EMPTY("");
 
-Colours GridLogColours(0);
+#if 0  
-GridLogger GridLogError(1, "Error", GridLogColours, "RED");
+  GridLogger GridLogError      (1,"Error",Logger::RED);
-GridLogger GridLogWarning(1, "Warning", GridLogColours, "YELLOW");
+  GridLogger GridLogWarning    (1,"Warning",Logger::YELLOW);
-GridLogger GridLogMessage(1, "Message", GridLogColours, "NORMAL");
+  GridLogger GridLogMessage    (1,"Message",Logger::BLACK);
-GridLogger GridLogDebug(1, "Debug", GridLogColours, "PURPLE");
+  GridLogger GridLogDebug      (1,"Debug",Logger::PURPLE);
-GridLogger GridLogPerformance(1, "Performance", GridLogColours, "GREEN");
+  GridLogger GridLogPerformance(1,"Performance",Logger::GREEN);
-GridLogger GridLogIterative(1, "Iterative", GridLogColours, "BLUE");
+  GridLogger GridLogIterative  (1,"Iterative",Logger::BLUE);
-GridLogger GridLogIntegrator(1, "Integrator", GridLogColours, "BLUE");
+  GridLogger GridLogIntegrator (1,"Integrator",Logger::BLUE);
+#else
+  GridLogger GridLogError      (1,"Error",EMPTY);
+  GridLogger GridLogWarning    (1,"Warning",EMPTY);
+  GridLogger GridLogMessage    (1,"Message",EMPTY);
+  GridLogger GridLogDebug      (1,"Debug",EMPTY);
+  GridLogger GridLogPerformance(1,"Performance",EMPTY);
+  GridLogger GridLogIterative  (1,"Iterative",EMPTY);
+  GridLogger GridLogIntegrator (1,"Integrator",EMPTY);
+#endif
 
-void GridLogConfigure(std::vector<std::string> &logstreams) {
+void GridLogConfigure(std::vector<std::string> &logstreams)
+{
   GridLogError.Active(0);
   GridLogWarning.Active(0);
-  GridLogMessage.Active(1); // at least the messages should be always on
+  GridLogMessage.Active(0);
   GridLogIterative.Active(0);
   GridLogDebug.Active(0);
   GridLogPerformance.Active(0);
   GridLogIntegrator.Active(0);
-  GridLogColours.Active(0);
+
+  int blackAndWhite = 1;
+  if(blackAndWhite){
+    Logger::BLACK = std::string("");
+    Logger::RED    =Logger::BLACK;
+    Logger::GREEN  =Logger::BLACK;
+    Logger::YELLOW =Logger::BLACK;
+    Logger::BLUE   =Logger::BLACK;
+    Logger::PURPLE =Logger::BLACK;
+    Logger::CYAN   =Logger::BLACK;
+    Logger::WHITE  =Logger::BLACK;
+    Logger::NORMAL =Logger::BLACK;
+  }
 
   for(int i=0;i<logstreams.size();i++){
     if ( logstreams[i]== std::string("Error")       ) GridLogError.Active(1);
     if ( logstreams[i]== std::string("Warning")     ) GridLogWarning.Active(1);
-    if (logstreams[i] == std::string("NoMessage")) GridLogMessage.Active(0);
+    if ( logstreams[i]== std::string("Message")     ) GridLogMessage.Active(1);
     if ( logstreams[i]== std::string("Iterative")   ) GridLogIterative.Active(1);
     if ( logstreams[i]== std::string("Debug")       ) GridLogDebug.Active(1);
-    if (logstreams[i] == std::string("Performance"))
+    if ( logstreams[i]== std::string("Performance") ) GridLogPerformance.Active(1);
-      GridLogPerformance.Active(1);
     if ( logstreams[i]== std::string("Integrator" ) ) GridLogIntegrator.Active(1);
-    if (logstreams[i] == std::string("Colours")) GridLogColours.Active(1);
   }
 }
 
 ////////////////////////////////////////////////////////////
 // Verbose limiter on MPI tasks
 ////////////////////////////////////////////////////////////
-void Grid_quiesce_nodes(void) {
+void Grid_quiesce_nodes(void)
+{
   int me=0;
 #ifdef GRID_COMMS_MPI
   MPI_Comm_rank(MPI_COMM_WORLD,&me);
@@ -84,9 +114,13 @@ void Grid_quiesce_nodes(void) {
   }
 }
 
-void Grid_unquiesce_nodes(void) {
+void Grid_unquiesce_nodes(void)
+{
 #ifdef GRID_COMMS_MPI
     std::cout.clear();
 #endif
 }
+
+
 }
+

lib/Log.h

@@ -27,9 +27,6 @@
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-
-#include <map>
-
 #ifndef GRID_LOG_H
 #define GRID_LOG_H
 
@@ -43,81 +40,39 @@
 int Rank(void); // used for early stage debug before library init
 
 
-class Colours{
-protected:
-  bool is_active;
-public:
-  std::map<std::string, std::string> colour;
-
-  Colours(bool activate=false){
-    Active(activate);
-  };
-
-  void Active(bool activate){
-    is_active=activate;
-
-    if (is_active){
-     colour["BLACK"]  ="\033[30m";
-     colour["RED"]    ="\033[31m";
-     colour["GREEN"]  ="\033[32m";
-     colour["YELLOW"] ="\033[33m";
-     colour["BLUE"]   ="\033[34m";
-     colour["PURPLE"] ="\033[35m";
-     colour["CYAN"]   ="\033[36m";
-     colour["WHITE"]  ="\033[37m";
-     colour["NORMAL"] ="\033[0;39m";
-   } else {
-    colour["BLACK"] ="";
-    colour["RED"]   ="";
-    colour["GREEN"] ="";
-    colour["YELLOW"]="";
-    colour["BLUE"]  ="";
-    colour["PURPLE"]="";
-    colour["CYAN"]  ="";
-    colour["WHITE"] ="";
-    colour["NORMAL"]="";
-  }
-
-
-};
-
-};
-
-
 class Logger {
 protected:
-  Colours &Painter;
     int active;
-  std::string name, topName;
+    std::string name, topName, COLOUR;
-  std::string COLOUR;
-
 public:
     static GridStopWatch StopWatch;
     static std::ostream devnull;
 
-  std::string background() {return Painter.colour["NORMAL"];}
+    static std::string BLACK;
-  std::string evidence() {return Painter.colour["YELLOW"];}
+    static std::string RED  ;
-  std::string colour() {return Painter.colour[COLOUR];}
+    static std::string GREEN;
+    static std::string YELLOW;
+    static std::string BLUE  ;
+    static std::string PURPLE;
+    static std::string CYAN  ;
+    static std::string WHITE ;
+    static std::string NORMAL;
     
-  Logger(std::string topNm, int on, std::string nm, Colours& col_class, std::string col)
+ Logger(std::string topNm, int on, std::string nm,std::string col)
-  : active(on),
+   : active(on), name(nm), topName(topNm), COLOUR(col) {};
-  name(nm),
-  topName(topNm),
-  Painter(col_class),
-  COLOUR(col){} ;
     
     void Active(int on) {active = on;};
     int  isActive(void) {return active;};
     
-  friend std::ostream& operator<< (std::ostream& stream, Logger& log){
+    friend std::ostream& operator<< (std::ostream& stream, const Logger& log){
-
         if ( log.active ) {
             StopWatch.Stop();
             GridTime now = StopWatch.Elapsed();
             StopWatch.Start();
-      stream << log.background()<< log.topName << log.background()<< " : ";
+            stream << BLACK <<std::setw(8) << std::left << log.topName << BLACK<< " : ";
-      stream << log.colour() <<std::setw(14) << std::left << log.name << log.background() << " : ";
+            stream << log.COLOUR <<std::setw(11)  << log.name << BLACK << " : ";
-      stream << log.evidence()<< now << log.background() << " : " << log.colour();
+            stream << YELLOW <<std::setw(6) << now <<BLACK << " : " ;
+            stream << log.COLOUR;
             return stream;
         } else { 
             return devnull;
@@ -128,8 +83,7 @@ public:
     
 class GridLogger: public Logger {
 public:
-  GridLogger(int on, std::string nm, Colours&col_class, std::string col_key = "NORMAL"):
+ GridLogger(int on, std::string nm, std::string col = Logger::BLACK): Logger("Grid", on, nm, col){};
-  Logger("Grid", on, nm, col_class, col_key){};
 };
 
 void GridLogConfigure(std::vector<std::string> &logstreams);
@@ -141,7 +95,6 @@ extern GridLogger GridLogDebug  ;
 extern GridLogger GridLogPerformance;
 extern GridLogger GridLogIterative  ;
 extern GridLogger GridLogIntegrator  ;
-extern Colours    GridLogColours;
 
 
 #define _NBACKTRACE (256)
@@ -175,6 +128,5 @@ std::fprintf (fp,"BT %d %lx\n",3, __builtin_return_address(3)); std::fflush(fp);
 
 #define BACKTRACE() BACKTRACEFP(stdout) 
 
-
 }
 #endif

lib/Makefile.am

@@ -1,3 +1,6 @@
+# additional include paths necessary to compile the C++ library
+AM_CXXFLAGS = -I$(top_srcdir)/
+
 extra_sources=
 if BUILD_COMMS_MPI
   extra_sources+=communicator/Communicator_mpi.cc
@@ -14,11 +17,16 @@ endif
 #
 # Libraries
 #
+
 include Make.inc
-include Eigen.inc
 
 lib_LIBRARIES = libGrid.a
-
 libGrid_a_SOURCES = $(CCFILES) $(extra_sources)
-libGrid_adir                   = $(pkgincludedir)
+
-nobase_dist_pkginclude_HEADERS = $(HFILES) $(eigen_files) Config.h
+
+#	qcd/action/fermion/PartialFractionFermion5D.cc\	\
+#
+# Include files
+#
+nobase_include_HEADERS=$(HFILES)
+

lib/Simd.h

@@ -24,8 +24,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef GRID_SIMD_H
@@ -119,14 +118,6 @@ namespace Grid {
   inline ComplexD timesI(const ComplexD &r)     { return(r*ComplexD(0.0,1.0));}
   inline ComplexF timesMinusI(const ComplexF &r){ return(r*ComplexF(0.0,-1.0));}
   inline ComplexD timesMinusI(const ComplexD &r){ return(r*ComplexD(0.0,-1.0));}
-
-  // define projections to real and imaginay parts
-  inline ComplexF projReal(const ComplexF &r){return( ComplexF(std::real(r), 0.0));}
-  inline ComplexD projReal(const ComplexD &r){return( ComplexD(std::real(r), 0.0));}
-  inline ComplexF projImag(const ComplexF &r){return (ComplexF(std::imag(r), 0.0 ));}
-  inline ComplexD projImag(const ComplexD &r){return (ComplexD(std::imag(r), 0.0));}
-
-  // define auxiliary functions for complex computations
   inline void timesI(ComplexF &ret,const ComplexF &r)     { ret = timesI(r);}
   inline void timesI(ComplexD &ret,const ComplexD &r)     { ret = timesI(r);}
   inline void timesMinusI(ComplexF &ret,const ComplexF &r){ ret = timesMinusI(r);}
@@ -172,8 +163,8 @@ namespace Grid {
 
 };
 
-#include "simd/Grid_vector_types.h"
+#include <simd/Grid_vector_types.h>
-#include "simd/Grid_vector_unops.h"
+#include <simd/Grid_vector_unops.h>
 
 namespace Grid {
   // Default precision

lib/Stat.cc

@@ -1,247 +0,0 @@
-#include <Grid.h>
-#include <PerfCount.h>
-#include <Stat.h>
-
-
-namespace Grid { 
-
-
-bool PmuStat::pmu_initialized=false;
-
-
-void PmuStat::init(const char *regname)
-{
-#ifdef __x86_64__
-  name = regname;
-  if (!pmu_initialized)
-    {
-      std::cout<<"initialising pmu"<<std::endl;
-      pmu_initialized = true;
-      pmu_init();
-    }
-  clear();
-#endif
-}
-void PmuStat::clear(void)
-{
-#ifdef __x86_64__
-  count = 0;
-  tregion = 0;
-  pmc0 = 0;
-  pmc1 = 0;
-  inst = 0;
-  cyc = 0;
-  ref = 0;
-  tcycles = 0;
-  reads = 0;
-  writes = 0;
-#endif
-}
-void PmuStat::print(void)
-{
-#ifdef __x86_64__
-  std::cout <<"Reg "<<std::string(name)<<":\n";
-  std::cout <<"  region "<<tregion<<std::endl;
-  std::cout <<"  cycles "<<tcycles<<std::endl;
-  std::cout <<"  inst   "<<inst   <<std::endl;
-  std::cout <<"  cyc    "<<cyc    <<std::endl;
-  std::cout <<"  ref    "<<ref    <<std::endl;
-  std::cout <<"  pmc0   "<<pmc0   <<std::endl;
-  std::cout <<"  pmc1   "<<pmc1   <<std::endl;
-  std::cout <<"  count  "<<count  <<std::endl;
-  std::cout <<"  reads  "<<reads  <<std::endl;
-  std::cout <<"  writes "<<writes <<std::endl;
-#endif
-}
-void PmuStat::start(void)
-{
-#ifdef __x86_64__
-  pmu_start();
-  ++count;
-  xmemctrs(&mrstart, &mwstart);
-  tstart = __rdtsc();
-#endif
-}
-void PmuStat::enter(int t)
-{
-#ifdef __x86_64__
-  counters[0][t] = __rdpmc(0);
-  counters[1][t] = __rdpmc(1);
-  counters[2][t] = __rdpmc((1<<30)|0);
-  counters[3][t] = __rdpmc((1<<30)|1);
-  counters[4][t] = __rdpmc((1<<30)|2);
-  counters[5][t] = __rdtsc();
-#endif
-}
-void PmuStat::exit(int t)
-{
-#ifdef __x86_64__
-  counters[0][t] = __rdpmc(0) - counters[0][t];
-  counters[1][t] = __rdpmc(1) - counters[1][t];
-  counters[2][t] = __rdpmc((1<<30)|0) - counters[2][t];
-  counters[3][t] = __rdpmc((1<<30)|1) - counters[3][t];
-  counters[4][t] = __rdpmc((1<<30)|2) - counters[4][t];
-  counters[5][t] = __rdtsc() - counters[5][t];
-#endif
-}
-void PmuStat::accum(int nthreads)
-{
-#ifdef __x86_64__
-  tend = __rdtsc();
-  xmemctrs(&mrend, &mwend);
-  pmu_stop();
-  for (int t = 0; t < nthreads; ++t) {
-    pmc0 += counters[0][t];
-    pmc1 += counters[1][t];
-    inst += counters[2][t];
-    cyc += counters[3][t];
-    ref += counters[4][t];
-    tcycles += counters[5][t];
-  }
-  uint64_t region = tend - tstart;
-  tregion += region;
-  uint64_t mreads = mrend - mrstart;
-  reads += mreads;
-  uint64_t mwrites = mwend - mwstart;
-  writes += mwrites;
-#endif
-}
-
-
-void PmuStat::pmu_fini(void) {}
-void PmuStat::pmu_start(void) {};
-void PmuStat::pmu_stop(void) {};
-void PmuStat::pmu_init(void)
-{
-#ifdef _KNIGHTS_LANDING_
-  KNLsetup();
-#endif
-}
-void PmuStat::xmemctrs(uint64_t *mr, uint64_t *mw)
-{
-#ifdef _KNIGHTS_LANDING_
-  ctrs c;
-  KNLreadctrs(c);
-  uint64_t emr = 0, emw = 0;
-  for (int i = 0; i < NEDC; ++i)
-    {
-      emr += c.edcrd[i];
-      emw += c.edcwr[i];
-    }
-  *mr = emr;
-  *mw = emw;
-#else
-  *mr = *mw = 0;
-#endif
-}
-
-#ifdef _KNIGHTS_LANDING_
-
-struct knl_gbl_ PmuStat::gbl;
-
-#define PMU_MEM
-
-void PmuStat::KNLevsetup(const char *ename, int &fd, int event, int umask)
-{
-  char fname[1024];
-  snprintf(fname, sizeof(fname), "%s/type", ename);
-  FILE *fp = fopen(fname, "r");
-  if (fp == 0) {
-    ::printf("open %s", fname);
-    ::exit(0);
-  }
-  int type;
-  int ret = fscanf(fp, "%d", &type);
-  assert(ret == 1);
-  fclose(fp);
-  //  std::cout << "Using PMU type "<<type<<" from " << std::string(ename) <<std::endl;
-
-  struct perf_event_attr hw = {};
-  hw.size = sizeof(hw);
-  hw.type = type;
-  // see /sys/devices/uncore_*/format/*
-  // All of the events we are interested in are configured the same way, but
-  // that isn't always true. Proper code would parse the format files
-  hw.config = event | (umask << 8);
-  //hw.read_format = PERF_FORMAT_GROUP;
-  // unfortunately the above only works within a single PMU; might
-  // as well just read them one at a time
-  int cpu = 0;
-  fd = perf_event_open(&hw, -1, cpu, -1, 0);
-  if (fd == -1) {
-    ::printf("CPU %d, box %s, event 0x%lx", cpu, ename, hw.config);
-    ::exit(0);
-  } else { 
-    //    std::cout << "event "<<std::string(ename)<<" set up for fd "<<fd<<" hw.config "<<hw.config <<std::endl;
-  }
-}
-
-
- void PmuStat::KNLsetup(void){
-
-   int ret;
-   char fname[1024];
-
-   // MC RPQ inserts and WPQ inserts (reads & writes)
-   for (int mc = 0; mc < NMC; ++mc)
-     {
-       ::snprintf(fname, sizeof(fname), "/sys/devices/uncore_imc_%d",mc);
-       // RPQ Inserts
-       KNLevsetup(fname, gbl.mc_rd[mc], 0x1, 0x1);
-       // WPQ Inserts
-       KNLevsetup(fname, gbl.mc_wr[mc], 0x2, 0x1);
-     }
-   // EDC RPQ inserts and WPQ inserts
-   for (int edc=0; edc < NEDC; ++edc)
-     {
-       ::snprintf(fname, sizeof(fname), "/sys/devices/uncore_edc_eclk_%d",edc);
-       // RPQ inserts
-       KNLevsetup(fname, gbl.edc_rd[edc], 0x1, 0x1);
-       // WPQ inserts
-       KNLevsetup(fname, gbl.edc_wr[edc], 0x2, 0x1);
-     }
-   // EDC HitE, HitM, MissE, MissM
-   for (int edc=0; edc < NEDC; ++edc)
-     {
-       ::snprintf(fname, sizeof(fname), "/sys/devices/uncore_edc_uclk_%d", edc);
-       KNLevsetup(fname, gbl.edc_hite[edc], 0x2, 0x1);
-       KNLevsetup(fname, gbl.edc_hitm[edc], 0x2, 0x2);
-       KNLevsetup(fname, gbl.edc_misse[edc], 0x2, 0x4);
-       KNLevsetup(fname, gbl.edc_missm[edc], 0x2, 0x8);
-     }
- }
-
-uint64_t PmuStat::KNLreadctr(int fd)
-{
-  uint64_t data;
-  size_t s = ::read(fd, &data, sizeof(data));
-  if (s != sizeof(uint64_t)){
-    ::printf("read counter %lu", s);
-    ::exit(0);
-  }
-  return data;
-}
-
-void PmuStat::KNLreadctrs(ctrs &c)
-{
-  for (int i = 0; i < NMC; ++i)
-    {
-      c.mcrd[i] = KNLreadctr(gbl.mc_rd[i]);
-      c.mcwr[i] = KNLreadctr(gbl.mc_wr[i]);
-    }
-  for (int i = 0; i < NEDC; ++i)
-    {
-      c.edcrd[i] = KNLreadctr(gbl.edc_rd[i]);
-      c.edcwr[i] = KNLreadctr(gbl.edc_wr[i]);
-    }
-  for (int i = 0; i < NEDC; ++i)
-    {
-      c.edchite[i] = KNLreadctr(gbl.edc_hite[i]);
-      c.edchitm[i] = KNLreadctr(gbl.edc_hitm[i]);
-      c.edcmisse[i] = KNLreadctr(gbl.edc_misse[i]);
-      c.edcmissm[i] = KNLreadctr(gbl.edc_missm[i]);
-    }
-}
-
-#endif
-}

lib/Stat.h

@@ -1,104 +0,0 @@
-#ifndef _GRID_STAT_H
-#define _GRID_STAT_H
-
-#ifdef AVX512
-#define _KNIGHTS_LANDING_ROOTONLY
-#endif
-
-namespace Grid { 
-
-///////////////////////////////////////////////////////////////////////////////
-// Extra KNL counters from MCDRAM
-///////////////////////////////////////////////////////////////////////////////
-#ifdef _KNIGHTS_LANDING_
-#define NMC 6
-#define NEDC 8
-struct ctrs
-{
-    uint64_t mcrd[NMC];
-    uint64_t mcwr[NMC];
-    uint64_t edcrd[NEDC]; 
-    uint64_t edcwr[NEDC];
-    uint64_t edchite[NEDC];
-    uint64_t edchitm[NEDC];
-    uint64_t edcmisse[NEDC];
-    uint64_t edcmissm[NEDC];
-};
-// Peter/Azusa:
-// Our modification of a code provided by Larry Meadows from Intel
-// Verified by email exchange non-NDA, ok for github. Should be as uses /sys/devices/ FS
-// so is already public and in the linux kernel for KNL.
-struct knl_gbl_
-{
-  int mc_rd[NMC];
-  int mc_wr[NMC];
-  int edc_rd[NEDC];
-  int edc_wr[NEDC];
-  int edc_hite[NEDC];
-  int edc_hitm[NEDC];
-  int edc_misse[NEDC];
-  int edc_missm[NEDC];
-};
-#endif
-///////////////////////////////////////////////////////////////////////////////
-
-class PmuStat
-{
-    uint64_t counters[8][256];
-#ifdef _KNIGHTS_LANDING_
-    static struct knl_gbl_ gbl;
-#endif
-    const char *name;
-
-    uint64_t reads;     // memory reads
-    uint64_t writes;    // memory writes
-    uint64_t mrstart;   // memory read counter at start of parallel region
-    uint64_t mrend;     // memory read counter at end of parallel region
-    uint64_t mwstart;   // memory write counter at start of parallel region
-    uint64_t mwend;     // memory write counter at end of parallel region
-
-    // cumulative counters
-    uint64_t count;     // number of invocations
-    uint64_t tregion;   // total time in parallel region (from thread 0)
-    uint64_t tcycles;   // total cycles inside parallel region
-    uint64_t inst, ref, cyc;   // fixed counters
-    uint64_t pmc0, pmc1;// pmu
-    // add memory counters here
-    // temp variables
-    uint64_t tstart;    // tsc at start of parallel region
-    uint64_t tend;      // tsc at end of parallel region
-    // map for ctrs values
-    // 0 pmc0 start
-    // 1 pmc0 end
-    // 2 pmc1 start
-    // 3 pmc1 end
-    // 4 tsc start
-    // 5 tsc end
-    static bool pmu_initialized;
-public:
-    static bool is_init(void){ return pmu_initialized;}
-    static void pmu_init(void);
-    static void pmu_fini(void);
-    static void pmu_start(void);
-    static void pmu_stop(void);
-    void accum(int nthreads);
-    static void xmemctrs(uint64_t *mr, uint64_t *mw);
-    void start(void);
-    void enter(int t);
-    void exit(int t);
-    void print(void);
-    void init(const char *regname);
-    void clear(void);
-#ifdef _KNIGHTS_LANDING_
-    static void     KNLsetup(void);
-    static uint64_t KNLreadctr(int fd);
-    static void     KNLreadctrs(ctrs &c);
-    static void     KNLevsetup(const char *ename, int &fd, int event, int umask);
-#endif
-    
-  };
-
-}
-#endif
-
-

lib/Stencil.h

@@ -30,7 +30,7 @@
 
  #include <thread>
 
- #include <Grid/stencil/Lebesgue.h>   // subdir aggregate
+ #include <stencil/Lebesgue.h>   // subdir aggregate
 
  //////////////////////////////////////////////////////////////////////////////////////////
  // Must not lose sight that goal is to be able to construct really efficient
@@ -106,6 +106,7 @@
  #define SERIAL_SENDS
 
        void AddPacket(void *xmit,void * rcv, Integer to,Integer from,Integer bytes){
+	 comms_bytes+=2.0*bytes;
  #ifdef SEND_IMMEDIATE
 	 commtime-=usecond();
 	 _grid->SendToRecvFrom(xmit,to,rcv,from,bytes);
@@ -264,19 +265,17 @@
 	 //	 _mm_prefetch((char *)&_entries[ent],_MM_HINT_T0);
        }
        inline uint64_t GetInfo(int &ptype,int &local,int &perm,int point,int ent,uint64_t base) {
-	 //_mm_prefetch((char *)&_entries[ent+1],_MM_HINT_T0);
+	 _mm_prefetch((char *)&_entries[ent+1],_MM_HINT_T0);
-	 uint64_t cbase = (uint64_t) 0;
 	 local = _entries[ent]._is_local;
 	 perm  = _entries[ent]._permute;
 	 if (perm)  ptype = _permute_type[point]; 
 	 if (local) return base + _entries[ent]._byte_offset;
-	 else       return cbase + _entries[ent]._byte_offset;
+	 else       return _entries[ent]._byte_offset;
        }
        inline uint64_t GetPFInfo(int ent,uint64_t base) {
-	 uint64_t cbase =  (uint64_t) 0;
 	 int local = _entries[ent]._is_local;
 	 if (local) return base + _entries[ent]._byte_offset;
-	 else       return cbase + _entries[ent]._byte_offset;
+	 else       return        _entries[ent]._byte_offset;
        }
 
        // Comms buffers
@@ -302,39 +301,6 @@
        double gathermtime;
        double splicetime;
        double nosplicetime;
-       double calls;
-
-       void ZeroCounters(void) {
-         gathertime = 0.;
-         jointime = 0.;
-         commtime = 0.;
-         halogtime = 0.;
-         mergetime = 0.;
-         spintime = 0.;
-         gathermtime = 0.;
-         splicetime = 0.;
-         nosplicetime = 0.;
-         comms_bytes = 0.;
-         calls = 0.;
-       };
-
-       void Report(void) {
-#define PRINTIT(A)	\
- std::cout << GridLogMessage << " Stencil " << #A << " "<< A/calls<<std::endl;
-	 if ( calls > 0. ) {
- std::cout << GridLogMessage << " Stencil calls "<<calls<<std::endl;
-       PRINTIT(jointime);
-       PRINTIT(gathertime);
-       PRINTIT(commtime);
-       PRINTIT(halogtime);
-       PRINTIT(mergetime);
-       PRINTIT(spintime);
-       PRINTIT(comms_bytes);
-       PRINTIT(gathermtime);
-       PRINTIT(splicetime);
-       PRINTIT(nosplicetime);
-	 }
-       };
  #endif
 
    CartesianStencil(GridBase *grid,
@@ -344,6 +310,18 @@
 				      const std::vector<int> &distances) 
      :   _permute_type(npoints), _comm_buf_size(npoints)
      {
+ #ifdef TIMING_HACK
+       gathertime=0;
+       jointime=0;
+       commtime=0;
+       halogtime=0;
+       mergetime=0;
+       spintime=0;
+       gathermtime=0;
+       splicetime=0;
+       nosplicetime=0;
+       comms_bytes=0;
+ #endif
        _npoints = npoints;
        _grid    = grid;
        _directions = directions;
@@ -645,7 +623,6 @@
        template<class compressor>
        void HaloExchange(const Lattice<vobj> &source,compressor &compress) 
        {
-	 calls++;
 	 Mergers.resize(0);
          Packets.resize(0);
          HaloGather(source,compress);

lib/Tensors.h

@@ -30,22 +30,22 @@ Author: neo <cossu@post.kek.jp>
 #ifndef GRID_MATH_H
 #define GRID_MATH_H
 
-#include <Grid/tensors/Tensor_traits.h>
+#include <tensors/Tensor_traits.h>
-#include <Grid/tensors/Tensor_class.h>
+#include <tensors/Tensor_class.h>
-#include <Grid/tensors/Tensor_arith.h>
+#include <tensors/Tensor_arith.h>
-#include <Grid/tensors/Tensor_inner.h>
+#include <tensors/Tensor_inner.h>
-#include <Grid/tensors/Tensor_outer.h>
+#include <tensors/Tensor_outer.h>
-#include <Grid/tensors/Tensor_transpose.h>
+#include <tensors/Tensor_transpose.h>
-#include <Grid/tensors/Tensor_trace.h>
+#include <tensors/Tensor_trace.h>
-#include <Grid/tensors/Tensor_index.h>
+#include <tensors/Tensor_index.h>
-#include <Grid/tensors/Tensor_Ta.h>
+#include <tensors/Tensor_Ta.h>
-#include <Grid/tensors/Tensor_determinant.h>
+#include <tensors/Tensor_determinant.h>
-#include <Grid/tensors/Tensor_exp.h>
+#include <tensors/Tensor_exp.h>
-//#include <Grid/tensors/Tensor_peek.h>
+//#include <tensors/Tensor_peek.h>
-//#include <Grid/tensors/Tensor_poke.h>
+//#include <tensors/Tensor_poke.h>
-#include <Grid/tensors/Tensor_reality.h>
+#include <tensors/Tensor_reality.h>
-#include <Grid/tensors/Tensor_unary.h>
+#include <tensors/Tensor_unary.h>
-#include <Grid/tensors/Tensor_extract_merge.h>
+#include <tensors/Tensor_extract_merge.h>
-#include <Grid/tensors/Tensor_logical.h>
+#include <tensors/Tensor_logical.h>
 
 #endif

lib/Threads.h

@@ -37,11 +37,7 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 
 #ifdef GRID_OMP
 #include <omp.h>
-#ifdef GRID_NUMA
+#define PARALLEL_FOR_LOOP _Pragma("omp parallel for ")
-#define PARALLEL_FOR_LOOP _Pragma("omp parallel for schedule(static)")
-#else
-#define PARALLEL_FOR_LOOP _Pragma("omp parallel for schedule(runtime)")
-#endif
 #define PARALLEL_NESTED_LOOP2 _Pragma("omp parallel for collapse(2)")
 #else
 #define PARALLEL_FOR_LOOP 

lib/algorithms/CoarsenedMatrix.h

@@ -31,6 +31,7 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 #ifndef  GRID_ALGORITHM_COARSENED_MATRIX_H
 #define  GRID_ALGORITHM_COARSENED_MATRIX_H
 
+#include <Grid.h>
 
 namespace Grid {
 

lib/algorithms/SparseMatrix.h

@@ -28,6 +28,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef  GRID_ALGORITHM_SPARSE_MATRIX_H
 #define  GRID_ALGORITHM_SPARSE_MATRIX_H
 
+#include <Grid.h>
 
 namespace Grid {
 

lib/algorithms/approx/Chebyshev.h

@@ -29,7 +29,8 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 #ifndef GRID_CHEBYSHEV_H
 #define GRID_CHEBYSHEV_H
 
-#include <Grid/algorithms/LinearOperator.h>
+#include<Grid.h>
+#include<algorithms/LinearOperator.h>
 
 namespace Grid {
 

lib/algorithms/approx/Remez.h

@@ -18,10 +18,10 @@
 #include <stddef.h>
 #include <Config.h>
 
-#ifdef HAVE_LIBGMP
+#ifdef HAVE_GMP_H
-#include "bigfloat.h"
+#include <algorithms/approx/bigfloat.h>
 #else
-#include "bigfloat_double.h"
+#include <algorithms/approx/bigfloat_double.h>
 #endif
 
 #define JMAX 10000 //Maximum number of iterations of Newton's approximation

lib/algorithms/iterative/ConjugateGradient.h

@@ -24,8 +24,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef GRID_CONJUGATE_GRADIENT_H
@@ -41,17 +40,14 @@ namespace Grid {
   template<class Field> 
     class ConjugateGradient : public OperatorFunction<Field> {
 public:                                                
-  bool ErrorOnNoConverge;  // throw an assert when the CG fails to converge.
-                           // Defaults true.
     RealD   Tolerance;
     Integer MaxIterations;
-  ConjugateGradient(RealD tol, Integer maxit, bool err_on_no_conv = true)
+    ConjugateGradient(RealD tol,Integer maxit) : Tolerance(tol), MaxIterations(maxit) { 
-      : Tolerance(tol),
+    };
-        MaxIterations(maxit),
+
-        ErrorOnNoConverge(err_on_no_conv){};
+
+    void operator() (LinearOperatorBase<Field> &Linop,const Field &src, Field &psi){
 
-  void operator()(LinearOperatorBase<Field> &Linop, const Field &src,
-                  Field &psi) {
       psi.checkerboard = src.checkerboard;
       conformable(psi,src);
 
@@ -65,10 +61,8 @@ class ConjugateGradient : public OperatorFunction<Field> {
       RealD guess = norm2(psi);
       assert(std::isnan(guess)==0);
 
-    
       Linop.HermOpAndNorm(psi,mmp,d,b);
       
-
       r= src-mmp;
       p= r;
       
@@ -76,18 +70,12 @@ class ConjugateGradient : public OperatorFunction<Field> {
       cp =a;
       ssq=norm2(src);
 
-    std::cout << GridLogIterative << std::setprecision(4)
+      std::cout<<GridLogIterative <<std::setprecision(4)<< "ConjugateGradient: guess "<<guess<<std::endl;
-              << "ConjugateGradient: guess " << guess << std::endl;
+      std::cout<<GridLogIterative <<std::setprecision(4)<< "ConjugateGradient:   src "<<ssq  <<std::endl;
-    std::cout << GridLogIterative << std::setprecision(4)
+      std::cout<<GridLogIterative <<std::setprecision(4)<< "ConjugateGradient:    mp "<<d    <<std::endl;
-              << "ConjugateGradient:   src " << ssq << std::endl;
+      std::cout<<GridLogIterative <<std::setprecision(4)<< "ConjugateGradient:   mmp "<<b    <<std::endl;
-    std::cout << GridLogIterative << std::setprecision(4)
+      std::cout<<GridLogIterative <<std::setprecision(4)<< "ConjugateGradient:  cp,r "<<cp   <<std::endl;
-              << "ConjugateGradient:    mp " << d << std::endl;
+      std::cout<<GridLogIterative <<std::setprecision(4)<< "ConjugateGradient:     p "<<a    <<std::endl;
-    std::cout << GridLogIterative << std::setprecision(4)
-              << "ConjugateGradient:   mmp " << b << std::endl;
-    std::cout << GridLogIterative << std::setprecision(4)
-              << "ConjugateGradient:  cp,r " << cp << std::endl;
-    std::cout << GridLogIterative << std::setprecision(4)
-              << "ConjugateGradient:     p " << a << std::endl;
 
       RealD rsq =  Tolerance* Tolerance*ssq;
       
@@ -96,9 +84,7 @@ class ConjugateGradient : public OperatorFunction<Field> {
 	return;
       }
       
-    std::cout << GridLogIterative << std::setprecision(4)
+      std::cout<<GridLogIterative << std::setprecision(4)<< "ConjugateGradient: k=0 residual "<<cp<<" target "<<rsq<<std::endl;
-              << "ConjugateGradient: k=0 residual " << cp << " target " << rsq
-              << std::endl;
 
       GridStopWatch LinalgTimer;
       GridStopWatch MatrixTimer;
@@ -107,6 +93,7 @@ class ConjugateGradient : public OperatorFunction<Field> {
       SolverTimer.Start();
       int k;
       for (k=1;k<=MaxIterations;k++){
+	
 	c=cp;
 
 	MatrixTimer.Start();
@@ -128,11 +115,11 @@ class ConjugateGradient : public OperatorFunction<Field> {
 	p  = p*b+r;
 	  
 	LinalgTimer.Stop();
-      std::cout << GridLogIterative << "ConjugateGradient: Iteration " << k
+	std::cout<<GridLogIterative<<"ConjugateGradient: Iteration " <<k<<" residual "<<cp<< " target "<< rsq<<std::endl;
-                << " residual " << cp << " target " << rsq << std::endl;
 	
 	// Stopping condition
 	if ( cp <= rsq ) { 
+	  
 	  SolverTimer.Stop();
 	  Linop.HermOpAndNorm(psi,mmp,d,qq);
 	  p=mmp-src;
@@ -143,25 +130,20 @@ class ConjugateGradient : public OperatorFunction<Field> {
 	  RealD resnorm = sqrt(norm2(p));
 	  RealD true_residual = resnorm/srcnorm;
 
-        std::cout << GridLogMessage
+	  std::cout<<GridLogMessage<<"ConjugateGradient: Converged on iteration " <<k
-                  << "ConjugateGradient: Converged on iteration " << k << std::endl;
+		   <<" computed residual "<<sqrt(cp/ssq)
-        std::cout << GridLogMessage << "Computed residual " << sqrt(cp / ssq)
+		   <<" true residual "    <<true_residual
-                  << " true residual " << true_residual << " target "
+		   <<" target "<<Tolerance<<std::endl;
-                  << Tolerance << std::endl;
+	  std::cout<<GridLogMessage<<"Time elapsed: Total "<< SolverTimer.Elapsed() << " Matrix  "<<MatrixTimer.Elapsed() << " Linalg "<<LinalgTimer.Elapsed();
-        std::cout << GridLogMessage << "Time elapsed: Iterations "
-                  << SolverTimer.Elapsed() << " Matrix  "
-                  << MatrixTimer.Elapsed() << " Linalg "
-                  << LinalgTimer.Elapsed();
 	  std::cout<<std::endl;
 	  
