Just commenting

.gitignore

@@ -9,7 +9,6 @@
 ################
 *~
 *#
-*.sublime-*
 
 # Precompiled Headers #
 #######################
@@ -92,8 +91,6 @@ build*/*
 #####################
 *.xcodeproj/*
 build.sh
-.vscode
-*.code-workspace
 
 # Eigen source #
 ################
@@ -106,26 +103,4 @@ lib/fftw/*
 # libtool macros #
 ##################
 m4/lt*
-m4/libtool.m4
-
-# github pages #
-################
-gh-pages/
-
-# Buck files #
-##############
-.buck*
-buck-out
-BUCK
-make-bin-BUCK.sh
-
-# generated sources #
-#####################
-lib/qcd/spin/gamma-gen/*.h
-lib/qcd/spin/gamma-gen/*.cc
-
-# vs code editor files #
-########################
-.vscode/
-.vscode/settings.json
-settings.json
+m4/libtool.m4

.travis.yml

@@ -7,8 +7,64 @@ cache:
 matrix:
   include:
     - os:        osx
-      osx_image: xcode8.3
+      osx_image: xcode7.2
       compiler: clang
+    - compiler: gcc
+      addons:
+        apt:
+          sources:
+            - ubuntu-toolchain-r-test
+          packages:
+            - g++-4.9
+            - libmpfr-dev
+            - libgmp-dev
+            - libmpc-dev
+            - libopenmpi-dev
+            - openmpi-bin
+            - binutils-dev
+      env: VERSION=-4.9
+    - compiler: gcc
+      addons:
+        apt:
+          sources:
+            - ubuntu-toolchain-r-test
+          packages:
+            - g++-5
+            - libmpfr-dev
+            - libgmp-dev
+            - libmpc-dev
+            - libopenmpi-dev
+            - openmpi-bin
+            - binutils-dev
+      env: VERSION=-5
+    - compiler: clang
+      addons:
+        apt:
+          sources:
+            - ubuntu-toolchain-r-test
+          packages:
+            - g++-4.8
+            - 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
+      addons:
+        apt:
+          sources:
+            - ubuntu-toolchain-r-test
+          packages:
+            - g++-4.8
+            - 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
       
 before_install:
     - export GRIDDIR=`pwd`
@@ -17,15 +73,13 @@ 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:
     - export CC=$CC$VERSION
     - export CXX=$CXX$VERSION
     - echo $PATH
-    - which autoconf
-    - autoconf  --version
-    - which automake
-    - automake  --version
     - which $CC
     - $CC  --version
     - which $CXX
@@ -38,10 +92,15 @@ script:
     - cd build
     - ../configure --enable-precision=single --enable-simd=SSE4 --enable-comms=none
     - make -j4 
-    - ./benchmarks/Benchmark_dwf --threads 1 --debug-signals
+    - ./benchmarks/Benchmark_dwf --threads 1
     - echo make clean
     - ../configure --enable-precision=double --enable-simd=SSE4 --enable-comms=none
     - make -j4
-    - ./benchmarks/Benchmark_dwf --threads 1 --debug-signals
-    - make check
+    - ./benchmarks/Benchmark_dwf --threads 1
+    - echo make clean
+    - if [[ "$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

@@ -1,17 +1,12 @@
 # additional include paths necessary to compile the C++ library
-SUBDIRS = lib benchmarks tests extras
+SUBDIRS = lib benchmarks tests
 
 include $(top_srcdir)/doxygen.inc
 
-bin_SCRIPTS=grid-config
+tests: all
+	$(MAKE) -C tests tests
 
-
-.PHONY: bench check tests doxygen-run doxygen-doc $(DX_PS_GOAL) $(DX_PDF_GOAL)
-
-tests-local: all
-bench-local: all
-check-local: all
+.PHONY: tests doxygen-run doxygen-doc $(DX_PS_GOAL) $(DX_PDF_GOAL)
 
 AM_CXXFLAGS += -I$(top_builddir)/include
-
 ACLOCAL_AMFLAGS = -I m4

README.md

@@ -1,13 +1,41 @@
-# Grid [![Teamcity status](http://ci.cliath.ph.ed.ac.uk/app/rest/builds/aggregated/strob:(buildType:(affectedProject(id:Grid)),branch:name:develop)/statusIcon.svg)](http://ci.cliath.ph.ed.ac.uk/project.html?projectId=Grid&tab=projectOverview) [![Travis status](https://travis-ci.org/paboyle/Grid.svg?branch=develop)](https://travis-ci.org/paboyle/Grid)
+# Grid
+<table>
+<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.**
 
 License: GPL v2.
 
-Last update June 2017.
+Last update Nov 2016.
 
 _Please do not send pull requests to the `master` branch which is reserved for releases._
 
+### Bug report
+
+_To help us tracking and solving more efficiently issues with Grid, please report problems using the issue system of GitHub rather than sending emails to Grid developers._
+
+When you file an issue, please go though the following checklist:
+
+1. Check that the code is pointing to the `HEAD` of `develop` or any commit in `master` which is tagged with a version number. 
+2. Give a description of the target platform (CPU, network, compiler). Please give the full CPU part description, using for example `cat /proc/cpuinfo | grep 'model name' | uniq` (Linux) or `sysctl machdep.cpu.brand_string` (macOS) and the full output the `--version` option of your compiler.
+3. Give the exact `configure` command used.
+4. Attach `config.log`.
+5. Attach `config.summary`.
+6. Attach the output of `make V=1`.
+7. Describe the issue and any previous attempt to solve it. If relevant, show how to reproduce the issue using a minimal working example.
+
 
 
 ### Description
@@ -30,68 +58,13 @@ 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, ARM NEON (128 bits) AVX, AVX2, QPX (256 bits), IMCI and AVX512 (512 bits) targets are supported.
+Presently SSE4 (128 bit) AVX, AVX2, QPX (256 bit), 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 are presented as `vRealF`, `vRealD`, `vComplexF`, and `vComplexD` internal vector data types. These may be useful in themselves for other programmers.
 The corresponding scalar types are named `RealF`, `RealD`, `ComplexF` and `ComplexD`.
 