-        if (ErrorOnNoConverge) assert(true_residual / Tolerance < 1000.0);
+	  assert(true_residual/Tolerance < 1000.0);
 
 	  return;
 	}
       }
-    std::cout << GridLogMessage << "ConjugateGradient did NOT converge"
+      std::cout<<GridLogMessage<<"ConjugateGradient did NOT converge"<<std::endl;
-              << std::endl;
+      assert(0);
-    if (ErrorOnNoConverge) assert(0);
     }
   };
 }

lib/algorithms/iterative/ConjugateGradientMixedPrec.h

@@ -1,142 +0,0 @@
-    /*************************************************************************************
-
-    Grid physics library, www.github.com/paboyle/Grid 
-
-    Source file: ./lib/algorithms/iterative/ConjugateGradientMixedPrec.h
-
-    Copyright (C) 2015
-
-Author: Christopher Kelly <ckelly@phys.columbia.edu>
-
-    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_CONJUGATE_GRADIENT_MIXED_PREC_H
-#define GRID_CONJUGATE_GRADIENT_MIXED_PREC_H
-
-namespace Grid {
-
-  //Mixed precision restarted defect correction CG
-  template<class FieldD,class FieldF, typename std::enable_if< getPrecision<FieldD>::value == 2, int>::type = 0,typename std::enable_if< getPrecision<FieldF>::value == 1, int>::type = 0> 
-  class MixedPrecisionConjugateGradient : public LinearFunction<FieldD> {
-  public:                                                
-    RealD   Tolerance;
-    Integer MaxInnerIterations;
-    Integer MaxOuterIterations;
-    GridBase* SinglePrecGrid; //Grid for single-precision fields
-    RealD OuterLoopNormMult; //Stop the outer loop and move to a final double prec solve when the residual is OuterLoopNormMult * Tolerance
-    LinearOperatorBase<FieldF> &Linop_f;
-    LinearOperatorBase<FieldD> &Linop_d;
-
-    //Option to speed up *inner single precision* solves using a LinearFunction that produces a guess
-    LinearFunction<FieldF> *guesser;
-    
-    MixedPrecisionConjugateGradient(RealD tol, Integer maxinnerit, Integer maxouterit, GridBase* _sp_grid, LinearOperatorBase<FieldF> &_Linop_f, LinearOperatorBase<FieldD> &_Linop_d) :
-      Linop_f(_Linop_f), Linop_d(_Linop_d),
-      Tolerance(tol), MaxInnerIterations(maxinnerit), MaxOuterIterations(maxouterit), SinglePrecGrid(_sp_grid),
-      OuterLoopNormMult(100.), guesser(NULL){ };
-
-    void useGuesser(LinearFunction<FieldF> &g){
-      guesser = &g;
-    }
-  
-    void operator() (const FieldD &src_d_in, FieldD &sol_d){
-      GridStopWatch TotalTimer;
-      TotalTimer.Start();
-    
-      int cb = src_d_in.checkerboard;
-      sol_d.checkerboard = cb;
-    
-      RealD src_norm = norm2(src_d_in);
-      RealD stop = src_norm * Tolerance*Tolerance;
-
-      GridBase* DoublePrecGrid = src_d_in._grid;
-      FieldD tmp_d(DoublePrecGrid);
-      tmp_d.checkerboard = cb;
-    
-      FieldD tmp2_d(DoublePrecGrid);
-      tmp2_d.checkerboard = cb;
-    
-      FieldD src_d(DoublePrecGrid);
-      src_d = src_d_in; //source for next inner iteration, computed from residual during operation
-    
-      RealD inner_tol = Tolerance;
-    
-      FieldF src_f(SinglePrecGrid);
-      src_f.checkerboard = cb;
-    
-      FieldF sol_f(SinglePrecGrid);
-      sol_f.checkerboard = cb;
-    
-      ConjugateGradient<FieldF> CG_f(inner_tol, MaxInnerIterations);
-      CG_f.ErrorOnNoConverge = false;
-
-      GridStopWatch InnerCGtimer;
-
-      GridStopWatch PrecChangeTimer;
-    
-      for(Integer outer_iter = 0; outer_iter < MaxOuterIterations; outer_iter++){
-	//Compute double precision rsd and also new RHS vector.
-	Linop_d.HermOp(sol_d, tmp_d);
-	RealD norm = axpy_norm(src_d, -1., tmp_d, src_d_in); //src_d is residual vector
-      
-	std::cout<<GridLogMessage<<"MixedPrecisionConjugateGradient: Outer iteration " <<outer_iter<<" residual "<< norm<< " target "<< stop<<std::endl;
-
-	if(norm < OuterLoopNormMult * stop){
-	  std::cout<<GridLogMessage<<"MixedPrecisionConjugateGradient: Outer iteration converged on iteration " <<outer_iter <<std::endl;
-	  break;
-	}
-	while(norm * inner_tol * inner_tol < stop) inner_tol *= 2;  // inner_tol = sqrt(stop/norm) ??
-
-	PrecChangeTimer.Start();
-	precisionChange(src_f, src_d);
-	PrecChangeTimer.Stop();
-      
-	zeroit(sol_f);
-
-	//Optionally improve inner solver guess (eg using known eigenvectors)
-	if(guesser != NULL)
-	  (*guesser)(src_f, sol_f);
-
-	//Inner CG
-	CG_f.Tolerance = inner_tol;
-	InnerCGtimer.Start();
-	CG_f(Linop_f, src_f, sol_f);
-	InnerCGtimer.Stop();
-      
-	//Convert sol back to double and add to double prec solution
-	PrecChangeTimer.Start();
-	precisionChange(tmp_d, sol_f);
-	PrecChangeTimer.Stop();
-      
-	axpy(sol_d, 1.0, tmp_d, sol_d);
-      }
-    
-      //Final trial CG
-      std::cout<<GridLogMessage<<"MixedPrecisionConjugateGradient: Starting final patch-up double-precision solve"<<std::endl;
-    
-      ConjugateGradient<FieldD> CG_d(Tolerance, MaxInnerIterations);
-      CG_d(Linop_d, src_d_in, sol_d);
-
-      TotalTimer.Stop();
-      std::cout<<GridLogMessage<<"MixedPrecisionConjugateGradient: Total " << TotalTimer.Elapsed() << " Precision change " << PrecChangeTimer.Elapsed() << " Inner CG total " << InnerCGtimer.Elapsed() << std::endl;
-    }
-  };
-
-}
-
-#endif

lib/algorithms/iterative/DenseMatrix.h

@@ -130,8 +130,8 @@ DenseMatrix<T> GetSubMtx(DenseMatrix<T> &A,int row_st, int row_end, int col_st,
 
 }
 
-#include "Householder.h"
+#include <algorithms/iterative/Householder.h>
-#include "Francis.h"
+#include <algorithms/iterative/Francis.h>
 
 #endif
 

lib/algorithms/iterative/ImplicitlyRestartedLanczos.h

@@ -33,8 +33,8 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 #ifdef USE_LAPACK
 #include <lapacke.h>
 #endif
-#include "DenseMatrix.h"
+#include <algorithms/iterative/DenseMatrix.h>
-#include "EigenSort.h"
+#include <algorithms/iterative/EigenSort.h>
 
 namespace Grid {
 

lib/cartesian/Cartesian_base.h

@@ -29,6 +29,7 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 #ifndef GRID_CARTESIAN_BASE_H
 #define GRID_CARTESIAN_BASE_H
 
+#include <Grid.h>
 
 namespace Grid{
 
@@ -81,8 +82,11 @@ public:
     virtual int CheckerBoardDestination(int source_cb,int shift,int dim)=0;
     virtual int CheckerBoardShift(int source_cb,int dim,int shift,int osite)=0;
     virtual int CheckerBoardShiftForCB(int source_cb,int dim,int shift,int cb)=0;
-    virtual int CheckerBoardFromOindex (int Oindex)=0;
+    int  CheckerBoardFromOindex (int Oindex){
-    virtual int CheckerBoardFromOindexTable (int Oindex)=0;
+      std::vector<int> ocoor;
+      oCoorFromOindex(ocoor,Oindex); 
+      return CheckerBoard(ocoor);
+    }
 
     //////////////////////////////////////////////////////////////////////////////////////////////
     // Local layout calculations
@@ -103,12 +107,6 @@ public:
         for(int d=0;d<_ndimension;d++) idx+=_ostride[d]*(coor[d]%_rdimensions[d]);
         return idx;
     }
-    virtual int iIndex(std::vector<int> &lcoor)
-    {
-        int idx=0;
-        for(int d=0;d<_ndimension;d++) idx+=_istride[d]*(lcoor[d]/_rdimensions[d]);
-        return idx;
-    }
     inline int oIndexReduced(std::vector<int> &ocoor)
     {
       int idx=0; 
@@ -125,6 +123,12 @@ public:
     //////////////////////////////////////////////////////////
     // SIMD lane addressing
     //////////////////////////////////////////////////////////
+    inline int iIndex(std::vector<int> &lcoor)
+    {
+        int idx=0;
+        for(int d=0;d<_ndimension;d++) idx+=_istride[d]*(lcoor[d]/_rdimensions[d]);
+        return idx;
+    }
     inline void iCoorFromIindex(std::vector<int> &coor,int lane)
     {
       Lexicographic::CoorFromIndex(coor,lane,_simd_layout);

lib/cartesian/Cartesian_full.h

@@ -39,13 +39,6 @@ class GridCartesian: public GridBase {
 
 public:
 
-    virtual int  CheckerBoardFromOindexTable (int Oindex) {
-      return 0;
-    }
-    virtual int  CheckerBoardFromOindex (int Oindex)
-    {
-      return 0;
-    }
     virtual int CheckerBoarded(int dim){
       return 0;
     }

lib/cartesian/Cartesian_red_black.h

@@ -37,13 +37,18 @@ namespace Grid {
     static const int Even   =CbRed;
     static const int Odd    =CbBlack;
 
+    // Perhaps these are misplaced and 
+    // should be in sparse matrix.
+    // Also should make these a named enum type
+    static const int DaggerNo=0;
+    static const int DaggerYes=1;
+
 // Specialise this for red black grids storing half the data like a chess board.
 class GridRedBlackCartesian : public GridBase
 {
 public:
     std::vector<int> _checker_dim_mask;
     int              _checker_dim;
-    std::vector<int> _checker_board;
 
     virtual int CheckerBoarded(int dim){
       if( dim==_checker_dim) return 1;
@@ -73,20 +78,12 @@ public:
       // or by looping over x,y,z and multiply rather than computing checkerboard.
 	  
       if ( (source_cb+ocb)&1 ) {
+
 	return (shift)/2;
       } else {
 	return (shift+1)/2;
       }
     }
-    virtual int  CheckerBoardFromOindexTable (int Oindex) {
-      return _checker_board[Oindex];
-    }
-    virtual int  CheckerBoardFromOindex (int Oindex)
-    {
-      std::vector<int> ocoor;
-      oCoorFromOindex(ocoor,Oindex);
-      return CheckerBoard(ocoor);
-    }
     virtual int CheckerBoardShift(int source_cb,int dim,int shift,int osite){
 
       if(dim != _checker_dim) return shift;
@@ -178,7 +175,7 @@ public:
 	// all elements of a simd vector must have same checkerboard.
 	// If Ls vectorised, this must still be the case; e.g. dwf rb5d
 	if ( _simd_layout[d]>1 ) {
-	  if ( checker_dim_mask[d] ) { 
+	  if ( d != _checker_dim ) { 
 	    assert( (_rdimensions[d]&0x1) == 0 );
 	  }
 	}
@@ -194,8 +191,6 @@ public:
 	  _ostride[d] = _ostride[d-1]*_rdimensions[d-1];
 	  _istride[d] = _istride[d-1]*_simd_layout[d-1];
 	}
-
-
       }
             
       ////////////////////////////////////////////////////////////////////////////////////////////
@@ -217,18 +212,6 @@ public:
 	block = block*_rdimensions[d];
       }
       
-      ////////////////////////////////////////////////
-      // Create a checkerboard lookup table
-      ////////////////////////////////////////////////
-      int rvol = 1;
-      for(int d=0;d<_ndimension;d++){
-	rvol=rvol * _rdimensions[d];
-      }
-      _checker_board.resize(rvol);
-      for(int osite=0;osite<_osites;osite++){
-	_checker_board[osite] = CheckerBoardFromOindex (osite);
-      }
-      
     };
 protected:
     virtual int oIndex(std::vector<int> &coor)
@@ -244,18 +227,6 @@ protected:
         return idx;
     };
         
-    virtual int iIndex(std::vector<int> &lcoor)
-    {
-        int idx=0;
-        for(int d=0;d<_ndimension;d++) {
-	  if( d==_checker_dim ) {
-	    idx+=_istride[d]*(lcoor[d]/(2*_rdimensions[d]));
-	  } else { 
-	    idx+=_istride[d]*(lcoor[d]/_rdimensions[d]);
-	  }
-	}
-        return idx;
-    }
 };
 
 }

lib/cshift/Cshift_common.h

@@ -1,4 +1,3 @@
-
     /*************************************************************************************
 
     Grid physics library, www.github.com/paboyle/Grid 
@@ -57,7 +56,6 @@ Gather_plane_simple (const Lattice<vobj> &rhs,std::vector<cobj,alignedAllocator<
   
   int e1=rhs._grid->_slice_nblock[dimension];
   int e2=rhs._grid->_slice_block[dimension];
-
   int stride=rhs._grid->_slice_stride[dimension];
   if ( cbmask == 0x3 ) { 
 PARALLEL_NESTED_LOOP2
@@ -70,20 +68,15 @@ PARALLEL_NESTED_LOOP2
     }
   } else { 
      int bo=0;
-     std::vector<std::pair<int,int> > table;
      for(int n=0;n<e1;n++){
        for(int b=0;b<e2;b++){
 	 int o  = n*stride;
-	 int ocb=1<<rhs._grid->CheckerBoardFromOindexTable(o+b);
+	 int ocb=1<<rhs._grid->CheckerBoardFromOindex(o+b);// Could easily be a table lookup
 	 if ( ocb &cbmask ) {
-	   table.push_back(std::pair<int,int> (bo++,o+b));
+	   buffer[off+bo++]=compress(rhs._odata[so+o+b]);
 	 }
        }
      }
-PARALLEL_FOR_LOOP     
-     for(int i=0;i<table.size();i++){
-       buffer[off+table[i].first]=compress(rhs._odata[so+table[i].second]);
-     }
   }
 }
 

lib/fftw/fftw3.h

@@ -1,412 +0,0 @@
-/*
- * Copyright (c) 2003, 2007-14 Matteo Frigo
- * Copyright (c) 2003, 2007-14 Massachusetts Institute of Technology
- *
- * The following statement of license applies *only* to this header file,
- * and *not* to the other files distributed with FFTW or derived therefrom:
- * 
- * Redistribution and use in source and binary forms, with or without
- * modification, are permitted provided that the following conditions
- * are met:
- *
- * 1. Redistributions of source code must retain the above copyright
- *    notice, this list of conditions and the following disclaimer.
- *
- * 2. Redistributions in binary form must reproduce the above copyright
- *    notice, this list of conditions and the following disclaimer in the
- *    documentation and/or other materials provided with the distribution.
- *
- * THIS SOFTWARE IS PROVIDED BY THE AUTHOR ``AS IS'' AND ANY EXPRESS
- * OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
- * WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
- * ARE DISCLAIMED. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY
- * DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
- * DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE
- * GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
- * INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
- * WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
- * NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
- * SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
- */
-
-/***************************** NOTE TO USERS *********************************
- *
- *                 THIS IS A HEADER FILE, NOT A MANUAL
- *
- *    If you want to know how to use FFTW, please read the manual,
- *    online at http://www.fftw.org/doc/ and also included with FFTW.
- *    For a quick start, see the manual's tutorial section.
- *
- *   (Reading header files to learn how to use a library is a habit
- *    stemming from code lacking a proper manual.  Arguably, it's a
- *    *bad* habit in most cases, because header files can contain
- *    interfaces that are not part of the public, stable API.)
- *
- ****************************************************************************/
-
-#ifndef FFTW3_H
-#define FFTW3_H
-
-#include <stdio.h>
-
-#ifdef __cplusplus
-extern "C"
-{
-#endif /* __cplusplus */
-
-/* If <complex.h> is included, use the C99 complex type.  Otherwise
-   define a type bit-compatible with C99 complex */
-#if !defined(FFTW_NO_Complex) && defined(_Complex_I) && defined(complex) && defined(I)
-#  define FFTW_DEFINE_COMPLEX(R, C) typedef R _Complex C
-#else
-#  define FFTW_DEFINE_COMPLEX(R, C) typedef R C[2]
-#endif
-
-#define FFTW_CONCAT(prefix, name) prefix ## name
-#define FFTW_MANGLE_DOUBLE(name) FFTW_CONCAT(fftw_, name)
-#define FFTW_MANGLE_FLOAT(name) FFTW_CONCAT(fftwf_, name)
-#define FFTW_MANGLE_LONG_DOUBLE(name) FFTW_CONCAT(fftwl_, name)
-#define FFTW_MANGLE_QUAD(name) FFTW_CONCAT(fftwq_, name)
-
-/* IMPORTANT: for Windows compilers, you should add a line
-        #define FFTW_DLL
-   here and in kernel/ifftw.h if you are compiling/using FFTW as a
-   DLL, in order to do the proper importing/exporting, or
-   alternatively compile with -DFFTW_DLL or the equivalent
-   command-line flag.  This is not necessary under MinGW/Cygwin, where
-   libtool does the imports/exports automatically. */
-#if defined(FFTW_DLL) && (defined(_WIN32) || defined(__WIN32__))
-   /* annoying Windows syntax for shared-library declarations */
-#  if defined(COMPILING_FFTW) /* defined in api.h when compiling FFTW */
-#    define FFTW_EXTERN extern __declspec(dllexport) 
-#  else /* user is calling FFTW; import symbol */
-#    define FFTW_EXTERN extern __declspec(dllimport) 
-#  endif
-#else
-#  define FFTW_EXTERN extern
-#endif
-
-enum fftw_r2r_kind_do_not_use_me {
-     FFTW_R2HC=0, FFTW_HC2R=1, FFTW_DHT=2,
-     FFTW_REDFT00=3, FFTW_REDFT01=4, FFTW_REDFT10=5, FFTW_REDFT11=6,
-     FFTW_RODFT00=7, FFTW_RODFT01=8, FFTW_RODFT10=9, FFTW_RODFT11=10
-};
-
-struct fftw_iodim_do_not_use_me {
-     int n;                     /* dimension size */
-     int is;			/* input stride */
-     int os;			/* output stride */
-};
-
-#include <stddef.h> /* for ptrdiff_t */
-struct fftw_iodim64_do_not_use_me {
-     ptrdiff_t n;                     /* dimension size */
-     ptrdiff_t is;			/* input stride */
-     ptrdiff_t os;			/* output stride */
-};
-
-typedef void (*fftw_write_char_func_do_not_use_me)(char c, void *);
-typedef int (*fftw_read_char_func_do_not_use_me)(void *);
-
-/*
-  huge second-order macro that defines prototypes for all API
-  functions.  We expand this macro for each supported precision
- 
-  X: name-mangling macro
-  R: real data type
-  C: complex data type
-*/
-
-#define FFTW_DEFINE_API(X, R, C)					   \
-									   \
-FFTW_DEFINE_COMPLEX(R, C);						   \
-									   \
-typedef struct X(plan_s) *X(plan);					   \
-									   \
-typedef struct fftw_iodim_do_not_use_me X(iodim);			   \
-typedef struct fftw_iodim64_do_not_use_me X(iodim64);			   \
-									   \
-typedef enum fftw_r2r_kind_do_not_use_me X(r2r_kind);			   \
-									   \
-typedef fftw_write_char_func_do_not_use_me X(write_char_func);		   \
-typedef fftw_read_char_func_do_not_use_me X(read_char_func);		   \
-									   \
-FFTW_EXTERN void X(execute)(const X(plan) p);				   \
-									   \
-FFTW_EXTERN X(plan) X(plan_dft)(int rank, const int *n,			   \
-		    C *in, C *out, int sign, unsigned flags);		   \
-									   \
-FFTW_EXTERN X(plan) X(plan_dft_1d)(int n, C *in, C *out, int sign,	   \
-		       unsigned flags);					   \
-FFTW_EXTERN X(plan) X(plan_dft_2d)(int n0, int n1,			   \
-		       C *in, C *out, int sign, unsigned flags);	   \
-FFTW_EXTERN X(plan) X(plan_dft_3d)(int n0, int n1, int n2,		   \
-		       C *in, C *out, int sign, unsigned flags);	   \
-									   \
-FFTW_EXTERN X(plan) X(plan_many_dft)(int rank, const int *n,		   \
-                         int howmany,					   \
-                         C *in, const int *inembed,			   \
-                         int istride, int idist,			   \
-                         C *out, const int *onembed,			   \
-                         int ostride, int odist,			   \
-                         int sign, unsigned flags);			   \
-									   \
-FFTW_EXTERN X(plan) X(plan_guru_dft)(int rank, const X(iodim) *dims,	   \
-			 int howmany_rank,				   \
-			 const X(iodim) *howmany_dims,			   \
-			 C *in, C *out,					   \
-			 int sign, unsigned flags);			   \
-FFTW_EXTERN X(plan) X(plan_guru_split_dft)(int rank, const X(iodim) *dims, \
-			 int howmany_rank,				   \
-			 const X(iodim) *howmany_dims,			   \
-			 R *ri, R *ii, R *ro, R *io,			   \
-			 unsigned flags);				   \
-									   \
-FFTW_EXTERN X(plan) X(plan_guru64_dft)(int rank,			   \
-                         const X(iodim64) *dims,			   \
-			 int howmany_rank,				   \
-			 const X(iodim64) *howmany_dims,		   \
-			 C *in, C *out,					   \
-			 int sign, unsigned flags);			   \
-FFTW_EXTERN X(plan) X(plan_guru64_split_dft)(int rank,			   \
-                         const X(iodim64) *dims,			   \
-			 int howmany_rank,				   \
-			 const X(iodim64) *howmany_dims,		   \
-			 R *ri, R *ii, R *ro, R *io,			   \
-			 unsigned flags);				   \
-									   \
-FFTW_EXTERN void X(execute_dft)(const X(plan) p, C *in, C *out);	   \
-FFTW_EXTERN void X(execute_split_dft)(const X(plan) p, R *ri, R *ii,	   \
-                                      R *ro, R *io);			   \
-									   \
-FFTW_EXTERN X(plan) X(plan_many_dft_r2c)(int rank, const int *n,	   \
-                             int howmany,				   \
-                             R *in, const int *inembed,			   \
-                             int istride, int idist,			   \
-                             C *out, const int *onembed,		   \
-                             int ostride, int odist,			   \
-                             unsigned flags);				   \
-									   \
-FFTW_EXTERN X(plan) X(plan_dft_r2c)(int rank, const int *n,		   \
-                        R *in, C *out, unsigned flags);			   \
-									   \
-FFTW_EXTERN X(plan) X(plan_dft_r2c_1d)(int n,R *in,C *out,unsigned flags); \
-FFTW_EXTERN X(plan) X(plan_dft_r2c_2d)(int n0, int n1,			   \
-			   R *in, C *out, unsigned flags);		   \
-FFTW_EXTERN X(plan) X(plan_dft_r2c_3d)(int n0, int n1,			   \
-			   int n2,					   \
-			   R *in, C *out, unsigned flags);		   \
-									   \
-									   \
-FFTW_EXTERN X(plan) X(plan_many_dft_c2r)(int rank, const int *n,	   \
-			     int howmany,				   \
-			     C *in, const int *inembed,			   \
-			     int istride, int idist,			   \
-			     R *out, const int *onembed,		   \
-			     int ostride, int odist,			   \
-			     unsigned flags);				   \
-									   \
-FFTW_EXTERN X(plan) X(plan_dft_c2r)(int rank, const int *n,		   \
-                        C *in, R *out, unsigned flags);			   \
-									   \
-FFTW_EXTERN X(plan) X(plan_dft_c2r_1d)(int n,C *in,R *out,unsigned flags); \
-FFTW_EXTERN X(plan) X(plan_dft_c2r_2d)(int n0, int n1,			   \
-			   C *in, R *out, unsigned flags);		   \
-FFTW_EXTERN X(plan) X(plan_dft_c2r_3d)(int n0, int n1,			   \
-			   int n2,					   \
-			   C *in, R *out, unsigned flags);		   \
-									   \
-FFTW_EXTERN X(plan) X(plan_guru_dft_r2c)(int rank, const X(iodim) *dims,   \
-			     int howmany_rank,				   \
-			     const X(iodim) *howmany_dims,		   \
-			     R *in, C *out,				   \
-			     unsigned flags);				   \
-FFTW_EXTERN X(plan) X(plan_guru_dft_c2r)(int rank, const X(iodim) *dims,   \
-			     int howmany_rank,				   \
-			     const X(iodim) *howmany_dims,		   \
-			     C *in, R *out,				   \
-			     unsigned flags);				   \
-									   \
-FFTW_EXTERN X(plan) X(plan_guru_split_dft_r2c)(				   \
-                             int rank, const X(iodim) *dims,		   \
-			     int howmany_rank,				   \
-			     const X(iodim) *howmany_dims,		   \
-			     R *in, R *ro, R *io,			   \
-			     unsigned flags);				   \
-FFTW_EXTERN X(plan) X(plan_guru_split_dft_c2r)(				   \
-                             int rank, const X(iodim) *dims,		   \
-			     int howmany_rank,				   \
-			     const X(iodim) *howmany_dims,		   \
-			     R *ri, R *ii, R *out,			   \
-			     unsigned flags);				   \
-									   \
-FFTW_EXTERN X(plan) X(plan_guru64_dft_r2c)(int rank,			   \
-                             const X(iodim64) *dims,			   \
-			     int howmany_rank,				   \
-			     const X(iodim64) *howmany_dims,		   \
-			     R *in, C *out,				   \
-			     unsigned flags);				   \
-FFTW_EXTERN X(plan) X(plan_guru64_dft_c2r)(int rank,			   \
-                             const X(iodim64) *dims,			   \
-			     int howmany_rank,				   \
-			     const X(iodim64) *howmany_dims,		   \
-			     C *in, R *out,				   \
-			     unsigned flags);				   \
-									   \
-FFTW_EXTERN X(plan) X(plan_guru64_split_dft_r2c)(			   \
-                             int rank, const X(iodim64) *dims,		   \
-			     int howmany_rank,				   \
-			     const X(iodim64) *howmany_dims,		   \
-			     R *in, R *ro, R *io,			   \
-			     unsigned flags);				   \
-FFTW_EXTERN X(plan) X(plan_guru64_split_dft_c2r)(			   \
-                             int rank, const X(iodim64) *dims,		   \
-			     int howmany_rank,				   \
-			     const X(iodim64) *howmany_dims,		   \
-			     R *ri, R *ii, R *out,			   \
-			     unsigned flags);				   \
-									   \
-FFTW_EXTERN void X(execute_dft_r2c)(const X(plan) p, R *in, C *out);	   \
-FFTW_EXTERN void X(execute_dft_c2r)(const X(plan) p, C *in, R *out);	   \
-									   \
-FFTW_EXTERN void X(execute_split_dft_r2c)(const X(plan) p,		   \
-                                          R *in, R *ro, R *io);		   \
-FFTW_EXTERN void X(execute_split_dft_c2r)(const X(plan) p,		   \
-                                          R *ri, R *ii, R *out);	   \
-									   \
-FFTW_EXTERN X(plan) X(plan_many_r2r)(int rank, const int *n,		   \
-                         int howmany,					   \
-                         R *in, const int *inembed,			   \
-                         int istride, int idist,			   \
-                         R *out, const int *onembed,			   \
-                         int ostride, int odist,			   \
-                         const X(r2r_kind) *kind, unsigned flags);	   \
-									   \
-FFTW_EXTERN X(plan) X(plan_r2r)(int rank, const int *n, R *in, R *out,	   \
-                    const X(r2r_kind) *kind, unsigned flags);		   \
-									   \
-FFTW_EXTERN X(plan) X(plan_r2r_1d)(int n, R *in, R *out,		   \
-                       X(r2r_kind) kind, unsigned flags);		   \
-FFTW_EXTERN X(plan) X(plan_r2r_2d)(int n0, int n1, R *in, R *out,	   \
-                       X(r2r_kind) kind0, X(r2r_kind) kind1,		   \
-                       unsigned flags);					   \
-FFTW_EXTERN X(plan) X(plan_r2r_3d)(int n0, int n1, int n2,		   \
-                       R *in, R *out, X(r2r_kind) kind0,		   \
-                       X(r2r_kind) kind1, X(r2r_kind) kind2,		   \
-                       unsigned flags);					   \
-									   \
-FFTW_EXTERN X(plan) X(plan_guru_r2r)(int rank, const X(iodim) *dims,	   \
-                         int howmany_rank,				   \
-                         const X(iodim) *howmany_dims,			   \
-                         R *in, R *out,					   \
-                         const X(r2r_kind) *kind, unsigned flags);	   \
-									   \
-FFTW_EXTERN X(plan) X(plan_guru64_r2r)(int rank, const X(iodim64) *dims,   \
-                         int howmany_rank,				   \
-                         const X(iodim64) *howmany_dims,		   \
-                         R *in, R *out,					   \
-                         const X(r2r_kind) *kind, unsigned flags);	   \
-									   \
-FFTW_EXTERN void X(execute_r2r)(const X(plan) p, R *in, R *out);	   \
-									   \
-FFTW_EXTERN void X(destroy_plan)(X(plan) p);				   \
-FFTW_EXTERN void X(forget_wisdom)(void);				   \
-FFTW_EXTERN void X(cleanup)(void);					   \
-									   \
-FFTW_EXTERN void X(set_timelimit)(double t);				   \
-									   \
-FFTW_EXTERN void X(plan_with_nthreads)(int nthreads);			   \
-FFTW_EXTERN int X(init_threads)(void);					   \
-FFTW_EXTERN void X(cleanup_threads)(void);				   \
-									   \
-FFTW_EXTERN int X(export_wisdom_to_filename)(const char *filename);	   \
-FFTW_EXTERN void X(export_wisdom_to_file)(FILE *output_file);		   \
-FFTW_EXTERN char *X(export_wisdom_to_string)(void);			   \
-FFTW_EXTERN void X(export_wisdom)(X(write_char_func) write_char,   	   \
-                                  void *data);				   \
-FFTW_EXTERN int X(import_system_wisdom)(void);				   \
-FFTW_EXTERN int X(import_wisdom_from_filename)(const char *filename);	   \
-FFTW_EXTERN int X(import_wisdom_from_file)(FILE *input_file);		   \
-FFTW_EXTERN int X(import_wisdom_from_string)(const char *input_string);	   \
-FFTW_EXTERN int X(import_wisdom)(X(read_char_func) read_char, void *data); \
-									   \
-FFTW_EXTERN void X(fprint_plan)(const X(plan) p, FILE *output_file);	   \
-FFTW_EXTERN void X(print_plan)(const X(plan) p);			   \
-FFTW_EXTERN char *X(sprint_plan)(const X(plan) p);			   \
-									   \
-FFTW_EXTERN void *X(malloc)(size_t n);					   \
-FFTW_EXTERN R *X(alloc_real)(size_t n);					   \
-FFTW_EXTERN C *X(alloc_complex)(size_t n);				   \
-FFTW_EXTERN void X(free)(void *p);					   \
-									   \
-FFTW_EXTERN void X(flops)(const X(plan) p,				   \
-                          double *add, double *mul, double *fmas);	   \
-FFTW_EXTERN double X(estimate_cost)(const X(plan) p);			   \
-FFTW_EXTERN double X(cost)(const X(plan) p);				   \
-									   \
-FFTW_EXTERN int X(alignment_of)(R *p);                                     \
-FFTW_EXTERN const char X(version)[];                                       \
-FFTW_EXTERN const char X(cc)[];						   \
-FFTW_EXTERN const char X(codelet_optim)[];
-
-
-/* end of FFTW_DEFINE_API macro */
-
-FFTW_DEFINE_API(FFTW_MANGLE_DOUBLE, double, fftw_complex)
-FFTW_DEFINE_API(FFTW_MANGLE_FLOAT, float, fftwf_complex)
-FFTW_DEFINE_API(FFTW_MANGLE_LONG_DOUBLE, long double, fftwl_complex)
-
-/* __float128 (quad precision) is a gcc extension on i386, x86_64, and ia64
-   for gcc >= 4.6 (compiled in FFTW with --enable-quad-precision) */
-#if (__GNUC__ > 4 || (__GNUC__ == 4 && __GNUC_MINOR__ >= 6)) \
- && !(defined(__ICC) || defined(__INTEL_COMPILER)) \
- && (defined(__i386__) || defined(__x86_64__) || defined(__ia64__))
-#  if !defined(FFTW_NO_Complex) && defined(_Complex_I) && defined(complex) && defined(I)
-/* note: __float128 is a typedef, which is not supported with the _Complex
-         keyword in gcc, so instead we use this ugly __attribute__ version.
-         However, we can't simply pass the __attribute__ version to
-         FFTW_DEFINE_API because the __attribute__ confuses gcc in pointer
-         types.  Hence redefining FFTW_DEFINE_COMPLEX.  Ugh. */
-#    undef FFTW_DEFINE_COMPLEX
-#    define FFTW_DEFINE_COMPLEX(R, C) typedef _Complex float __attribute__((mode(TC))) C
-#  endif
-FFTW_DEFINE_API(FFTW_MANGLE_QUAD, __float128, fftwq_complex)
-#endif
-
-#define FFTW_FORWARD (-1)
-#define FFTW_BACKWARD (+1)
-
-#define FFTW_NO_TIMELIMIT (-1.0)
-
-/* documented flags */
-#define FFTW_MEASURE (0U)
-#define FFTW_DESTROY_INPUT (1U << 0)
-#define FFTW_UNALIGNED (1U << 1)
-#define FFTW_CONSERVE_MEMORY (1U << 2)
-#define FFTW_EXHAUSTIVE (1U << 3) /* NO_EXHAUSTIVE is default */
-#define FFTW_PRESERVE_INPUT (1U << 4) /* cancels FFTW_DESTROY_INPUT */
-#define FFTW_PATIENT (1U << 5) /* IMPATIENT is default */
-#define FFTW_ESTIMATE (1U << 6)
-#define FFTW_WISDOM_ONLY (1U << 21)
-
-/* undocumented beyond-guru flags */
-#define FFTW_ESTIMATE_PATIENT (1U << 7)
-#define FFTW_BELIEVE_PCOST (1U << 8)
-#define FFTW_NO_DFT_R2HC (1U << 9)
-#define FFTW_NO_NONTHREADED (1U << 10)
-#define FFTW_NO_BUFFERING (1U << 11)
-#define FFTW_NO_INDIRECT_OP (1U << 12)
-#define FFTW_ALLOW_LARGE_GENERIC (1U << 13) /* NO_LARGE_GENERIC is default */
-#define FFTW_NO_RANK_SPLITS (1U << 14)
-#define FFTW_NO_VRANK_SPLITS (1U << 15)
-#define FFTW_NO_VRECURSE (1U << 16)
-#define FFTW_NO_SIMD (1U << 17)
-#define FFTW_NO_SLOW (1U << 18)
-#define FFTW_NO_FIXED_RADIX_LARGE_N (1U << 19)
-#define FFTW_ALLOW_PRUNING (1U << 20)
-
-#ifdef __cplusplus
-}  /* extern "C" */
-#endif /* __cplusplus */
-
-#endif /* FFTW3_H */

lib/lattice/Lattice_ET.h

@@ -24,17 +24,16 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef GRID_LATTICE_ET_H
 #define GRID_LATTICE_ET_H
 
 #include <iostream>
+#include <vector>
 #include <tuple>
 #include <typeinfo>
-#include <vector>
 
 namespace Grid {
 
@@ -42,8 +41,8 @@ namespace Grid {
   // Predicated where support
   ////////////////////////////////////////////////////
   template<class iobj,class vobj,class robj>
-inline vobj predicatedWhere(const iobj &predicate, const vobj &iftrue,
+    inline vobj predicatedWhere(const iobj &predicate,const vobj &iftrue,const robj &iffalse) {
-                            const robj &iffalse) {
+
     typename std::remove_const<vobj>::type ret;
 
     typedef typename vobj::scalar_object scalar_object;
@@ -76,69 +75,50 @@ inline vobj predicatedWhere(const iobj &predicate, const vobj &iftrue,
 // from tuple is hideous; C++14 introduces std::make_index_sequence for this
 ////////////////////////////////////////////
 
+
 //leaf eval of lattice ; should enable if protect using traits
 
-template <typename T>
+template <typename T> using is_lattice      = std::is_base_of<LatticeBase,T >;
-using is_lattice = std::is_base_of<LatticeBase, T>;
-
-template <typename T>
-using is_lattice_expr = std::is_base_of<LatticeExpressionBase, T>;
 
 template <typename T> using is_lattice_expr = std::is_base_of<LatticeExpressionBase,T >;
 
-//Specialization of getVectorType for lattices
-template<typename T>
-struct getVectorType<Lattice<T> >{
-  typedef typename Lattice<T>::vector_object type;
-};
- 
 template<class sobj>
 inline sobj eval(const unsigned int ss, const sobj &arg)
 {
   return arg;
 }
 template<class lobj>
-inline const lobj &eval(const unsigned int ss, const Lattice<lobj> &arg) {
+inline const lobj &eval(const unsigned int ss, const Lattice<lobj> &arg)
+{
     return arg._odata[ss];
 }
 