 MPI, OpenMP, and SIMD parallelism are present in the library.
-Please see [this paper](https://arxiv.org/abs/1512.03487) for more detail.
-
-
-### Compilers
-
-Intel ICPC v16.0.3 and later
-
-Clang v3.5 and later (need 3.8 and later for OpenMP)
-
-GCC   v4.9.x (recommended)
-
-GCC   v6.3 and later
-
-### Important: 
-
-Some versions of GCC appear to have a bug under high optimisation (-O2, -O3).
-
-The safety of these compiler versions cannot be guaranteed at this time. Follow Issue 100 for details and updates.
-
-GCC   v5.x
-
-GCC   v6.1, v6.2
-
-### Bug report
-
-_To help us tracking and solving more efficiently issues with Grid, please report problems using the issue system of GitHub rather than sending emails to Grid developers._
-
-When you file an issue, please go though the following checklist:
-
-1. Check that the code is pointing to the `HEAD` of `develop` or any commit in `master` which is tagged with a version number. 
-2. Give a description of the target platform (CPU, network, compiler). Please give the full CPU part description, using for example `cat /proc/cpuinfo | grep 'model name' | uniq` (Linux) or `sysctl machdep.cpu.brand_string` (macOS) and the full output the `--version` option of your compiler.
-3. Give the exact `configure` command used.
-4. Attach `config.log`.
-5. Attach `grid.config.summary`.
-6. Attach the output of `make V=1`.
-7. Describe the issue and any previous attempt to solve it. If relevant, show how to reproduce the issue using a minimal working example.
-
-### Required libraries
-Grid requires:
-
-[GMP](https://gmplib.org/), 
-
-[MPFR](http://www.mpfr.org/) 
-
-Bootstrapping grid downloads and uses for internal dense matrix (non-QCD operations) the Eigen library.
-
-Grid optionally uses:
-
-[HDF5](https://support.hdfgroup.org/HDF5/)  
-
-[LIME](http://usqcd-software.github.io/c-lime/) for ILDG and SciDAC file format support. 
-
-[FFTW](http://www.fftw.org) either generic version or via the Intel MKL library.
-
-LAPACK either generic version or Intel MKL library.
-
+Please see https://arxiv.org/abs/1512.03487 for more detail.
 
 ### Quick start
 First, start by cloning the repository:
@@ -122,10 +95,10 @@ install Grid. Other options are detailed in the next section, you can also use `
 `CXX`, `CXXFLAGS`, `LDFLAGS`, ... environment variables can be modified to
 customise the build.
 
-Finally, you can build, check, and install Grid:
+Finally, you can build and install Grid:
 
 ``` bash
-make; make check; make install
+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:
@@ -148,7 +121,7 @@ If you want to build all the tests at once just use `make tests`.
 - `--enable-gen-simd-width=<size>`: select the size (in bytes) of the generic SIMD vector type (default: 32 bytes).
 - `--enable-precision={single|double}`: set the default precision (default: `double`).
 - `--enable-precision=<comm>`: Use `<comm>` for message passing (default: `none`). A list of possible SIMD targets is detailed in a section below.
-- `--enable-rng={sitmo|ranlux48|mt19937}`: choose the RNG (default: `sitmo `).
+- `--enable-rng={ranlux48|mt19937}`: choose the RNG (default: `ranlux48 `).
 - `--disable-timers`: disable system dependent high-resolution timers.
 - `--enable-chroma`: enable Chroma regression tests.
 - `--enable-doxygen-doc`: enable the Doxygen documentation generation (build with `make doxygen-doc`)
@@ -162,6 +135,7 @@ The following options can be use with the `--enable-comms=` option to target dif
 | `none`         | no communications                                             |
 | `mpi[-auto]`   | MPI communications                                            |
 | `mpi3[-auto]`  | MPI communications using MPI 3 shared memory                  |
+| `mpi3l[-auto]` | MPI communications using MPI 3 shared memory and leader model |
 | `shmem `       | Cray SHMEM communications                                     |
 
 For the MPI interfaces the optional `-auto` suffix instructs the `configure` scripts to determine all the necessary compilation and linking flags. This is done by extracting the informations from the MPI wrapper specified in the environment variable `MPICXX` (if not specified `configure` will scan though a list of default names). The `-auto` suffix is not supported by the Cray environment wrapper scripts. Use the standard versions instead.  
@@ -179,13 +153,13 @@ The following options can be use with the `--enable-simd=` option to target diff
 | `AVXFMA4`   | AVX (256 bit) + FMA4                   |
 | `AVX2`      | AVX 2 (256 bit)                        |
 | `AVX512`    | AVX 512 bit                            |
-| `NEONv8`    | [ARM NEON](http://infocenter.arm.com/help/index.jsp?topic=/com.arm.doc.den0024a/ch07s03.html) (128 bit)                     |
-| `QPX`       | IBM QPX (256 bit)                      |
+| `QPX`       | QPX (256 bit)                          |
 
 Alternatively, some CPU codenames can be directly used:
 
 | `<code>`    | Description                            |
 | ----------- | -------------------------------------- |
+| `KNC`       | [Intel Xeon Phi codename Knights Corner](http://ark.intel.com/products/codename/57721/Knights-Corner) |
 | `KNL`       | [Intel Xeon Phi codename Knights Landing](http://ark.intel.com/products/codename/48999/Knights-Landing) |
 | `BGQ`       | Blue Gene/Q                            |
 
@@ -202,205 +176,21 @@ The following configuration is recommended for the Intel Knights Landing platfor
 ``` bash
 ../configure --enable-precision=double\
              --enable-simd=KNL        \
-             --enable-comms=mpi-auto  \
+             --enable-comms=mpi-auto \
+             --with-gmp=<path>        \
+             --with-mpfr=<path>       \
              --enable-mkl             \
              CXX=icpc MPICXX=mpiicpc
 ```
-The MKL flag enables use of BLAS and FFTW from the Intel Math Kernels Library.
 
-If you are working on a Cray machine that does not use the `mpiicpc` wrapper, please use:
+where `<path>` is the UNIX prefix where GMP and MPFR are installed. If you are working on a Cray machine that does not use the `mpiicpc` wrapper, please use:
 