 // handle nodes in syntax tree
 template <typename Op, typename T1>
-auto inline eval(
+auto inline eval(const unsigned int ss, const LatticeUnaryExpression<Op,T1 > &expr) // eval one operand
-    const unsigned int ss,
+  -> decltype(expr.first.func(eval(ss,std::get<0>(expr.second))))
-    const LatticeUnaryExpression<Op, T1> &expr)  // eval one operand
+{
-    -> decltype(expr.first.func(eval(ss, std::get<0>(expr.second)))) {
   return expr.first.func(eval(ss,std::get<0>(expr.second)));
 }
 
 template <typename Op, typename T1, typename T2>
-auto inline eval(
+auto inline eval(const unsigned int ss, const LatticeBinaryExpression<Op,T1,T2> &expr) // eval two operands
-    const unsigned int ss,
+  -> decltype(expr.first.func(eval(ss,std::get<0>(expr.second)),eval(ss,std::get<1>(expr.second))))
-    const LatticeBinaryExpression<Op, T1, T2> &expr)  // eval two operands
+{
-    -> decltype(expr.first.func(eval(ss, std::get<0>(expr.second)),
+  return expr.first.func(eval(ss,std::get<0>(expr.second)),eval(ss,std::get<1>(expr.second)));
-                                eval(ss, std::get<1>(expr.second)))) {
-  return expr.first.func(eval(ss, std::get<0>(expr.second)),
-                         eval(ss, std::get<1>(expr.second)));
 }
 
 template <typename Op, typename T1, typename T2, typename T3>
-auto inline eval(const unsigned int ss,
+auto inline eval(const unsigned int ss, const LatticeTrinaryExpression<Op,T1,T2,T3 > &expr) // eval three operands
-                 const LatticeTrinaryExpression<Op, T1, T2, T3>
+  -> decltype(expr.first.func(eval(ss,std::get<0>(expr.second)),eval(ss,std::get<1>(expr.second)),eval(ss,std::get<2>(expr.second))))
-                     &expr)  // eval three operands
+{
-    -> decltype(expr.first.func(eval(ss, std::get<0>(expr.second)),
+  return expr.first.func(eval(ss,std::get<0>(expr.second)),eval(ss,std::get<1>(expr.second)),eval(ss,std::get<2>(expr.second)) );
-                                eval(ss, std::get<1>(expr.second)),
-                                eval(ss, std::get<2>(expr.second)))) {
-  return expr.first.func(eval(ss, std::get<0>(expr.second)),
-                         eval(ss, std::get<1>(expr.second)),
-                         eval(ss, std::get<2>(expr.second)));
 }
 
 //////////////////////////////////////////////////////////////////////////
-// Obtain the grid from an expression, ensuring conformable. This must follow a
+// Obtain the grid from an expression, ensuring conformable. This must follow a tree recursion
-// tree recursion
 //////////////////////////////////////////////////////////////////////////
-template <class T1,
+template<class T1, typename std::enable_if<is_lattice<T1>::value, T1>::type * =nullptr >
-          typename std::enable_if<is_lattice<T1>::value, T1>::type * = nullptr>
 inline void GridFromExpression(GridBase * &grid,const T1& lat)   // Lattice leaf
 {
   if ( grid ) {
@@ -146,37 +126,35 @@ inline void GridFromExpression(GridBase *&grid, const T1 &lat)  // Lattice leaf
   } 
   grid=lat._grid;
 }
-template <class T1,
+template<class T1,typename std::enable_if<!is_lattice<T1>::value, T1>::type * = nullptr >
-          typename std::enable_if<!is_lattice<T1>::value, T1>::type * = nullptr>
+inline void GridFromExpression(GridBase * &grid,const T1& notlat)   // non-lattice leaf
-inline void GridFromExpression(GridBase *&grid,
+{
-                               const T1 &notlat)  // non-lattice leaf
+}
-{}
 template <typename Op, typename T1>
-inline void GridFromExpression(GridBase *&grid,
+inline void GridFromExpression(GridBase * &grid,const LatticeUnaryExpression<Op,T1 > &expr)
-                               const LatticeUnaryExpression<Op, T1> &expr) {
+{
   GridFromExpression(grid,std::get<0>(expr.second));// recurse 
 }
 
 template <typename Op, typename T1, typename T2>
-inline void GridFromExpression(
+inline void GridFromExpression(GridBase * &grid,const LatticeBinaryExpression<Op,T1,T2> &expr) 
-    GridBase *&grid, const LatticeBinaryExpression<Op, T1, T2> &expr) {
+{
   GridFromExpression(grid,std::get<0>(expr.second));// recurse
   GridFromExpression(grid,std::get<1>(expr.second));
 }
 template <typename Op, typename T1, typename T2, typename T3>
-inline void GridFromExpression(
+inline void GridFromExpression( GridBase * &grid,const LatticeTrinaryExpression<Op,T1,T2,T3 > &expr) 
-    GridBase *&grid, const LatticeTrinaryExpression<Op, T1, T2, T3> &expr) {
+{
   GridFromExpression(grid,std::get<0>(expr.second));// recurse
   GridFromExpression(grid,std::get<1>(expr.second));
   GridFromExpression(grid,std::get<2>(expr.second));
 }
 
+
 //////////////////////////////////////////////////////////////////////////
-// Obtain the CB from an expression, ensuring conformable. This must follow a
+// Obtain the CB from an expression, ensuring conformable. This must follow a tree recursion
-// tree recursion
 //////////////////////////////////////////////////////////////////////////
-template <class T1,
+template<class T1, typename std::enable_if<is_lattice<T1>::value, T1>::type * =nullptr >
-          typename std::enable_if<is_lattice<T1>::value, T1>::type * = nullptr>
 inline void CBFromExpression(int &cb,const T1& lat)   // Lattice leaf
 {
   if ( (cb==Odd) || (cb==Even) ) {
@@ -185,29 +163,28 @@ inline void CBFromExpression(int &cb, const T1 &lat)  // Lattice leaf
   cb=lat.checkerboard;
   //  std::cout<<GridLogMessage<<"Lattice leaf cb "<<cb<<std::endl;
 }
-template <class T1,
+template<class T1,typename std::enable_if<!is_lattice<T1>::value, T1>::type * = nullptr >
-          typename std::enable_if<!is_lattice<T1>::value, T1>::type * = nullptr>
 inline void CBFromExpression(int &cb,const T1& notlat)   // non-lattice leaf
 {
   //  std::cout<<GridLogMessage<<"Non lattice leaf cb"<<cb<<std::endl;
 }
 template <typename Op, typename T1>
-inline void CBFromExpression(int &cb,
+inline void CBFromExpression(int &cb,const LatticeUnaryExpression<Op,T1 > &expr)
-                             const LatticeUnaryExpression<Op, T1> &expr) {
+{
   CBFromExpression(cb,std::get<0>(expr.second));// recurse 
   //  std::cout<<GridLogMessage<<"Unary node cb "<<cb<<std::endl;
 }
 
 template <typename Op, typename T1, typename T2>
-inline void CBFromExpression(int &cb,
+inline void CBFromExpression(int &cb,const LatticeBinaryExpression<Op,T1,T2> &expr) 
-                             const LatticeBinaryExpression<Op, T1, T2> &expr) {
+{
   CBFromExpression(cb,std::get<0>(expr.second));// recurse
   CBFromExpression(cb,std::get<1>(expr.second));
   //  std::cout<<GridLogMessage<<"Binary node cb "<<cb<<std::endl;
 }
 template <typename Op, typename T1, typename T2, typename T3>
-inline void CBFromExpression(
+inline void CBFromExpression( int &cb,const LatticeTrinaryExpression<Op,T1,T2,T3 > &expr) 
-    int &cb, const LatticeTrinaryExpression<Op, T1, T2, T3> &expr) {
+{
   CBFromExpression(cb,std::get<0>(expr.second));// recurse
   CBFromExpression(cb,std::get<1>(expr.second));
   CBFromExpression(cb,std::get<2>(expr.second));
@@ -218,8 +195,8 @@ inline void CBFromExpression(
 // Unary operators and funcs
 ////////////////////////////////////////////
 #define GridUnopClass(name,ret)\
-  template <class arg>                                                    \
+template <class arg> struct name\
-  struct name {                                                           \
+{\
   static auto inline func(const arg a)-> decltype(ret) { return ret; } \
 };
 
@@ -235,15 +212,11 @@ GridUnopClass(UnaryReal, real(a));
 GridUnopClass(UnaryImag,imag(a));
 GridUnopClass(UnaryToReal,toReal(a));
 GridUnopClass(UnaryToComplex,toComplex(a));
-GridUnopClass(UnaryTimesI, timesI(a));
-GridUnopClass(UnaryTimesMinusI, timesMinusI(a));
 GridUnopClass(UnaryAbs,abs(a));
 GridUnopClass(UnarySqrt,sqrt(a));
 GridUnopClass(UnaryRsqrt,rsqrt(a));
 GridUnopClass(UnarySin,sin(a));
 GridUnopClass(UnaryCos,cos(a));
-GridUnopClass(UnaryAsin, asin(a));
-GridUnopClass(UnaryAcos, acos(a));
 GridUnopClass(UnaryLog,log(a));
 GridUnopClass(UnaryExp,exp(a));
 
@@ -252,9 +225,10 @@ GridUnopClass(UnaryExp, exp(a));
 ////////////////////////////////////////////
 #define GridBinOpClass(name,combination)\
 template <class left,class right>\
-  struct name {                                                \
+struct name\
-    static auto inline func(const left &lhs, const right &rhs) \
+{\
-        -> decltype(combination) const {                       \
+  static auto inline func(const left &lhs,const right &rhs)-> decltype(combination) const \
+    {\
       return combination;\
     }\
 }
@@ -272,18 +246,17 @@ GridBinOpClass(BinaryOrOr, lhs || rhs);
 ////////////////////////////////////////////////////
 #define GridTrinOpClass(name,combination)\
 template <class predicate,class left, class right>	\
-  struct name {                                                                \
+struct name\
-    static auto inline func(const predicate &pred, const left &lhs,            \
+{\
-                            const right &rhs) -> decltype(combination) const { \
+  static auto inline func(const predicate &pred,const left &lhs,const right &rhs)-> decltype(combination) const \
+    {\
       return combination;\
     }\
 }
 
-GridTrinOpClass(
+GridTrinOpClass(TrinaryWhere,(predicatedWhere<predicate, \
-    TrinaryWhere,
+			       typename std::remove_reference<left>::type, \
-    (predicatedWhere<predicate, typename std::remove_reference<left>::type,
+			       typename std::remove_reference<right>::type> (pred,lhs,rhs)));
-                     typename std::remove_reference<right>::type>(pred, lhs,
-                                                                  rhs)));
 
 ////////////////////////////////////////////
 // Operator syntactical glue
@@ -291,66 +264,49 @@ GridTrinOpClass(
  
 #define GRID_UNOP(name)   name<decltype(eval(0, arg))>
 #define GRID_BINOP(name)  name<decltype(eval(0, lhs)), decltype(eval(0, rhs))>
-#define GRID_TRINOP(name) \
+#define GRID_TRINOP(name) name<decltype(eval(0, pred)), decltype(eval(0, lhs)), decltype(eval(0, rhs))>
-  name<decltype(eval(0, pred)), decltype(eval(0, lhs)), decltype(eval(0, rhs))>
 
 #define GRID_DEF_UNOP(op, name)\
 template <typename T1,\
-            typename std::enable_if<is_lattice<T1>::value ||                \
+  typename std::enable_if<is_lattice<T1>::value||is_lattice_expr<T1>::value, T1>::type* = nullptr> inline auto op(const T1 &arg) \
-                                        is_lattice_expr<T1>::value,         \
+  -> decltype(LatticeUnaryExpression<GRID_UNOP(name),const T1&>(std::make_pair(GRID_UNOP(name)(),std::forward_as_tuple(arg)))) \
-                                    T1>::type * = nullptr>                  \
+{ return LatticeUnaryExpression<GRID_UNOP(name), const T1 &>(std::make_pair(GRID_UNOP(name)(),std::forward_as_tuple(arg))); }
-  inline auto op(const T1 &arg)                                             \
-      ->decltype(LatticeUnaryExpression<GRID_UNOP(name), const T1 &>(       \
-          std::make_pair(GRID_UNOP(name)(), std::forward_as_tuple(arg)))) { \
-    return LatticeUnaryExpression<GRID_UNOP(name), const T1 &>(             \
-        std::make_pair(GRID_UNOP(name)(), std::forward_as_tuple(arg)));     \
-  }
 
 #define GRID_BINOP_LEFT(op, name)\
 template <typename T1,typename T2,\
-            typename std::enable_if<is_lattice<T1>::value ||                  \
+          typename std::enable_if<is_lattice<T1>::value||is_lattice_expr<T1>::value, T1>::type* = nullptr>\
-                                        is_lattice_expr<T1>::value,           \
-                                    T1>::type * = nullptr>                    \
 inline auto op(const T1 &lhs,const T2&rhs) \
-      ->decltype(                                                             \
+  -> decltype(LatticeBinaryExpression<GRID_BINOP(name),const T1&,const T2 &>(std::make_pair(GRID_BINOP(name)(),\
-          LatticeBinaryExpression<GRID_BINOP(name), const T1 &, const T2 &>(  \
+											    std::forward_as_tuple(lhs, rhs)))) \
-              std::make_pair(GRID_BINOP(name)(),                              \
+{\
-                             std::forward_as_tuple(lhs, rhs)))) {             \
+ return LatticeBinaryExpression<GRID_BINOP(name), const T1 &, const T2 &>(std::make_pair(GRID_BINOP(name)(),\
-    return LatticeBinaryExpression<GRID_BINOP(name), const T1 &, const T2 &>( \
+									  std::forward_as_tuple(lhs, rhs))); \
-        std::make_pair(GRID_BINOP(name)(), std::forward_as_tuple(lhs, rhs))); \
 }
 
 #define GRID_BINOP_RIGHT(op, name)\
  template <typename T1,typename T2,\
-            typename std::enable_if<!is_lattice<T1>::value &&                 \
+           typename std::enable_if<!is_lattice<T1>::value && !is_lattice_expr<T1>::value, T1>::type* = nullptr,\
-                                        !is_lattice_expr<T1>::value,          \
+           typename std::enable_if< is_lattice<T2>::value ||  is_lattice_expr<T2>::value, T2>::type* = nullptr> \
-                                    T1>::type * = nullptr,                    \
-            typename std::enable_if<is_lattice<T2>::value ||                  \
-                                        is_lattice_expr<T2>::value,           \
-                                    T2>::type * = nullptr>                    \
 inline auto op(const T1 &lhs,const T2&rhs)			\
-      ->decltype(                                                             \
+  -> decltype(LatticeBinaryExpression<GRID_BINOP(name),const T1&,const T2 &>(std::make_pair(GRID_BINOP(name)(),\
-          LatticeBinaryExpression<GRID_BINOP(name), const T1 &, const T2 &>(  \
+											    std::forward_as_tuple(lhs, rhs)))) \
-              std::make_pair(GRID_BINOP(name)(),                              \
+{\
-                             std::forward_as_tuple(lhs, rhs)))) {             \
+ return LatticeBinaryExpression<GRID_BINOP(name), const T1 &, const T2 &>(std::make_pair(GRID_BINOP(name)(),\
-    return LatticeBinaryExpression<GRID_BINOP(name), const T1 &, const T2 &>( \
+								          std::forward_as_tuple(lhs, rhs))); \
-        std::make_pair(GRID_BINOP(name)(), std::forward_as_tuple(lhs, rhs))); \
 }
 
 #define GRID_DEF_BINOP(op, name)\
  GRID_BINOP_LEFT(op,name);\
  GRID_BINOP_RIGHT(op,name);
 
+
 #define GRID_DEF_TRINOP(op, name)\
-  template <typename T1, typename T2, typename T3>                             \
+template <typename T1,typename T2,typename T3> inline auto op(const T1 &pred,const T2&lhs,const T3 &rhs) \
-  inline auto op(const T1 &pred, const T2 &lhs, const T3 &rhs)                 \
+  -> decltype(LatticeTrinaryExpression<GRID_TRINOP(name),const T1&,const T2 &,const T3&>(std::make_pair(GRID_TRINOP(name)(),\
-      ->decltype(                                                              \
+										   std::forward_as_tuple(pred,lhs,rhs)))) \
-          LatticeTrinaryExpression<GRID_TRINOP(name), const T1 &, const T2 &,  \
+{\
-                                   const T3 &>(std::make_pair(                 \
+  return LatticeTrinaryExpression<GRID_TRINOP(name), const T1 &, const T2 &,const T3&>(std::make_pair(GRID_TRINOP(name)(), \
-              GRID_TRINOP(name)(), std::forward_as_tuple(pred, lhs, rhs)))) {  \
+										 std::forward_as_tuple(pred,lhs, rhs))); \
-    return LatticeTrinaryExpression<GRID_TRINOP(name), const T1 &, const T2 &, \
-                                    const T3 &>(std::make_pair(                \
-        GRID_TRINOP(name)(), std::forward_as_tuple(pred, lhs, rhs)));          \
 }
 ////////////////////////
 //Operator definitions
@@ -369,16 +325,11 @@ GRID_DEF_UNOP(real, UnaryReal);
 GRID_DEF_UNOP(imag,UnaryImag);
 GRID_DEF_UNOP(toReal,UnaryToReal);
 GRID_DEF_UNOP(toComplex,UnaryToComplex);
-GRID_DEF_UNOP(timesI, UnaryTimesI);
+GRID_DEF_UNOP(abs  ,UnaryAbs); //abs overloaded in cmath C++98; DON'T do the abs-fabs-dabs-labs thing
-GRID_DEF_UNOP(timesMinusI, UnaryTimesMinusI);
-GRID_DEF_UNOP(abs, UnaryAbs);  // abs overloaded in cmath C++98; DON'T do the
-                               // abs-fabs-dabs-labs thing
 GRID_DEF_UNOP(sqrt ,UnarySqrt);
 GRID_DEF_UNOP(rsqrt,UnaryRsqrt);
 GRID_DEF_UNOP(sin  ,UnarySin);
 GRID_DEF_UNOP(cos  ,UnaryCos);
-GRID_DEF_UNOP(asin, UnaryAsin);
-GRID_DEF_UNOP(acos, UnaryAcos);
 GRID_DEF_UNOP(log  ,UnaryLog);
 GRID_DEF_UNOP(exp  ,UnaryExp);
 
@@ -398,29 +349,29 @@ GRID_DEF_TRINOP(where, TrinaryWhere);
 /////////////////////////////////////////////////////////////
 template<class Op,class T1>
   auto closure(const LatticeUnaryExpression<Op,T1> & expr)
-    -> Lattice<decltype(expr.first.func(eval(0, std::get<0>(expr.second))))> {
+  -> Lattice<decltype(expr.first.func(eval(0,std::get<0>(expr.second))))>
-  Lattice<decltype(expr.first.func(eval(0, std::get<0>(expr.second))))> ret(
+{
-      expr);
+  Lattice<decltype(expr.first.func(eval(0,std::get<0>(expr.second))))> ret(expr);
   return ret;
 }
 template<class Op,class T1, class T2>
   auto closure(const LatticeBinaryExpression<Op,T1,T2> & expr)
   -> Lattice<decltype(expr.first.func(eval(0,std::get<0>(expr.second)),
-                                        eval(0, std::get<1>(expr.second))))> {
-  Lattice<decltype(expr.first.func(eval(0, std::get<0>(expr.second)),
 				      eval(0,std::get<1>(expr.second))))>
-      ret(expr);
+{
+  Lattice<decltype(expr.first.func(eval(0,std::get<0>(expr.second)),
+				   eval(0,std::get<1>(expr.second))))> ret(expr);
   return ret;
 }
 template<class Op,class T1, class T2, class T3>
   auto closure(const LatticeTrinaryExpression<Op,T1,T2,T3> & expr)
   -> Lattice<decltype(expr.first.func(eval(0,std::get<0>(expr.second)),
 				      eval(0,std::get<1>(expr.second)),
-                                        eval(0, std::get<2>(expr.second))))> {
+				      eval(0,std::get<2>(expr.second))))>
+{
   Lattice<decltype(expr.first.func(eval(0,std::get<0>(expr.second)),
 				   eval(0,std::get<1>(expr.second)),
-                                   eval(0, std::get<2>(expr.second))))>
+				   eval(0,std::get<2>(expr.second))))> ret(expr);
-      ret(expr);
   return ret;
 }
 
@@ -431,6 +382,7 @@ auto closure(const LatticeTrinaryExpression<Op, T1, T2, T3> &expr)
 #undef GRID_DEF_UNOP
 #undef GRID_DEF_BINOP
 #undef GRID_DEF_TRINOP
+
 }
 
 #if 0

lib/lattice/Lattice_base.h

@@ -24,8 +24,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef GRID_LATTICE_BASE_H
@@ -102,7 +101,6 @@ public:
     int begin(void) { return 0;};
     int end(void)   { return _odata.size(); }
     vobj & operator[](int i) { return _odata[i]; };
-    const vobj & operator[](int i) const { return _odata[i]; };
 
 public:
     typedef typename vobj::scalar_type scalar_type;
@@ -257,18 +255,6 @@ PARALLEL_FOR_LOOP
         checkerboard=0;
     }
 
-    Lattice(const Lattice& r){ // copy constructor
-    	_grid = r._grid;
-    	checkerboard = r.checkerboard;
-    	_odata.resize(_grid->oSites());// essential
-  		PARALLEL_FOR_LOOP
-        for(int ss=0;ss<_grid->oSites();ss++){
-            _odata[ss]=r._odata[ss];
-        }  	
-    }
-
-
-
     virtual ~Lattice(void) = default;
     
     template<class sobj> strong_inline Lattice<vobj> & operator = (const sobj & r){
@@ -281,7 +267,7 @@ PARALLEL_FOR_LOOP
     template<class robj> strong_inline Lattice<vobj> & operator = (const Lattice<robj> & r){
       this->checkerboard = r.checkerboard;
       conformable(*this,r);
-      
+      std::cout<<GridLogMessage<<"Lattice operator ="<<std::endl;
 PARALLEL_FOR_LOOP
         for(int ss=0;ss<_grid->oSites();ss++){
             this->_odata[ss]=r._odata[ss];
@@ -338,27 +324,27 @@ PARALLEL_FOR_LOOP
 
 
 
-#include "Lattice_conformable.h"
+#include <lattice/Lattice_conformable.h>
 #define GRID_LATTICE_EXPRESSION_TEMPLATES
 #ifdef  GRID_LATTICE_EXPRESSION_TEMPLATES
-#include "Lattice_ET.h"
+#include <lattice/Lattice_ET.h>
 #else 
-#include "Lattice_overload.h"
+#include <lattice/Lattice_overload.h>
 #endif
-#include "Lattice_arith.h"
+#include <lattice/Lattice_arith.h>
-#include "Lattice_trace.h"
+#include <lattice/Lattice_trace.h>
-#include "Lattice_transpose.h"
+#include <lattice/Lattice_transpose.h>
-#include "Lattice_local.h"
+#include <lattice/Lattice_local.h>
-#include "Lattice_reduction.h"
+#include <lattice/Lattice_reduction.h>
-#include "Lattice_peekpoke.h"
+#include <lattice/Lattice_peekpoke.h>
-#include "Lattice_reality.h"
+#include <lattice/Lattice_reality.h>
-#include "Lattice_comparison_utils.h"
+#include <lattice/Lattice_comparison_utils.h>
-#include "Lattice_comparison.h"
+#include <lattice/Lattice_comparison.h>
-#include "Lattice_coordinate.h"
+#include <lattice/Lattice_coordinate.h>
-#include "Lattice_where.h"
+#include <lattice/Lattice_where.h>
-#include "Lattice_rng.h"
+#include <lattice/Lattice_rng.h>
-#include "Lattice_unary.h"
+#include <lattice/Lattice_unary.h>
-#include "Lattice_transfer.h"
+#include <lattice/Lattice_transfer.h>
 
 
 #endif

lib/lattice/Lattice_reduction.h

@@ -40,7 +40,7 @@ namespace Grid {
     ////////////////////////////////////////////////////////////////////////////////////////////////////
   template<class vobj> inline RealD norm2(const Lattice<vobj> &arg){
     ComplexD nrm = innerProduct(arg,arg);
-    return std::real(nrm); 
+    return real(nrm); 
   }
 
     template<class vobj>

lib/lattice/Lattice_transfer.h

@@ -349,7 +349,7 @@ void localConvert(const Lattice<vobj> &in,Lattice<vvobj> &out)
     assert(ig->_ldimensions[d] == og->_ldimensions[d]);
   }
 
-  //PARALLEL_FOR_LOOP
+PARALLEL_FOR_LOOP
   for(int idx=0;idx<ig->lSites();idx++){
     std::vector<int> lcoor(ni);
     ig->LocalIndexToLocalCoor(idx,lcoor);
@@ -386,7 +386,7 @@ void InsertSlice(Lattice<vobj> &lowDim,Lattice<vobj> & higherDim,int slice, int
   }
 
   // the above should guarantee that the operations are local
-  //PARALLEL_FOR_LOOP
+PARALLEL_FOR_LOOP
   for(int idx=0;idx<lg->lSites();idx++){
     std::vector<int> lcoor(nl);
     std::vector<int> hcoor(nh);
@@ -428,7 +428,7 @@ void ExtractSlice(Lattice<vobj> &lowDim, Lattice<vobj> & higherDim,int slice, in
     }
   }
   // the above should guarantee that the operations are local
-  //PARALLEL_FOR_LOOP
+PARALLEL_FOR_LOOP
   for(int idx=0;idx<lg->lSites();idx++){
     std::vector<int> lcoor(nl);
     std::vector<int> hcoor(nh);
@@ -446,79 +446,6 @@ void ExtractSlice(Lattice<vobj> &lowDim, Lattice<vobj> & higherDim,int slice, in
 
 }
 
-
-template<class vobj>
-void InsertSliceLocal(Lattice<vobj> &lowDim, Lattice<vobj> & higherDim,int slice_lo,int slice_hi, int orthog)
-{
-  typedef typename vobj::scalar_object sobj;
-  sobj s;
-
-  GridBase *lg = lowDim._grid;
-  GridBase *hg = higherDim._grid;
-  int nl = lg->_ndimension;
-  int nh = hg->_ndimension;
-
-  assert(nl == nh);
-  assert(orthog<nh);
-  assert(orthog>=0);
-
-  for(int d=0;d<nh;d++){
-    assert(lg->_processors[d]  == hg->_processors[d]);
-    assert(lg->_ldimensions[d] == hg->_ldimensions[d]);
-  }
-
-  // the above should guarantee that the operations are local
-  //PARALLEL_FOR_LOOP
-  for(int idx=0;idx<lg->lSites();idx++){
-    std::vector<int> lcoor(nl);
-    std::vector<int> hcoor(nh);
-    lg->LocalIndexToLocalCoor(idx,lcoor);
-    if( lcoor[orthog] == slice_lo ) { 
-      hcoor=lcoor;
-      hcoor[orthog] = slice_hi;
-      peekLocalSite(s,lowDim,lcoor);
-      pokeLocalSite(s,higherDim,hcoor);
-    }
-  }
-}
-
-
-template<class vobj>
-void ExtractSliceLocal(Lattice<vobj> &lowDim, Lattice<vobj> & higherDim,int slice_lo,int slice_hi, int orthog)
-{
-  typedef typename vobj::scalar_object sobj;
-  sobj s;
-
-  GridBase *lg = lowDim._grid;
-  GridBase *hg = higherDim._grid;
-  int nl = lg->_ndimension;
-  int nh = hg->_ndimension;
-
-  assert(nl == nh);
-  assert(orthog<nh);
-  assert(orthog>=0);
-
-  for(int d=0;d<nh;d++){
-    assert(lg->_processors[d]  == hg->_processors[d]);
-    assert(lg->_ldimensions[d] == hg->_ldimensions[d]);
-  }
-
-  // the above should guarantee that the operations are local
-  //PARALLEL_FOR_LOOP
-  for(int idx=0;idx<lg->lSites();idx++){
-    std::vector<int> lcoor(nl);
-    std::vector<int> hcoor(nh);
-    lg->LocalIndexToLocalCoor(idx,lcoor);
-    if( lcoor[orthog] == slice_lo ) { 
-      hcoor=lcoor;
-      hcoor[orthog] = slice_hi;
-      peekLocalSite(s,higherDim,hcoor);
-      pokeLocalSite(s,lowDim,lcoor);
-    }
-  }
-}
-
-
 template<class vobj>
 void Replicate(Lattice<vobj> &coarse,Lattice<vobj> & fine)
 {
@@ -555,96 +482,6 @@ void Replicate(Lattice<vobj> &coarse,Lattice<vobj> & fine)
 
 }
 
-//Copy SIMD-vectorized lattice to array of scalar objects in lexicographic order
-template<typename vobj, typename sobj>
-typename std::enable_if<isSIMDvectorized<vobj>::value && !isSIMDvectorized<sobj>::value, void>::type unvectorizeToLexOrdArray(std::vector<sobj> &out, const Lattice<vobj> &in){
-  typedef typename vobj::vector_type vtype;
-  
-  GridBase* in_grid = in._grid;
-  out.resize(in_grid->lSites());
-  
-  int ndim = in_grid->Nd();
-  int in_nsimd = vtype::Nsimd();
-
-  std::vector<std::vector<int> > in_icoor(in_nsimd);
-      
-  for(int lane=0; lane < in_nsimd; lane++){
-    in_icoor[lane].resize(ndim);
-    in_grid->iCoorFromIindex(in_icoor[lane], lane);
-  }
-  
-PARALLEL_FOR_LOOP
-  for(int in_oidx = 0; in_oidx < in_grid->oSites(); in_oidx++){ //loop over outer index
-    //Assemble vector of pointers to output elements
-    std::vector<sobj*> out_ptrs(in_nsimd);
-
-    std::vector<int> in_ocoor(ndim);
-    in_grid->oCoorFromOindex(in_ocoor, in_oidx);
-
-    std::vector<int> lcoor(in_grid->Nd());
-      
-    for(int lane=0; lane < in_nsimd; lane++){
-      for(int mu=0;mu<ndim;mu++)
-	lcoor[mu] = in_ocoor[mu] + in_grid->_rdimensions[mu]*in_icoor[lane][mu];
-
-      int lex;
-      Lexicographic::IndexFromCoor(lcoor, lex, in_grid->_ldimensions);
-      out_ptrs[lane] = &out[lex];
-    }
-    
-    //Unpack into those ptrs
-    const vobj & in_vobj = in._odata[in_oidx];
-    extract1(in_vobj, out_ptrs, 0);
-  }
-}
-
-//Convert a Lattice from one precision to another
-template<class VobjOut, class VobjIn>
-void precisionChange(Lattice<VobjOut> &out, const Lattice<VobjIn> &in){
-  assert(out._grid->Nd() == in._grid->Nd());
-  out.checkerboard = in.checkerboard;
-  GridBase *in_grid=in._grid;
-  GridBase *out_grid = out._grid;
-
-  typedef typename VobjOut::scalar_object SobjOut;
-  typedef typename VobjIn::scalar_object SobjIn;
-
-  int ndim = out._grid->Nd();
-  int out_nsimd = out_grid->Nsimd();
-    
-  std::vector<std::vector<int> > out_icoor(out_nsimd);
-      
-  for(int lane=0; lane < out_nsimd; lane++){
-    out_icoor[lane].resize(ndim);
-    out_grid->iCoorFromIindex(out_icoor[lane], lane);
-  }
-        
-  std::vector<SobjOut> in_slex_conv(in_grid->lSites());
-  unvectorizeToLexOrdArray(in_slex_conv, in);
-    
-  PARALLEL_FOR_LOOP
-  for(int out_oidx=0;out_oidx<out_grid->oSites();out_oidx++){
-    std::vector<int> out_ocoor(ndim);
-    out_grid->oCoorFromOindex(out_ocoor, out_oidx);
-
-    std::vector<SobjOut*> ptrs(out_nsimd);      
-
-    std::vector<int> lcoor(out_grid->Nd());
-      
-    for(int lane=0; lane < out_nsimd; lane++){
-      for(int mu=0;mu<ndim;mu++)
-	lcoor[mu] = out_ocoor[mu] + out_grid->_rdimensions[mu]*out_icoor[lane][mu];
-	
-      int llex; Lexicographic::IndexFromCoor(lcoor, llex, out_grid->_ldimensions);
-      ptrs[lane] = &in_slex_conv[llex];
-    }
-    merge(out._odata[out_oidx], ptrs, 0);
-  }
-}
-
-
-  
-
 
 }
 #endif

lib/pugixml/pugixml.h

@@ -17,7 +17,7 @@
 #endif
 
 // Include user configuration file (this can define various configuration macros)
-#include "pugiconfig.hpp"
+#include <pugixml/pugiconfig.hpp>
 
 #ifndef HEADER_PUGIXML_HPP
 #define HEADER_PUGIXML_HPP

lib/qcd/QCD.h

@@ -55,19 +55,10 @@ namespace QCD {
     //////////////////////////////////////////////////////////////////////////////
     // QCD iMatrix types
     // Index conventions:                            Lorentz x Spin x Colour
-    // note: static const int or constexpr will work for type deductions
-    //       with the intel compiler (up to version 17)
     //////////////////////////////////////////////////////////////////////////////
-    #define ColourIndex  2
+    static const int ColourIndex = 2;
-    #define SpinIndex    1
+    static const int SpinIndex   = 1;
-    #define LorentzIndex 0
+    static const int LorentzIndex= 0;
-
-  
-    // Also should make these a named enum type
-    static const int DaggerNo=0;
-    static const int DaggerYes=1;
-    static const int InverseNo=0;
-    static const int InverseYes=1;
 
     // Useful traits is this a spin index
     //typename std::enable_if<matchGridTensorIndex<iVector<vtype,Ns>,SpinorIndex>::value,iVector<vtype,Ns> >::type *SFINAE;
@@ -493,27 +484,16 @@ namespace QCD {
 }   //namespace QCD
 } // Grid
 
-
+#include <qcd/utils/SpaceTimeGrid.h>
-#include <Grid/qcd/utils/SpaceTimeGrid.h>
+#include <qcd/spin/Dirac.h>
-#include <Grid/qcd/spin/Dirac.h>
+#include <qcd/spin/TwoSpinor.h>
-#include <Grid/qcd/spin/TwoSpinor.h>
+#include <qcd/utils/LinalgUtils.h>
-#include <Grid/qcd/utils/LinalgUtils.h>
+#include <qcd/utils/CovariantCshift.h>
-#include <Grid/qcd/utils/CovariantCshift.h>
+#include <qcd/utils/SUn.h>
-
+#include <qcd/action/Actions.h>
-// Include representations 	
+#include <qcd/hmc/integrators/Integrator.h>
-#include <Grid/qcd/utils/SUn.h>
+#include <qcd/hmc/integrators/Integrator_algorithm.h>
-#include <Grid/qcd/utils/SUnAdjoint.h>
+#include <qcd/hmc/HMC.h>
-#include <Grid/qcd/utils/SUnTwoIndex.h>
-#include <Grid/qcd/representations/hmc_types.h>
-
-#include <Grid/qcd/action/Actions.h>
-
-#include <Grid/qcd/smearing/Smearing.h>
-
-#include <Grid/qcd/hmc/integrators/Integrator.h>
-#include <Grid/qcd/hmc/integrators/Integrator_algorithm.h>
-#include <Grid/qcd/hmc/HMC.h>
-
 
 
 #endif

lib/qcd/action/ActionBase.h

@@ -23,8 +23,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef QCD_ACTION_BASE
@@ -34,120 +33,54 @@ namespace QCD {
 
 template<class GaugeField>
 class Action { 
+
  public:
-  bool is_smeared = false;
   // Boundary conditions? // Heatbath?
-  virtual void refresh(const GaugeField& U,
+  virtual void  refresh(const GaugeField &U, GridParallelRNG& pRNG) = 0;// refresh pseudofermions
-                       GridParallelRNG& pRNG) = 0;  // refresh pseudofermions
   virtual RealD S    (const GaugeField &U)                        = 0;  // evaluate the action
-  virtual void deriv(const GaugeField& U,
+  virtual void  deriv(const GaugeField &U,GaugeField & dSdU )     = 0;  // evaluate the action derivative
-                     GaugeField& dSdU) = 0;  // evaluate the action derivative
   virtual ~Action() {};
 };
 
-// Indexing of tuple types
+// Could derive PseudoFermion action with a PF field, FermionField, and a Grid; implement refresh
-template <class T, class Tuple>
-struct Index;
-
-template <class T, class... Types>
-struct Index<T, std::tuple<T, Types...>> {
-  static const std::size_t value = 0;
-};
-
-template <class T, class U, class... Types>
-struct Index<T, std::tuple<U, Types...>> {
-  static const std::size_t value = 1 + Index<T, std::tuple<Types...>>::value;
-};
-
 /*
-template <class GaugeField>
+template<class GaugeField, class FermionField>
-struct ActionLevel {
+class PseudoFermionAction : public Action<GaugeField> {
  public:
-  typedef Action<GaugeField>*
+  FermionField Phi;
-      ActPtr;  // now force the same colours as the rest of the code
+  GridParallelRNG &pRNG;
+  GridBase &Grid;
 
-  //Add supported representations here
+  PseudoFermionAction(GridBase &_Grid,GridParallelRNG &_pRNG) : Grid(_Grid), Phi(&_Grid), pRNG(_pRNG) {
-
+  };
-
+
-  unsigned int multiplier;
+  virtual void refresh(const GaugeField &gauge) {
-
+    gaussian(Phi,pRNG);
-  std::vector<ActPtr> actions;
-
-  ActionLevel(unsigned int mul = 1) : actions(0), multiplier(mul) {
-    assert(mul >= 1);
   };
 
-  void push_back(ActPtr ptr) { actions.push_back(ptr); }
 };
 */
 
-template <class GaugeField, class Repr = NoHirep >
+template<class GaugeField> struct ActionLevel{
-struct ActionLevel {
 public:
-  unsigned int multiplier; 
    
-  // Fundamental repr actions separated because of the smearing
+  typedef Action<GaugeField>*  ActPtr; // now force the same colours as the rest of the code
-  typedef Action<GaugeField>* ActPtr;
 
-  // construct a tuple of vectors of the actions for the corresponding higher
+  int multiplier;
-  // representation fields
-  typedef typename AccessTypes<Action, Repr>::VectorCollection action_collection;
-  action_collection actions_hirep;
-  typedef typename  AccessTypes<Action, Repr>::FieldTypeCollection action_hirep_types;
 
-  std::vector<ActPtr>& actions;
+  std::vector<ActPtr> actions;
 
-  // Temporary conversion between ActionLevel and ActionLevelHirep
+  ActionLevel(int mul = 1) : multiplier(mul) {
-  //ActionLevelHirep(ActionLevel<GaugeField>& AL ):actions(AL.actions), multiplier(AL.multiplier){}
+    assert (mul > 0);
-
-  ActionLevel(unsigned int mul = 1) : actions(std::get<0>(actions_hirep)), multiplier(mul) {
-    // initialize the hirep vectors to zero.
-    //apply(this->resize, actions_hirep, 0); //need a working resize
-    assert(mul >= 1);
   };
    
-  //void push_back(ActPtr ptr) { actions.push_back(ptr); }
+  void push_back(ActPtr ptr){
-
+    actions.push_back(ptr);
-
+  }
-
-  template < class Field >
-  void push_back(Action<Field>* ptr) {
-    // insert only in the correct vector
-    std::get< Index < Field, action_hirep_types>::value >(actions_hirep).push_back(ptr);
 };
 
+template<class GaugeField> using ActionSet = std::vector<ActionLevel< GaugeField > >;
 
 
-  template < class ActPtr>
+}}
-  static void resize(ActPtr ap, unsigned int n){
-    ap->resize(n);
-
-  }
-
-  //template <std::size_t I>
-  //auto getRepresentation(Repr& R)->decltype(std::get<I>(R).U)  {return std::get<I>(R).U;}
-
-  // Loop on tuple for a callable function
-  template <std::size_t I = 1, typename Callable, typename ...Args>
-  inline typename std::enable_if<I == std::tuple_size<action_collection>::value, void>::type apply(
-      Callable, Repr& R,Args&...) const {}
-
-  template <std::size_t I = 1, typename Callable, typename ...Args>
-  inline typename std::enable_if<I < std::tuple_size<action_collection>::value, void>::type apply(
-      Callable fn, Repr& R, Args&... arguments) const {
-    fn(std::get<I>(actions_hirep), std::get<I>(R.rep), arguments...);
-    apply<I + 1>(fn, R, arguments...);
-  }  
-
-};
-
-
-//template <class GaugeField>
-//using ActionSet = std::vector<ActionLevel<GaugeField> >;
-
-template <class GaugeField, class R>
-using ActionSet = std::vector<ActionLevel<GaugeField, R> >;
-
-}
-}
 #endif

lib/qcd/action/Actions.h

@@ -40,25 +40,25 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 ////////////////////////////////////////////
 // Abstract base interface
 ////////////////////////////////////////////
-#include <Grid/qcd/action/ActionBase.h>
+#include <qcd/action/ActionBase.h>
-#include <Grid/qcd/action/ActionParams.h>
+#include <qcd/action/ActionParams.h>
 
 ////////////////////////////////////////////
 // Utility functions
 ////////////////////////////////////////////
-#include <Grid/qcd/action/gauge/GaugeImpl.h>
+#include <qcd/action/gauge/GaugeImpl.h>
-#include <Grid/qcd/utils/WilsonLoops.h>
+#include <qcd/utils/WilsonLoops.h>
 
-#include <Grid/qcd/action/fermion/WilsonCompressor.h>     //used by all wilson type fermions
+#include <qcd/action/fermion/WilsonCompressor.h>     //used by all wilson type fermions
-#include <Grid/qcd/action/fermion/FermionOperatorImpl.h>
+#include <qcd/action/fermion/FermionOperatorImpl.h>
-#include <Grid/qcd/action/fermion/FermionOperator.h>
+#include <qcd/action/fermion/FermionOperator.h>
-#include <Grid/qcd/action/fermion/WilsonKernels.h>        //used by all wilson type fermions
+#include <qcd/action/fermion/WilsonKernels.h>        //used by all wilson type fermions
 
 ////////////////////////////////////////////
 // Gauge Actions
 ////////////////////////////////////////////
-#include <Grid/qcd/action/gauge/WilsonGaugeAction.h>
+#include <qcd/action/gauge/WilsonGaugeAction.h>
-#include <Grid/qcd/action/gauge/PlaqPlusRectangleAction.h>
+#include <qcd/action/gauge/PlaqPlusRectangleAction.h>
 
 namespace Grid {
 namespace QCD {
@@ -107,64 +107,41 @@ typedef SymanzikGaugeAction<ConjugateGimplD>        ConjugateSymanzikGaugeAction
 // for EVERY .cc file. This define centralises the list and restores global push of impl cases
 ////////////////////////////////////////////////////////////////////////////////////////////////////
 
-
+#define FermOpTemplateInstantiate(A) \
-#define FermOp4dVecTemplateInstantiate(A) \
   template class A<WilsonImplF>;		\
   template class A<WilsonImplD>;		\
-  template class A<ZWilsonImplF>;		\
-  template class A<ZWilsonImplD>;		\
   template class A<GparityWilsonImplF>;		\
   template class A<GparityWilsonImplD>;		
 
-#define AdjointFermOpTemplateInstantiate(A) \
-  template class A<WilsonAdjImplF>; \
-  template class A<WilsonAdjImplD>; 
-
-#define TwoIndexFermOpTemplateInstantiate(A) \
-  template class A<WilsonTwoIndexSymmetricImplF>; \
-  template class A<WilsonTwoIndexSymmetricImplD>; 
-
-#define FermOp5dVecTemplateInstantiate(A) \
-  template class A<DomainWallVec5dImplF>;	\
-  template class A<DomainWallVec5dImplD>;	\
-  template class A<ZDomainWallVec5dImplF>;	\
-  template class A<ZDomainWallVec5dImplD>;	
-
-#define FermOpTemplateInstantiate(A) \
- FermOp4dVecTemplateInstantiate(A) \
- FermOp5dVecTemplateInstantiate(A) 
-
-
 #define GparityFermOpTemplateInstantiate(A) 
 
 ////////////////////////////////////////////
 // Fermion operators / actions
 ////////////////////////////////////////////
 
-#include <Grid/qcd/action/fermion/WilsonFermion.h>       // 4d wilson like
+#include <qcd/action/fermion/WilsonFermion.h>       // 4d wilson like
-#include <Grid/qcd/action/fermion/WilsonTMFermion.h>       // 4d wilson like
+#include <qcd/action/fermion/WilsonTMFermion.h>       // 4d wilson like
-#include <Grid/qcd/action/fermion/WilsonFermion5D.h>     // 5d base used by all 5d overlap types
+#include <qcd/action/fermion/WilsonFermion5D.h>     // 5d base used by all 5d overlap types
 
-//#include <Grid/qcd/action/fermion/CloverFermion.h>
+//#include <qcd/action/fermion/CloverFermion.h>
 
-#include <Grid/qcd/action/fermion/CayleyFermion5D.h>     // Cayley types
+#include <qcd/action/fermion/CayleyFermion5D.h>     // Cayley types
-#include <Grid/qcd/action/fermion/DomainWallFermion.h>
+#include <qcd/action/fermion/DomainWallFermion.h>
-#include <Grid/qcd/action/fermion/DomainWallFermion.h>
+#include <qcd/action/fermion/DomainWallFermion.h>
-#include <Grid/qcd/action/fermion/MobiusFermion.h>
+#include <qcd/action/fermion/MobiusFermion.h>
-#include <Grid/qcd/action/fermion/ZMobiusFermion.h>
+#include <qcd/action/fermion/ScaledShamirFermion.h>
-#include <Grid/qcd/action/fermion/ScaledShamirFermion.h>
+#include <qcd/action/fermion/MobiusZolotarevFermion.h>
-#include <Grid/qcd/action/fermion/MobiusZolotarevFermion.h>
+#include <qcd/action/fermion/ShamirZolotarevFermion.h>
-#include <Grid/qcd/action/fermion/ShamirZolotarevFermion.h>
+#include <qcd/action/fermion/OverlapWilsonCayleyTanhFermion.h>
-#include <Grid/qcd/action/fermion/OverlapWilsonCayleyTanhFermion.h>
+#include <qcd/action/fermion/OverlapWilsonCayleyZolotarevFermion.h>
-#include <Grid/qcd/action/fermion/OverlapWilsonCayleyZolotarevFermion.h>
 
-#include <Grid/qcd/action/fermion/ContinuedFractionFermion5D.h>               // Continued fraction
+#include <qcd/action/fermion/ContinuedFractionFermion5D.h>               // Continued fraction
-#include <Grid/qcd/action/fermion/OverlapWilsonContfracTanhFermion.h>
+#include <qcd/action/fermion/OverlapWilsonContfracTanhFermion.h>
-#include <Grid/qcd/action/fermion/OverlapWilsonContfracZolotarevFermion.h>
+#include <qcd/action/fermion/OverlapWilsonContfracZolotarevFermion.h>
 
-#include <Grid/qcd/action/fermion/PartialFractionFermion5D.h>                 // Partial fraction
+#include <qcd/action/fermion/PartialFractionFermion5D.h>                 // Partial fraction
-#include <Grid/qcd/action/fermion/OverlapWilsonPartialFractionTanhFermion.h>
+#include <qcd/action/fermion/OverlapWilsonPartialFractionTanhFermion.h>
-#include <Grid/qcd/action/fermion/OverlapWilsonPartialFractionZolotarevFermion.h>
+#include <qcd/action/fermion/OverlapWilsonPartialFractionZolotarevFermion.h>
 
 ////////////////////////////////////////////////////////////////////////////////////////////////////
 // More maintainable to maintain the following typedef list centrally, as more "impl" targets
@@ -180,14 +157,6 @@ typedef WilsonFermion<WilsonImplR> WilsonFermionR;
 typedef WilsonFermion<WilsonImplF> WilsonFermionF;
 typedef WilsonFermion<WilsonImplD> WilsonFermionD;
 
-typedef WilsonFermion<WilsonAdjImplR> WilsonAdjFermionR;
-typedef WilsonFermion<WilsonAdjImplF> WilsonAdjFermionF;
-typedef WilsonFermion<WilsonAdjImplD> WilsonAdjFermionD;
-
-typedef WilsonFermion<WilsonTwoIndexSymmetricImplR> WilsonTwoIndexSymmetricFermionR;
-typedef WilsonFermion<WilsonTwoIndexSymmetricImplF> WilsonTwoIndexSymmetricFermionF;
-typedef WilsonFermion<WilsonTwoIndexSymmetricImplD> WilsonTwoIndexSymmetricFermionD;
-
 typedef WilsonTMFermion<WilsonImplR> WilsonTMFermionR;
 typedef WilsonTMFermion<WilsonImplF> WilsonTMFermionF;
 typedef WilsonTMFermion<WilsonImplD> WilsonTMFermionD;
@@ -198,11 +167,6 @@ typedef DomainWallFermion<WilsonImplD> DomainWallFermionD;
 typedef MobiusFermion<WilsonImplR> MobiusFermionR;
 typedef MobiusFermion<WilsonImplF> MobiusFermionF;
 typedef MobiusFermion<WilsonImplD> MobiusFermionD;
-
-typedef ZMobiusFermion<ZWilsonImplR> ZMobiusFermionR;
-typedef ZMobiusFermion<ZWilsonImplF> ZMobiusFermionF;
-typedef ZMobiusFermion<ZWilsonImplD> ZMobiusFermionD;
-
 typedef ScaledShamirFermion<WilsonImplR> ScaledShamirFermionR;
 typedef ScaledShamirFermion<WilsonImplF> ScaledShamirFermionF;
 typedef ScaledShamirFermion<WilsonImplD> ScaledShamirFermionD;
@@ -258,21 +222,21 @@ typedef MobiusFermion<GparityWilsonImplD> GparityMobiusFermionD;
 ///////////////////////////////////////////////////////////////////////////////
 // G5 herm -- this has to live in QCD since dirac matrix is not in the broader sector of code
 ///////////////////////////////////////////////////////////////////////////////
-#include <Grid/qcd/action/fermion/g5HermitianLinop.h>
+#include <qcd/action/fermion/g5HermitianLinop.h>
 
 ////////////////////////////////////////
 // Pseudo fermion combinations for HMC
 ////////////////////////////////////////
-#include <Grid/qcd/action/pseudofermion/EvenOddSchurDifferentiable.h>
+#include <qcd/action/pseudofermion/EvenOddSchurDifferentiable.h>
 
-#include <Grid/qcd/action/pseudofermion/TwoFlavour.h>
+#include <qcd/action/pseudofermion/TwoFlavour.h>
-#include <Grid/qcd/action/pseudofermion/TwoFlavourRatio.h>
+#include <qcd/action/pseudofermion/TwoFlavourRatio.h>
-#include <Grid/qcd/action/pseudofermion/TwoFlavourEvenOdd.h>
+#include <qcd/action/pseudofermion/TwoFlavourEvenOdd.h>
-#include <Grid/qcd/action/pseudofermion/TwoFlavourEvenOddRatio.h>
+#include <qcd/action/pseudofermion/TwoFlavourEvenOddRatio.h>
 
-#include <Grid/qcd/action/pseudofermion/OneFlavourRational.h>
+#include <qcd/action/pseudofermion/OneFlavourRational.h>
-#include <Grid/qcd/action/pseudofermion/OneFlavourRationalRatio.h>
+#include <qcd/action/pseudofermion/OneFlavourRationalRatio.h>
-#include <Grid/qcd/action/pseudofermion/OneFlavourEvenOddRational.h>
+#include <qcd/action/pseudofermion/OneFlavourEvenOddRational.h>
-#include <Grid/qcd/action/pseudofermion/OneFlavourEvenOddRationalRatio.h>
+#include <qcd/action/pseudofermion/OneFlavourEvenOddRationalRatio.h>
 
 #endif

lib/qcd/action/fermion/CayleyFermion5D.cc

@@ -28,10 +28,7 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
     See the full license in the file "LICENSE" in the top level distribution directory
     *************************************************************************************/
     /*  END LEGAL */
-
 #include <Grid.h>
-
-
 namespace Grid {
 namespace QCD {
 
@@ -48,107 +45,48 @@ namespace QCD {
 		   FourDimGrid,
  	 	   FourDimRedBlackGrid,_M5,p),
    mass(_mass)
- { }
-
-template<class Impl>  
-void CayleyFermion5D<Impl>::M5D   (const FermionField &psi, FermionField &chi)
  {
-  int Ls=this->Ls;
-  std::vector<Coeff_t> diag (Ls,1.0);
-  std::vector<Coeff_t> upper(Ls,-1.0); upper[Ls-1]=mass;
-  std::vector<Coeff_t> lower(Ls,-1.0); lower[0]   =mass;
-  M5D(psi,chi,chi,lower,diag,upper);
  }
+
  template<class Impl>
   void CayleyFermion5D<Impl>::Meooe5D    (const FermionField &psi, FermionField &Din)
   {
+    // Assemble Din
     int Ls=this->Ls;
-  std::vector<Coeff_t> diag = bs;
-  std::vector<Coeff_t> upper= cs;
-  std::vector<Coeff_t> lower= cs; 
-  upper[Ls-1]=-mass*upper[Ls-1];
-  lower[0]   =-mass*lower[0];
-  M5D(psi,psi,Din,lower,diag,upper);
-}
-template<class Impl> void CayleyFermion5D<Impl>::Meo5D     (const FermionField &psi, FermionField &chi)
-{
-  int Ls=this->Ls;
-  std::vector<Coeff_t> diag = beo;
-  std::vector<Coeff_t> upper(Ls);
-  std::vector<Coeff_t> lower(Ls);
-  for(int i=0;i<Ls;i++) {
-    upper[i]=-ceo[i];
-    lower[i]=-ceo[i];
-  }
-  upper[Ls-1]=-mass*upper[Ls-1];
-  lower[0]   =-mass*lower[0];
-  M5D(psi,psi,chi,lower,diag,upper);
-}
-template<class Impl>
-void CayleyFermion5D<Impl>::Mooee       (const FermionField &psi, FermionField &chi)
-{
-  int Ls=this->Ls;
-  std::vector<Coeff_t> diag = bee;
-  std::vector<Coeff_t> upper(Ls);
-  std::vector<Coeff_t> lower(Ls);
-  for(int i=0;i<Ls;i++) {
-    upper[i]=-cee[i];
-    lower[i]=-cee[i];
-  }
-  upper[Ls-1]=-mass*upper[Ls-1];
-  lower[0]   =-mass*lower[0];
-  M5D(psi,psi,chi,lower,diag,upper);
-}
-
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeDag    (const FermionField &psi, FermionField &chi)
-{
-  int Ls=this->Ls;
-  std::vector<Coeff_t> diag = bee;
-  std::vector<Coeff_t> upper(Ls);
-  std::vector<Coeff_t> lower(Ls);
-
     for(int s=0;s<Ls;s++){
-    // Assemble the 5d matrix
       if ( s==0 ) {
-      upper[s] = -cee[s+1] ;
+	//	Din = bs psi[s] + cs[s] psi[s+1}
-      lower[s] = mass*cee[Ls-1];
+	axpby_ssp_pminus(Din,bs[s],psi,cs[s],psi,s,s+1);
+	//      Din+= -mass*cs[s] psi[s+1}
+	axpby_ssp_pplus (Din,1.0,Din,-mass*cs[s],psi,s,Ls-1);
       } else if ( s==(Ls-1)) { 
-      upper[s] = mass*cee[0];
+	axpby_ssp_pminus(Din,bs[s],psi,-mass*cs[s],psi,s,0);
-      lower[s] = -cee[s-1];
+	axpby_ssp_pplus (Din,1.0,Din,cs[s],psi,s,s-1);
       } else {
-      upper[s]=-cee[s+1];
+	axpby_ssp_pminus(Din,bs[s],psi,cs[s],psi,s,s+1);
-      lower[s]=-cee[s-1];
+	axpby_ssp_pplus(Din,1.0,Din,cs[s],psi,s,s-1);
       }
     }
-
-  M5Ddag(psi,psi,chi,lower,diag,upper);
   }
-
-template<class Impl>
-void CayleyFermion5D<Impl>::M5Ddag (const FermionField &psi, FermionField &chi)
-{
-  int Ls=this->Ls;
-  std::vector<Coeff_t> diag(Ls,1.0);
-  std::vector<Coeff_t> upper(Ls,-1.0);
-  std::vector<Coeff_t> lower(Ls,-1.0);
-  upper[Ls-1]=-mass*upper[Ls-1];
-  lower[0]   =-mass*lower[0];
-  M5Ddag(psi,chi,chi,lower,diag,upper);
-}
-
  template<class Impl>
   void CayleyFermion5D<Impl>::MeooeDag5D    (const FermionField &psi, FermionField &Din)
   {
     int Ls=this->Ls;
-  std::vector<Coeff_t> diag =bs;
+    for(int s=0;s<Ls;s++){
-  std::vector<Coeff_t> upper=cs;
+      if ( s==0 ) {
-  std::vector<Coeff_t> lower=cs;
+	axpby_ssp_pplus (Din,bs[s],psi,cs[s+1],psi,s,s+1);
-  upper[Ls-1]=-mass*upper[Ls-1];
+	axpby_ssp_pminus(Din,1.0,Din,-mass*cs[Ls-1],psi,s,Ls-1);
-  lower[0]   =-mass*lower[0];
+      } else if ( s==(Ls-1)) { 
-  M5Ddag(psi,psi,Din,lower,diag,upper);
+	axpby_ssp_pplus (Din,bs[s],psi,-mass*cs[0],psi,s,0);
+	axpby_ssp_pminus(Din,1.0,Din,cs[s-1],psi,s,s-1);
+      } else {
+	axpby_ssp_pplus (Din,bs[s],psi,cs[s+1],psi,s,s+1);
+	axpby_ssp_pminus(Din,1.0,Din,cs[s-1],psi,s,s-1);
+      }
+    }
   }
 
+  // override multiply
  template<class Impl>
   RealD CayleyFermion5D<Impl>::M    (const FermionField &psi, FermionField &chi)
   {
@@ -157,14 +95,42 @@ RealD CayleyFermion5D<Impl>::M    (const FermionField &psi, FermionField &chi)
     FermionField Din(psi._grid);
 
     // Assemble Din
+    /*
+    for(int s=0;s<Ls;s++){
+      if ( s==0 ) {
+	//	Din = bs psi[s] + cs[s] psi[s+1}
+	axpby_ssp_pminus(Din,bs[s],psi,cs[s],psi,s,s+1);
+	//      Din+= -mass*cs[s] psi[s+1}
+	axpby_ssp_pplus (Din,1.0,Din,-mass*cs[s],psi,s,Ls-1);
+      } else if ( s==(Ls-1)) { 
+	axpby_ssp_pminus(Din,bs[s],psi,-mass*cs[s],psi,s,0);
+	axpby_ssp_pplus (Din,1.0,Din,cs[s],psi,s,s-1);
+      } else {
+	axpby_ssp_pminus(Din,bs[s],psi,cs[s],psi,s,s+1);
+	axpby_ssp_pplus(Din,1.0,Din,cs[s],psi,s,s-1);
+      }
+    }
+    */
     Meooe5D(psi,Din);
 
     this->DW(Din,chi,DaggerNo);
     // ((b D_W + D_w hop terms +1) on s-diag
     axpby(chi,1.0,1.0,chi,psi); 
 
-  M5D(psi,chi);
+    // Call Mooee??
-  return(norm2(chi));
+    for(int s=0;s<Ls;s++){
+      if ( s==0 ){
+	axpby_ssp_pminus(chi,1.0,chi,-1.0,psi,s,s+1);
+	axpby_ssp_pplus (chi,1.0,chi,mass,psi,s,Ls-1);
+      } else if ( s==(Ls-1)) {
+	axpby_ssp_pminus(chi,1.0,chi,mass,psi,s,0);
+	axpby_ssp_pplus (chi,1.0,chi,-1.0,psi,s,s-1);
+      } else {
+	axpby_ssp_pminus(chi,1.0,chi,-1.0,psi,s,s+1);
+	axpby_ssp_pplus (chi,1.0,chi,-1.0,psi,s,s-1);
+      }
+    }
+    return norm2(chi);
   }
 
  template<class Impl>
@@ -180,7 +146,39 @@ RealD CayleyFermion5D<Impl>::Mdag (const FermionField &psi, FermionField &chi)
 
     MeooeDag5D(Din,chi);
 
-  M5Ddag(psi,chi);
+    int Ls=this->Ls;
+    for(int s=0;s<Ls;s++){
+
+      // Collect the terms in DW
+      //	Chi = bs Din[s] + cs[s] Din[s+1}
+      //    Chi+= -mass*cs[s] psi[s+1}
+      /*
+      if ( s==0 ) {
+	axpby_ssp_pplus (chi,bs[s],Din,cs[s+1],Din,s,s+1);
+	axpby_ssp_pminus(chi,1.0,chi,-mass*cs[Ls-1],Din,s,Ls-1);
+      } else if ( s==(Ls-1)) { 
+	axpby_ssp_pplus (chi,bs[s],Din,-mass*cs[0],Din,s,0);
+	axpby_ssp_pminus(chi,1.0,chi,cs[s-1],Din,s,s-1);
+      } else {
+	axpby_ssp_pplus (chi,bs[s],Din,cs[s+1],Din,s,s+1);
+	axpby_ssp_pminus(chi,1.0,chi,cs[s-1],Din,s,s-1);
+      }
+      */
+
+      // FIXME just call MooeeDag??
+
+      // Collect the terms indept of DW
+      if ( s==0 ){
+	axpby_ssp_pplus (chi,1.0,chi,-1.0,psi,s,s+1);
+	axpby_ssp_pminus(chi,1.0,chi,mass,psi,s,Ls-1);
+      } else if ( s==(Ls-1)) {
+	axpby_ssp_pplus (chi,1.0,chi,mass,psi,s,0);
+	axpby_ssp_pminus(chi,1.0,chi,-1.0,psi,s,s-1);
+      } else {
+	axpby_ssp_pplus(chi,1.0,chi,-1.0,psi,s,s+1);
+	axpby_ssp_pminus(chi,1.0,chi,-1.0,psi,s,s-1);
+      }
+    }
     // ((b D_W + D_w hop terms +1) on s-diag
     axpby (chi,1.0,1.0,chi,psi); 
     return norm2(chi);
@@ -191,10 +189,30 @@ template<class Impl>
   void CayleyFermion5D<Impl>::Meooe       (const FermionField &psi, FermionField &chi)
   {
     int Ls=this->Ls;
+
     FermionField tmp(psi._grid);
-
+    // Assemble the 5d matrix
     Meooe5D(psi,tmp); 
+#if 0
+    std::cout << "Meooe Test replacement norm2 tmp = " <<norm2(tmp)<<std::endl;
+    for(int s=0;s<Ls;s++){
+      if ( s==0 ) {
+	//	tmp = bs psi[s] + cs[s] psi[s+1}
+	//      tmp+= -mass*cs[s] psi[s+1}
+	axpby_ssp_pminus(tmp,beo[s],psi,-ceo[s],psi ,s, s+1);
+	axpby_ssp_pplus(tmp,1.0,tmp,mass*ceo[s],psi,s,Ls-1);
+      } else if ( s==(Ls-1)) { 
+	axpby_ssp_pminus(tmp,beo[s],psi,mass*ceo[s],psi,s,0);
+	axpby_ssp_pplus(tmp,1.0,tmp,-ceo[s],psi,s,s-1);
+      } else {
+	axpby_ssp_pminus(tmp,beo[s],psi,-ceo[s],psi,s,s+1);
+	axpby_ssp_pplus (tmp,1.0,tmp,-ceo[s],psi,s,s-1);
+      }
+    }
+    std::cout << "Meooe Test replacement norm2 tmp old = " <<norm2(tmp)<<std::endl;
+#endif
 
+    // Apply 4d dslash
     if ( psi.checkerboard == Odd ) {
       this->DhopEO(tmp,chi,DaggerNo);
     } else {
@@ -212,16 +230,140 @@ void CayleyFermion5D<Impl>::MeooeDag    (const FermionField &psi, FermionField &
     } else {
       this->DhopOE(psi,tmp,DaggerYes);
     }
+
     MeooeDag5D(tmp,chi); 
+#if 0
+    std::cout << "Meooe Test replacement norm2 chi new = " <<norm2(chi)<<std::endl;
+    // Assemble the 5d matrix
+    int Ls=this->Ls;
+    for(int s=0;s<Ls;s++){
+      if ( s==0 ) {
+	axpby_ssp_pplus(chi,beo[s],tmp,   -ceo[s+1]  ,tmp,s,s+1);
+	axpby_ssp_pminus(chi,   1.0,chi,mass*ceo[Ls-1],tmp,s,Ls-1);
+      } else if ( s==(Ls-1)) { 
+	axpby_ssp_pplus(chi,beo[s],tmp,mass*ceo[0],tmp,s,0);
+	axpby_ssp_pminus(chi,1.0,chi,-ceo[s-1],tmp,s,s-1);
+      } else {
+	axpby_ssp_pplus(chi,beo[s],tmp,-ceo[s+1],tmp,s,s+1);
+	axpby_ssp_pminus(chi,1.0   ,chi,-ceo[s-1],tmp,s,s-1);
+      }
+    }
+    std::cout << "Meooe Test replacement norm2 chi old = " <<norm2(chi)<<std::endl;
+#endif
+
+  }
+
+ template<class Impl>
+  void CayleyFermion5D<Impl>::Mooee       (const FermionField &psi, FermionField &chi)
+  {
+    int Ls=this->Ls;
+    for (int s=0;s<Ls;s++){
+      if ( s==0 ) {
+	axpby_ssp_pminus(chi,bee[s],psi ,-cee[s],psi,s,s+1);
+	axpby_ssp_pplus (chi,1.0,chi,mass*cee[s],psi,s,Ls-1);
+      } else if ( s==(Ls-1)) { 
+	axpby_ssp_pminus(chi,bee[s],psi,mass*cee[s],psi,s,0);
+	axpby_ssp_pplus (chi,1.0,chi,-cee[s],psi,s,s-1);
+      } else {
+	axpby_ssp_pminus(chi,bee[s],psi,-cee[s],psi,s,s+1);
+	axpby_ssp_pplus (chi,1.0,chi,-cee[s],psi,s,s-1);
+      }
+    }
   }
 
  template<class Impl>
   void  CayleyFermion5D<Impl>::Mdir (const FermionField &psi, FermionField &chi,int dir,int disp){
+    int Ls=this->Ls;
     FermionField tmp(psi._grid);
-  Meo5D(psi,tmp);
+    // Assemble the 5d matrix
+    for(int s=0;s<Ls;s++){
+      if ( s==0 ) {
+	//	tmp = bs psi[s] + cs[s] psi[s+1}
+	//      tmp+= -mass*cs[s] psi[s+1}
+	axpby_ssp_pminus(tmp,beo[s],psi,-ceo[s],psi ,s, s+1);
+	axpby_ssp_pplus(tmp,1.0,tmp,mass*ceo[s],psi,s,Ls-1);
+      } else if ( s==(Ls-1)) { 
+	axpby_ssp_pminus(tmp,beo[s],psi,mass*ceo[s],psi,s,0);
+	axpby_ssp_pplus(tmp,1.0,tmp,-ceo[s],psi,s,s-1);
+      } else {
+	axpby_ssp_pminus(tmp,beo[s],psi,-ceo[s],psi,s,s+1);
+	axpby_ssp_pplus (tmp,1.0,tmp,-ceo[s],psi,s,s-1);
+      }
+    }
     // Apply 4d dslash fragment
     this->DhopDir(tmp,chi,dir,disp);
   }
+
+ template<class Impl>
+  void CayleyFermion5D<Impl>::MooeeDag    (const FermionField &psi, FermionField &chi)
+  {
+    int Ls=this->Ls;
+    for (int s=0;s<Ls;s++){
+      // Assemble the 5d matrix
+      if ( s==0 ) {
+	axpby_ssp_pplus(chi,bee[s],psi,-cee[s+1]  ,psi,s,s+1);
+	axpby_ssp_pminus(chi,1.0,chi,mass*cee[Ls-1],psi,s,Ls-1);
+      } else if ( s==(Ls-1)) { 
+	axpby_ssp_pplus(chi,bee[s],psi,mass*cee[0],psi,s,0);
+	axpby_ssp_pminus(chi,1.0,chi,-cee[s-1],psi,s,s-1);
+      } else {
+	axpby_ssp_pplus(chi,bee[s],psi,-cee[s+1],psi,s,s+1);
+	axpby_ssp_pminus(chi,1.0   ,chi,-cee[s-1],psi,s,s-1);
+      }
+    }
+  }
+
+ template<class Impl>
+  void CayleyFermion5D<Impl>::MooeeInv    (const FermionField &psi, FermionField &chi)
+  {
+    int Ls=this->Ls;
+    // Apply (L^{\prime})^{-1}
+    axpby_ssp (chi,1.0,psi,     0.0,psi,0,0);      // chi[0]=psi[0]
+    for (int s=1;s<Ls;s++){
+      axpby_ssp_pplus(chi,1.0,psi,-lee[s-1],chi,s,s-1);// recursion Psi[s] -lee P_+ chi[s-1]
+    }
+    // L_m^{-1} 
+    for (int s=0;s<Ls-1;s++){ // Chi[ee] = 1 - sum[s<Ls-1] -leem[s]P_- chi
+      axpby_ssp_pminus(chi,1.0,chi,-leem[s],chi,Ls-1,s);
+    }
+    // U_m^{-1} D^{-1}
+    for (int s=0;s<Ls-1;s++){
+      // Chi[s] + 1/d chi[s] 
+      axpby_ssp_pplus(chi,1.0/dee[s],chi,-ueem[s]/dee[Ls-1],chi,s,Ls-1);
+    }	
+    axpby_ssp(chi,1.0/dee[Ls-1],chi,0.0,chi,Ls-1,Ls-1); // Modest avoidable 
+    
+    // Apply U^{-1}
+    for (int s=Ls-2;s>=0;s--){
+      axpby_ssp_pminus (chi,1.0,chi,-uee[s],chi,s,s+1);  // chi[Ls]
+    }
+  }
+
+ template<class Impl>
+  void CayleyFermion5D<Impl>::MooeeInvDag (const FermionField &psi, FermionField &chi)
+  {
+    int Ls=this->Ls;
+    // Apply (U^{\prime})^{-dagger}
+    axpby_ssp (chi,1.0,psi,     0.0,psi,0,0);      // chi[0]=psi[0]
+    for (int s=1;s<Ls;s++){
+      axpby_ssp_pminus(chi,1.0,psi,-uee[s-1],chi,s,s-1);
+    }
+    // U_m^{-\dagger} 
+    for (int s=0;s<Ls-1;s++){
+      axpby_ssp_pplus(chi,1.0,chi,-ueem[s],chi,Ls-1,s);
+    }
+    // L_m^{-\dagger} D^{-dagger}
+    for (int s=0;s<Ls-1;s++){
+      axpby_ssp_pminus(chi,1.0/dee[s],chi,-leem[s]/dee[Ls-1],chi,s,Ls-1);
+    }	
+    axpby_ssp(chi,1.0/dee[Ls-1],chi,0.0,chi,Ls-1,Ls-1); // Modest avoidable 
+    
+    // Apply L^{-dagger}
+    for (int s=Ls-2;s>=0;s--){
+      axpby_ssp_pplus (chi,1.0,chi,-lee[s],chi,s,s+1);  // chi[Ls]
+    }
+  }
+
   // force terms; five routines; default to Dhop on diagonal
   template<class Impl>
   void CayleyFermion5D<Impl>::MDeriv  (GaugeField &mat,const FermionField &U,const FermionField &V,int dag)
@@ -273,21 +415,12 @@ void CayleyFermion5D<Impl>::MeoDeriv(GaugeField &mat,const FermionField &U,const
  template<class Impl>
   void CayleyFermion5D<Impl>::SetCoefficientsTanh(Approx::zolotarev_data *zdata,RealD b,RealD c)
   {
-  std::vector<Coeff_t> gamma(this->Ls);
+    SetCoefficientsZolotarev(1.0,zdata,b,c);
-  for(int s=0;s<this->Ls;s++) gamma[s] = zdata->gamma[s];
+
-  SetCoefficientsInternal(1.0,gamma,b,c);
   }
   //Zolo
  template<class Impl>
   void CayleyFermion5D<Impl>::SetCoefficientsZolotarev(RealD zolo_hi,Approx::zolotarev_data *zdata,RealD b,RealD c)
-{
-  std::vector<Coeff_t> gamma(this->Ls);
-  for(int s=0;s<this->Ls;s++) gamma[s] = zdata->gamma[s];
-  SetCoefficientsInternal(zolo_hi,gamma,b,c);
-}
-//Zolo
-template<class Impl>
-void CayleyFermion5D<Impl>::SetCoefficientsInternal(RealD zolo_hi,std::vector<Coeff_t> & gamma,RealD b,RealD c)
   {
     int Ls=this->Ls;
 
@@ -325,7 +458,7 @@ void CayleyFermion5D<Impl>::SetCoefficientsInternal(RealD zolo_hi,std::vector<Co
     double bmc = b-c;
     for(int i=0; i < Ls; i++){
       as[i] = 1.0;
-    omega[i] = gamma[i]*zolo_hi; //NB reciprocal relative to Chroma NEF code
+      omega[i] = ((double)zdata->gamma[i])*zolo_hi; //NB reciprocal relative to Chroma NEF code
       bs[i] = 0.5*(bpc/omega[i] + bmc);
       cs[i] = 0.5*(bpc/omega[i] - bmc);
     }
@@ -387,14 +520,12 @@ void CayleyFermion5D<Impl>::SetCoefficientsInternal(RealD zolo_hi,std::vector<Co
     }
 	
     { 
-    Coeff_t delta_d=mass*cee[Ls-1];
+      double delta_d=mass*cee[Ls-1];
       for(int j=0;j<Ls-1;j++) delta_d *= cee[j]/bee[j];
       dee[Ls-1] += delta_d;
     }
   }
 
-
-
   FermOpTemplateInstantiate(CayleyFermion5D);
   GparityFermOpTemplateInstantiate(CayleyFermion5D);
 

lib/qcd/action/fermion/CayleyFermion5D.h

@@ -51,29 +51,6 @@ namespace Grid {
       virtual void   MooeeDag    (const FermionField &in, FermionField &out);
       virtual void   MooeeInv    (const FermionField &in, FermionField &out);
       virtual void   MooeeInvDag (const FermionField &in, FermionField &out);
-      virtual void   Meo5D (const FermionField &psi, FermionField &chi);
-
-      virtual void   M5D   (const FermionField &psi, FermionField &chi);
-      virtual void   M5Ddag(const FermionField &psi, FermionField &chi);
-
-      /////////////////////////////////////////////////////
-      // Instantiate different versions depending on Impl
-      /////////////////////////////////////////////////////
-      void M5D(const FermionField &psi,
-	       const FermionField &phi, 
-	       FermionField &chi,
-	       std::vector<Coeff_t> &lower,
-	       std::vector<Coeff_t> &diag,
-	       std::vector<Coeff_t> &upper);
-
-      void M5Ddag(const FermionField &psi,
-		  const FermionField &phi, 
-		  FermionField &chi,
-		  std::vector<Coeff_t> &lower,
-		  std::vector<Coeff_t> &diag,
-		  std::vector<Coeff_t> &upper);
-      void MooeeInternal(const FermionField &in, FermionField &out,int dag,int inv);
-
       virtual void   Instantiatable(void)=0;
 
       // force terms; five routines; default to Dhop on diagonal
@@ -91,23 +68,23 @@ namespace Grid {
       RealD mass;
 
       // Cayley form Moebius (tanh and zolotarev)
-      std::vector<Coeff_t> omega; 
+      std::vector<RealD> omega; 
-      std::vector<Coeff_t> bs;    // S dependent coeffs
+      std::vector<RealD> bs;    // S dependent coeffs
-      std::vector<Coeff_t> cs;    
+      std::vector<RealD> cs;    
-      std::vector<Coeff_t> as;    
+      std::vector<RealD> as;    
       // For preconditioning Cayley form
-      std::vector<Coeff_t> bee;    
+      std::vector<RealD> bee;    
-      std::vector<Coeff_t> cee;    
+      std::vector<RealD> cee;    
-      std::vector<Coeff_t> aee;    
+      std::vector<RealD> aee;    
-      std::vector<Coeff_t> beo;    
+      std::vector<RealD> beo;    
-      std::vector<Coeff_t> ceo;    
+      std::vector<RealD> ceo;    
-      std::vector<Coeff_t> aeo;    
+      std::vector<RealD> aeo;    
       // LDU factorisation of the eeoo matrix
-      std::vector<Coeff_t> lee;    
+      std::vector<RealD> lee;    
-      std::vector<Coeff_t> leem;    
+      std::vector<RealD> leem;    
-      std::vector<Coeff_t> uee;    
+      std::vector<RealD> uee;    
-      std::vector<Coeff_t> ueem;    
+      std::vector<RealD> ueem;    
-      std::vector<Coeff_t> dee;    
+      std::vector<RealD> dee;    
 