 ``` bash
 ../configure --enable-precision=double\
              --enable-simd=KNL        \
              --enable-comms=mpi       \
+             --with-gmp=<path>        \
+             --with-mpfr=<path>       \
              --enable-mkl             \
              CXX=CC CC=cc
-```
-
-If gmp and mpfr are NOT in standard places (/usr/) these flags may be needed:
-``` bash
-               --with-gmp=<path>        \
-               --with-mpfr=<path>       \
-```
-where `<path>` is the UNIX prefix where GMP and MPFR are installed. 
-
-Knight's Landing with Intel Omnipath adapters with two adapters per node 
-presently performs better with use of more than one rank per node, using shared memory 
-for interior communication. This is the mpi3 communications implementation. 
-We recommend four ranks per node for best performance, but optimum is local volume dependent.
-
-``` bash
-../configure --enable-precision=double\
-             --enable-simd=KNL        \
-             --enable-comms=mpi3-auto \
-             --enable-mkl             \
-             CC=icpc MPICXX=mpiicpc 
-```
-
-### Build setup for Intel Haswell Xeon platform
-
-The following configuration is recommended for the Intel Haswell platform:
-
-``` bash
-../configure --enable-precision=double\
-             --enable-simd=AVX2       \
-             --enable-comms=mpi3-auto \
-             --enable-mkl             \
-             CXX=icpc MPICXX=mpiicpc
-```
-The MKL flag enables use of BLAS and FFTW from the Intel Math Kernels Library.
-
-If gmp and mpfr are NOT in standard places (/usr/) these flags may be needed:
-``` bash
-               --with-gmp=<path>        \
-               --with-mpfr=<path>       \
-```
-where `<path>` is the UNIX prefix where GMP and MPFR are installed. 
-
-If you are working on a Cray machine that does not use the `mpiicpc` wrapper, please use:
-
-``` bash
-../configure --enable-precision=double\
-             --enable-simd=AVX2       \
-             --enable-comms=mpi3      \
-             --enable-mkl             \
-             CXX=CC CC=cc
-```
-Since Dual socket nodes are commonplace, we recommend MPI-3 as the default with the use of 
-one rank per socket. If using the Intel MPI library, threads should be pinned to NUMA domains using
-```
-        export I_MPI_PIN=1
-```
-This is the default.
-
-### Build setup for Intel Skylake Xeon platform
-
-The following configuration is recommended for the Intel Skylake platform:
-
-``` bash
-../configure --enable-precision=double\
-             --enable-simd=AVX512     \
-             --enable-comms=mpi3      \
-             --enable-mkl             \
-             CXX=mpiicpc
-```
-The MKL flag enables use of BLAS and FFTW from the Intel Math Kernels Library.
-
-If gmp and mpfr are NOT in standard places (/usr/) these flags may be needed:
-``` bash
-               --with-gmp=<path>        \
-               --with-mpfr=<path>       \
-```
-where `<path>` is the UNIX prefix where GMP and MPFR are installed. 
-
-If you are working on a Cray machine that does not use the `mpiicpc` wrapper, please use:
-
-``` bash
-../configure --enable-precision=double\
-             --enable-simd=AVX512     \
-             --enable-comms=mpi3      \
-             --enable-mkl             \
-             CXX=CC CC=cc
-```
-Since Dual socket nodes are commonplace, we recommend MPI-3 as the default with the use of 
-one rank per socket. If using the Intel MPI library, threads should be pinned to NUMA domains using
-``` 
-        export I_MPI_PIN=1
-```
-This is the default. 
-
-#### Expected Skylake Gold 6148 dual socket (single prec, single node 20+20 cores) performance using NUMA MPI mapping): 
-
-mpirun -n 2 benchmarks/Benchmark_dwf --grid 16.16.16.16 --mpi 2.1.1.1 --cacheblocking 2.2.2.2 --dslash-asm --shm 1024 --threads 18 
-
-TBA
-
-
-### Build setup for AMD EPYC / RYZEN
-
-The AMD EPYC is a multichip module comprising 32 cores spread over four distinct chips each with 8 cores.
-So, even with a single socket node there is a quad-chip module. Dual socket nodes with 64 cores total
-are common. Each chip within the module exposes a separate NUMA domain.
-There are four NUMA domains per socket and we recommend one MPI rank per NUMA domain.
-MPI-3 is recommended with the use of four ranks per socket,
-and 8 threads per rank. 
-
-The following configuration is recommended for the AMD EPYC platform.
-
-``` bash
-../configure --enable-precision=double\
-             --enable-simd=AVX2       \
-             --enable-comms=mpi3 \
-             CXX=mpicxx 
-```
-
-If gmp and mpfr are NOT in standard places (/usr/) these flags may be needed:
-``` bash
-               --with-gmp=<path>        \
-               --with-mpfr=<path>       \
-```
-where `<path>` is the UNIX prefix where GMP and MPFR are installed. 
-
-Using MPICH and g++ v4.9.2, best performance can be obtained using explicit GOMP_CPU_AFFINITY flags for each MPI rank.
-This can be done by invoking MPI on a wrapper script omp_bind.sh to handle this. 
-
-It is recommended to run 8 MPI ranks on a single dual socket AMD EPYC, with 8 threads per rank using MPI3 and
-shared memory to communicate within this node:
-
-mpirun -np 8 ./omp_bind.sh ./Benchmark_dwf --mpi 2.2.2.1 --dslash-unroll --threads 8 --grid 16.16.16.16 --cacheblocking 4.4.4.4 
-
-Where omp_bind.sh does the following:
-```
-#!/bin/bash
-
-numanode=` expr $PMI_RANK % 8 `
-basecore=`expr $numanode \* 16`
-core0=`expr $basecore + 0 `
-core1=`expr $basecore + 2 `
-core2=`expr $basecore + 4 `
-core3=`expr $basecore + 6 `
-core4=`expr $basecore + 8 `
-core5=`expr $basecore + 10 `
-core6=`expr $basecore + 12 `
-core7=`expr $basecore + 14 `
-
-export GOMP_CPU_AFFINITY="$core0 $core1 $core2 $core3 $core4 $core5 $core6 $core7"
-echo GOMP_CUP_AFFINITY $GOMP_CPU_AFFINITY
-
-$@
-```
-
-Performance:
-
-#### Expected AMD EPYC 7601 dual socket (single prec, single node 32+32 cores) performance using NUMA MPI mapping): 
-
-mpirun  -np 8 ./omp_bind.sh ./Benchmark_dwf --threads 8 --mpi 2.2.2.1 --dslash-unroll --grid 16.16.16.16 --cacheblocking 4.4.4.4
-
-TBA
-
-### Build setup for BlueGene/Q
-
-To be written...
-
-### Build setup for ARM Neon
-
-To be written...
-
-### Build setup for laptops, other compilers, non-cluster builds
-
-Many versions of g++ and clang++ work with Grid, and involve merely replacing CXX (and MPICXX),
-and omit the enable-mkl flag. 
-
-Single node builds are enabled with 
-```
-            --enable-comms=none
-```
-
-FFTW support that is not in the default search path may then enabled with
-```
-    --with-fftw=<installpath>
-```
-
-BLAS will not be compiled in by default, and Lanczos will default to Eigen diagonalisation.
-
+```