       // Constructors
       CayleyFermion5D(GaugeField &_Umu,
@@ -120,20 +97,9 @@ namespace Grid {
     protected:
       void SetCoefficientsZolotarev(RealD zolohi,Approx::zolotarev_data *zdata,RealD b,RealD c);
       void SetCoefficientsTanh(Approx::zolotarev_data *zdata,RealD b,RealD c);
-      void SetCoefficientsInternal(RealD zolo_hi,std::vector<Coeff_t> & gamma,RealD b,RealD c);
     };
 
   }
 }
-#define INSTANTIATE_DPERP(A)\
-template void CayleyFermion5D< A >::M5D(const FermionField &psi,const FermionField &phi,FermionField &chi,\
-					std::vector<Coeff_t> &lower,std::vector<Coeff_t> &diag,std::vector<Coeff_t> &upper); \
-template void CayleyFermion5D< A >::M5Ddag(const FermionField &psi,const FermionField &phi,FermionField &chi,\
-					   std::vector<Coeff_t> &lower,std::vector<Coeff_t> &diag,std::vector<Coeff_t> &upper); \
-template void CayleyFermion5D< A >::MooeeInv    (const FermionField &psi, FermionField &chi); \
-template void CayleyFermion5D< A >::MooeeInvDag (const FermionField &psi, FermionField &chi);
-
-#define CAYLEY_DPERP_CACHE
-#undef  CAYLEY_DPERP_LINALG
 
 #endif

lib/qcd/action/fermion/CayleyFermion5Dcache.cc

@@ -1,211 +0,0 @@
-    /*************************************************************************************
-
-    Grid physics library, www.github.com/paboyle/Grid 
-
-    Source file: ./lib/qcd/action/fermion/CayleyFermion5D.cc
-
-    Copyright (C) 2015
-
-Author: Peter Boyle <pabobyle@ph.ed.ac.uk>
-Author: Peter Boyle <paboyle@ph.ed.ac.uk>
-Author: Peter Boyle <peterboyle@Peters-MacBook-Pro-2.local>
-Author: paboyle <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 */
-
-#include <Grid.h>
-
-
-namespace Grid {
-namespace QCD {
-
-  // FIXME -- make a version of these routines with site loop outermost for cache reuse.
-
-  // Pminus fowards
-  // Pplus  backwards..
-template<class Impl>  
-void CayleyFermion5D<Impl>::M5D(const FermionField &psi,
-				const FermionField &phi, 
-				FermionField &chi,
-				std::vector<Coeff_t> &lower,
-				std::vector<Coeff_t> &diag,
-				std::vector<Coeff_t> &upper)
-{
-  int Ls =this->Ls;
-  GridBase *grid=psi._grid;
-  assert(phi.checkerboard == psi.checkerboard);
-  chi.checkerboard=psi.checkerboard;
-PARALLEL_FOR_LOOP
-  for(int ss=0;ss<grid->oSites();ss+=Ls){ // adds Ls
-    for(int s=0;s<Ls;s++){
-      auto tmp = psi._odata[0];
-      if ( s==0 ) {
- 	                            spProj5m(tmp,psi._odata[ss+s+1]);
-	chi[ss+s]=diag[s]*phi[ss+s]+upper[s]*tmp;
-
-	                    spProj5p(tmp,psi._odata[ss+Ls-1]);
-	chi[ss+s]=chi[ss+s]+lower[s]*tmp;
-      } else if ( s==(Ls-1)) {
-	                            spProj5m(tmp,psi._odata[ss+0]);
-	chi[ss+s]=diag[s]*phi[ss+s]+upper[s]*tmp;
-
- 	                    spProj5p(tmp,psi._odata[ss+s-1]);
-	chi[ss+s]=chi[ss+s]+lower[s]*tmp;
-      } else { 
-	                            spProj5m(tmp,psi._odata[ss+s+1]);
-	chi[ss+s]=diag[s]*phi[ss+s]+upper[s]*tmp;
-
-	                    spProj5p(tmp,psi._odata[ss+s-1]);
-	chi[ss+s]=chi[ss+s]+lower[s]*tmp;
-      }
-    }
-  }
-}
-
-template<class Impl>  
-void CayleyFermion5D<Impl>::M5Ddag(const FermionField &psi,
-				   const FermionField &phi, 
-				   FermionField &chi,
-				   std::vector<Coeff_t> &lower,
-				   std::vector<Coeff_t> &diag,
-				   std::vector<Coeff_t> &upper)
-{
-  int Ls =this->Ls;
-  GridBase *grid=psi._grid;
-  assert(phi.checkerboard == psi.checkerboard);
-  chi.checkerboard=psi.checkerboard;
-
-PARALLEL_FOR_LOOP
-  for(int ss=0;ss<grid->oSites();ss+=Ls){ // adds Ls
-    auto tmp = psi._odata[0];
-    for(int s=0;s<Ls;s++){
-      if ( s==0 ) {
-	spProj5p(tmp,psi._odata[ss+s+1]);
-	chi[ss+s]=diag[s]*phi[ss+s]+upper[s]*tmp;
-
-	spProj5m(tmp,psi._odata[ss+Ls-1]);
-	chi[ss+s]=chi[ss+s]+lower[s]*tmp;
-      } else if ( s==(Ls-1)) {
-	spProj5p(tmp,psi._odata[ss+0]);
-	chi[ss+s]=diag[s]*phi[ss+s]+upper[s]*tmp;
-
-	spProj5m(tmp,psi._odata[ss+s-1]);
-	chi[ss+s]=chi[ss+s]+lower[s]*tmp;
-      } else { 
-	spProj5p(tmp,psi._odata[ss+s+1]);
-	chi[ss+s]=diag[s]*phi[ss+s]+upper[s]*tmp;
-
-	spProj5m(tmp,psi._odata[ss+s-1]);
-	chi[ss+s]=chi[ss+s]+lower[s]*tmp;
-      }
-    }
-  }
-}
-
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeInv    (const FermionField &psi, FermionField &chi)
-{
-  GridBase *grid=psi._grid;
-  int Ls=this->Ls;
-
-  chi.checkerboard=psi.checkerboard;
-
-PARALLEL_FOR_LOOP
-  for(int ss=0;ss<grid->oSites();ss+=Ls){ // adds Ls
-    auto tmp = psi._odata[0];
-
-    // Apply (L^{\prime})^{-1}
-    chi[ss]=psi[ss]; // chi[0]=psi[0]
-    for(int s=1;s<Ls;s++){
-                            spProj5p(tmp,chi[ss+s-1]);  
-      chi[ss+s] = psi[ss+s]-lee[s-1]*tmp;
-    }
-    // L_m^{-1} 
-    for (int s=0;s<Ls-1;s++){ // Chi[ee] = 1 - sum[s<Ls-1] -leem[s]P_- chi
-                                   spProj5m(tmp,chi[ss+s]);    
-      chi[ss+Ls-1] = chi[ss+Ls-1] - leem[s]*tmp;
-    }
-    // U_m^{-1} D^{-1}
-    for (int s=0;s<Ls-1;s++){
-      // Chi[s] + 1/d chi[s] 
-                                                spProj5p(tmp,chi[ss+Ls-1]); 
-      chi[ss+s] = (1.0/dee[s])*chi[ss+s]-(ueem[s]/dee[Ls-1])*tmp;
-    }	
-    chi[ss+Ls-1]= (1.0/dee[Ls-1])*chi[ss+Ls-1];
-      
-    // Apply U^{-1}
-    for (int s=Ls-2;s>=0;s--){
-                            spProj5m(tmp,chi[ss+s+1]);  
-      chi[ss+s] = chi[ss+s] - uee[s]*tmp;
-    }
-  }
-}
-
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeInvDag (const FermionField &psi, FermionField &chi)
-{
-  GridBase *grid=psi._grid;
-  int Ls=this->Ls;
-
-  assert(psi.checkerboard == psi.checkerboard);
-  chi.checkerboard=psi.checkerboard;
-
-
-PARALLEL_FOR_LOOP
-  for(int ss=0;ss<grid->oSites();ss+=Ls){ // adds Ls
-
-    auto tmp = psi._odata[0];
-
-    // Apply (U^{\prime})^{-dagger}
-    chi[ss]=psi[ss];
-    for (int s=1;s<Ls;s++){
-                            spProj5m(tmp,chi[ss+s-1]);
-      chi[ss+s] = psi[ss+s]-uee[s-1]*tmp;
-    }
-    // U_m^{-\dagger} 
-    for (int s=0;s<Ls-1;s++){
-                                   spProj5p(tmp,chi[ss+s]);
-      chi[ss+Ls-1] = chi[ss+Ls-1] - ueem[s]*tmp;
-    }
-
-    // L_m^{-\dagger} D^{-dagger}
-    for (int s=0;s<Ls-1;s++){
-      spProj5m(tmp,chi[ss+Ls-1]);
-      chi[ss+s] = (1.0/dee[s])*chi[ss+s]-(leem[s]/dee[Ls-1])*tmp;
-    }	
-    chi[ss+Ls-1]= (1.0/dee[Ls-1])*chi[ss+Ls-1];
-  
-    // Apply L^{-dagger}
-    for (int s=Ls-2;s>=0;s--){
-      spProj5p(tmp,chi[ss+s+1]);
-      chi[ss+s] = chi[ss+s] - lee[s]*tmp;
-    }
-  }
-}
-
-#ifdef CAYLEY_DPERP_CACHE
-  INSTANTIATE_DPERP(WilsonImplF);
-  INSTANTIATE_DPERP(WilsonImplD);
-  INSTANTIATE_DPERP(GparityWilsonImplF);
-  INSTANTIATE_DPERP(GparityWilsonImplD);
-  INSTANTIATE_DPERP(ZWilsonImplF);
-  INSTANTIATE_DPERP(ZWilsonImplD);
-#endif
-
-}}

lib/qcd/action/fermion/CayleyFermion5Ddense.cc

@@ -1,133 +0,0 @@
-    /*************************************************************************************
-
-    Grid physics library, www.github.com/paboyle/Grid 
-
-    Source file: ./lib/qcd/action/fermion/CayleyFermion5D.cc
-
-    Copyright (C) 2015
-
-Author: Peter Boyle <pabobyle@ph.ed.ac.uk>
-Author: Peter Boyle <paboyle@ph.ed.ac.uk>
-Author: Peter Boyle <peterboyle@Peters-MacBook-Pro-2.local>
-Author: paboyle <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 */
-
-#include <Grid/Eigen/Dense>
-#include <Grid.h>
-
-
-namespace Grid {
-namespace QCD {
-  /*
-   * Dense matrix versions of routines
-   */
-
-  /*
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeInvDag (const FermionField &psi, FermionField &chi)
-{
-  this->MooeeInternal(psi,chi,DaggerYes,InverseYes);
-}
-  
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeInv(const FermionField &psi, FermionField &chi)
-{
-  this->MooeeInternal(psi,chi,DaggerNo,InverseYes);
-}
-  */
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeInternal(const FermionField &psi, FermionField &chi,int dag, int inv)
-{
-  int Ls=this->Ls;
-  int LLs = psi._grid->_rdimensions[0];
-  int vol = psi._grid->oSites()/LLs;
-  
-  chi.checkerboard=psi.checkerboard;
-  
-  assert(Ls==LLs);
-  
-  Eigen::MatrixXd Pplus  = Eigen::MatrixXd::Zero(Ls,Ls);
-  Eigen::MatrixXd Pminus = Eigen::MatrixXd::Zero(Ls,Ls);
-  
-  for(int s=0;s<Ls;s++){
-    Pplus(s,s) = bee[s];
-    Pminus(s,s)= bee[s];
-  }
-  
-  for(int s=0;s<Ls-1;s++){
-    Pminus(s,s+1) = -cee[s];
-  }
-  
-  for(int s=0;s<Ls-1;s++){
-    Pplus(s+1,s) = -cee[s+1];
-  }
-  Pplus (0,Ls-1) = mass*cee[0];
-  Pminus(Ls-1,0) = mass*cee[Ls-1];
-  
-  Eigen::MatrixXd PplusMat ;
-  Eigen::MatrixXd PminusMat;
-  
-  if ( inv ) {
-    PplusMat =Pplus.inverse();
-    PminusMat=Pminus.inverse();
-  } else { 
-    PplusMat =Pplus;
-    PminusMat=Pminus;
-  }
-  
-  if(dag){
-    PplusMat.adjointInPlace();
-    PminusMat.adjointInPlace();
-  }
-
-  // For the non-vectorised s-direction this is simple
-  
-  for(auto site=0;site<vol;site++){
-    
-    SiteSpinor     SiteChi;
-    SiteHalfSpinor SitePplus;
-    SiteHalfSpinor SitePminus;
-    
-    for(int s1=0;s1<Ls;s1++){
-      SiteChi =zero;
-      for(int s2=0;s2<Ls;s2++){
-	int lex2 = s2+Ls*site;
-	
-	if ( PplusMat(s1,s2) != 0.0 ) {
-	  spProj5p(SitePplus,psi[lex2]);
-	  accumRecon5p(SiteChi,PplusMat (s1,s2)*SitePplus);
-	}
-	
-	if ( PminusMat(s1,s2) != 0.0 ) {
-	  spProj5m(SitePminus,psi[lex2]);
-	  accumRecon5m(SiteChi,PminusMat(s1,s2)*SitePminus);
-	}
-      }
-      chi[s1+Ls*site] = SiteChi*0.5;
-    }
-  }
-}
-
-template void CayleyFermion5D<GparityWilsonImplF>::MooeeInternal(const FermionField &psi, FermionField &chi,int dag, int inv);
-template void CayleyFermion5D<GparityWilsonImplD>::MooeeInternal(const FermionField &psi, FermionField &chi,int dag, int inv);
-template void CayleyFermion5D<WilsonImplF>::MooeeInternal(const FermionField &psi, FermionField &chi,int dag, int inv);
-template void CayleyFermion5D<WilsonImplD>::MooeeInternal(const FermionField &psi, FermionField &chi,int dag, int inv);
-
-}}

lib/qcd/action/fermion/CayleyFermion5Dssp.cc

@@ -1,149 +0,0 @@
-    /*************************************************************************************
-
-    Grid physics library, www.github.com/paboyle/Grid 
-
-    Source file: ./lib/qcd/action/fermion/CayleyFermion5D.cc
-
-    Copyright (C) 2015
-
-Author: Peter Boyle <pabobyle@ph.ed.ac.uk>
-Author: Peter Boyle <paboyle@ph.ed.ac.uk>
-Author: Peter Boyle <peterboyle@Peters-MacBook-Pro-2.local>
-Author: paboyle <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 */
-
-#include <Grid.h>
-
-
-namespace Grid {
-namespace QCD {
-
-  // FIXME -- make a version of these routines with site loop outermost for cache reuse.
-
-  // Pminus fowards
-  // Pplus  backwards
-template<class Impl>  
-void CayleyFermion5D<Impl>::M5D(const FermionField &psi,
-				const FermionField &phi, 
-				FermionField &chi,
-				std::vector<Coeff_t> &lower,
-				std::vector<Coeff_t> &diag,
-				std::vector<Coeff_t> &upper)
-{
-  int Ls=this->Ls;
-  for(int s=0;s<Ls;s++){
-    if ( s==0 ) {
-      axpby_ssp_pminus(chi,diag[s],phi,upper[s],psi,s,s+1);
-      axpby_ssp_pplus (chi,1.0,chi,lower[s],psi,s,Ls-1);
-    } else if ( s==(Ls-1)) { 
-      axpby_ssp_pminus(chi,diag[s],phi,upper[s],psi,s,0);
-      axpby_ssp_pplus (chi,1.0,chi,lower[s],psi,s,s-1);
-    } else {
-      axpby_ssp_pminus(chi,diag[s],phi,upper[s],psi,s,s+1);
-      axpby_ssp_pplus(chi,1.0,chi,lower[s],psi,s,s-1);
-    }
-  }
-}
-template<class Impl>  
-void CayleyFermion5D<Impl>::M5Ddag(const FermionField &psi,
-				   const FermionField &phi, 
-				   FermionField &chi,
-				   std::vector<Coeff_t> &lower,
-				   std::vector<Coeff_t> &diag,
-				   std::vector<Coeff_t> &upper)
-{
-  int Ls=this->Ls;
-  for(int s=0;s<Ls;s++){
-    if ( s==0 ) {
-      axpby_ssp_pplus (chi,diag[s],phi,upper[s],psi,s,s+1);
-      axpby_ssp_pminus(chi,1.0,chi,lower[s],psi,s,Ls-1);
-    } else if ( s==(Ls-1)) { 
-      axpby_ssp_pplus (chi,diag[s],phi,upper[s],psi,s,0);
-      axpby_ssp_pminus(chi,1.0,chi,lower[s],psi,s,s-1);
-    } else {
-      axpby_ssp_pplus (chi,diag[s],phi,upper[s],psi,s,s+1);
-      axpby_ssp_pminus(chi,1.0,chi,lower[s],psi,s,s-1);
-    }
-  }
-}
-
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeInv    (const FermionField &psi, FermionField &chi)
-{
-  chi.checkerboard=psi.checkerboard;
-  int Ls=this->Ls;
-  // Apply (L^{\prime})^{-1}
-  axpby_ssp (chi,1.0,psi,     0.0,psi,0,0);      // chi[0]=psi[0]
-  for (int s=1;s<Ls;s++){
-    axpby_ssp_pplus(chi,1.0,psi,-lee[s-1],chi,s,s-1);// recursion Psi[s] -lee P_+ chi[s-1]
-  }
-  // L_m^{-1} 
-  for (int s=0;s<Ls-1;s++){ // Chi[ee] = 1 - sum[s<Ls-1] -leem[s]P_- chi
-    axpby_ssp_pminus(chi,1.0,chi,-leem[s],chi,Ls-1,s);
-  }
-  // U_m^{-1} D^{-1}
-  for (int s=0;s<Ls-1;s++){
-    // Chi[s] + 1/d chi[s] 
-    axpby_ssp_pplus(chi,1.0/dee[s],chi,-ueem[s]/dee[Ls-1],chi,s,Ls-1);
-  }	
-  axpby_ssp(chi,1.0/dee[Ls-1],chi,0.0,chi,Ls-1,Ls-1); // Modest avoidable 
-  
-  // Apply U^{-1}
-  for (int s=Ls-2;s>=0;s--){
-    axpby_ssp_pminus (chi,1.0,chi,-uee[s],chi,s,s+1);  // chi[Ls]
-  }
-}
-
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeInvDag (const FermionField &psi, FermionField &chi)
-{
-  chi.checkerboard=psi.checkerboard;
-  int Ls=this->Ls;
-  // Apply (U^{\prime})^{-dagger}
-  axpby_ssp (chi,1.0,psi,     0.0,psi,0,0);      // chi[0]=psi[0]
-  for (int s=1;s<Ls;s++){
-    axpby_ssp_pminus(chi,1.0,psi,-uee[s-1],chi,s,s-1);
-  }
-  // U_m^{-\dagger} 
-  for (int s=0;s<Ls-1;s++){
-    axpby_ssp_pplus(chi,1.0,chi,-ueem[s],chi,Ls-1,s);
-  }
-  // L_m^{-\dagger} D^{-dagger}
-  for (int s=0;s<Ls-1;s++){
-    axpby_ssp_pminus(chi,1.0/dee[s],chi,-leem[s]/dee[Ls-1],chi,s,Ls-1);
-  }	
-  axpby_ssp(chi,1.0/dee[Ls-1],chi,0.0,chi,Ls-1,Ls-1); // Modest avoidable 
-  
-  // Apply L^{-dagger}
-  for (int s=Ls-2;s>=0;s--){
-    axpby_ssp_pplus (chi,1.0,chi,-lee[s],chi,s,s+1);  // chi[Ls]
-  }
-}
-
-
-#ifdef CAYLEY_DPERP_LINALG
-  INSTANTIATE(WilsonImplF);
-  INSTANTIATE(WilsonImplD);
-  INSTANTIATE(GparityWilsonImplF);
-  INSTANTIATE(GparityWilsonImplD);
-#endif
-
-}
-}

lib/qcd/action/fermion/CayleyFermion5Dvec.cc

@@ -1,309 +0,0 @@
-    /*************************************************************************************
-
-    Grid physics library, www.github.com/paboyle/Grid 
-
-    Source file: ./lib/qcd/action/fermion/CayleyFermion5D.cc
-
-    Copyright (C) 2015
-
-Author: Peter Boyle <pabobyle@ph.ed.ac.uk>
-Author: Peter Boyle <paboyle@ph.ed.ac.uk>
-Author: Peter Boyle <peterboyle@Peters-MacBook-Pro-2.local>
-Author: paboyle <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 */
-
-#include <Grid/Eigen/Dense>
-#include <Grid.h>
-
-
-namespace Grid {
-namespace QCD {
-  /*
-   * Dense matrix versions of routines
-   */
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeInvDag (const FermionField &psi, FermionField &chi)
-{
-  this->MooeeInternal(psi,chi,DaggerYes,InverseYes);
-}
-  
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeInv(const FermionField &psi, FermionField &chi)
-{
-  this->MooeeInternal(psi,chi,DaggerNo,InverseYes);
-}
-template<class Impl>  
-void CayleyFermion5D<Impl>::M5D(const FermionField &psi,
-				const FermionField &phi, 
-				FermionField &chi,
-				std::vector<Coeff_t> &lower,
-				std::vector<Coeff_t> &diag,
-				std::vector<Coeff_t> &upper)
-{
-  GridBase *grid=psi._grid;
-  int Ls   = this->Ls;
-  int LLs  = grid->_rdimensions[0];
-  int nsimd= Simd::Nsimd();
-
-  Vector<iSinglet<Simd> > u(LLs);
-  Vector<iSinglet<Simd> > l(LLs);
-  Vector<iSinglet<Simd> > d(LLs);
-
-  assert(Ls/LLs==nsimd);
-  assert(phi.checkerboard == psi.checkerboard);
-
-  chi.checkerboard=psi.checkerboard;
-
-  // just directly address via type pun
-  typedef typename Simd::scalar_type scalar_type;
-  scalar_type * u_p = (scalar_type *)&u[0];
-  scalar_type * l_p = (scalar_type *)&l[0];
-  scalar_type * d_p = (scalar_type *)&d[0];
-
-  for(int o=0;o<LLs;o++){ // outer
-  for(int i=0;i<nsimd;i++){ //inner
-    int s  = o+i*LLs;
-    int ss = o*nsimd+i;
-    u_p[ss] = upper[s];
-    l_p[ss] = lower[s];
-    d_p[ss] = diag[s];
-  }}
-
-PARALLEL_FOR_LOOP
-  for(int ss=0;ss<grid->oSites();ss+=LLs){ // adds LLs
-
-    alignas(64) SiteHalfSpinor hp;
-    alignas(64) SiteHalfSpinor hm;
-    alignas(64) SiteSpinor fp;
-    alignas(64) SiteSpinor fm;
-
-    for(int v=0;v<LLs;v++){
-
-      int vp=(v+1)%LLs;
-      int vm=(v+LLs-1)%LLs;
-
-      spProj5m(hp,psi[ss+vp]);
-      spProj5p(hm,psi[ss+vm]);
-      
-      if ( vp<=v ) rotate(hp,hp,1);
-      if ( vm>=v ) rotate(hm,hm,nsimd-1);
-
-      hp=hp*0.5;
-      hm=hm*0.5;
-      spRecon5m(fp,hp);
-      spRecon5p(fm,hm);
-
-      chi[ss+v] = d[v]*phi[ss+v]+u[v]*fp;
-      chi[ss+v] = chi[ss+v]     +l[v]*fm;
-
-    }
-  }
-}
-
-template<class Impl>  
-void CayleyFermion5D<Impl>::M5Ddag(const FermionField &psi,
-				   const FermionField &phi, 
-				   FermionField &chi,
-				   std::vector<Coeff_t> &lower,
-				   std::vector<Coeff_t> &diag,
-				   std::vector<Coeff_t> &upper)
-{
-  GridBase *grid=psi._grid;
-  int Ls   = this->Ls;
-  int LLs  = grid->_rdimensions[0];
-  int nsimd= Simd::Nsimd();
-
-  Vector<iSinglet<Simd> > u(LLs);
-  Vector<iSinglet<Simd> > l(LLs);
-  Vector<iSinglet<Simd> > d(LLs);
-
-  assert(Ls/LLs==nsimd);
-  assert(phi.checkerboard == psi.checkerboard);
-
-  chi.checkerboard=psi.checkerboard;
-
-  // just directly address via type pun
-  typedef typename Simd::scalar_type scalar_type;
-  scalar_type * u_p = (scalar_type *)&u[0];
-  scalar_type * l_p = (scalar_type *)&l[0];
-  scalar_type * d_p = (scalar_type *)&d[0];
-
-  for(int o=0;o<LLs;o++){ // outer
-  for(int i=0;i<nsimd;i++){ //inner
-    int s  = o+i*LLs;
-    int ss = o*nsimd+i;
-    u_p[ss] = upper[s];
-    l_p[ss] = lower[s];
-    d_p[ss] = diag[s];
-  }}
-
-PARALLEL_FOR_LOOP
-  for(int ss=0;ss<grid->oSites();ss+=LLs){ // adds LLs
-
-    alignas(64) SiteHalfSpinor hp;
-    alignas(64) SiteHalfSpinor hm;
-    alignas(64) SiteSpinor fp;
-    alignas(64) SiteSpinor fm;
-
-    for(int v=0;v<LLs;v++){
-
-      int vp=(v+1)%LLs;
-      int vm=(v+LLs-1)%LLs;
-
-      spProj5p(hp,psi[ss+vp]);
-      spProj5m(hm,psi[ss+vm]);
-
-      if ( vp<=v ) rotate(hp,hp,1);
-      if ( vm>=v ) rotate(hm,hm,nsimd-1);
-      
-      hp=hp*0.5;
-      hm=hm*0.5;
-      spRecon5p(fp,hp);
-      spRecon5m(fm,hm);
-
-      chi[ss+v] = d[v]*phi[ss+v]+u[v]*fp;
-      chi[ss+v] = chi[ss+v]     +l[v]*fm;
-
-    }
-  }
-}
-
-template<class Impl>
-void CayleyFermion5D<Impl>::MooeeInternal(const FermionField &psi, FermionField &chi,int dag, int inv)
-{
-  int Ls=this->Ls;
-  int LLs = psi._grid->_rdimensions[0];
-  int vol = psi._grid->oSites()/LLs;
-
-  chi.checkerboard=psi.checkerboard;
-  
-  Eigen::MatrixXcd Pplus  = Eigen::MatrixXcd::Zero(Ls,Ls);
-  Eigen::MatrixXcd Pminus = Eigen::MatrixXcd::Zero(Ls,Ls);
-  
-  for(int s=0;s<Ls;s++){
-    Pplus(s,s) = bee[s];
-    Pminus(s,s)= bee[s];
-  }
-  
-  for(int s=0;s<Ls-1;s++){
-    Pminus(s,s+1) = -cee[s];
-  }
-  
-  for(int s=0;s<Ls-1;s++){
-    Pplus(s+1,s) = -cee[s+1];
-  }
-  Pplus (0,Ls-1) = mass*cee[0];
-  Pminus(Ls-1,0) = mass*cee[Ls-1];
-  
-  Eigen::MatrixXcd PplusMat ;
-  Eigen::MatrixXcd PminusMat;
-  
-  if ( inv ) {
-    PplusMat =Pplus.inverse();
-    PminusMat=Pminus.inverse();
-  } else { 
-    PplusMat =Pplus;
-    PminusMat=Pminus;
-  }
-  
-  if(dag){
-    PplusMat.adjointInPlace();
-    PminusMat.adjointInPlace();
-  }
-  
-  typedef typename SiteHalfSpinor::scalar_type scalar_type;
-  const int Nsimd=Simd::Nsimd();
-  Vector<iSinglet<Simd> > Matp(Ls*LLs);
-  Vector<iSinglet<Simd> > Matm(Ls*LLs);
-
-  for(int s2=0;s2<Ls;s2++){
-  for(int s1=0;s1<LLs;s1++){
-    int istride = LLs;
-    int ostride = 1;
-      Simd Vp;
-      Simd Vm;
-      scalar_type *sp = (scalar_type *)&Vp;
-      scalar_type *sm = (scalar_type *)&Vm;
-      for(int l=0;l<Nsimd;l++){
-	sp[l] = PplusMat (l*istride+s1*ostride ,s2);
-	sm[l] = PminusMat(l*istride+s1*ostride,s2);
-      }
-      Matp[LLs*s2+s1] = Vp;
-      Matm[LLs*s2+s1] = Vm;
-    }
-  }
-  
-  // Dynamic allocate on stack to get per thread without serialised heap acces
-PARALLEL_FOR_LOOP
-  for(auto site=0;site<vol;site++){
-    
-    //    SiteHalfSpinor *SitePplus =(SiteHalfSpinor *) alloca(LLs*sizeof(SiteHalfSpinor));
-    //    SiteHalfSpinor *SitePminus=(SiteHalfSpinor *) alloca(LLs*sizeof(SiteHalfSpinor));
-    //    SiteSpinor     *SiteChi   =(SiteSpinor *)     alloca(LLs*sizeof(SiteSpinor));
-
-    Vector<SiteHalfSpinor> SitePplus(LLs);
-    Vector<SiteHalfSpinor> SitePminus(LLs);
-    Vector<SiteHalfSpinor> SiteChiP(LLs);
-    Vector<SiteHalfSpinor> SiteChiM(LLs);
-    Vector<SiteSpinor>     SiteChi(LLs);
-
-    SiteHalfSpinor BcastP;
-    SiteHalfSpinor BcastM;
-
-    for(int s=0;s<LLs;s++){
-      int lex = s+LLs*site;
-      spProj5p(SitePplus[s] ,psi[lex]);
-      spProj5m(SitePminus[s],psi[lex]);
-      SiteChiP[s]=zero;
-      SiteChiM[s]=zero;
-    }
-      
-    int s=0;
-    for(int  l=0; l<Simd::Nsimd();l++){ // simd lane
-      for(int s2=0;s2<LLs;s2++){ // Column loop of right hand side
-	vbroadcast(BcastP,SitePplus [s2],l);
-	vbroadcast(BcastM,SitePminus[s2],l);
-	for(int s1=0;s1<LLs;s1++){ // Column loop of reduction variables
-	  SiteChiP[s1]=SiteChiP[s1]+Matp[LLs*s+s1]*BcastP;
-	  SiteChiM[s1]=SiteChiM[s1]+Matm[LLs*s+s1]*BcastM;
-	}
-      s++;
-    }}
-
-    for(int s=0;s<LLs;s++){
-      int lex = s+LLs*site;
-      spRecon5p(SiteChi[s],SiteChiP[s]);
-      accumRecon5m(SiteChi[s],SiteChiM[s]);
-      chi[lex] = SiteChi[s]*0.5;
-    }
-  }
-}
-
-INSTANTIATE_DPERP(DomainWallVec5dImplD);
-INSTANTIATE_DPERP(DomainWallVec5dImplF);
-INSTANTIATE_DPERP(ZDomainWallVec5dImplD);
-INSTANTIATE_DPERP(ZDomainWallVec5dImplF);
-
-template void CayleyFermion5D<DomainWallVec5dImplF>::MooeeInternal(const FermionField &psi, FermionField &chi,int dag, int inv);
-template void CayleyFermion5D<DomainWallVec5dImplD>::MooeeInternal(const FermionField &psi, FermionField &chi,int dag, int inv);
-template void CayleyFermion5D<ZDomainWallVec5dImplF>::MooeeInternal(const FermionField &psi, FermionField &chi,int dag, int inv);
-template void CayleyFermion5D<ZDomainWallVec5dImplD>::MooeeInternal(const FermionField &psi, FermionField &chi,int dag, int inv);
-
-}}

lib/qcd/action/fermion/DomainWallFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef  GRID_QCD_DOMAIN_WALL_FERMION_H
 #define  GRID_QCD_DOMAIN_WALL_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/FermionOperatorImpl.h

@@ -25,8 +25,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef  GRID_QCD_FERMION_OPERATOR_IMPL_H
@@ -76,7 +75,7 @@ namespace Grid {
     //
     //
     // template<class Impl>
-    // class MyOp : public<Impl> { 
+    // class MyOp : pubic<Impl> { 
     // public:
     //
     //    INHERIT_ALL_IMPL_TYPES(Impl);
@@ -101,8 +100,7 @@ namespace Grid {
     typedef typename Impl::SiteHalfSpinor       SiteHalfSpinor;		\
     typedef typename Impl::Compressor               Compressor;		\
     typedef typename Impl::StencilImpl              StencilImpl;	\
-    typedef typename Impl::ImplParams ImplParams;			\
+    typedef typename Impl::ImplParams ImplParams;
-    typedef typename Impl::Coeff_t       Coeff_t;
 
 #define INHERIT_IMPL_TYPES(Base) \
     INHERIT_GIMPL_TYPES(Base)\
@@ -111,25 +109,17 @@ namespace Grid {
     ///////
     // Single flavour four spinors with colour index
     ///////
-    template <class S, class Representation = FundamentalRepresentation,class _Coeff_t = RealD >
+    template<class S,int Nrepresentation=Nc>
-    class WilsonImpl
+    class WilsonImpl :  public PeriodicGaugeImpl< GaugeImplTypes< S,Nrepresentation> > { 
-      : public PeriodicGaugeImpl<GaugeImplTypes<S, Representation::Dimension > > {
     public:
-      static const int Dimension = Representation::Dimension;
-      typedef PeriodicGaugeImpl<GaugeImplTypes<S, Dimension > > Gimpl;
-      
-      //Necessary?
-      constexpr bool is_fundamental() const{return Dimension == Nc ? 1 : 0;}
-
-      const bool LsVectorised=false;
-      typedef _Coeff_t Coeff_t;
 
+      typedef PeriodicGaugeImpl< GaugeImplTypes< S,Nrepresentation> > Gimpl;
 
       INHERIT_GIMPL_TYPES(Gimpl);
 
-      template <typename vtype> using iImplSpinor            = iScalar<iVector<iVector<vtype, Dimension>, Ns> >;
+      template<typename vtype> using iImplSpinor             = iScalar<iVector<iVector<vtype, Nrepresentation>, Ns> >;
-      template <typename vtype> using iImplHalfSpinor        = iScalar<iVector<iVector<vtype, Dimension>, Nhs> >;
+      template<typename vtype> using iImplHalfSpinor         = iScalar<iVector<iVector<vtype, Nrepresentation>, Nhs> >;
-      template <typename vtype> using iImplDoubledGaugeField = iVector<iScalar<iMatrix<vtype, Dimension> >, Nds>;
+      template<typename vtype> using iImplDoubledGaugeField  = iVector<iScalar<iMatrix<vtype, Nrepresentation> >, Nds >;
     
       typedef iImplSpinor    <Simd>           SiteSpinor;
       typedef iImplHalfSpinor<Simd>           SiteHalfSpinor;
@@ -148,24 +138,16 @@ namespace Grid {
 
       bool overlapCommsCompute(void) { return Params.overlapCommsCompute; };
     
-      inline void multLink(SiteHalfSpinor &phi,
+      inline void multLink(SiteHalfSpinor &phi,const SiteDoubledGaugeField &U,const SiteHalfSpinor &chi,int mu,StencilEntry *SE,StencilImpl &St){
-			   const SiteDoubledGaugeField &U,
-			   const SiteHalfSpinor &chi,
-			   int mu,
-			   StencilEntry *SE,
-			   StencilImpl &St) {
         mult(&phi(),&U(mu),&chi());
       }
 
       template<class ref>
-      inline void loadLinkElement(Simd &reg,
+      inline void loadLinkElement(Simd & reg,ref &memory){
-				  ref &memory) {
 	reg = memory;
       }
-      
+      inline void DoubleStore(GridBase *GaugeGrid,DoubledGaugeField &Uds,const GaugeField &Umu)
-      inline void DoubleStore(GridBase *GaugeGrid,
+      {
-			      DoubledGaugeField &Uds,
-			      const GaugeField &Umu) {
         conformable(Uds._grid,GaugeGrid);
         conformable(Umu._grid,GaugeGrid);
         GaugeLinkField U(GaugeGrid);
@@ -186,9 +168,9 @@ namespace Grid {
       inline void InsertForce5D(GaugeField &mat, FermionField &Btilde, FermionField &Atilde,int mu){
 
 	int Ls=Btilde._grid->_fdimensions[0];
+
 	GaugeLinkField tmp(mat._grid);
 	tmp = zero;
-
 PARALLEL_FOR_LOOP
 	for(int sss=0;sss<tmp._grid->oSites();sss++){
 	  int sU=sss;
@@ -200,18 +182,18 @@ namespace Grid {
 	PokeIndex<LorentzIndex>(mat,tmp,mu);
 	
       }
+
     };
 
+
+
     ///////
     // Single flavour four spinors with colour index, 5d redblack
     ///////
-    template<class S,int Nrepresentation=Nc,class _Coeff_t = RealD>
+    template<class S,int Nrepresentation=Nc>
-    class DomainWallVec5dImpl :  public PeriodicGaugeImpl< GaugeImplTypes< S,Nrepresentation> > { 
+    class DomainWallRedBlack5dImpl :  public PeriodicGaugeImpl< GaugeImplTypes< S,Nrepresentation> > { 
     public:
 
-      static const int Dimension = Nrepresentation;
-      const bool LsVectorised=true;
-      typedef _Coeff_t Coeff_t;      
       typedef PeriodicGaugeImpl< GaugeImplTypes< S,Nrepresentation> > Gimpl;
 
       INHERIT_GIMPL_TYPES(Gimpl);
@@ -227,12 +209,9 @@ namespace Grid {
       typedef Lattice<SiteSpinor>             FermionField;
 