TODO

@@ -1,51 +1,6 @@
 TODO:
 ---------------
 
-Code item work list
-
-a) namespaces & indentation
- GRID_BEGIN_NAMESPACE();
- GRID_END_NAMESPACE();
--- delete QCD namespace
-
-b) GPU branch
-- start branch
-- Increase Macro use in core library support; prepare for change
-- Audit volume of "device" code
-- Virtual function audit
-- Start port once Nvidia box is up
-- Cut down volume of code for first port? How?
-
-Physics item work list:
-
-1)- BG/Q port and check ; Andrew says ok.
-2)- Consistent linear solver flop count/rate -- PARTIAL, time but no flop/s yet
-3)- Physical propagator interface
-4)- Multigrid Wilson and DWF, compare to other Multigrid implementations
-5)- HDCR resume
-
-----------------------------
-Recent DONE 
--- RNG I/O in ILDG/SciDAC (minor) 
--- Precision conversion and sort out localConvert      <-- partial/easy
--- Conserved currents (Andrew)
--- Split grid
--- Christoph's local basis expansion Lanczos
--- MultiRHS with spread out extra dim -- Go through filesystem with SciDAC I/O ; <-- DONE ; bmark cori
--- Lanczos Remove DenseVector, DenseMatrix; Use Eigen instead. <-- DONE
--- GaugeFix into central location                      <-- DONE
--- Scidac and Ildg metadata handling                   <-- DONE
--- Binary I/O MPI2 IO                                  <-- DONE
--- Binary I/O speed up & x-strips                      <-- DONE
--- Cut down the exterior overhead                      <-- DONE
--- Interior legs from SHM comms                        <-- DONE
--- Half-precision comms                                <-- DONE
--- Merge high precision reduction into develop         <-- DONE
--- BlockCG, BCGrQ                                      <-- DONE
--- multiRHS DWF; benchmark on Cori/BNL for comms elimination <-- DONE
-   -- slice* linalg routines for multiRHS, BlockCG    
-
------
 * Forces; the UdSdU  term in gauge force term is half of what I think it should
   be. This is a consequence of taking ONLY the first term in:
 
@@ -66,8 +21,16 @@ Recent DONE
   This means we must double the force in the Test_xxx_force routines, and is the origin of the factor of two.
   This 2x is applied by hand in the fermion routines and in the Test_rect_force routine.
 
+
+Policies:
+
+* Link smearing/boundary conds; Policy class based implementation ; framework more in place
+
 * Support different boundary conditions (finite temp, chem. potential ... )
 
+* Support different fermion representations? 
+  - contained entirely within the integrator presently
+
 - Sign of force term.
 
 - Reversibility test.
@@ -78,6 +41,11 @@ Recent DONE
 
 - Audit oIndex usage for cb behaviour
 
+- Rectangle gauge actions.
+  Iwasaki,
+  Symanzik,
+  ... etc...
+
 - Prepare multigrid for HMC. - Alternate setup schemes.
 
 - Support for ILDG --- ugly, not done
@@ -87,11 +55,9 @@ Recent DONE
 - FFTnD ?
 
 - Gparity; hand opt use template specialisation elegance to enable the optimised paths ?
-
 - Gparity force term; Gparity (R)HMC.
-
+- Random number state save restore
 - Mobius implementation clean up to rmove #if 0 stale code sequences
-
 - CG -- profile carefully, kernel fusion, whole CG performance measurements.
 
 ================================================================
@@ -124,7 +90,6 @@ Insert/Extract
 Not sure of status of this -- reverify. Things are working nicely now though.
 
 * Make the Tensor types and Complex etc... play more nicely.
-
   - TensorRemove is a hack, come up with a long term rationalised approach to Complex vs. Scalar<Scalar<Scalar<Complex > > >
     QDP forces use of "toDouble" to get back to non tensor scalar. This role is presently taken TensorRemove, but I
     want to introduce a syntax that does not require this.
@@ -147,8 +112,6 @@ Not sure of status of this -- reverify. Things are working nicely now though.
 RECENT
 ---------------
 
-  - Support different fermion representations? -- DONE
-  - contained entirely within the integrator presently
   - Clean up HMC                                                             -- DONE
   - LorentzScalar<GaugeField> gets Gauge link type (cleaner).                -- DONE
   - Simplified the integrators a bit.                                        -- DONE
@@ -160,26 +123,6 @@ RECENT
   - Parallel io improvements                                  -- DONE
   - Plaquette and link trace checks into nersc reader from the Grid_nersc_io.cc test. -- DONE
 
-
-DONE:
-- MultiArray -- MultiRHS done
-- ConjugateGradientMultiShift -- DONE
-- MCR                         -- DONE
-- Remez -- Mike or Boost?     -- DONE
-- Proto (ET)                  -- DONE
-- uBlas                       -- DONE ; Eigen
-- Potentially Useful Boost libraries -- DONE ; Eigen
-- Aligned allocator; memory pool -- DONE
-- Multiprecision              -- DONE
-- Serialization               -- DONE
-- Regex -- Not needed
-- Tokenize -- Why?
-
-- Random number state save restore -- DONE
-- Rectangle gauge actions. -- DONE
-  Iwasaki,
-  Symanzik,
-  ... etc...
 Done: Cayley, Partial , ContFrac force terms.
 
 DONE
@@ -264,7 +207,6 @@ Done
 FUNCTIONALITY: it pleases me to keep track of things I have done (keeps me arguably sane)
 ======================================================================================================
 
-* Link smearing/boundary conds; Policy class based implementation ; framework more in place -- DONE
 * Command line args for geometry, simd, etc. layout. Is it necessary to have -- DONE
   user pass these? Is this a QCD specific?
 

VERSION

@@ -1,5 +1,6 @@
-Version : 0.7.0
+Version : 0.6.0
 
-- Clang 3.5 and above, ICPC v16 and above, GCC 6.3 and above recommended
-- MPI and MPI3 comms optimisations for KNL and OPA finished
-- Half precision comms
+- AVX512, AVX2, AVX, SSE good
+- Clang 3.5 and above, ICPC v16 and above, GCC 4.9 and above
+- MPI and MPI3
+- HiRep, Smearing, Generic gauge group