       // Make the doubled gauge field a *scalar*
-      typedef iImplDoubledGaugeField<typename Simd::scalar_type>
+      typedef iImplDoubledGaugeField<typename Simd::scalar_type>    SiteDoubledGaugeField; // This is a scalar
-      SiteDoubledGaugeField;  // This is a scalar
+      typedef iImplGaugeField<typename Simd::scalar_type>           SiteScalarGaugeField;  // scalar
-      typedef iImplGaugeField<typename Simd::scalar_type>
+      typedef iImplGaugeLink <typename Simd::scalar_type>           SiteScalarGaugeLink;   // scalar
-      SiteScalarGaugeField;  // scalar
-      typedef iImplGaugeLink<typename Simd::scalar_type>
-      SiteScalarGaugeLink;  // scalar
 
       typedef Lattice<SiteDoubledGaugeField>                  DoubledGaugeField;
 
@@ -242,7 +221,7 @@ namespace Grid {
 
       ImplParams Params;
 
-      DomainWallVec5dImpl(const ImplParams &p = ImplParams()) : Params(p){};
+      DomainWallRedBlack5dImpl(const ImplParams &p= ImplParams()) : Params(p) {}; 
 
       bool overlapCommsCompute(void) { return false; };
     
@@ -250,9 +229,8 @@ namespace Grid {
       inline void loadLinkElement(Simd & reg,ref &memory){
 	vsplat(reg,memory);
       }
-      inline void multLink(SiteHalfSpinor &phi, const SiteDoubledGaugeField &U,
+      inline void multLink(SiteHalfSpinor &phi,const SiteDoubledGaugeField &U,const SiteHalfSpinor &chi,int mu,StencilEntry *SE,StencilImpl &St)
-			   const SiteHalfSpinor &chi, int mu, StencilEntry *SE,
+      {
-			   StencilImpl &St) {
 	SiteGaugeLink UU;
 	for(int i=0;i<Nrepresentation;i++){
 	  for(int j=0;j<Nrepresentation;j++){
@@ -262,8 +240,8 @@ namespace Grid {
         mult(&phi(),&UU(),&chi());
       }
 
-      inline void DoubleStore(GridBase *GaugeGrid, DoubledGaugeField &Uds,
+      inline void DoubleStore(GridBase *GaugeGrid,DoubledGaugeField &Uds,const GaugeField &Umu)
-			      const GaugeField &Umu) {
+      {
 	SiteScalarGaugeField  ScalarUmu;
 	SiteDoubledGaugeField ScalarUds;
 
@@ -287,45 +265,35 @@ namespace Grid {
 
 	  pokeLocalSite(ScalarUds,Uds,lcoor);
 	}
+
       }
 	
-      inline void InsertForce4D(GaugeField &mat, FermionField &Btilde,
+      inline void InsertForce4D(GaugeField &mat, FermionField &Btilde, FermionField &A,int mu){
-				FermionField &A, int mu) {
 	assert(0);
       }   
 
-      inline void InsertForce5D(GaugeField &mat, FermionField &Btilde,
+      inline void InsertForce5D(GaugeField &mat, FermionField &Btilde, FermionField &Atilde,int mu){
-				FermionField &Atilde, int mu) {
 	assert(0);
       }
+
     };
 
+
     ////////////////////////////////////////////////////////////////////////////////////////
     // Flavour doubled spinors; is Gparity the only? what about C*?
     ////////////////////////////////////////////////////////////////////////////////////////
 
-    template <class S, int Nrepresentation,class _Coeff_t = RealD>
+    template<class S,int Nrepresentation>
-    class GparityWilsonImpl
+    class GparityWilsonImpl : public ConjugateGaugeImpl< GaugeImplTypes<S,Nrepresentation> >{ 
-      : public ConjugateGaugeImpl<GaugeImplTypes<S, Nrepresentation> > {
     public:
-      static const int Dimension = Nrepresentation;
 
-      const bool LsVectorised=false;
-
-      typedef _Coeff_t Coeff_t;
       typedef ConjugateGaugeImpl< GaugeImplTypes<S,Nrepresentation> > Gimpl;
 
       INHERIT_GIMPL_TYPES(Gimpl);
 
-      template <typename vtype>
+      template<typename vtype> using iImplSpinor             = iVector<iVector<iVector<vtype, Nrepresentation>, Ns>, Ngp >;
-      using iImplSpinor =
+      template<typename vtype> using iImplHalfSpinor         = iVector<iVector<iVector<vtype, Nrepresentation>, Nhs>, Ngp >;
-      iVector<iVector<iVector<vtype, Nrepresentation>, Ns>, Ngp>;
+      template<typename vtype> using iImplDoubledGaugeField  = iVector<iVector<iScalar<iMatrix<vtype, Nrepresentation> >, Nds >, Ngp >;
-      template <typename vtype>
-      using iImplHalfSpinor =
-	iVector<iVector<iVector<vtype, Nrepresentation>, Nhs>, Ngp>;
-      template <typename vtype>
-      using iImplDoubledGaugeField =
-	iVector<iVector<iScalar<iMatrix<vtype, Nrepresentation> >, Nds>, Ngp>;
     
       typedef iImplSpinor    <Simd>           SiteSpinor;
       typedef iImplHalfSpinor<Simd>           SiteHalfSpinor;
@@ -341,16 +309,13 @@ namespace Grid {
 
       ImplParams Params;
 
-
       GparityWilsonImpl(const ImplParams &p= ImplParams()) : Params(p) {}; 
       
       bool overlapCommsCompute(void) { return Params.overlapCommsCompute; };
 
-      // provide the multiply by link that is differentiated between Gparity (with
+      // provide the multiply by link that is differentiated between Gparity (with flavour index) and non-Gparity
-      // flavour index) and non-Gparity
+      inline void multLink(SiteHalfSpinor &phi,const SiteDoubledGaugeField &U,const SiteHalfSpinor &chi,int mu,StencilEntry *SE,StencilImpl &St){
-      inline void multLink(SiteHalfSpinor &phi, const SiteDoubledGaugeField &U,
+
-			   const SiteHalfSpinor &chi, int mu, StencilEntry *SE,
-			   StencilImpl &St) {
 	typedef SiteHalfSpinor vobj;
 	typedef typename SiteHalfSpinor::scalar_object sobj;
 
@@ -476,9 +441,8 @@ namespace Grid {
 	}
       }
 
+      inline void InsertForce4D(GaugeField &mat, FermionField &Btilde, FermionField &A,int mu){
 	
-      inline void InsertForce4D(GaugeField &mat, FermionField &Btilde,
-				FermionField &A, int mu) {
 	// DhopDir provides U or Uconj depending on coor/flavour.
 	GaugeLinkField link(mat._grid);
 	// use lorentz for flavour as hack.
@@ -490,9 +454,8 @@ namespace Grid {
 	PokeIndex<LorentzIndex>(mat,link,mu);
 	return;
       }
+      inline void InsertForce5D(GaugeField &mat, FermionField &Btilde, FermionField &Atilde,int mu){
 
-      inline void InsertForce5D(GaugeField &mat, FermionField &Btilde,
-				FermionField &Atilde, int mu) {
 	int Ls=Btilde._grid->_fdimensions[0];
 
 	GaugeLinkField tmp(mat._grid);
@@ -510,34 +473,18 @@ namespace Grid {
       }
     };
 
-    typedef WilsonImpl<vComplex,  FundamentalRepresentation > WilsonImplR;   // Real.. whichever prec
+    typedef WilsonImpl<vComplex ,Nc> WilsonImplR; // Real.. whichever prec
-    typedef WilsonImpl<vComplexF, FundamentalRepresentation > WilsonImplF;  // Float
+    typedef WilsonImpl<vComplexF,Nc> WilsonImplF; // Float
-    typedef WilsonImpl<vComplexD, FundamentalRepresentation > WilsonImplD;  // Double
+    typedef WilsonImpl<vComplexD,Nc> WilsonImplD; // Double
 
-
+    typedef DomainWallRedBlack5dImpl<vComplex ,Nc> DomainWallRedBlack5dImplR; // Real.. whichever prec
-    typedef WilsonImpl<vComplex,  FundamentalRepresentation, ComplexD > ZWilsonImplR; // Real.. whichever prec
+    typedef DomainWallRedBlack5dImpl<vComplexF,Nc> DomainWallRedBlack5dImplF; // Float
-    typedef WilsonImpl<vComplexF, FundamentalRepresentation, ComplexD > ZWilsonImplF; // Float
+    typedef DomainWallRedBlack5dImpl<vComplexD,Nc> DomainWallRedBlack5dImplD; // Double
-    typedef WilsonImpl<vComplexD, FundamentalRepresentation, ComplexD > ZWilsonImplD; // Double
-
-    typedef WilsonImpl<vComplex,  AdjointRepresentation > WilsonAdjImplR;   // Real.. whichever prec
-    typedef WilsonImpl<vComplexF, AdjointRepresentation > WilsonAdjImplF;  // Float
-    typedef WilsonImpl<vComplexD, AdjointRepresentation > WilsonAdjImplD;  // Double
-
-    typedef WilsonImpl<vComplex,  TwoIndexSymmetricRepresentation > WilsonTwoIndexSymmetricImplR;   // Real.. whichever prec
-    typedef WilsonImpl<vComplexF, TwoIndexSymmetricRepresentation > WilsonTwoIndexSymmetricImplF;  // Float
-    typedef WilsonImpl<vComplexD, TwoIndexSymmetricRepresentation > WilsonTwoIndexSymmetricImplD;  // Double
-
-    typedef DomainWallVec5dImpl<vComplex ,Nc> DomainWallVec5dImplR; // Real.. whichever prec
-    typedef DomainWallVec5dImpl<vComplexF,Nc> DomainWallVec5dImplF; // Float
-    typedef DomainWallVec5dImpl<vComplexD,Nc> DomainWallVec5dImplD; // Double
-    
-    typedef DomainWallVec5dImpl<vComplex ,Nc,ComplexD> ZDomainWallVec5dImplR; // Real.. whichever prec
-    typedef DomainWallVec5dImpl<vComplexF,Nc,ComplexD> ZDomainWallVec5dImplF; // Float
-    typedef DomainWallVec5dImpl<vComplexD,Nc,ComplexD> ZDomainWallVec5dImplD; // Double
 
     typedef GparityWilsonImpl<vComplex ,Nc> GparityWilsonImplR; // Real.. whichever prec
     typedef GparityWilsonImpl<vComplexF,Nc> GparityWilsonImplF; // Float
     typedef GparityWilsonImpl<vComplexD,Nc> GparityWilsonImplD; // Double
+
   }
 }
 #endif

lib/qcd/action/fermion/MobiusFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef  GRID_QCD_MOBIUS_FERMION_H
 #define  GRID_QCD_MOBIUS_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/MobiusZolotarevFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef  GRID_QCD_MOBIUS_ZOLOTAREV_FERMION_H
 #define  GRID_QCD_MOBIUS_ZOLOTAREV_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/OverlapWilsonCayleyTanhFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef OVERLAP_WILSON_CAYLEY_TANH_FERMION_H
 #define OVERLAP_WILSON_CAYLEY_TANH_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/OverlapWilsonCayleyZolotarevFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef  OVERLAP_WILSON_CAYLEY_ZOLOTAREV_FERMION_H
 #define  OVERLAP_WILSON_CAYLEY_ZOLOTAREV_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/OverlapWilsonContfracTanhFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef OVERLAP_WILSON_CONTFRAC_TANH_FERMION_H
 #define OVERLAP_WILSON_CONTFRAC_TANH_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/OverlapWilsonContfracZolotarevFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef OVERLAP_WILSON_CONTFRAC_ZOLOTAREV_FERMION_H
 #define OVERLAP_WILSON_CONTFRAC_ZOLOTAREV_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/OverlapWilsonPartialFractionTanhFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef OVERLAP_WILSON_PARTFRAC_TANH_FERMION_H
 #define OVERLAP_WILSON_PARTFRAC_TANH_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/OverlapWilsonPartialFractionZolotarevFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef OVERLAP_WILSON_PARTFRAC_ZOLOTAREV_FERMION_H
 #define OVERLAP_WILSON_PARTFRAC_ZOLOTAREV_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/ScaledShamirFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef  GRID_QCD_SCALED_SHAMIR_FERMION_H
 #define  GRID_QCD_SCALED_SHAMIR_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/ShamirZolotarevFermion.h

@@ -29,7 +29,7 @@ Author: Peter Boyle <paboyle@ph.ed.ac.uk>
 #ifndef  GRID_QCD_SHAMIR_ZOLOTAREV_FERMION_H
 #define  GRID_QCD_SHAMIR_ZOLOTAREV_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/WilsonFermion.cc

@@ -25,8 +25,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #include <Grid.h>
@@ -34,10 +33,8 @@ directory
 namespace Grid {
 namespace QCD {
 
-const std::vector<int> WilsonFermionStatic::directions({0, 1, 2, 3, 0, 1, 2,
+  const std::vector<int> WilsonFermionStatic::directions   ({0,1,2,3, 0, 1, 2, 3});
-                                                        3});
+  const std::vector<int> WilsonFermionStatic::displacements({1,1,1,1,-1,-1,-1,-1});
-const std::vector<int> WilsonFermionStatic::displacements({1, 1, 1, 1, -1, -1,
-                                                           -1, -1});
   int WilsonFermionStatic::HandOptDslash;
 
   /////////////////////////////////
@@ -45,29 +42,30 @@ int WilsonFermionStatic::HandOptDslash;
   /////////////////////////////////
 
   template<class Impl>
-WilsonFermion<Impl>::WilsonFermion(GaugeField &_Umu, GridCartesian &Fgrid,
+  WilsonFermion<Impl>::WilsonFermion(GaugeField &_Umu,
-                                   GridRedBlackCartesian &Hgrid, RealD _mass,
+				     GridCartesian         &Fgrid,
-                                   const ImplParams &p)
+				     GridRedBlackCartesian &Hgrid, 
-    : Kernels(p),
+				     RealD _mass,const ImplParams &p) :
+        Kernels(p),
         _grid(&Fgrid),
 	_cbgrid(&Hgrid),
 	Stencil    (&Fgrid,npoint,Even,directions,displacements),
-      StencilEven(&Hgrid, npoint, Even, directions,
+	StencilEven(&Hgrid,npoint,Even,directions,displacements), // source is Even
-                  displacements),  // source is Even
+	StencilOdd (&Hgrid,npoint,Odd ,directions,displacements), // source is Odd
-      StencilOdd(&Hgrid, npoint, Odd, directions,
-                 displacements),  // source is Odd
 	mass(_mass),
 	Lebesgue(_grid),
 	LebesgueEvenOdd(_cbgrid),
 	Umu(&Fgrid),
 	UmuEven(&Hgrid),
-      UmuOdd(&Hgrid) {
+	UmuOdd (&Hgrid) 
+  {
     // Allocate the required comms buffer
     ImportGauge(_Umu);
   }
 
   template<class Impl>
-void WilsonFermion<Impl>::ImportGauge(const GaugeField &_Umu) {
+  void WilsonFermion<Impl>::ImportGauge(const GaugeField &_Umu)
+  {
     GaugeField HUmu(_Umu._grid);
     HUmu = _Umu*(-0.5);
     Impl::DoubleStore(GaugeGrid(),Umu,HUmu);
@@ -80,21 +78,24 @@ void WilsonFermion<Impl>::ImportGauge(const GaugeField &_Umu) {
   /////////////////////////////
       
   template<class Impl>
-RealD WilsonFermion<Impl>::M(const FermionField &in, FermionField &out) {
+  RealD WilsonFermion<Impl>::M(const FermionField &in, FermionField &out) 
+  {
     out.checkerboard=in.checkerboard;
     Dhop(in,out,DaggerNo);
     return axpy_norm(out,4+mass,in,out);
   }
 
   template<class Impl>
-RealD WilsonFermion<Impl>::Mdag(const FermionField &in, FermionField &out) {
+  RealD WilsonFermion<Impl>::Mdag(const FermionField &in, FermionField &out) 
+  {
     out.checkerboard=in.checkerboard;
     Dhop(in,out,DaggerYes);
     return axpy_norm(out,4+mass,in,out);
   }
 
   template<class Impl>
-void WilsonFermion<Impl>::Meooe(const FermionField &in, FermionField &out) {
+  void WilsonFermion<Impl>::Meooe(const FermionField &in, FermionField &out) 
+  {
     if ( in.checkerboard == Odd ) {
       DhopEO(in,out,DaggerNo);
     } else {
@@ -102,7 +103,8 @@ void WilsonFermion<Impl>::Meooe(const FermionField &in, FermionField &out) {
     }
   }
   template<class Impl>
-void WilsonFermion<Impl>::MeooeDag(const FermionField &in, FermionField &out) {
+  void WilsonFermion<Impl>::MeooeDag(const FermionField &in, FermionField &out) 
+  {
     if ( in.checkerboard == Odd ) {
       DhopEO(in,out,DaggerYes);
     } else {
@@ -130,8 +132,7 @@ void WilsonFermion<Impl>::MooeeInv(const FermionField &in, FermionField &out) {
   }
   
   template<class Impl>
-void WilsonFermion<Impl>::MooeeInvDag(const FermionField &in,
+  void WilsonFermion<Impl>::MooeeInvDag(const FermionField &in, FermionField &out) {
-                                      FermionField &out) {
     out.checkerboard = in.checkerboard;
     MooeeInv(in,out);
   }
@@ -141,9 +142,12 @@ void WilsonFermion<Impl>::MooeeInvDag(const FermionField &in,
   ///////////////////////////////////
 
   template<class Impl>
-void WilsonFermion<Impl>::DerivInternal(StencilImpl &st, DoubledGaugeField &U,
+  void WilsonFermion<Impl>::DerivInternal(StencilImpl & st,
-                                        GaugeField &mat, const FermionField &A,
+					  DoubledGaugeField & U,
+					  GaugeField &mat,
+					  const FermionField &A,
 					  const FermionField &B,int dag) {
+	
     assert((dag==DaggerNo) ||(dag==DaggerYes));
     
     Compressor compressor(dag);
@@ -155,6 +159,7 @@ void WilsonFermion<Impl>::DerivInternal(StencilImpl &st, DoubledGaugeField &U,
     st.HaloExchange(B,compressor);
     
     for(int mu=0;mu<Nd;mu++){
+      
       ////////////////////////////////////////////////////////////////////////
       // Flip gamma (1+g)<->(1-g) if dag
       ////////////////////////////////////////////////////////////////////////
@@ -166,20 +171,20 @@ void WilsonFermion<Impl>::DerivInternal(StencilImpl &st, DoubledGaugeField &U,
       ////////////////////////
 PARALLEL_FOR_LOOP
 	for(int sss=0;sss<B._grid->oSites();sss++){
-      Kernels::DiracOptDhopDir(st, U, st.comm_buf, sss, sss, B, Btilde, mu,
+	  Kernels::DiracOptDhopDir(st,U,st.comm_buf,sss,sss,B,Btilde,mu,gamma);
-                               gamma);
 	}
       
       //////////////////////////////////////////////////
       // spin trace outer product
       //////////////////////////////////////////////////
       Impl::InsertForce4D(mat,Btilde,Atilde,mu);
+
     }
   }
   
   template<class Impl>
-void WilsonFermion<Impl>::DhopDeriv(GaugeField &mat, const FermionField &U,
+  void WilsonFermion<Impl>::DhopDeriv(GaugeField &mat,const FermionField &U,const FermionField &V,int dag)
-                                    const FermionField &V, int dag) {
+  {
     conformable(U._grid,_grid);  
     conformable(U._grid,V._grid);
     conformable(U._grid,mat._grid);
@@ -190,8 +195,8 @@ void WilsonFermion<Impl>::DhopDeriv(GaugeField &mat, const FermionField &U,
   }
   
   template<class Impl>
-void WilsonFermion<Impl>::DhopDerivOE(GaugeField &mat, const FermionField &U,
+  void WilsonFermion<Impl>::DhopDerivOE(GaugeField &mat,const FermionField &U,const FermionField &V,int dag)
-                                      const FermionField &V, int dag) {
+  {
     conformable(U._grid,_cbgrid);  
     conformable(U._grid,V._grid);
     conformable(U._grid,mat._grid);
@@ -204,8 +209,8 @@ void WilsonFermion<Impl>::DhopDerivOE(GaugeField &mat, const FermionField &U,
   }
   
   template<class Impl>
-void WilsonFermion<Impl>::DhopDerivEO(GaugeField &mat, const FermionField &U,
+  void WilsonFermion<Impl>::DhopDerivEO(GaugeField &mat,const FermionField &U,const FermionField &V,int dag)
-                                      const FermionField &V, int dag) {
+  {
     conformable(U._grid,_cbgrid);  
     conformable(U._grid,V._grid);
     conformable(U._grid,mat._grid);
@@ -217,9 +222,9 @@ void WilsonFermion<Impl>::DhopDerivEO(GaugeField &mat, const FermionField &U,
     DerivInternal(StencilOdd,UmuEven,mat,U,V,dag);
   }
   
+
   template<class Impl>
-void WilsonFermion<Impl>::Dhop(const FermionField &in, FermionField &out,
+  void WilsonFermion<Impl>::Dhop(const FermionField &in, FermionField &out,int dag) {
-                               int dag) {
     conformable(in._grid,_grid); // verifies full grid
     conformable(in._grid,out._grid);
     
@@ -229,8 +234,7 @@ void WilsonFermion<Impl>::Dhop(const FermionField &in, FermionField &out,
   }
   
   template<class Impl>
-void WilsonFermion<Impl>::DhopOE(const FermionField &in, FermionField &out,
+  void WilsonFermion<Impl>::DhopOE(const FermionField &in, FermionField &out,int dag) {
-                                 int dag) {
     conformable(in._grid,_cbgrid);    // verifies half grid
     conformable(in._grid,out._grid); // drops the cb check
     
@@ -241,8 +245,7 @@ void WilsonFermion<Impl>::DhopOE(const FermionField &in, FermionField &out,
   }
   
   template<class Impl>
-void WilsonFermion<Impl>::DhopEO(const FermionField &in, FermionField &out,
+  void WilsonFermion<Impl>::DhopEO(const FermionField &in, FermionField &out,int dag) {
-                                 int dag) {
     conformable(in._grid,_cbgrid);    // verifies half grid
     conformable(in._grid,out._grid); // drops the cb check
     
@@ -253,40 +256,40 @@ void WilsonFermion<Impl>::DhopEO(const FermionField &in, FermionField &out,
   }
   
   template<class Impl>
-void WilsonFermion<Impl>::Mdir(const FermionField &in, FermionField &out,
+  void WilsonFermion<Impl>::Mdir (const FermionField &in, FermionField &out,int dir,int disp) {
-                               int dir, int disp) {
     DhopDir(in,out,dir,disp);
   }
   
+
   template<class Impl>
-void WilsonFermion<Impl>::DhopDir(const FermionField &in, FermionField &out,
+  void WilsonFermion<Impl>::DhopDir(const FermionField &in, FermionField &out,int dir,int disp){
-                                  int dir, int disp) {
+    
     int skip = (disp==1) ? 0 : 1;
     int dirdisp  = dir+skip*4;
     int gamma    = dir+(1-skip)*4;
     
     DhopDirDisp(in,out,dirdisp,gamma,DaggerNo);
+    
   };
   
   template<class Impl>
-void WilsonFermion<Impl>::DhopDirDisp(const FermionField &in, FermionField &out,
+  void WilsonFermion<Impl>::DhopDirDisp(const FermionField &in, FermionField &out,int dirdisp,int gamma,int dag) {
-                                      int dirdisp, int gamma, int dag) {
+    
     Compressor compressor(dag);
     
     Stencil.HaloExchange(in,compressor);
     
 PARALLEL_FOR_LOOP
       for(int sss=0;sss<in._grid->oSites();sss++){
-    Kernels::DiracOptDhopDir(Stencil, Umu, Stencil.comm_buf, sss, sss, in, out,
+	Kernels::DiracOptDhopDir(Stencil,Umu,Stencil.comm_buf,sss,sss,in,out,dirdisp,gamma);
-                             dirdisp, gamma);
       }
+    
   };
 
   template<class Impl>
-void WilsonFermion<Impl>::DhopInternal(StencilImpl &st, LebesgueOrder &lo,
+  void WilsonFermion<Impl>::DhopInternal(StencilImpl & st,LebesgueOrder& lo,DoubledGaugeField & U,
-                                       DoubledGaugeField &U,
+					 const FermionField &in, FermionField &out,int dag) 
-                                       const FermionField &in,
+  {
-                                       FermionField &out, int dag) {
     assert((dag==DaggerNo) ||(dag==DaggerYes));
 
     Compressor compressor(dag);
@@ -295,21 +298,22 @@ void WilsonFermion<Impl>::DhopInternal(StencilImpl &st, LebesgueOrder &lo,
     if ( dag == DaggerYes ) {
 PARALLEL_FOR_LOOP
       for(int sss=0;sss<in._grid->oSites();sss++){
-      Kernels::DiracOptDhopSiteDag(st, lo, U, st.comm_buf, sss, sss, 1, 1, in,
+	Kernels::DiracOptDhopSiteDag(st,lo,U,st.comm_buf,sss,sss,1,1,in,out);
-                                   out);
       }
     } else {
 PARALLEL_FOR_LOOP
       for(int sss=0;sss<in._grid->oSites();sss++){
-      Kernels::DiracOptDhopSite(st, lo, U, st.comm_buf, sss, sss, 1, 1, in,
+	Kernels::DiracOptDhopSite(st,lo,U,st.comm_buf,sss,sss,1,1,in,out);
-                                out);
       }
     }
   };
 
+ 
   FermOpTemplateInstantiate(WilsonFermion);
-AdjointFermOpTemplateInstantiate(WilsonFermion);
-TwoIndexFermOpTemplateInstantiate(WilsonFermion);
   GparityFermOpTemplateInstantiate(WilsonFermion);
-}
+
-}
+
+}}
+
+
+

lib/qcd/action/fermion/WilsonFermion.h

@@ -24,8 +24,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef  GRID_QCD_WILSON_FERMION_H
@@ -45,7 +44,8 @@ class WilsonFermionStatic {
     };
 
     template<class Impl>
-class WilsonFermion : public WilsonKernels<Impl>, public WilsonFermionStatic {
+    class WilsonFermion : public WilsonKernels<Impl>, public WilsonFermionStatic
+    {
     public:
     INHERIT_IMPL_TYPES(Impl);
     typedef WilsonKernels<Impl> Kernels;
@@ -82,12 +82,10 @@ class WilsonFermion : public WilsonKernels<Impl>, public WilsonFermionStatic {
       // Derivative interface
       ////////////////////////
       // Interface calls an internal routine
-  void DhopDeriv(GaugeField &mat, const FermionField &U, const FermionField &V,
+      void DhopDeriv(GaugeField &mat,const FermionField &U,const FermionField &V,int dag);
-                 int dag);
+      void DhopDerivOE(GaugeField &mat,const FermionField &U,const FermionField &V,int dag);
-  void DhopDerivOE(GaugeField &mat, const FermionField &U,
+      void DhopDerivEO(GaugeField &mat,const FermionField &U,const FermionField &V,int dag);
-                   const FermionField &V, int dag);
+
-  void DhopDerivEO(GaugeField &mat, const FermionField &U,
-                   const FermionField &V, int dag);
 
       ///////////////////////////////////////////////////////////////
       // non-hermitian hopping term; half cb or both
@@ -101,22 +99,28 @@ class WilsonFermion : public WilsonKernels<Impl>, public WilsonFermionStatic {
       ///////////////////////////////////////////////////////////////
       void Mdir (const FermionField &in, FermionField &out,int dir,int disp) ;
       void DhopDir(const FermionField &in, FermionField &out,int dir,int disp);
-  void DhopDirDisp(const FermionField &in, FermionField &out, int dirdisp,
+      void DhopDirDisp(const FermionField &in, FermionField &out,int dirdisp,int gamma,int dag) ;
-                   int gamma, int dag);
 
       ///////////////////////////////////////////////////////////////
       // Extra methods added by derived
       ///////////////////////////////////////////////////////////////
-  void DerivInternal(StencilImpl &st, DoubledGaugeField &U, GaugeField &mat,
+      void DerivInternal(StencilImpl & st,
-                     const FermionField &A, const FermionField &B, int dag);
+			 DoubledGaugeField & U,
+			 GaugeField &mat,
+			 const FermionField &A,
+			 const FermionField &B,
+			 int dag);
 
       void DhopInternal(StencilImpl & st,LebesgueOrder & lo,DoubledGaugeField & U,
 			const FermionField &in, FermionField &out,int dag) ;
 
       // Constructor
-  WilsonFermion(GaugeField &_Umu, GridCartesian &Fgrid,
+      WilsonFermion(GaugeField &_Umu,
-                GridRedBlackCartesian &Hgrid, RealD _mass,
+		    GridCartesian         &Fgrid,
-                const ImplParams &p = ImplParams());
+		    GridRedBlackCartesian &Hgrid, 
+		    RealD _mass,
+		    const ImplParams &p= ImplParams()
+		    ) ;
 
       // DoubleStore impl dependent
       void ImportGauge(const GaugeField &_Umu);
@@ -127,6 +131,7 @@ class WilsonFermion : public WilsonKernels<Impl>, public WilsonFermionStatic {
 
       //    protected:
     public:
+
       RealD                        mass;
 
       GridBase                     *    _grid; 
@@ -144,12 +149,13 @@ class WilsonFermion : public WilsonKernels<Impl>, public WilsonFermionStatic {
 
       LebesgueOrder Lebesgue;
       LebesgueOrder LebesgueEvenOdd;
+
+      
     };
 
     typedef WilsonFermion<WilsonImplF> WilsonFermionF;
     typedef WilsonFermion<WilsonImplD> WilsonFermionD;
 
-
   }
 }
 #endif

lib/qcd/action/fermion/WilsonFermion5D.cc

@@ -62,41 +62,6 @@ WilsonFermion5D<Impl>::WilsonFermion5D(GaugeField &_Umu,
   Lebesgue(_FourDimGrid),
   LebesgueEvenOdd(_FourDimRedBlackGrid)
 {
-  if (Impl::LsVectorised) { 
-
-    int nsimd = Simd::Nsimd();
-    
-    // some assertions
-    assert(FiveDimGrid._ndimension==5);
-    assert(FiveDimRedBlackGrid._ndimension==5);
-    assert(FiveDimRedBlackGrid._checker_dim==1); // Don't checker the s direction
-    assert(FourDimGrid._ndimension==4);
-
-    // Dimension zero of the five-d is the Ls direction
-    Ls=FiveDimGrid._fdimensions[0];
-    assert(FiveDimGrid._processors[0]         ==1);
-    assert(FiveDimGrid._simd_layout[0]        ==nsimd);
-
-    assert(FiveDimRedBlackGrid._fdimensions[0]==Ls);
-    assert(FiveDimRedBlackGrid._processors[0] ==1);
-    assert(FiveDimRedBlackGrid._simd_layout[0]==nsimd);
-
-    // Other dimensions must match the decomposition of the four-D fields 
-    for(int d=0;d<4;d++){
-      assert(FiveDimRedBlackGrid._fdimensions[d+1]==FourDimGrid._fdimensions[d]);
-      assert(FiveDimRedBlackGrid._processors[d+1] ==FourDimGrid._processors[d]);
-      
-      assert(FourDimGrid._simd_layout[d]=1);
-      assert(FourDimRedBlackGrid._simd_layout[d]=1);
-      assert(FiveDimRedBlackGrid._simd_layout[d+1]==1);
-
-      assert(FiveDimGrid._fdimensions[d+1]        ==FourDimGrid._fdimensions[d]);
-      assert(FiveDimGrid._processors[d+1]         ==FourDimGrid._processors[d]);
-      assert(FiveDimGrid._simd_layout[d+1]        ==FourDimGrid._simd_layout[d]);
-    }
-
-  } else {
-
   // some assertions
   assert(FiveDimGrid._ndimension==5);
   assert(FourDimGrid._ndimension==4);
@@ -127,18 +92,30 @@ WilsonFermion5D<Impl>::WilsonFermion5D(GaugeField &_Umu,
     assert(FiveDimGrid._processors[d+1]         ==FourDimGrid._processors[d]);
     assert(FiveDimGrid._simd_layout[d+1]        ==FourDimGrid._simd_layout[d]);
   }
-  }
 
   // Allocate the required comms buffer
   ImportGauge(_Umu);
 }  
-  /*
+
 template<class Impl>
 WilsonFermion5D<Impl>::WilsonFermion5D(int simd,GaugeField &_Umu,
 				       GridCartesian         &FiveDimGrid,
 				       GridRedBlackCartesian &FiveDimRedBlackGrid,
 				       GridCartesian         &FourDimGrid,
 				       RealD _M5,const ImplParams &p) :
+  Kernels(p),
+  _FiveDimGrid        (&FiveDimGrid),
+  _FiveDimRedBlackGrid(&FiveDimRedBlackGrid),
+  _FourDimGrid        (&FourDimGrid),
+  Stencil    (_FiveDimGrid,npoint,Even,directions,displacements),
+  StencilEven(_FiveDimRedBlackGrid,npoint,Even,directions,displacements), // source is Even
+  StencilOdd (_FiveDimRedBlackGrid,npoint,Odd ,directions,displacements), // source is Odd
+  M5(_M5),
+  Umu(_FourDimGrid),
+  UmuEven(_FourDimGrid),
+  UmuOdd (_FourDimGrid),
+  Lebesgue(_FourDimGrid),
+  LebesgueEvenOdd(_FourDimGrid)
 {
   int nsimd = Simd::Nsimd();
 
@@ -171,75 +148,13 @@ WilsonFermion5D<Impl>::WilsonFermion5D(int simd,GaugeField &_Umu,
   }
 
   {
+    GaugeField HUmu(_Umu._grid);
+    HUmu = _Umu*(-0.5);
+    Impl::DoubleStore(GaugeGrid(),Umu,HUmu);
+    UmuEven=Umu;// Really want a reference.
+    UmuOdd =Umu;
   }
 }  
-  */
-     
-template<class Impl>
-void WilsonFermion5D<Impl>::Report(void)
-{
-    std::vector<int> latt = GridDefaultLatt();          
-    RealD volume = Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt[mu];
-    RealD NP = _FourDimGrid->_Nprocessors;
-
-  if ( DhopCalls > 0 ) {
-    std::cout << GridLogMessage << "#### Dhop calls report " << std::endl;
-    std::cout << GridLogMessage << "WilsonFermion5D Number of Dhop Calls     : " << DhopCalls  << std::endl;
-    std::cout << GridLogMessage << "WilsonFermion5D Total Communication time : " << DhopCommTime
-              << " us" << std::endl;
-    std::cout << GridLogMessage << "WilsonFermion5D CommTime/Calls           : "
-              << DhopCommTime / DhopCalls << " us" << std::endl;
-    std::cout << GridLogMessage << "WilsonFermion5D Total Compute time       : "
-              << DhopComputeTime << " us" << std::endl;
-    std::cout << GridLogMessage << "WilsonFermion5D ComputeTime/Calls        : "
-              << DhopComputeTime / DhopCalls << " us" << std::endl;
-
-    RealD mflops = 1344*volume*DhopCalls/DhopComputeTime;
-    std::cout << GridLogMessage << "Average mflops/s per call                : " << mflops << std::endl;
-    std::cout << GridLogMessage << "Average mflops/s per call per node       : " << mflops/NP << std::endl;
-
-   }
-
-  if ( DerivCalls > 0 ) {
-  std::cout << GridLogMessage << "#### Deriv calls report "<< std::endl;
-  std::cout << GridLogMessage << "WilsonFermion5D Number of Deriv Calls    : " <<DerivCalls <<std::endl;
-  std::cout << GridLogMessage << "WilsonFermion5D Total Communication time : " <<DerivCommTime <<" us"<<std::endl;
-  std::cout << GridLogMessage << "WilsonFermion5D CommTime/Calls           : " <<DerivCommTime/DerivCalls<<" us" <<std::endl;
-  std::cout << GridLogMessage << "WilsonFermion5D Total Compute time       : " <<DerivComputeTime <<" us"<<std::endl;
-  std::cout << GridLogMessage << "WilsonFermion5D ComputeTime/Calls        : " <<DerivComputeTime/DerivCalls<<" us" <<std::endl;
-  std::cout << GridLogMessage << "WilsonFermion5D Total Dhop Compute time  : " <<DerivDhopComputeTime <<" us"<<std::endl;
-  std::cout << GridLogMessage << "WilsonFermion5D Dhop ComputeTime/Calls   : " <<DerivDhopComputeTime/DerivCalls<<" us" <<std::endl;
-
-
-
-  RealD mflops = 144*volume*DerivCalls/DerivDhopComputeTime;
-  std::cout << GridLogMessage << "Average mflops/s per call                : " << mflops << std::endl;
-  std::cout << GridLogMessage << "Average mflops/s per call per node       : " << mflops/NP << std::endl;
-
-  }
-
-  if (DerivCalls > 0 || DhopCalls > 0){
-  std::cout << GridLogMessage << "WilsonFermion5D Stencil"<<std::endl;  Stencil.Report();
-  std::cout << GridLogMessage << "WilsonFermion5D StencilEven"<<std::endl;  StencilEven.Report();
-  std::cout << GridLogMessage << "WilsonFermion5D StencilOdd"<<std::endl;  StencilOdd.Report();
-  }
-}
-
-template<class Impl>
-void WilsonFermion5D<Impl>::ZeroCounters(void) {
-  DhopCalls       = 0;
-  DhopCommTime    = 0;
-  DhopComputeTime = 0;
-
-  DerivCalls       = 0;
-  DerivCommTime    = 0;
-  DerivComputeTime = 0;
-  DerivDhopComputeTime = 0;
-
-  Stencil.ZeroCounters();
-  StencilEven.ZeroCounters();
-  StencilOdd.ZeroCounters();
-}
 
 
 template<class Impl>
@@ -288,7 +203,6 @@ void WilsonFermion5D<Impl>::DerivInternal(StencilImpl & st,
 					  const FermionField &B,
 					  int dag)
 {
-  DerivCalls++;
   assert((dag==DaggerNo) ||(dag==DaggerYes));
 
   conformable(st._grid,A._grid);
@@ -299,14 +213,12 @@ void WilsonFermion5D<Impl>::DerivInternal(StencilImpl & st,
   FermionField Btilde(B._grid);
   FermionField Atilde(B._grid);
 