benchmarks/Benchmark_ITT.cc

@@ -1,800 +0,0 @@
-    /*************************************************************************************
-
-    Grid physics library, www.github.com/paboyle/Grid 
-
-    Source file: ./benchmarks/Benchmark_memory_bandwidth.cc
-
-    Copyright (C) 2015
-
-Author: Peter Boyle <paboyle@ph.ed.ac.uk>
-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/Grid.h>
-
-using namespace std;
-using namespace Grid;
-using namespace Grid::QCD;
-
-typedef WilsonFermion5D<DomainWallVec5dImplR> WilsonFermion5DR;
-typedef WilsonFermion5D<DomainWallVec5dImplF> WilsonFermion5DF;
-typedef WilsonFermion5D<DomainWallVec5dImplD> WilsonFermion5DD;
-
-
-std::vector<int> L_list;
-std::vector<int> Ls_list;
-std::vector<double> mflop_list;
-
-double mflop_ref;
-double mflop_ref_err;
-
-int NN_global;
-
-struct time_statistics{
-  double mean;
-  double err;
-  double min;
-  double max;
-
-  void statistics(std::vector<double> v){
-      double sum = std::accumulate(v.begin(), v.end(), 0.0);
-      mean = sum / v.size();
-
-      std::vector<double> diff(v.size());
-      std::transform(v.begin(), v.end(), diff.begin(), [=](double x) { return x - mean; });
-      double sq_sum = std::inner_product(diff.begin(), diff.end(), diff.begin(), 0.0);
-      err = std::sqrt(sq_sum / (v.size()*(v.size() - 1)));
-
-      auto result = std::minmax_element(v.begin(), v.end());
-      min = *result.first;
-      max = *result.second;
-}
-};
-
-void comms_header(){
-  std::cout <<GridLogMessage << " L  "<<"\t"<<" Ls  "<<"\t"
-            <<std::setw(11)<<"bytes"<<"MB/s uni (err/min/max)"<<"\t\t"<<"MB/s bidi (err/min/max)"<<std::endl;
-};
-
-Gamma::Algebra Gmu [] = {
-  Gamma::Algebra::GammaX,
-  Gamma::Algebra::GammaY,
-  Gamma::Algebra::GammaZ,
-  Gamma::Algebra::GammaT
-};
-struct controls {
-  int Opt;
-  int CommsOverlap;
-  Grid::CartesianCommunicator::CommunicatorPolicy_t CommsAsynch;
-  //  int HugePages;
-};
-
-class Benchmark {
-public:
-  static void Decomposition (void ) {
-
-    int threads = GridThread::GetThreads();
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << "= Grid is setup to use "<<threads<<" threads"<<std::endl;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage<<"Grid Default Decomposition patterns\n";
-    std::cout<<GridLogMessage<<"\tOpenMP threads : "<<GridThread::GetThreads()<<std::endl;
-    std::cout<<GridLogMessage<<"\tMPI tasks      : "<<GridCmdVectorIntToString(GridDefaultMpi())<<std::endl;
-    std::cout<<GridLogMessage<<"\tvReal          : "<<sizeof(vReal )*8    <<"bits ; " <<GridCmdVectorIntToString(GridDefaultSimd(4,vReal::Nsimd()))<<std::endl;
-    std::cout<<GridLogMessage<<"\tvRealF         : "<<sizeof(vRealF)*8    <<"bits ; " <<GridCmdVectorIntToString(GridDefaultSimd(4,vRealF::Nsimd()))<<std::endl;
-    std::cout<<GridLogMessage<<"\tvRealD         : "<<sizeof(vRealD)*8    <<"bits ; " <<GridCmdVectorIntToString(GridDefaultSimd(4,vRealD::Nsimd()))<<std::endl;
-    std::cout<<GridLogMessage<<"\tvComplex       : "<<sizeof(vComplex )*8 <<"bits ; " <<GridCmdVectorIntToString(GridDefaultSimd(4,vComplex::Nsimd()))<<std::endl;
-    std::cout<<GridLogMessage<<"\tvComplexF      : "<<sizeof(vComplexF)*8 <<"bits ; " <<GridCmdVectorIntToString(GridDefaultSimd(4,vComplexF::Nsimd()))<<std::endl;
-    std::cout<<GridLogMessage<<"\tvComplexD      : "<<sizeof(vComplexD)*8 <<"bits ; " <<GridCmdVectorIntToString(GridDefaultSimd(4,vComplexD::Nsimd()))<<std::endl;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-
-  }
-
-  static void Comms(void)
-  {
-    int Nloop=200;
-    int nmu=0;
-    int maxlat=32;
-
-    std::vector<int> simd_layout = GridDefaultSimd(Nd,vComplexD::Nsimd());
-    std::vector<int> mpi_layout  = GridDefaultMpi();
-
-    for(int mu=0;mu<Nd;mu++) if (mpi_layout[mu]>1) nmu++;
-
-    std::vector<double> t_time(Nloop);
-    time_statistics timestat;
-
-    std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << "= Benchmarking threaded STENCIL halo exchange in "<<nmu<<" dimensions"<<std::endl;
-    std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-    comms_header();
-
-    for(int lat=4;lat<=maxlat;lat+=4){
-      for(int Ls=8;Ls<=8;Ls*=2){
-
-	std::vector<int> latt_size  ({lat*mpi_layout[0],
-	      lat*mpi_layout[1],
-	      lat*mpi_layout[2],
-	      lat*mpi_layout[3]});
-
-	GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-	RealD Nrank = Grid._Nprocessors;
-	RealD Nnode = Grid.NodeCount();
-	RealD ppn = Nrank/Nnode;
-
-	std::vector<HalfSpinColourVectorD *> xbuf(8);
-	std::vector<HalfSpinColourVectorD *> rbuf(8);
-	Grid.ShmBufferFreeAll();
-	for(int d=0;d<8;d++){
-	  xbuf[d] = (HalfSpinColourVectorD *)Grid.ShmBufferMalloc(lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	  rbuf[d] = (HalfSpinColourVectorD *)Grid.ShmBufferMalloc(lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	  bzero((void *)xbuf[d],lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	  bzero((void *)rbuf[d],lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	}
-
-	int bytes=lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD);
-	int ncomm;
-	double dbytes;
-	std::vector<double> times(Nloop);
-	for(int i=0;i<Nloop;i++){
-
-	  double start=usecond();
-
-	  dbytes=0;
-	  ncomm=0;
-
-	  parallel_for(int dir=0;dir<8;dir++){
-
-	    double tbytes;
-	    int mu =dir % 4;
-
-	    if (mpi_layout[mu]>1 ) {
-	        
-	      int xmit_to_rank;
-	      int recv_from_rank;
-	      if ( dir == mu ) { 
-		int comm_proc=1;
-		Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
-	      } else { 
-		int comm_proc = mpi_layout[mu]-1;
-		Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
-	      }
-	      tbytes= Grid.StencilSendToRecvFrom((void *)&xbuf[dir][0], xmit_to_rank,
-						 (void *)&rbuf[dir][0], recv_from_rank,
-						 bytes,dir);
-	  
-#ifdef GRID_OMP
-#pragma omp atomic
-#endif
-	      ncomm++;
-
-#ifdef GRID_OMP
-#pragma omp atomic
-#endif
-	      dbytes+=tbytes;
-	    }
-	  }
-	  Grid.Barrier();
-	  double stop=usecond();
-	  t_time[i] = stop-start; // microseconds
-	}
-
-	timestat.statistics(t_time);
-	//	for(int i=0;i<t_time.size();i++){
-	//	  std::cout << i<<" "<<t_time[i]<<std::endl;
-	//	}
-
-	dbytes=dbytes*ppn;
-	double xbytes    = dbytes*0.5;
-	double rbytes    = dbytes*0.5;
-	double bidibytes = dbytes;
-
-	std::cout<<GridLogMessage << std::setw(4) << lat<<"\t"<<Ls<<"\t"
-		 <<std::setw(11) << bytes<< std::fixed << std::setprecision(1) << std::setw(7)
-		 <<std::right<< xbytes/timestat.mean<<"  "<< xbytes*timestat.err/(timestat.mean*timestat.mean)<< " "
-		 <<xbytes/timestat.max <<" "<< xbytes/timestat.min  
-		 << "\t\t"<<std::setw(7)<< bidibytes/timestat.mean<< "  " << bidibytes*timestat.err/(timestat.mean*timestat.mean) << " "
-		 << bidibytes/timestat.max << " " << bidibytes/timestat.min << std::endl;
-
- 
-	
-	    }
-    }    
-
-    return;
-  }
-
-  static void Memory(void)
-  {
-    const int Nvec=8;
-    typedef Lattice< iVector< vReal,Nvec> > LatticeVec;
-    typedef iVector<vReal,Nvec> Vec;
-
-    std::vector<int> simd_layout = GridDefaultSimd(Nd,vReal::Nsimd());
-    std::vector<int> mpi_layout  = GridDefaultMpi();
-
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << "= Benchmarking a*x + y bandwidth"<<std::endl;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << "  L  "<<"\t\t"<<"bytes"<<"\t\t\t"<<"GB/s"<<"\t\t"<<"Gflop/s"<<"\t\t seconds"<< "\t\tGB/s / node"<<std::endl;
-    std::cout<<GridLogMessage << "----------------------------------------------------------"<<std::endl;
-  
-    uint64_t NP;
-    uint64_t NN;
-
-
-  uint64_t lmax=48;
-#define NLOOP (100*lmax*lmax*lmax*lmax/lat/lat/lat/lat)
-
-    GridSerialRNG          sRNG;      sRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9}));
-    for(int lat=8;lat<=lmax;lat+=4){
-
-      std::vector<int> latt_size  ({lat*mpi_layout[0],lat*mpi_layout[1],lat*mpi_layout[2],lat*mpi_layout[3]});
-      int64_t vol= latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
-      GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-
-      NP= Grid.RankCount();
-      NN =Grid.NodeCount();
-
-      Vec rn ; random(sRNG,rn);
-
-      LatticeVec z(&Grid); z=rn;
-      LatticeVec x(&Grid); x=rn;
-      LatticeVec y(&Grid); y=rn;
-      double a=2.0;
-
-      uint64_t Nloop=NLOOP;
-
-      double start=usecond();
-      for(int i=0;i<Nloop;i++){
-	z=a*x-y;
-        x._odata[0]=z._odata[0]; // force serial dependency to prevent optimise away
-        y._odata[4]=z._odata[4];
-      }
-      double stop=usecond();
-      double time = (stop-start)/Nloop*1000;
-     
-      double flops=vol*Nvec*2;// mul,add
-      double bytes=3.0*vol*Nvec*sizeof(Real);
-      std::cout<<GridLogMessage<<std::setprecision(3) 
-	       << lat<<"\t\t"<<bytes<<"   \t\t"<<bytes/time<<"\t\t"<<flops/time<<"\t\t"<<(stop-start)/1000./1000.
-	       << "\t\t"<< bytes/time/NN <<std::endl;
-
-    }
-  };
-
-  static double DWF5(int Ls,int L)
-  {
-    RealD mass=0.1;
-    RealD M5  =1.8;
-
-    double mflops;
-    double mflops_best = 0;
-    double mflops_worst= 0;
-    std::vector<double> mflops_all;
-
-    ///////////////////////////////////////////////////////
-    // Set/Get the layout & grid size
-    ///////////////////////////////////////////////////////
-    int threads = GridThread::GetThreads();
-    std::vector<int> mpi = GridDefaultMpi(); assert(mpi.size()==4);
-    std::vector<int> local({L,L,L,L});
-
-    GridCartesian         * TmpGrid   = SpaceTimeGrid::makeFourDimGrid(std::vector<int>({64,64,64,64}), 
-								       GridDefaultSimd(Nd,vComplex::Nsimd()),GridDefaultMpi());
-    uint64_t NP = TmpGrid->RankCount();
-    uint64_t NN = TmpGrid->NodeCount();
-    NN_global=NN;
-    uint64_t SHM=NP/NN;
-
-    std::vector<int> internal;
-    if      ( SHM == 1 )   internal = std::vector<int>({1,1,1,1});
-    else if ( SHM == 2 )   internal = std::vector<int>({2,1,1,1});
-    else if ( SHM == 4 )   internal = std::vector<int>({2,2,1,1});
-    else if ( SHM == 8 )   internal = std::vector<int>({2,2,2,1});
-    else assert(0);
-
-    std::vector<int> nodes({mpi[0]/internal[0],mpi[1]/internal[1],mpi[2]/internal[2],mpi[3]/internal[3]});
-    std::vector<int> latt4({local[0]*nodes[0],local[1]*nodes[1],local[2]*nodes[2],local[3]*nodes[3]});
-
-    ///////// Welcome message ////////////
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << "Benchmark DWF Ls vec on "<<L<<"^4 local volume "<<std::endl;
-    std::cout<<GridLogMessage << "* Global volume  : "<<GridCmdVectorIntToString(latt4)<<std::endl;
-    std::cout<<GridLogMessage << "* Ls             : "<<Ls<<std::endl;
-    std::cout<<GridLogMessage << "* MPI ranks      : "<<GridCmdVectorIntToString(mpi)<<std::endl;