-  DerivCommTime-=usecond();
   st.HaloExchange(B,compressor);
-  DerivCommTime+=usecond();
 
   Atilde=A;
 
-  DerivComputeTime-=usecond();
   for(int mu=0;mu<Nd;mu++){
+      
     ////////////////////////////////////////////////////////////////////////
     // Flip gamma if dag
     ////////////////////////////////////////////////////////////////////////
@@ -317,7 +229,6 @@ void WilsonFermion5D<Impl>::DerivInternal(StencilImpl & st,
     // Call the single hop
     ////////////////////////
 
-    DerivDhopComputeTime -= usecond();
 PARALLEL_FOR_LOOP
     for(int sss=0;sss<U._grid->oSites();sss++){
       for(int s=0;s<Ls;s++){
@@ -327,18 +238,19 @@ void WilsonFermion5D<Impl>::DerivInternal(StencilImpl & st,
 	assert ( sF< B._grid->oSites());
 	assert ( sU< U._grid->oSites());
 
-        Kernels::DiracOptDhopDir(st, U, st.comm_buf, sF, sU, B, Btilde, mu,
+	Kernels::DiracOptDhopDir(st,U,st.comm_buf,sF,sU,B,Btilde,mu,gamma);
-                                 gamma);
 
     ////////////////////////////
     // spin trace outer product
     ////////////////////////////
+
       }
+
     }
-    DerivDhopComputeTime += usecond();
+
     Impl::InsertForce5D(mat,Btilde,Atilde,mu);
+
   }
-  DerivComputeTime += usecond();
 }
 
 template<class Impl>
@@ -396,58 +308,29 @@ void WilsonFermion5D<Impl>::DhopInternal(StencilImpl & st, LebesgueOrder &lo,
 					 DoubledGaugeField & U,
 					 const FermionField &in, FermionField &out,int dag)
 {
-  DhopCalls++;
   //  assert((dag==DaggerNo) ||(dag==DaggerYes));
   Compressor compressor(dag);
 
   int LLs = in._grid->_rdimensions[0];
   
-  DhopCommTime-=usecond();
   st.HaloExchange(in,compressor);
-  DhopCommTime+=usecond();
   
-  DhopComputeTime-=usecond();
   // Dhop takes the 4d grid from U, and makes a 5d index for fermion
   if ( dag == DaggerYes ) {
 PARALLEL_FOR_LOOP
     for(int ss=0;ss<U._grid->oSites();ss++){
 	int sU=ss;
 	int sF=LLs*sU;
-      Kernels::DiracOptDhopSiteDag(st, lo, U, st.comm_buf, sF, sU, LLs, 1, in,
+	Kernels::DiracOptDhopSiteDag(st,lo,U,st.comm_buf,sF,sU,LLs,1,in,out);
-                                   out);
     }
-#ifdef AVX512
-  } else if (stat.is_init() ) {
-
-    int nthreads;
-    stat.start();
-    #pragma omp parallel
-    {
-    #pragma omp master
-    nthreads = omp_get_num_threads();
-    int mythread = omp_get_thread_num();
-    stat.enter(mythread);
-    #pragma omp for nowait
-   for(int ss=0;ss<U._grid->oSites();ss++)
-    {
-       int sU=ss;
-       int sF=LLs*sU;
-       Kernels::DiracOptDhopSite(st,lo,U,st.comm_buf,sF,sU,LLs,1,in,out);
-     }
-    stat.exit(mythread);
-    }
-    stat.accum(nthreads);
-#endif
   } else {
 PARALLEL_FOR_LOOP
     for(int ss=0;ss<U._grid->oSites();ss++){
       int sU=ss;
       int sF=LLs*sU;
-      Kernels::DiracOptDhopSite(st, lo, U, st.comm_buf, sF, sU, LLs, 1, in,
+      Kernels::DiracOptDhopSite(st,lo,U,st.comm_buf,sF,sU,LLs,1,in,out);
-                                out);
     }
   }
-  DhopComputeTime+=usecond();
 }
 
 
@@ -493,6 +376,8 @@ void WilsonFermion5D<Impl>::DW(const FermionField &in, FermionField &out,int dag
 
 FermOpTemplateInstantiate(WilsonFermion5D);
 GparityFermOpTemplateInstantiate(WilsonFermion5D);
+template class WilsonFermion5D<DomainWallRedBlack5dImplF>;		
+template class WilsonFermion5D<DomainWallRedBlack5dImplD>;
   
 }}
 

lib/qcd/action/fermion/WilsonFermion5D.h

@@ -31,8 +31,6 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 #ifndef  GRID_QCD_WILSON_FERMION_5D_H
 #define  GRID_QCD_WILSON_FERMION_5D_H
 
-#include <Grid/Stat.h>
-
 namespace Grid {
 
   namespace QCD {
@@ -62,18 +60,6 @@ namespace Grid {
     public:
      INHERIT_IMPL_TYPES(Impl);
      typedef WilsonKernels<Impl> Kernels;
-     PmuStat stat;
-
-     void Report(void);
-     void ZeroCounters(void);
-     double DhopCalls;
-     double DhopCommTime;
-     double DhopComputeTime;
-
-     double DerivCalls;
-     double DerivCommTime;
-     double DerivComputeTime;
-     double DerivDhopComputeTime;
 
       ///////////////////////////////////////////////////////////////
       // Implement the abstract base
@@ -139,14 +125,12 @@ namespace Grid {
 		      double _M5,const ImplParams &p= ImplParams());
 
       // Constructors
-      /*
       WilsonFermion5D(int simd, 
 		      GaugeField &_Umu,
 		      GridCartesian         &FiveDimGrid,
 		      GridRedBlackCartesian &FiveDimRedBlackGrid,
 		      GridCartesian         &FourDimGrid,
 		      double _M5,const ImplParams &p= ImplParams());
-      */
 
       // DoubleStore
       void ImportGauge(const GaugeField &_Umu);

lib/qcd/action/fermion/WilsonKernels.cc

@@ -24,8 +24,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #include <Grid.h>
@@ -38,15 +37,60 @@ int WilsonKernelsStatic::AsmOpt;
 template<class Impl> 
 WilsonKernels<Impl>::WilsonKernels(const ImplParams &p): Base(p) {};
 
+template<class Impl> 
+void WilsonKernels<Impl>::DiracOptDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+						  std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+						  int sF,int sU,int Ls, int Ns, const FermionField &in, FermionField &out)
+{
+#ifdef AVX512
+  if ( AsmOpt ) {
+
+    WilsonKernels<Impl>::DiracOptAsmDhopSite(st,lo,U,buf,sF,sU,Ls,Ns,in,out);
+
+  } else {
+#else
+  {  
+#endif
+    for(int site=0;site<Ns;site++) {
+      for(int s=0;s<Ls;s++) {
+	if (HandOpt) WilsonKernels<Impl>::DiracOptHandDhopSite(st,lo,U,buf,sF,sU,in,out);
+	else         WilsonKernels<Impl>::DiracOptGenericDhopSite(st,lo,U,buf,sF,sU,in,out);
+	sF++;
+      }
+      sU++;
+    }
+
+  }
+}
+
+template<class Impl> 
+void WilsonKernels<Impl>::DiracOptDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+					   std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+					   int sF,int sU,int Ls, int Ns, const FermionField &in, FermionField &out)
+{
+  // No asm implementation yet.
+  //  if ( AsmOpt )     WilsonKernels<Impl>::DiracOptAsmDhopSiteDag(st,lo,U,buf,sF,sU,in,out);
+  //  else
+  for(int site=0;site<Ns;site++) {
+    for(int s=0;s<Ls;s++) {
+      if (HandOpt) WilsonKernels<Impl>::DiracOptHandDhopSiteDag(st,lo,U,buf,sF,sU,in,out);
+      else         WilsonKernels<Impl>::DiracOptGenericDhopSiteDag(st,lo,U,buf,sF,sU,in,out);
+      sF++;
+    }
+    sU++;
+  }
+}
+
+
   ////////////////////////////////////////////
   // Generic implementation; move to different file?
   ////////////////////////////////////////////
 
 template<class Impl> 
-void WilsonKernels<Impl>::DiracOptGenericDhopSiteDag(
+void WilsonKernels<Impl>::DiracOptGenericDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-    StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
+					   std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-    std::vector<SiteHalfSpinor, alignedAllocator<SiteHalfSpinor> > &buf, int sF,
+					   int sF,int sU,const FermionField &in, FermionField &out)
-    int sU, const FermionField &in, FermionField &out) {
+{
   SiteHalfSpinor  tmp;    
   SiteHalfSpinor  chi;    
   SiteHalfSpinor *chi_p;
@@ -218,12 +262,13 @@ void WilsonKernels<Impl>::DiracOptGenericDhopSiteDag(
   vstream(out._odata[sF],result);
 };
 
+
   // Need controls to do interior, exterior, or both
 template<class Impl> 
-void WilsonKernels<Impl>::DiracOptGenericDhopSite(
+void WilsonKernels<Impl>::DiracOptGenericDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-    StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
+						  std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-    std::vector<SiteHalfSpinor, alignedAllocator<SiteHalfSpinor> > &buf, int sF,
+						  int sF,int sU,const FermionField &in, FermionField &out)
-    int sU, const FermionField &in, FermionField &out) {
+{
   SiteHalfSpinor  tmp;    
   SiteHalfSpinor  chi;    
   SiteHalfSpinor *chi_p;    
@@ -396,10 +441,10 @@ void WilsonKernels<Impl>::DiracOptGenericDhopSite(
 };
 
 template<class Impl> 
-void WilsonKernels<Impl>::DiracOptDhopDir(
+void WilsonKernels<Impl>::DiracOptDhopDir(StencilImpl &st,DoubledGaugeField &U,
-    StencilImpl &st, DoubledGaugeField &U,
+					  std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-    std::vector<SiteHalfSpinor, alignedAllocator<SiteHalfSpinor> > &buf, int sF,
+					  int sF,int sU,const FermionField &in, FermionField &out,int dir,int gamma)
-    int sU, const FermionField &in, FermionField &out, int dir, int gamma) {
+{
   SiteHalfSpinor  tmp;    
   SiteHalfSpinor  chi;    
   SiteSpinor   result;
@@ -524,9 +569,10 @@ void WilsonKernels<Impl>::DiracOptDhopDir(
   vstream(out._odata[sF],result);
 }
 
+
   FermOpTemplateInstantiate(WilsonKernels);
-AdjointFermOpTemplateInstantiate(WilsonKernels);
+
-TwoIndexFermOpTemplateInstantiate(WilsonKernels);
+template class WilsonKernels<DomainWallRedBlack5dImplF>;		
+template class WilsonKernels<DomainWallRedBlack5dImplD>;
 
 }}
-

lib/qcd/action/fermion/WilsonKernels.h

@@ -24,8 +24,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef  GRID_QCD_DHOP_H
@@ -54,153 +53,46 @@ namespace Grid {
      
     public:
 
-      template <bool EnableBool = true>
+     void DiracOptDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-      typename std::enable_if<Impl::Dimension == 3 && Nc == 3 &&EnableBool, void>::type
-	DiracOptDhopSite(
-			 StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
 			   std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-			 int sF, int sU, int Ls, int Ns, const FermionField &in,
+			   int sF, int sU,int Ls, int Ns, const FermionField &in, FermionField &out);
-			 FermionField &out) {
-#ifdef AVX512
-	if (AsmOpt) {
-	  WilsonKernels<Impl>::DiracOptAsmDhopSite(st, lo, U, buf, sF, sU, Ls, Ns,
-						   in, out);
       
-	} else {
+     void DiracOptDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-#else
-	  {
-#endif
-	    for (int site = 0; site < Ns; site++) {
-	      for (int s = 0; s < Ls; s++) {
-		if (HandOpt)
-		  WilsonKernels<Impl>::DiracOptHandDhopSite(st, lo, U, buf, sF, sU,
-							    in, out);
-		else
-		  WilsonKernels<Impl>::DiracOptGenericDhopSite(st, lo, U, buf, sF, sU,
-							       in, out);
-		sF++;
-	      }
-	      sU++;
-	    }
-	  }
-	}
-
-	template <bool EnableBool = true>
-	  typename std::enable_if<(Impl::Dimension != 3 || (Impl::Dimension == 3 && Nc != 3)) && EnableBool, void>::type
-	  DiracOptDhopSite(
-			   StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
 			      std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-			   int sF, int sU, int Ls, int Ns, const FermionField &in,
+			      int sF,int sU,int Ls, int Ns, const FermionField &in,FermionField &out);
-			   FermionField &out) {
-	  for (int site = 0; site < Ns; site++) {
-	    for (int s = 0; s < Ls; s++) {
-	      WilsonKernels<Impl>::DiracOptGenericDhopSite(st, lo, U, buf, sF, sU, in,
-							   out);
-	      sF++;
-	    }
-	    sU++;
-	  }
-	}
 
-	template <bool EnableBool = true>
+     void DiracOptDhopDir(StencilImpl &st,DoubledGaugeField &U,
-	  typename std::enable_if<Impl::Dimension == 3 && Nc == 3 && EnableBool,
-				  void>::type
-	  DiracOptDhopSiteDag(
-			      StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
 			  std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-			      int sF, int sU, int Ls, int Ns, const FermionField &in,
+			  int sF,int sU,const FermionField &in, FermionField &out,int dirdisp,int gamma);
-			      FermionField &out) {
-#ifdef AVX512
-				    if (AsmOpt) {
-				      WilsonKernels<Impl>::DiracOptAsmDhopSiteDag(st, lo, U, buf, sF, sU, Ls,
-										  Ns, in, out);
-				    } else {
-#else
-				      {
-#endif
-					for (int site = 0; site < Ns; site++) {
-					  for (int s = 0; s < Ls; s++) {
-					    if (HandOpt)
-					      WilsonKernels<Impl>::DiracOptHandDhopSiteDag(st, lo, U, buf, sF, sU,
-											   in, out);
-					    else
-					      WilsonKernels<Impl>::DiracOptGenericDhopSiteDag(st, lo, U, buf, sF,
-											      sU, in, out);
-					    sF++;
-					  }
-					  sU++;
-					}
-				      }
-				    }
-
-				    template <bool EnableBool = true>
-				      typename std::enable_if<
-				      (Impl::Dimension != 3 || (Impl::Dimension == 3 && Nc != 3)) && EnableBool,
-				      void>::type
-				      DiracOptDhopSiteDag(
-							  StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
-							  std::vector<SiteHalfSpinor, alignedAllocator<SiteHalfSpinor> > &buf,
-							  int sF, int sU, int Ls, int Ns, const FermionField &in,
-							  FermionField &out) {
-					for (int site = 0; site < Ns; site++) {
-					  for (int s = 0; s < Ls; s++) {
-					    WilsonKernels<Impl>::DiracOptGenericDhopSiteDag(st, lo, U, buf, sF, sU,
-											    in, out);
-					    sF++;
-					  }
-					  sU++;
-					}
-				      }
-
-				    void DiracOptDhopDir(
-							 StencilImpl &st, DoubledGaugeField &U,
-							 std::vector<SiteHalfSpinor, alignedAllocator<SiteHalfSpinor> > &buf,
-							 int sF, int sU, const FermionField &in, FermionField &out, int dirdisp,
-							 int gamma);
 
     private:
      // Specialised variants
-				    void DiracOptGenericDhopSite(
+     void DiracOptGenericDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-								 StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
 			   std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
 			   int sF,int sU, const FermionField &in, FermionField &out);
       
-				    void DiracOptGenericDhopSiteDag(
+     void DiracOptGenericDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-								    StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
 			      std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
 			      int sF,int sU,const FermionField &in,FermionField &out);
 
-				    void DiracOptAsmDhopSite(
+     void DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-							     StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
 			      std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-							     int sF, int sU, int Ls, int Ns, const FermionField &in,
+			      int sF,int sU,int Ls, int Ns, const FermionField &in, FermionField &out);
-							     FermionField &out);
 
-				    void DiracOptAsmDhopSiteDag(
-								StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
-								std::vector<SiteHalfSpinor, alignedAllocator<SiteHalfSpinor> > &buf,
-								int sF, int sU, int Ls, int Ns, const FermionField &in,
-								FermionField &out);
 
-				    void DiracOptHandDhopSite(
+     void DiracOptHandDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-							      StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
 			      std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
 			      int sF,int sU,const FermionField &in, FermionField &out);
      
-				    void DiracOptHandDhopSiteDag(
+     void DiracOptHandDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-								 StencilImpl &st, LebesgueOrder &lo, DoubledGaugeField &U,
 				 std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
 				 int sF,int sU,const FermionField &in, FermionField &out);
-
     public:
+
      WilsonKernels(const ImplParams &p= ImplParams());
+     
     };
 
   }
 }
-
-
-
-
-
 #endif

lib/qcd/action/fermion/WilsonKernelsAsm.cc

@@ -31,10 +31,10 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 
 #include <Grid.h>
 
-
 namespace Grid {
 namespace QCD {
 
+
   ///////////////////////////////////////////////////////////
   // Default to no assembler implementation
   ///////////////////////////////////////////////////////////
@@ -45,15 +45,6 @@ namespace Grid {
 {
   assert(0);
 }
-    template<class Impl>
-      void WilsonKernels<Impl >::DiracOptAsmDhopSiteDag(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U,
-                                std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-                                int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out)
-    {
-      assert(0);
-    }
-
-
 
 #if defined(AVX512) 
 
@@ -82,21 +73,12 @@ namespace Grid {
 #define MAYBEPERM(A,perm) if (perm) { A ; }
 #define MULT_2SPIN(ptr,pf) MULT_ADDSUB_2SPIN(ptr,pf)
 #define FX(A) WILSONASM_ ##A
-  
-#undef KERNEL_DAG
 template<>
 void WilsonKernels<WilsonImplF>::DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U,
 						     std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
 						     int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out)
 #include <qcd/action/fermion/WilsonKernelsAsmBody.h>
 
-#define KERNEL_DAG
-    template<>
-    void WilsonKernels<WilsonImplF>::DiracOptAsmDhopSiteDag(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U,
-							    std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-							    int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out)
-#include <qcd/action/fermion/WilsonKernelsAsmBody.h>
-				    
 #undef VMOVIDUP
 #undef VMOVRDUP
 #undef MAYBEPERM
@@ -107,43 +89,32 @@ namespace Grid {
 #define VMOVIDUP(A,B,C)                                  VBCASTIDUPf(A,B,C)
 #define VMOVRDUP(A,B,C)                                  VBCASTRDUPf(A,B,C)
 #define MULT_2SPIN(ptr,pf) MULT_ADDSUB_2SPIN_LS(ptr,pf)
-				    
-#undef KERNEL_DAG
 template<>
-    void WilsonKernels<DomainWallVec5dImplF>::DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U,
+void WilsonKernels<DomainWallRedBlack5dImplF>::DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U,
-								  std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-								  int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out)
-#include <qcd/action/fermion/WilsonKernelsAsmBody.h>
-				    
-#define KERNEL_DAG
-    template<>
-    void WilsonKernels<DomainWallVec5dImplF>::DiracOptAsmDhopSiteDag(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U,
 								   std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
 								   int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out)
 #include <qcd/action/fermion/WilsonKernelsAsmBody.h>
 
 #endif
 
+template void WilsonKernels<WilsonImplF>::DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U,
+							       std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+							      int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out);		
 
-#define INSTANTIATE_ASM(A)\
+template void WilsonKernels<WilsonImplD>::DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U, 
-template void WilsonKernels<A>::DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U,\
+							       std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-                                   std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,\
+							       int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out);		
-                                  int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out);\
+template void WilsonKernels<GparityWilsonImplF>::DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U, 
-template void WilsonKernels<A>::DiracOptAsmDhopSiteDag(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U,\
+							       std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-                                   std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,\
+							       int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out);		
-                                  int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out);\
+template void WilsonKernels<GparityWilsonImplD>::DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U, 
-
+							       std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-
+							       int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out);		
-INSTANTIATE_ASM(WilsonImplF);
+template void WilsonKernels<DomainWallRedBlack5dImplF>::DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U, 
-INSTANTIATE_ASM(WilsonImplD);
+							       std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-INSTANTIATE_ASM(ZWilsonImplF);
+							       int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out);		
-INSTANTIATE_ASM(ZWilsonImplD);
+template void WilsonKernels<DomainWallRedBlack5dImplD>::DiracOptAsmDhopSite(StencilImpl &st,LebesgueOrder & lo,DoubledGaugeField &U, 
-INSTANTIATE_ASM(GparityWilsonImplF);
+							       std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-INSTANTIATE_ASM(GparityWilsonImplD);
+							       int ss,int ssU,int Ls,int Ns,const FermionField &in, FermionField &out);		
-INSTANTIATE_ASM(DomainWallVec5dImplF);
+}}
-INSTANTIATE_ASM(DomainWallVec5dImplD);
-INSTANTIATE_ASM(ZDomainWallVec5dImplF);
-INSTANTIATE_ASM(ZDomainWallVec5dImplD);
-  }
-}
 

lib/qcd/action/fermion/WilsonKernelsAsmBody.h

@@ -30,11 +30,7 @@
   basep = st.GetPFInfo(nent,plocal); nent++;
   if ( local ) {
     LOAD64(%r10,isigns);
-#ifdef KERNEL_DAG
-    XP_PROJMEM(base);
-#else 
     XM_PROJMEM(base);
-#endif
     MAYBEPERM(PERMUTE_DIR3,perm);
   } else { 
     LOAD_CHI(base);
@@ -45,22 +41,15 @@
     MULT_2SPIN_DIR_PFXP(Xp,basep);
   }
   LOAD64(%r10,isigns);
-#ifdef KERNEL_DAG
-  XP_RECON;
-#else
   XM_RECON;
-#endif
+
   ////////////////////////////////
   // Yp
   ////////////////////////////////
   basep = st.GetPFInfo(nent,plocal); nent++;
   if ( local ) {
     LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-    YP_PROJMEM(base);
-#else
     YM_PROJMEM(base);
-#endif
     MAYBEPERM(PERMUTE_DIR2,perm);
   } else { 
     LOAD_CHI(base);
@@ -71,11 +60,7 @@
     MULT_2SPIN_DIR_PFYP(Yp,basep);
   }
   LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-  YP_RECON_ACCUM;
-#else
   YM_RECON_ACCUM;
-#endif
 
   ////////////////////////////////
   // Zp
@@ -83,11 +68,7 @@
   basep = st.GetPFInfo(nent,plocal); nent++;
   if ( local ) {
     LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-    ZP_PROJMEM(base);
-#else
     ZM_PROJMEM(base);
-#endif
     MAYBEPERM(PERMUTE_DIR1,perm);
   } else { 
     LOAD_CHI(base);
@@ -98,11 +79,7 @@
     MULT_2SPIN_DIR_PFZP(Zp,basep);
   }
   LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-  ZP_RECON_ACCUM;
-#else
   ZM_RECON_ACCUM;
-#endif
 
   ////////////////////////////////
   // Tp
@@ -110,11 +87,7 @@
   basep = st.GetPFInfo(nent,plocal); nent++;
   if ( local ) {
     LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-    TP_PROJMEM(base);
-#else
     TM_PROJMEM(base);
-#endif
     MAYBEPERM(PERMUTE_DIR0,perm);
   } else { 
     LOAD_CHI(base);
@@ -125,26 +98,16 @@
     MULT_2SPIN_DIR_PFTP(Tp,basep);
   }
   LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-  TP_RECON_ACCUM;
-#else
   TM_RECON_ACCUM;
-#endif
 
   ////////////////////////////////
   // Xm
   ////////////////////////////////
-#ifndef STREAM_STORE
   basep= (uint64_t) &out._odata[ss];
-#endif
   //  basep= st.GetPFInfo(nent,plocal); nent++;
   if ( local ) {
     LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-    XM_PROJMEM(base);
-#else
     XP_PROJMEM(base);
-#endif
     MAYBEPERM(PERMUTE_DIR3,perm);
   } else { 
     LOAD_CHI(base);
@@ -155,11 +118,7 @@
     MULT_2SPIN_DIR_PFXM(Xm,basep);
   }
   LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-  XM_RECON_ACCUM;
-#else
   XP_RECON_ACCUM;
-#endif
 
   ////////////////////////////////
   // Ym
@@ -167,11 +126,7 @@
   basep= st.GetPFInfo(nent,plocal); nent++;
   if ( local ) {
     LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-    YM_PROJMEM(base);
-#else
     YP_PROJMEM(base);
-#endif
     MAYBEPERM(PERMUTE_DIR2,perm);
   } else { 
     LOAD_CHI(base);
@@ -182,11 +137,7 @@
     MULT_2SPIN_DIR_PFYM(Ym,basep);
   }
   LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-  YM_RECON_ACCUM;
-#else
   YP_RECON_ACCUM;
-#endif
 
   ////////////////////////////////
   // Zm
@@ -194,11 +145,7 @@
   basep= st.GetPFInfo(nent,plocal); nent++;
   if ( local ) {
     LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-    ZM_PROJMEM(base);
-#else
     ZP_PROJMEM(base);
-#endif
     MAYBEPERM(PERMUTE_DIR1,perm);
   } else { 
     LOAD_CHI(base);
@@ -209,11 +156,7 @@
     MULT_2SPIN_DIR_PFZM(Zm,basep);
   }
   LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-  ZM_RECON_ACCUM;
-#else
   ZP_RECON_ACCUM;
-#endif
 
   ////////////////////////////////
   // Tm
@@ -221,28 +164,18 @@
   basep= st.GetPFInfo(nent,plocal); nent++;
   if ( local ) {
     LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-    TM_PROJMEM(base);
-#else
     TP_PROJMEM(base);
-#endif
     MAYBEPERM(PERMUTE_DIR0,perm);
   } else { 
     LOAD_CHI(base);
   }
   base= (uint64_t) &out._odata[ss];
-#ifndef STREAM_STORE
   PREFETCH_CHIMU(base);
-#endif
   {
     MULT_2SPIN_DIR_PFTM(Tm,basep);
   }
   LOAD64(%r10,isigns);  // times i => shuffle and xor the real part sign bit
-#ifdef KERNEL_DAG
-  TM_RECON_ACCUM;
-#else
   TP_RECON_ACCUM;
-#endif
 
   basep= st.GetPFInfo(nent,plocal); nent++;
   SAVE_RESULT(base,basep);

lib/qcd/action/fermion/WilsonKernelsHand.cc

@@ -839,23 +839,46 @@ void WilsonKernels<GparityWilsonImplD>::DiracOptHandDhopSiteDag(StencilImpl &st,
 ////////////// Wilson ; uses this implementation /////////////////////
 // Need Nc=3 though //
 
-#define INSTANTIATE_THEM(A) \
+template void WilsonKernels<WilsonImplF>::DiracOptHandDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-template void WilsonKernels<A>::DiracOptHandDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,\
+							       std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-							       std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,\
+							       int ss,int sU,const FermionField &in, FermionField &out);
-							       int ss,int sU,const FermionField &in, FermionField &out);\
+template void WilsonKernels<WilsonImplD>::DiracOptHandDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
-template void WilsonKernels<A>::DiracOptHandDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,\
+							       std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
-								  std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,\
+							       int ss,int sU,const FermionField &in, FermionField &out);
+template void WilsonKernels<WilsonImplF>::DiracOptHandDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+								  std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+								  int ss,int sU,const FermionField &in, FermionField &out);
+template void WilsonKernels<WilsonImplD>::DiracOptHandDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+								  std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+								  int ss,int sU,const FermionField &in, FermionField &out);
+
+
+template void WilsonKernels<GparityWilsonImplF>::DiracOptHandDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+								      std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+								      int ss,int sU,const FermionField &in, FermionField &out);
+template void WilsonKernels<GparityWilsonImplD>::DiracOptHandDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+								      std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+								      int ss,int sU,const FermionField &in, FermionField &out);
+template void WilsonKernels<GparityWilsonImplF>::DiracOptHandDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+									 std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+									 int ss,int sU,const FermionField &in, FermionField &out);
+template void WilsonKernels<GparityWilsonImplD>::DiracOptHandDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+									 std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+									 int ss,int sU,const FermionField &in, FermionField &out);
+
+
+template void WilsonKernels<DomainWallRedBlack5dImplF>::DiracOptHandDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+								      std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+								      int ss,int sU,const FermionField &in, FermionField &out);
+template void WilsonKernels<DomainWallRedBlack5dImplD>::DiracOptHandDhopSite(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+								      std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+								      int ss,int sU,const FermionField &in, FermionField &out);
+template void WilsonKernels<DomainWallRedBlack5dImplF>::DiracOptHandDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+									 std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
+									 int ss,int sU,const FermionField &in, FermionField &out);
+template void WilsonKernels<DomainWallRedBlack5dImplD>::DiracOptHandDhopSiteDag(StencilImpl &st,LebesgueOrder &lo,DoubledGaugeField &U,
+									 std::vector<SiteHalfSpinor,alignedAllocator<SiteHalfSpinor> >  &buf,
 									 int ss,int sU,const FermionField &in, FermionField &out);
 
-INSTANTIATE_THEM(WilsonImplF);
-INSTANTIATE_THEM(WilsonImplD);
-INSTANTIATE_THEM(ZWilsonImplF);
-INSTANTIATE_THEM(ZWilsonImplD);
-INSTANTIATE_THEM(GparityWilsonImplF);
-INSTANTIATE_THEM(GparityWilsonImplD);
-INSTANTIATE_THEM(DomainWallVec5dImplF);
-INSTANTIATE_THEM(DomainWallVec5dImplD);
-INSTANTIATE_THEM(ZDomainWallVec5dImplF);
-INSTANTIATE_THEM(ZDomainWallVec5dImplD);
 
 }}

lib/qcd/action/fermion/WilsonTMFermion.h

@@ -28,7 +28,7 @@ Author: paboyle <paboyle@ph.ed.ac.uk>
 #ifndef  GRID_QCD_WILSON_TM_FERMION_H
 #define  GRID_QCD_WILSON_TM_FERMION_H
 
-#include <Grid/Grid.h>
+#include <Grid.h>
 
 namespace Grid {
 

lib/qcd/action/fermion/ZMobiusFermion.h

@@ -1,79 +0,0 @@
-    /*************************************************************************************
-
-    Grid physics library, www.github.com/paboyle/Grid 
-
-    Source file: ./lib/qcd/action/fermion/MobiusFermion.h
-
-    Copyright (C) 2015
-
-Author: Peter Boyle <pabobyle@ph.ed.ac.uk>
-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_QCD_ZMOBIUS_FERMION_H
-#define  GRID_QCD_ZMOBIUS_FERMION_H
-
-#include <Grid/Grid.h>
-
-namespace Grid {
-
-  namespace QCD {
-
-    template<class Impl>
-    class ZMobiusFermion : public CayleyFermion5D<Impl>
-    {
-    public:
-     INHERIT_IMPL_TYPES(Impl);
-    public:
-
-      virtual void   Instantiatable(void) {};
-      // Constructors
-      ZMobiusFermion(GaugeField &_Umu,
-		     GridCartesian         &FiveDimGrid,
-		     GridRedBlackCartesian &FiveDimRedBlackGrid,
-		     GridCartesian         &FourDimGrid,
-		     GridRedBlackCartesian &FourDimRedBlackGrid,
-		     RealD _mass,RealD _M5,
-		     std::vector<ComplexD> &gamma, RealD b,RealD c,const ImplParams &p= ImplParams()) : 
-      
-      CayleyFermion5D<Impl>(_Umu,
-			    FiveDimGrid,
-			    FiveDimRedBlackGrid,
-			    FourDimGrid,
-			    FourDimRedBlackGrid,_mass,_M5,p)
-
-      {
-	RealD eps = 1.0;
-	
-	std::cout<<GridLogMessage << "ZMobiusFermion (b="<<b<<",c="<<c<<") with Ls= "<<this->Ls<<" gamma passed in"<<std::endl;
-	std::vector<Coeff_t> zgamma(this->Ls);
-	for(int s=0;s<this->Ls;s++){
-	  zgamma[s] = gamma[s];
-	}
-
-	// Call base setter
-	this->SetCoefficientsInternal(1.0,zgamma,b,c);
-      }
-
-    };
-
-  }
-}
-
-#endif

lib/qcd/action/gauge/GaugeImpl.h

@@ -22,16 +22,17 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef  GRID_QCD_GAUGE_IMPL_H
 #define  GRID_QCD_GAUGE_IMPL_H
 
 namespace Grid {
+
   namespace QCD {
 
+    
     ////////////////////////////////////////////////////////////////////////
     // Implementation dependent gauge types
     ////////////////////////////////////////////////////////////////////////
@@ -45,120 +46,110 @@ template <class Gimpl> class WilsonLoops;
     typedef typename GImpl::SiteGaugeField       SiteGaugeField;\
     typedef typename GImpl::SiteGaugeLink         SiteGaugeLink;
 
+
     // 
-template <class S, int Nrepresentation = Nc> class GaugeImplTypes {
+    template<class S,int Nrepresentation=Nc>
+    class GaugeImplTypes { 
     public:
+    
       typedef S Simd;
     
-  template <typename vtype>
+      template<typename vtype> using iImplGaugeLink          = iScalar<iScalar<iMatrix<vtype, Nrepresentation> > >;
-  using iImplGaugeLink  = iScalar<iScalar<iMatrix<vtype, Nrepresentation>>>;
+      template<typename vtype> using iImplGaugeField         = iVector<iScalar<iMatrix<vtype, Nrepresentation> >, Nd  >;
-  template <typename vtype>
-  using iImplGaugeField = iVector<iScalar<iMatrix<vtype, Nrepresentation>>, Nd>;
     
       typedef iImplGaugeLink    <Simd>           SiteGaugeLink;
       typedef iImplGaugeField   <Simd>           SiteGaugeField;
     
-  typedef Lattice<SiteGaugeLink> GaugeLinkField; // bit ugly naming; polarised
+      typedef Lattice<SiteGaugeLink>                GaugeLinkField; // bit ugly naming; polarised gauge field, lorentz... all ugly
-                                                 // gauge field, lorentz... all
-                                                 // ugly
       typedef Lattice<SiteGaugeField>                   GaugeField;
 
-  // Move this elsewhere? FIXME
-  static inline void AddGaugeLink(GaugeField &U, GaugeLinkField &W,
-                                  int mu) { // U[mu] += W
-    PARALLEL_FOR_LOOP
-    for (auto ss = 0; ss < U._grid->oSites(); ss++) {
-      U._odata[ss]._internal[mu] =
-          U._odata[ss]._internal[mu] + W._odata[ss]._internal;
-    }
-  }
     };
 
     // Composition with smeared link, bc's etc.. probably need multiple inheritance
     // Variable precision "S" and variable Nc
-template <class GimplTypes> class PeriodicGaugeImpl : public GimplTypes {
+    template<class GimplTypes>
+    class PeriodicGaugeImpl : public GimplTypes  { 
     public:
+
     INHERIT_GIMPL_TYPES(GimplTypes);
 
     ////////////////////////////////////////////////////////////////////////////////////////////////////////////
-  // Support needed for the assembly of loops including all boundary condition
+    // Support needed for the assembly of loops including all boundary condition effects such as conjugate bcs
-  // effects such as conjugate bcs
     ////////////////////////////////////////////////////////////////////////////////////////////////////////////
     
-  template <class covariant>
+      template<class covariant>  static inline
-  static inline Lattice<covariant>
+      Lattice<covariant> CovShiftForward (const GaugeLinkField &Link, int mu, const Lattice<covariant> &field) {
-  CovShiftForward(const GaugeLinkField &Link, int mu,
-                  const Lattice<covariant> &field) {
 	return PeriodicBC::CovShiftForward(Link,mu,field);
       }
 
-  template <class covariant>
+      template<class covariant> static inline
-  static inline Lattice<covariant>
+      Lattice<covariant> CovShiftBackward(const GaugeLinkField &Link, int mu,const Lattice<covariant> &field) {
-  CovShiftBackward(const GaugeLinkField &Link, int mu,
-                   const Lattice<covariant> &field) {
 	return PeriodicBC::CovShiftBackward(Link,mu,field);
       }
-  static inline GaugeLinkField
+      static inline
-  CovShiftIdentityBackward(const GaugeLinkField &Link, int mu) {
+      GaugeLinkField CovShiftIdentityBackward(const GaugeLinkField &Link, int mu) {
 	return Cshift(adj(Link),mu,-1);
       }
-  static inline GaugeLinkField
+      static inline
-  CovShiftIdentityForward(const GaugeLinkField &Link, int mu) {
+      GaugeLinkField CovShiftIdentityForward(const GaugeLinkField &Link, int mu) {
 	return Link;
       }
-  static inline GaugeLinkField ShiftStaple(const GaugeLinkField &Link, int mu) {
+      static inline
+      GaugeLinkField ShiftStaple(const GaugeLinkField &Link, int mu) {
 	return Cshift(Link,mu,1);
       }
 
-  static inline bool isPeriodicGaugeField(void) { return true; }
+      static inline bool isPeriodicGaugeField(void) {
+	return true;
+      }
+
     };
 
+    
     // Composition with smeared link, bc's etc.. probably need multiple inheritance
     // Variable precision "S" and variable Nc
-template <class GimplTypes> class ConjugateGaugeImpl : public GimplTypes {
+    template<class GimplTypes>
+    class ConjugateGaugeImpl : public GimplTypes { 
     public:
+
       INHERIT_GIMPL_TYPES(GimplTypes);
 