-    std::cout<<GridLogMessage << "* Intranode      : "<<GridCmdVectorIntToString(internal)<<std::endl;
-    std::cout<<GridLogMessage << "* nodes          : "<<GridCmdVectorIntToString(nodes)<<std::endl;
-    std::cout<<GridLogMessage << "* Using "<<threads<<" threads"<<std::endl;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-
-    ///////// Lattice Init ////////////
-    GridCartesian         * UGrid    = SpaceTimeGrid::makeFourDimGrid(latt4, GridDefaultSimd(Nd,vComplex::Nsimd()),GridDefaultMpi());
-    GridRedBlackCartesian * UrbGrid  = SpaceTimeGrid::makeFourDimRedBlackGrid(UGrid);
-    GridCartesian         * sUGrid   = SpaceTimeGrid::makeFourDimDWFGrid(latt4,GridDefaultMpi());
-    GridRedBlackCartesian * sUrbGrid = SpaceTimeGrid::makeFourDimRedBlackGrid(sUGrid);
-    GridCartesian         * sFGrid   = SpaceTimeGrid::makeFiveDimDWFGrid(Ls,UGrid);
-    GridRedBlackCartesian * sFrbGrid = SpaceTimeGrid::makeFiveDimDWFRedBlackGrid(Ls,UGrid);
-
-    ///////// RNG Init ////////////
-    std::vector<int> seeds4({1,2,3,4});
-    std::vector<int> seeds5({5,6,7,8});
-    GridParallelRNG          RNG4(UGrid);  RNG4.SeedFixedIntegers(seeds4);
-    GridParallelRNG          RNG5(sFGrid);  RNG5.SeedFixedIntegers(seeds5);
-    std::cout << GridLogMessage << "Initialised RNGs" << std::endl;
-
-    ///////// Source preparation ////////////
-    LatticeFermion src   (sFGrid); random(RNG5,src);
-    LatticeFermion tmp   (sFGrid);
-
-    RealD N2 = 1.0/::sqrt(norm2(src));
-    src = src*N2;
-    
-    LatticeGaugeField Umu(UGrid);  SU3::HotConfiguration(RNG4,Umu); 
-
-    WilsonFermion5DR sDw(Umu,*sFGrid,*sFrbGrid,*sUGrid,*sUrbGrid,M5);
-    LatticeFermion src_e (sFrbGrid);
-    LatticeFermion src_o (sFrbGrid);
-    LatticeFermion r_e   (sFrbGrid);
-    LatticeFermion r_o   (sFrbGrid);
-    LatticeFermion r_eo  (sFGrid);
-    LatticeFermion err   (sFGrid);
-    {
-
-      pickCheckerboard(Even,src_e,src);
-      pickCheckerboard(Odd,src_o,src);
-
-#if defined(AVX512) 
-      const int num_cases = 6;
-      std::string fmt("A/S ; A/O ; U/S ; U/O ; G/S ; G/O ");
-#else
-      const int num_cases = 4;
-      std::string fmt("U/S ; U/O ; G/S ; G/O ");
-#endif
-      controls Cases [] = {
-#ifdef AVX512
-	{ QCD::WilsonKernelsStatic::OptInlineAsm , QCD::WilsonKernelsStatic::CommsThenCompute ,CartesianCommunicator::CommunicatorPolicySequential  },
-	{ QCD::WilsonKernelsStatic::OptInlineAsm , QCD::WilsonKernelsStatic::CommsAndCompute  ,CartesianCommunicator::CommunicatorPolicySequential  },
-#endif
-	{ QCD::WilsonKernelsStatic::OptHandUnroll, QCD::WilsonKernelsStatic::CommsThenCompute ,CartesianCommunicator::CommunicatorPolicySequential  },
-	{ QCD::WilsonKernelsStatic::OptHandUnroll, QCD::WilsonKernelsStatic::CommsAndCompute  ,CartesianCommunicator::CommunicatorPolicySequential  },
-	{ QCD::WilsonKernelsStatic::OptGeneric   , QCD::WilsonKernelsStatic::CommsThenCompute ,CartesianCommunicator::CommunicatorPolicySequential  },
-	{ QCD::WilsonKernelsStatic::OptGeneric   , QCD::WilsonKernelsStatic::CommsAndCompute  ,CartesianCommunicator::CommunicatorPolicySequential  }
-      }; 
-
-      for(int c=0;c<num_cases;c++) {
-
-	QCD::WilsonKernelsStatic::Comms = Cases[c].CommsOverlap;
-	QCD::WilsonKernelsStatic::Opt   = Cases[c].Opt;
-	CartesianCommunicator::SetCommunicatorPolicy(Cases[c].CommsAsynch);
-
-	std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-	if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptGeneric   ) std::cout << GridLogMessage<< "* Using GENERIC Nc WilsonKernels" <<std::endl;
-	if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptHandUnroll) std::cout << GridLogMessage<< "* Using Nc=3       WilsonKernels" <<std::endl;
-	if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptInlineAsm ) std::cout << GridLogMessage<< "* Using Asm Nc=3   WilsonKernels" <<std::endl;
-	if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsAndCompute ) std::cout << GridLogMessage<< "* Using Overlapped Comms/Compute" <<std::endl;
-	if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsThenCompute) std::cout << GridLogMessage<< "* Using sequential comms compute" <<std::endl;
-	if ( sizeof(Real)==4 )   std::cout << GridLogMessage<< "* SINGLE precision "<<std::endl;
-	if ( sizeof(Real)==8 )   std::cout << GridLogMessage<< "* DOUBLE precision "<<std::endl;
-	std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-
-	int nwarm = 100;
-	uint64_t ncall = 1000;
-
-	double t0=usecond();
-	sFGrid->Barrier();
-	for(int i=0;i<nwarm;i++){
-	  sDw.DhopEO(src_o,r_e,DaggerNo);
-	}
-	sFGrid->Barrier();
-	double t1=usecond();
-
-	sDw.ZeroCounters();
-	time_statistics timestat;
-	std::vector<double> t_time(ncall);
-	for(uint64_t i=0;i<ncall;i++){
-	  t0=usecond();
-	  sDw.DhopEO(src_o,r_e,DaggerNo);
-	  t1=usecond();
-	  t_time[i] = t1-t0;
-	}
-	sFGrid->Barrier();
-	
-	double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
-	double flops=(1344.0*volume)/2;
-	double mf_hi, mf_lo, mf_err;
-
-	timestat.statistics(t_time);
-	mf_hi = flops/timestat.min;
-	mf_lo = flops/timestat.max;
-	mf_err= flops/timestat.min * timestat.err/timestat.mean;
-
-	mflops = flops/timestat.mean;
-	mflops_all.push_back(mflops);
-	if ( mflops_best == 0   ) mflops_best = mflops;
-	if ( mflops_worst== 0   ) mflops_worst= mflops;