     ////////////////////////////////////////////////////////////////////////////////////////////////////////////
-  // Support needed for the assembly of loops including all boundary condition
+    // Support needed for the assembly of loops including all boundary condition effects such as Gparity.
-  // effects such as Gparity.
     ////////////////////////////////////////////////////////////////////////////////////////////////////////////
-  template <class covariant>
+    template<class covariant>  static
-  static Lattice<covariant> CovShiftForward(const GaugeLinkField &Link, int mu,
+    Lattice<covariant> CovShiftForward (const GaugeLinkField &Link, int mu, const Lattice<covariant> &field) {
-                                            const Lattice<covariant> &field) {
       return ConjugateBC::CovShiftForward(Link,mu,field);
     }
 
-  template <class covariant>
+    template<class covariant> static
-  static Lattice<covariant> CovShiftBackward(const GaugeLinkField &Link, int mu,
+    Lattice<covariant> CovShiftBackward(const GaugeLinkField &Link, int mu,const Lattice<covariant> &field) {
-                                             const Lattice<covariant> &field) {
       return ConjugateBC::CovShiftBackward(Link,mu,field);
     }
 
-  static inline GaugeLinkField
+    static inline
-  CovShiftIdentityBackward(const GaugeLinkField &Link, int mu) {
+    GaugeLinkField CovShiftIdentityBackward(const GaugeLinkField &Link, int mu) {
       GridBase *grid = Link._grid;
       int Lmu = grid->GlobalDimensions()[mu]-1;
       
-    Lattice<iScalar<vInteger>> coor(grid);
+      Lattice<iScalar<vInteger> > coor(grid);    LatticeCoordinate(coor,mu);
-    LatticeCoordinate(coor, mu);
 
       GaugeLinkField tmp (grid);
       tmp=adj(Link);
       tmp = where(coor==Lmu,conjugate(tmp),tmp);
       return Cshift(tmp,mu,-1);// moves towards positive mu
     }
-  static inline GaugeLinkField
+    static inline
-  CovShiftIdentityForward(const GaugeLinkField &Link, int mu) {
+    GaugeLinkField CovShiftIdentityForward(const GaugeLinkField &Link, int mu) {
       return Link;
     }
 
-  static inline GaugeLinkField ShiftStaple(const GaugeLinkField &Link, int mu) {
+    static inline
+    GaugeLinkField ShiftStaple(const GaugeLinkField &Link, int mu) {
       GridBase *grid = Link._grid;
       int Lmu = grid->GlobalDimensions()[mu]-1;
       
-    Lattice<iScalar<vInteger>> coor(grid);
+      Lattice<iScalar<vInteger> > coor(grid);    LatticeCoordinate(coor,mu);
-    LatticeCoordinate(coor, mu);
 
       GaugeLinkField tmp (grid);
       tmp=Cshift(Link,mu,1);
@@ -166,28 +157,24 @@ public:
       return tmp;
     }
 
-  static inline bool isPeriodicGaugeField(void) { return false; }
+    static inline bool isPeriodicGaugeField(void) {
+      return false;
+    }
+    
     };
 
     typedef GaugeImplTypes<vComplex,Nc>     GimplTypesR;
     typedef GaugeImplTypes<vComplexF,Nc>    GimplTypesF;
     typedef GaugeImplTypes<vComplexD,Nc>    GimplTypesD;
 
-typedef GaugeImplTypes<vComplex, SU<Nc>::AdjointDimension> GimplAdjointTypesR;
-typedef GaugeImplTypes<vComplexF, SU<Nc>::AdjointDimension> GimplAdjointTypesF;
-typedef GaugeImplTypes<vComplexD, SU<Nc>::AdjointDimension> GimplAdjointTypesD;
-
     typedef PeriodicGaugeImpl<GimplTypesR> PeriodicGimplR; // Real.. whichever prec
     typedef PeriodicGaugeImpl<GimplTypesF> PeriodicGimplF; // Float
     typedef PeriodicGaugeImpl<GimplTypesD> PeriodicGimplD; // Double
 
-typedef PeriodicGaugeImpl<GimplAdjointTypesR> PeriodicGimplAdjR; // Real.. whichever prec
-typedef PeriodicGaugeImpl<GimplAdjointTypesF> PeriodicGimplAdjF; // Float
-typedef PeriodicGaugeImpl<GimplAdjointTypesD> PeriodicGimplAdjD; // Double
-
     typedef ConjugateGaugeImpl<GimplTypesR> ConjugateGimplR; // Real.. whichever prec
     typedef ConjugateGaugeImpl<GimplTypesF> ConjugateGimplF; // Float
     typedef ConjugateGaugeImpl<GimplTypesD> ConjugateGimplD; // Double
+
   }
 }
 

lib/qcd/action/pseudofermion/OneFlavourEvenOddRational.h

@@ -22,8 +22,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef QCD_PSEUDOFERMION_ONE_FLAVOUR_EVEN_ODD_RATIONAL_H
@@ -43,8 +42,7 @@ namespace QCD {
     //
   
     template<class Impl>
-class OneFlavourEvenOddRationalPseudoFermionAction
+    class OneFlavourEvenOddRationalPseudoFermionAction : public Action<typename Impl::GaugeField> {
-    : public Action<typename Impl::GaugeField> {
     public:
       INHERIT_IMPL_TYPES(Impl);
 
@@ -57,40 +55,41 @@ class OneFlavourEvenOddRationalPseudoFermionAction
       MultiShiftFunction PowerNegQuarter;
 
     private:
+     
       FermionOperator<Impl> & FermOp;// the basic operator
 
-  // NOT using "Nroots"; IroIro is -- perhaps later, but this wasn't good for us
+      // NOT using "Nroots"; IroIro is -- perhaps later, but this wasn't good for us historically
-  // historically
       // and hasenbusch works better
 
       FermionField PhiEven; // the pseudo fermion field for this trajectory
       FermionField PhiOdd; // the pseudo fermion field for this trajectory
                         
+
     public:
+
       OneFlavourEvenOddRationalPseudoFermionAction(FermionOperator<Impl>  &Op, 
-                                               Params &p)
+						   Params & p ) : FermOp(Op), 
-      : FermOp(Op),
 	PhiEven(Op.FermionRedBlackGrid()), 
 	PhiOdd (Op.FermionRedBlackGrid()), 
-        param(p) {
+	param(p) 
+      {
 	AlgRemez remez(param.lo,param.hi,param.precision);
 
 	// MdagM^(+- 1/2)
-    std::cout << GridLogMessage << "Generating degree " << param.degree
+	std::cout<<GridLogMessage << "Generating degree "<<param.degree<<" for x^(1/2)"<<std::endl;
-              << " for x^(1/2)" << std::endl;
 	remez.generateApprox(param.degree,1,2);
 	PowerHalf.Init(remez,param.tolerance,false);
 	PowerNegHalf.Init(remez,param.tolerance,true);
 
 	// MdagM^(+- 1/4)
-    std::cout << GridLogMessage << "Generating degree " << param.degree
+	std::cout<<GridLogMessage << "Generating degree "<<param.degree<<" for x^(1/4)"<<std::endl;
-              << " for x^(1/4)" << std::endl;
 	remez.generateApprox(param.degree,1,4);
    	PowerQuarter.Init(remez,param.tolerance,false);
 	PowerNegQuarter.Init(remez,param.tolerance,true);
       };
       
       virtual void refresh(const GaugeField &U, GridParallelRNG& pRNG) {
+
 	// P(phi) = e^{- phi^dag (MpcdagMpc)^-1/2 phi}
 	//        = e^{- phi^dag (MpcdagMpc)^-1/4 (MpcdagMpc)^-1/4 phi}
 	// Phi = MpcdagMpc^{1/4} eta 
@@ -107,8 +106,7 @@ class OneFlavourEvenOddRationalPseudoFermionAction
 	FermionField etaOdd (FermOp.FermionRedBlackGrid());
 	FermionField etaEven(FermOp.FermionRedBlackGrid());
 
-    gaussian(pRNG, eta);
+	gaussian(pRNG,eta);	eta=eta*scale;
-    eta = eta * scale;
 
 	pickCheckerboard(Even,etaEven,eta);
 	pickCheckerboard(Odd,etaOdd,eta);
@@ -126,27 +124,26 @@ class OneFlavourEvenOddRationalPseudoFermionAction
 
 	assert(FermOp.ConstEE() == 1);
 	PhiEven = zero;
+	
       };
 
       //////////////////////////////////////////////////////
       // S = phi^dag (Mdag M)^-1/2 phi
       //////////////////////////////////////////////////////
       virtual RealD S(const GaugeField &U) {
+
 	FermOp.ImportGauge(U);
 
 	FermionField Y(FermOp.FermionRedBlackGrid());
 	
 	SchurDifferentiableOperator<Impl> Mpc(FermOp);
 
-    ConjugateGradientMultiShift<FermionField> msCG(param.MaxIter,
+	ConjugateGradientMultiShift<FermionField> msCG(param.MaxIter,PowerNegQuarter);
-                                                   PowerNegQuarter);
 
 	msCG(Mpc,PhiOdd,Y);
 
 	RealD action = norm2(Y);
-    std::cout << GridLogMessage << "Pseudofermion action FIXME -- is -1/4 "
+	std::cout << GridLogMessage << "Pseudofermion action FIXME -- is -1/4 solve or -1/2 solve faster??? "<<action<<std::endl;
-                                   "solve or -1/2 solve faster??? "
-              << action << std::endl;
 
 	return action;
       };
@@ -161,8 +158,7 @@ class OneFlavourEvenOddRationalPseudoFermionAction
       //
       // d[N/D] is then
       //
-  //          \sum_k -ak [M^dagM+bk]^{-1}  [ dM^dag M + M^dag dM ] [M^dag M +
+      //          \sum_k -ak [M^dagM+bk]^{-1}  [ dM^dag M + M^dag dM ] [M^dag M + bk]^{-1}
-  //          bk]^{-1}
       //
       // Need
       //       Mf Phi_k = [MdagM+bk]^{-1} Phi
@@ -170,11 +166,11 @@ class OneFlavourEvenOddRationalPseudoFermionAction
       //
       // With these building blocks
       //
-  //       dS/dU =  \sum_k -ak Mf Phi_k^dag      [ dM^dag M + M^dag dM ] Mf
+      //       dS/dU =  \sum_k -ak Mf Phi_k^dag      [ dM^dag M + M^dag dM ] Mf Phi_k
-  //       Phi_k
       //        S    = innerprodReal(Phi,Mf Phi);
       //////////////////////////////////////////////////////
       virtual void deriv(const GaugeField &U,GaugeField & dSdU) {
+
 	const int Npole = PowerNegHalf.poles.size();
 
 	std::vector<FermionField> MPhi_k (Npole,FermOp.FermionRedBlackGrid());
@@ -194,21 +190,23 @@ class OneFlavourEvenOddRationalPseudoFermionAction
 
 	dSdU = zero;
 	for(int k=0;k<Npole;k++){
+
 	  RealD ak = PowerNegHalf.residues[k];
 
 	  X  = MPhi_k[k];
 
 	  Mpc.Mpc(X,Y);
-      Mpc.MpcDeriv(tmp, Y, X);
+	  Mpc.MpcDeriv   (tmp , Y, X );  dSdU=dSdU+ak*tmp;
-      dSdU = dSdU + ak * tmp;
+	  Mpc.MpcDagDeriv(tmp , X, Y );  dSdU=dSdU+ak*tmp;
-      Mpc.MpcDagDeriv(tmp, X, Y);
+
-      dSdU = dSdU + ak * tmp;
 	}
 
-    // dSdU = Ta(dSdU);
+	dSdU = Ta(dSdU);
+
       };
     };
   }
 }
 
+
 #endif

lib/qcd/action/pseudofermion/OneFlavourEvenOddRationalRatio.h

@@ -256,7 +256,7 @@ namespace Grid{
 
 	}
 
-	//dSdU = Ta(dSdU);
+	dSdU = Ta(dSdU);
 
       };
     };

lib/qcd/action/pseudofermion/OneFlavourRational.h

@@ -186,7 +186,7 @@ namespace Grid{
 
 	}
 
-	//dSdU = Ta(dSdU);
+	dSdU = Ta(dSdU);
 
       };
     };

lib/qcd/action/pseudofermion/OneFlavourRationalRatio.h

@@ -242,7 +242,7 @@ namespace Grid{
 
 	}
 
-	//dSdU = Ta(dSdU);
+	dSdU = Ta(dSdU);
 
       };
     };

lib/qcd/action/pseudofermion/TwoFlavour.h

@@ -23,8 +23,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef QCD_PSEUDOFERMION_TWO_FLAVOUR_H
@@ -42,6 +41,7 @@ class TwoFlavourPseudoFermionAction : public Action<typename Impl::GaugeField> {
       INHERIT_IMPL_TYPES(Impl);
 
     private:
+      
       FermionOperator<Impl> & FermOp;// the basic operator
 
       OperatorFunction<FermionField> &DerivativeSolver;
@@ -56,17 +56,15 @@ class TwoFlavourPseudoFermionAction : public Action<typename Impl::GaugeField> {
       /////////////////////////////////////////////////
     TwoFlavourPseudoFermionAction(FermionOperator<Impl>  &Op, 
 				  OperatorFunction<FermionField> & DS,
-                                OperatorFunction<FermionField> &AS)
+				  OperatorFunction<FermionField> & AS
-      : FermOp(Op),
+				  ) : FermOp(Op), DerivativeSolver(DS), ActionSolver(AS), Phi(Op.FermionGrid()) {
-        DerivativeSolver(DS),
+      };
-        ActionSolver(AS),
-        Phi(Op.FermionGrid()){};
       
       //////////////////////////////////////////////////////////////////////////////////////
-  // Push the gauge field in to the dops. Assume any BC's and smearing already
+      // Push the gauge field in to the dops. Assume any BC's and smearing already applied
-  // applied
       //////////////////////////////////////////////////////////////////////////////////////
       virtual void refresh(const GaugeField &U, GridParallelRNG& pRNG) {
+
 	// P(phi) = e^{- phi^dag (MdagM)^-1 phi}
 	// Phi = Mdag eta 
 	// P(eta) = e^{- eta^dag eta}
@@ -78,8 +76,7 @@ class TwoFlavourPseudoFermionAction : public Action<typename Impl::GaugeField> {
 	//
 	// Chroma has this scale factor: two_flavor_monomial_w.h
 	// IroIro: does not use this scale. It is absorbed by a change of vars
-    //         in the Phi integral, and thus is only an irrelevant prefactor for
+	//         in the Phi integral, and thus is only an irrelevant prefactor for the partition function.
-    //         the partition function.
 	//
 	RealD scale = std::sqrt(0.5);
 	FermionField eta(FermOp.FermionGrid());
@@ -90,12 +87,14 @@ class TwoFlavourPseudoFermionAction : public Action<typename Impl::GaugeField> {
 	FermOp.Mdag(eta,Phi);
 
 	Phi=Phi*scale;
+	
       };
 
       //////////////////////////////////////////////////////
       // S = phi^dag (Mdag M)^-1 phi
       //////////////////////////////////////////////////////
       virtual RealD S(const GaugeField &U) {
+
 	FermOp.ImportGauge(U);
 
 	FermionField X(FermOp.FermionGrid());
@@ -107,20 +106,19 @@ class TwoFlavourPseudoFermionAction : public Action<typename Impl::GaugeField> {
 	MdagMOp.Op(X,Y);
 
 	RealD action = norm2(Y);
-    std::cout << GridLogMessage << "Pseudofermion action " << action
+	std::cout << GridLogMessage << "Pseudofermion action "<<action<<std::endl;
-              << std::endl;
 	return action;
       };
 
       //////////////////////////////////////////////////////
       // dS/du = - phi^dag  (Mdag M)^-1 [ Mdag dM + dMdag M ]  (Mdag M)^-1 phi
-  //       = - phi^dag M^-1 dM (MdagM)^-1 phi -  phi^dag (MdagM)^-1 dMdag dM
+      //       = - phi^dag M^-1 dM (MdagM)^-1 phi -  phi^dag (MdagM)^-1 dMdag dM (Mdag)^-1 phi 
-  //       (Mdag)^-1 phi
       //
       //       = - Ydag dM X  - Xdag dMdag Y
       //
       //////////////////////////////////////////////////////
       virtual void deriv(const GaugeField &U,GaugeField & dSdU) {
+
 	FermOp.ImportGauge(U);
 
 	FermionField X(FermOp.FermionGrid());
@@ -130,21 +128,21 @@ class TwoFlavourPseudoFermionAction : public Action<typename Impl::GaugeField> {
 	MdagMLinearOperator<FermionOperator<Impl> ,FermionField> MdagMOp(FermOp);
 
 	X=zero;
-    DerivativeSolver(MdagMOp, Phi, X); // X = (MdagM)^-1 phi    
+	DerivativeSolver(MdagMOp,Phi,X);
-    MdagMOp.Op(X, Y);                  // Y = M X = (Mdag)^-1 phi
+	MdagMOp.Op(X,Y);
 
-    // Our conventions really make this UdSdU; We do not differentiate wrt Udag
+	// Our conventions really make this UdSdU; We do not differentiate wrt Udag here.
-    // here.
 	// So must take dSdU - adj(dSdU) and left multiply by mom to get dS/dt.
 
-    FermOp.MDeriv(tmp, Y, X, DaggerNo);
+	FermOp.MDeriv(tmp , Y, X,DaggerNo );  dSdU=tmp;
-    dSdU = tmp;
+	FermOp.MDeriv(tmp , X, Y,DaggerYes);  dSdU=dSdU+tmp;
-    FermOp.MDeriv(tmp, X, Y, DaggerYes);
+	
-    dSdU = dSdU + tmp;
+	dSdU = Ta(dSdU);
 
-    // not taking here the traceless antihermitian component
       };
+
     };
+    
   }
 }
 

lib/qcd/action/pseudofermion/TwoFlavourEvenOdd.h

@@ -23,8 +23,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef QCD_PSEUDOFERMION_TWO_FLAVOUR_EVEN_ODD_H
@@ -33,16 +32,20 @@ directory
 namespace Grid{
   namespace QCD{
 
+
+
     ////////////////////////////////////////////////////////////////////////
     // Two flavour pseudofermion action for any EO prec dop
     ////////////////////////////////////////////////////////////////////////
     template<class Impl>
-class TwoFlavourEvenOddPseudoFermionAction
+    class TwoFlavourEvenOddPseudoFermionAction : public Action<typename Impl::GaugeField> {
-    : public Action<typename Impl::GaugeField> {
+
     public:
+
       INHERIT_IMPL_TYPES(Impl);
 
     private:
+      
       FermionOperator<Impl> & FermOp;// the basic operator
 
       OperatorFunction<FermionField> &DerivativeSolver;
@@ -57,8 +60,9 @@ class TwoFlavourEvenOddPseudoFermionAction
       /////////////////////////////////////////////////
       TwoFlavourEvenOddPseudoFermionAction(FermionOperator<Impl>  &Op, 
 					 OperatorFunction<FermionField> & DS,
-                                       OperatorFunction<FermionField> &AS)
+					 OperatorFunction<FermionField> & AS
-      : FermOp(Op),
+					   ) : 
+        FermOp(Op), 
 	DerivativeSolver(DS), 
 	ActionSolver(AS), 
         PhiEven(Op.FermionRedBlackGrid()),
@@ -169,7 +173,7 @@ class TwoFlavourEvenOddPseudoFermionAction
 	FermOp.MeeDeriv(tmp , X, Y,DaggerYes);  dSdU=dSdU+tmp;
 	*/
 	
-	//dSdU = Ta(dSdU);
+	dSdU = Ta(dSdU);
 
       };
 

lib/qcd/action/pseudofermion/TwoFlavourEvenOddRatio.h

@@ -131,11 +131,9 @@ namespace Grid{
 	Vpc.MpcDag(PhiOdd,Y);           // Y= Vdag phi
 	X=zero;
 	ActionSolver(Mpc,Y,X);          // X= (MdagM)^-1 Vdag phi
-	//Mpc.Mpc(X,Y);                   // Y=  Mdag^-1 Vdag phi
+	Mpc.Mpc(X,Y);                   // Y=  Mdag^-1 Vdag phi
-	// Multiply by Ydag
-	RealD action = real(innerProduct(Y,X));
 
-	//RealD action = norm2(Y);
+	RealD action = norm2(Y);
 
 	// The EE factorised block; normally can replace with zero if det is constant (gauge field indept)
 	// Only really clover term that creates this. Leave the EE portion as a future to do to make most
@@ -190,8 +188,7 @@ namespace Grid{
 	assert(NumOp.ConstEE() == 1);
 	assert(DenOp.ConstEE() == 1);
 
-	//dSdU = -Ta(dSdU);
+	dSdU = -Ta(dSdU);
-	dSdU = -dSdU;
 
       };
     };

lib/qcd/action/pseudofermion/TwoFlavourRatio.h

@@ -155,8 +155,7 @@ namespace Grid{
 	DenOp.MDeriv(force,Y,X,DaggerNo);   dSdU=dSdU-force;
 	DenOp.MDeriv(force,X,Y,DaggerYes);  dSdU=dSdU-force;
 
-	dSdU *= -1.0;
+	dSdU = - Ta(dSdU);
-	//dSdU = - Ta(dSdU);
 
       };
     };

lib/qcd/hmc/HMC.h

@@ -25,8 +25,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 //--------------------------------------------------------------------
@@ -42,10 +41,13 @@ directory
 
 #include <string>
 
+
 namespace Grid{
   namespace QCD{
     
+
     struct HMCparameters{
+
       Integer StartTrajectory;
       Integer Trajectories; /* @brief Number of sweeps in this run */
       bool    MetropolisTest;
@@ -59,40 +61,27 @@ struct HMCparameters {
 	Trajectories        = 200;
 	/////////////////////////////////
       }
-
-  void print() const {
-    std::cout << GridLogMessage << "[HMC parameter] Trajectories            : " << Trajectories << "\n";
-    std::cout << GridLogMessage << "[HMC parameter] Start trajectory        : " << StartTrajectory << "\n";
-    std::cout << GridLogMessage << "[HMC parameter] Metropolis test (on/off): " << MetropolisTest << "\n";
-    std::cout << GridLogMessage << "[HMC parameter] Thermalization trajs    : " << NoMetropolisUntil << "\n";
-  }
-  
     };
 
     template<class GaugeField> 
     class HmcObservable {
     public:
-  virtual void TrajectoryComplete(int traj, GaugeField &U, GridSerialRNG &sRNG,
+      virtual void TrajectoryComplete (int traj, GaugeField &U, GridSerialRNG &sRNG, GridParallelRNG & pRNG )=0;
-                                  GridParallelRNG &pRNG) = 0;
     };
 
     template<class Gimpl> 
     class PlaquetteLogger : public HmcObservable<typename Gimpl::GaugeField> {
     private:
       std::string Stem;
-
     public:
       INHERIT_GIMPL_TYPES(Gimpl);
-  PlaquetteLogger(std::string cf) { Stem = cf; };
+      PlaquetteLogger(std::string cf) {
+        Stem  = cf;
+      };
 
-  void TrajectoryComplete(int traj, GaugeField &U, GridSerialRNG &sRNG,
+      void TrajectoryComplete(int traj, GaugeField &U, GridSerialRNG &sRNG, GridParallelRNG & pRNG )
-                          GridParallelRNG &pRNG) {
-    std::string file;
       {
-      std::ostringstream os;
+	  std::string file;   { std::ostringstream os; os << Stem     <<"."<< traj; file = os.str(); }
-      os << Stem << "." << traj;
-      file = os.str();
-    }
 	  std::ofstream of(file);
 
 	  RealD peri_plaq = WilsonLoops<PeriodicGimplR>::avgPlaquette(U);
@@ -101,27 +90,17 @@ class PlaquetteLogger : public HmcObservable<typename Gimpl::GaugeField> {
 	  RealD impl_plaq = WilsonLoops<Gimpl>::avgPlaquette(U);
 	  RealD impl_rect = WilsonLoops<Gimpl>::avgRectangle(U);
 
-    of << traj << " " << impl_plaq << " " << impl_rect << "  " << peri_plaq
+	  of << traj<<" "<< impl_plaq << " " << impl_rect << "  "<< peri_plaq<<" "<<peri_rect<<std::endl;
-       << " " << peri_rect << std::endl;
+	  std::cout<< GridLogMessage<< "traj"<<" "<< "plaq " << " " << " rect  " << "  "<< "peri_plaq" <<" "<<"peri_rect"<<std::endl;
-    std::cout << GridLogMessage << "traj"
+	  std::cout<< GridLogMessage<< traj<<" "<< impl_plaq << " " << impl_rect << "  "<< peri_plaq<<" "<<peri_rect<<std::endl;
-              << " "
-              << "plaq "
-              << " "
-              << " rect  "
-              << "  "
-              << "peri_plaq"
-              << " "
-              << "peri_rect" << std::endl;
-    std::cout << GridLogMessage << traj << " " << impl_plaq << " " << impl_rect
-              << "  " << peri_plaq << " " << peri_rect << std::endl;
       }
     };
 
-//    template <class GaugeField, class Integrator, class Smearer, class
+    //    template <class GaugeField, class Integrator, class Smearer, class Boundary> 
-//    Boundary>
     template <class GaugeField, class IntegratorType>
     class HybridMonteCarlo {
     private:
+
       const HMCparameters Params;
       
       GridSerialRNG   &sRNG; // Fixme: need a RNG management strategy.
@@ -135,64 +114,60 @@ class HybridMonteCarlo {
       // Metropolis step
       /////////////////////////////////////////////////////////
       bool metropolis_test(const RealD DeltaH){
+
 	RealD rn_test;
 
 	RealD prob = std::exp(-DeltaH);
 
 	random(sRNG,rn_test);
       
-    std::cout << GridLogMessage
+	std::cout<<GridLogMessage<< "--------------------------------------------\n";
-              << "--------------------------------------------------\n";
+	std::cout<<GridLogMessage<< "dH = "<<DeltaH << "  Random = "<< rn_test <<"\n";
-    std::cout << GridLogMessage << "exp(-dH) = " << prob
+	std::cout<<GridLogMessage<< "Acc. Probability = " << ((prob<1.0)? prob: 1.0)<< "   ";
-              << "  Random = " << rn_test << "\n";
-    std::cout << GridLogMessage
-              << "Acc. Probability = " << ((prob < 1.0) ? prob : 1.0) << "\n";
       
 	if((prob >1.0) || (rn_test <= prob)){       // accepted
-      std::cout << GridLogMessage << "Metropolis_test -- ACCEPTED\n";
+	  std::cout<<GridLogMessage <<"-- ACCEPTED\n";
-      std::cout << GridLogMessage
-                << "--------------------------------------------------\n";
 	  return true;
 	} else {                               // rejected
-      std::cout << GridLogMessage << "Metropolis_test -- REJECTED\n";
+	  std::cout<<GridLogMessage <<"-- REJECTED\n";
-      std::cout << GridLogMessage
-                << "--------------------------------------------------\n";
 	  return false;
 	}
+
       }
 
       /////////////////////////////////////////////////////////
       // Evolution
       /////////////////////////////////////////////////////////
       RealD evolve_step(GaugeField& U){
+
 	TheIntegrator.refresh(U,pRNG); // set U and initialize P and phi's 
 
 	RealD H0 = TheIntegrator.S(U); // initial state action  
 
-    std::streamsize current_precision = std::cout.precision();
+	std::cout<<GridLogMessage<<"Total H before = "<< H0 << "\n";
-    std::cout.precision(17);
-    std::cout << GridLogMessage << "Total H before trajectory = " << H0 << "\n";
-    std::cout.precision(current_precision);
 
 	TheIntegrator.integrate(U);
       
 	RealD H1 = TheIntegrator.S(U); // updated state action            
 
-    std::cout.precision(17);
+	std::cout<<GridLogMessage<<"Total H after = "<< H1 << "\n";
-    std::cout << GridLogMessage << "Total H after trajectory  = " << H1
-              << "  dH = " << H1 - H0 << "\n";
-    std::cout.precision(current_precision);
 
 	return (H1-H0);
       }
       
     public:
+
       /////////////////////////////////////////
       // Constructor
       /////////////////////////////////////////
-  HybridMonteCarlo(HMCparameters Pams, IntegratorType &_Int,
+      HybridMonteCarlo(HMCparameters Pms,  IntegratorType &_Int, GridSerialRNG &_sRNG, GridParallelRNG &_pRNG, GaugeField &_U ) :
-                   GridSerialRNG &_sRNG, GridParallelRNG &_pRNG, GaugeField &_U)
+        Params(Pms), 
-      : Params(Pams), TheIntegrator(_Int), sRNG(_sRNG), pRNG(_pRNG), Ucur(_U) {}
+	TheIntegrator(_Int), 
+	sRNG(_sRNG),
+	pRNG(_pRNG),
+	Ucur(_U)
+      {
+      }
       ~HybridMonteCarlo(){};
 
       void AddObservable(HmcObservable<GaugeField> *obs) {
@@ -200,22 +175,21 @@ class HybridMonteCarlo {
       }
 
       void evolve(void){
+
 	Real DeltaH;
 
 	GaugeField Ucopy(Ucur._grid);
 	
-    Params.print();
-
 	// Actual updates (evolve a copy Ucopy then copy back eventually)
-    for (int traj = Params.StartTrajectory;
+	for(int traj=Params.StartTrajectory; traj < Params.Trajectories+Params.StartTrajectory; ++traj){
-         traj < Params.Trajectories + Params.StartTrajectory; ++traj) {
+
 	  std::cout<<GridLogMessage << "-- # Trajectory = "<< traj <<  "\n";
 	  Ucopy = Ucur;
 
 	  DeltaH = evolve_step(Ucopy);
 
 	  bool accept = true;
-      if (traj >= Params.NoMetropolisUntil) {
+	  if ( traj > Params.NoMetropolisUntil) { 
 	    accept = metropolis_test(DeltaH);
 	  }
 	  
@@ -226,6 +200,7 @@ class HybridMonteCarlo {
 	  for(int obs = 0;obs<Observables.size();obs++){
 	    Observables[obs]->TrajectoryComplete (traj+1,Ucur,sRNG,pRNG);
 	  }
+
 	}
       }
     };
@@ -233,4 +208,5 @@ class HybridMonteCarlo {
   }// QCD
 }// Grid
 
+
 #endif 

lib/qcd/hmc/HmcRunner.h

@@ -22,8 +22,7 @@ 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
+    See the full license in the file "LICENSE" in the top level distribution directory
-directory
     *************************************************************************************/
     /*  END LEGAL */
 #ifndef HMC_RUNNER
@@ -32,42 +31,38 @@ directory
 namespace Grid{
   namespace QCD{
 
-template <class Gimpl, class RepresentationsPolicy = NoHirep >
+
+template<class Gimpl>
 class NerscHmcRunnerTemplate {
 public:
+
   INHERIT_GIMPL_TYPES(Gimpl);
 
   enum StartType_t { ColdStart, HotStart, TepidStart, CheckpointStart };
 
-  ActionSet<GaugeField, RepresentationsPolicy> TheAction;
+  ActionSet<GaugeField> TheAction;
 
   GridCartesian         * UGrid   ;
   GridCartesian         * FGrid   ;
   GridRedBlackCartesian * UrbGrid ;
   GridRedBlackCartesian * FrbGrid ;
 
-  virtual void BuildTheAction(int argc, char **argv) = 0;  // necessary?
+  virtual void BuildTheAction (int argc, char **argv) = 0;
+
   
   void Run (int argc, char  **argv){
+
     StartType_t StartType = HotStart;
 
     std::string arg;
 
     if( GridCmdOptionExists(argv,argv+argc,"--StartType") ){
       arg = GridCmdOptionPayload(argv,argv+argc,"--StartType");
-      if (arg == "HotStart") {
+      if ( arg == "HotStart" ) { StartType = HotStart; }
-        StartType = HotStart;
+      else if ( arg == "ColdStart" ) { StartType = ColdStart; }
-      } else if (arg == "ColdStart") {
+      else if ( arg == "TepidStart" ) { StartType = TepidStart; }
-        StartType = ColdStart;
+      else if ( arg == "CheckpointStart" ) { StartType = CheckpointStart; }
-      } else if (arg == "TepidStart") {
+      else assert(0);
-        StartType = TepidStart;
-      } else if (arg == "CheckpointStart") {
-        StartType = CheckpointStart;
-      } else {
-        std::cout << GridLogError << "Unrecognized option in --StartType\n";
-        std::cout << GridLogError << "Valid [HotStart, ColdStart, TepidStart, CheckpointStart]\n";
-        assert(0);
-      }
     }
 
     int StartTraj = 0;
@@ -86,87 +81,63 @@ class NerscHmcRunnerTemplate {
       NumTraj = ivec[0];
     }
 
-    int NumThermalizations = 10;
+    // Create integrator
-    if (GridCmdOptionExists(argv, argv + argc, "--Thermalizations")) {
+    typedef MinimumNorm2<GaugeField>  IntegratorType;// change here to change the algorithm
-      arg = GridCmdOptionPayload(argv, argv + argc, "--Thermalizations");
+    IntegratorParameters MDpar(20);
-      std::vector<int> ivec(0);
+    IntegratorType MDynamics(UGrid,MDpar, TheAction);
-      GridCmdOptionIntVector(arg, ivec);
-      NumThermalizations = ivec[0];
-    }
-
-    GridSerialRNG sRNG;
-    GridParallelRNG pRNG(UGrid);
-    LatticeGaugeField U(UGrid);  // change this to an extended field (smearing class)?
-
-    std::vector<int> SerSeed({1, 2, 3, 4, 5});
-    std::vector<int> ParSeed({6, 7, 8, 9, 10});
-
-    // Create integrator, including the smearing policy
-    // Smearing policy, only defined for Nc=3
-    /*
-    std::cout << GridLogDebug << " Creating the Stout class\n";
-    double rho = 0.1;  // smearing parameter, now hardcoded
-    int Nsmear = 1;    // number of smearing levels
-    Smear_Stout<Gimpl> Stout(rho);
-    std::cout << GridLogDebug << " Creating the SmearedConfiguration class\n";
-    //SmearedConfiguration<Gimpl> SmearingPolicy(UGrid, Nsmear, Stout);
-    std::cout << GridLogDebug << " done\n";
-    */
-    //////////////
-    NoSmearing<Gimpl> SmearingPolicy;
-    typedef MinimumNorm2<GaugeField, NoSmearing<Gimpl>, RepresentationsPolicy >
-        IntegratorType;  // change here to change the algorithm
-    IntegratorParameters MDpar(20, 1.0);
-    IntegratorType MDynamics(UGrid, MDpar, TheAction, SmearingPolicy);
 
     // Checkpoint strategy
-    NerscHmcCheckpointer<Gimpl> Checkpoint(std::string("ckpoint_lat"),
+    NerscHmcCheckpointer<Gimpl> Checkpoint(std::string("ckpoint_lat"),std::string("ckpoint_rng"),1);
-                                           std::string("ckpoint_rng"), 1);
     PlaquetteLogger<Gimpl>      PlaqLog(std::string("plaq"));
 
     HMCparameters HMCpar;
     HMCpar.StartTrajectory = StartTraj;
     HMCpar.Trajectories    = NumTraj;
-    HMCpar.NoMetropolisUntil = NumThermalizations;
+    
+    GridSerialRNG    sRNG;
+    GridParallelRNG  pRNG(UGrid);
+    LatticeGaugeField  U(UGrid);
+
+    std::vector<int> SerSeed({1,2,3,4,5});
+    std::vector<int> ParSeed({6,7,8,9,10});
 
     if ( StartType == HotStart ) {
       // Hot start
+      HMCpar.NoMetropolisUntil =10;
       HMCpar.MetropolisTest = true;
       sRNG.SeedFixedIntegers(SerSeed);
       pRNG.SeedFixedIntegers(ParSeed);
-      SU<Nc>::HotConfiguration(pRNG, U);
+      SU3::HotConfiguration(pRNG, U);
     } else if ( StartType == ColdStart ) { 
       // Cold start
+      HMCpar.NoMetropolisUntil =10;
       HMCpar.MetropolisTest = true;
       sRNG.SeedFixedIntegers(SerSeed);
       pRNG.SeedFixedIntegers(ParSeed);
-      SU<Nc>::ColdConfiguration(pRNG, U);
+      SU3::ColdConfiguration(pRNG, U);
     } else if ( StartType == TepidStart ) {       
       // Tepid start
+      HMCpar.NoMetropolisUntil =10;
       HMCpar.MetropolisTest = true;
       sRNG.SeedFixedIntegers(SerSeed);
       pRNG.SeedFixedIntegers(ParSeed);
-      SU<Nc>::TepidConfiguration(pRNG, U);
+      SU3::TepidConfiguration(pRNG, U);
     } else if ( StartType == CheckpointStart ) { 
+      HMCpar.NoMetropolisUntil =10;
       HMCpar.MetropolisTest = true;
       // CheckpointRestart
       Checkpoint.CheckpointRestore(StartTraj, U, sRNG, pRNG);
     }
 
-    // Attach the gauge field to the smearing Policy and create the fill the
+    HybridMonteCarlo<GaugeField,IntegratorType>  HMC(HMCpar, MDynamics,sRNG,pRNG,U);
-    // smeared set
-    // notice that the unit configuration is singular in this procedure
-    std::cout << GridLogMessage << "Filling the smeared set\n";
-    SmearingPolicy.set_GaugeField(U);
-
-    HybridMonteCarlo<GaugeField, IntegratorType> HMC(HMCpar, MDynamics, sRNG,
-                                                     pRNG, U);
     HMC.AddObservable(&Checkpoint);
     HMC.AddObservable(&PlaqLog);
     
     // Run it
     HMC.evolve();
+    
   }
+  
 };
 
  typedef NerscHmcRunnerTemplate<PeriodicGimplR> NerscHmcRunner;
@@ -181,11 +152,5 @@ typedef NerscHmcRunnerTemplate<ConjugateGimplR> ConjugateNerscHmcRunner;
  typedef NerscHmcRunnerTemplate<ConjugateGimplF> ConjugateNerscHmcRunnerF;
  typedef NerscHmcRunnerTemplate<ConjugateGimplD> ConjugateNerscHmcRunnerD;
 
-template <class RepresentationsPolicy>
+}}
-using NerscHmcRunnerHirep = NerscHmcRunnerTemplate<PeriodicGimplR, RepresentationsPolicy>;
-
-
-
-}
-}
 #endif