-	if ( mflops>mflops_best ) mflops_best = mflops;
-	if ( mflops<mflops_worst) mflops_worst= mflops;
-
-	std::cout<<GridLogMessage << std::fixed << std::setprecision(1)<<"sDeo mflop/s =   "<< mflops << " ("<<mf_err<<") " << mf_lo<<"-"<<mf_hi <<std::endl;
-	std::cout<<GridLogMessage << std::fixed << std::setprecision(1)<<"sDeo mflop/s per rank   "<< mflops/NP<<std::endl;
-	std::cout<<GridLogMessage << std::fixed << std::setprecision(1)<<"sDeo mflop/s per node   "<< mflops/NN<<std::endl;
-
-	sDw.Report();
-
-      }
-      double robust = mflops_worst/mflops_best;;
-      std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-      std::cout<<GridLogMessage << L<<"^4 x "<<Ls<< " sDeo Best  mflop/s        =   "<< mflops_best << " ; " << mflops_best/NN<<" per node " <<std::endl;
-      std::cout<<GridLogMessage << L<<"^4 x "<<Ls<< " sDeo Worst mflop/s        =   "<< mflops_worst<< " ; " << mflops_worst/NN<<" per node " <<std::endl;
-
-      std::cout<<GridLogMessage <<std::setprecision(3)<< L<<"^4 x "<<Ls<< " Performance Robustness   =   "<< robust <<std::endl;
-      std::cout<<GridLogMessage <<fmt << std::endl;
-      std::cout<<GridLogMessage;
-
-      for(int i=0;i<mflops_all.size();i++){
-	std::cout<<mflops_all[i]/NN<<" ; " ;
-      }
-      std::cout<<std::endl;
-      std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-
-    }
-    return mflops_best;
-  }
-
-  static double DWF(int Ls,int L, double & robust)
-  {
-    RealD mass=0.1;
-    RealD M5  =1.8;
-
-    double mflops;
-    double mflops_best = 0;
-    double mflops_worst= 0;
-    std::vector<double> mflops_all;
-
-    ///////////////////////////////////////////////////////
-    // Set/Get the layout & grid size
-    ///////////////////////////////////////////////////////
-    int threads = GridThread::GetThreads();
-    std::vector<int> mpi = GridDefaultMpi(); assert(mpi.size()==4);
-    std::vector<int> local({L,L,L,L});
-
-    GridCartesian         * TmpGrid   = SpaceTimeGrid::makeFourDimGrid(std::vector<int>({64,64,64,64}), 
-								       GridDefaultSimd(Nd,vComplex::Nsimd()),GridDefaultMpi());
-    uint64_t NP = TmpGrid->RankCount();
-    uint64_t NN = TmpGrid->NodeCount();
-    NN_global=NN;
-    uint64_t SHM=NP/NN;
-
-    std::vector<int> internal;
-    if      ( SHM == 1 )   internal = std::vector<int>({1,1,1,1});
-    else if ( SHM == 2 )   internal = std::vector<int>({2,1,1,1});
-    else if ( SHM == 4 )   internal = std::vector<int>({2,2,1,1});
-    else if ( SHM == 8 )   internal = std::vector<int>({2,2,2,1});
-    else assert(0);
-
-    std::vector<int> nodes({mpi[0]/internal[0],mpi[1]/internal[1],mpi[2]/internal[2],mpi[3]/internal[3]});
-    std::vector<int> latt4({local[0]*nodes[0],local[1]*nodes[1],local[2]*nodes[2],local[3]*nodes[3]});
-
-    ///////// Welcome message ////////////
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << "Benchmark DWF on "<<L<<"^4 local volume "<<std::endl;
-    std::cout<<GridLogMessage << "* Global volume  : "<<GridCmdVectorIntToString(latt4)<<std::endl;
-    std::cout<<GridLogMessage << "* Ls             : "<<Ls<<std::endl;
-    std::cout<<GridLogMessage << "* MPI ranks      : "<<GridCmdVectorIntToString(mpi)<<std::endl;
-    std::cout<<GridLogMessage << "* Intranode      : "<<GridCmdVectorIntToString(internal)<<std::endl;
-    std::cout<<GridLogMessage << "* nodes          : "<<GridCmdVectorIntToString(nodes)<<std::endl;
-    std::cout<<GridLogMessage << "* Using "<<threads<<" threads"<<std::endl;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-
-
-    ///////// Lattice Init ////////////
-    GridCartesian         * UGrid   = SpaceTimeGrid::makeFourDimGrid(latt4, GridDefaultSimd(Nd,vComplex::Nsimd()),GridDefaultMpi());
-    GridRedBlackCartesian * UrbGrid = SpaceTimeGrid::makeFourDimRedBlackGrid(UGrid);
-    GridCartesian         * FGrid   = SpaceTimeGrid::makeFiveDimGrid(Ls,UGrid);
-    GridRedBlackCartesian * FrbGrid = SpaceTimeGrid::makeFiveDimRedBlackGrid(Ls,UGrid);
-
-    
-    ///////// RNG Init ////////////
-    std::vector<int> seeds4({1,2,3,4});
-    std::vector<int> seeds5({5,6,7,8});
-    GridParallelRNG          RNG4(UGrid);  RNG4.SeedFixedIntegers(seeds4);
-    GridParallelRNG          RNG5(FGrid);  RNG5.SeedFixedIntegers(seeds5);
-    std::cout << GridLogMessage << "Initialised RNGs" << std::endl;
-
-    ///////// Source preparation ////////////
-    LatticeFermion src   (FGrid); random(RNG5,src);
-    LatticeFermion ref   (FGrid);
-    LatticeFermion tmp   (FGrid);
-
-    RealD N2 = 1.0/::sqrt(norm2(src));
-    src = src*N2;
-    
-    LatticeGaugeField Umu(UGrid);  SU3::HotConfiguration(RNG4,Umu); 
-
-    DomainWallFermionR Dw(Umu,*FGrid,*FrbGrid,*UGrid,*UrbGrid,mass,M5);
-
-    ////////////////////////////////////
-    // Naive wilson implementation
-    ////////////////////////////////////
-    {
-      LatticeGaugeField Umu5d(FGrid); 
-      std::vector<LatticeColourMatrix> U(4,FGrid);
-      for(int ss=0;ss<Umu._grid->oSites();ss++){
-	for(int s=0;s<Ls;s++){
-	  Umu5d._odata[Ls*ss+s] = Umu._odata[ss];
-	}
-      }
-      ref = zero;
-      for(int mu=0;mu<Nd;mu++){
-	U[mu] = PeekIndex<LorentzIndex>(Umu5d,mu);
-      }
-      for(int mu=0;mu<Nd;mu++){
-	
-	tmp = U[mu]*Cshift(src,mu+1,1);
-	ref=ref + tmp - Gamma(Gmu[mu])*tmp;
-	
-	tmp =adj(U[mu])*src;
-	tmp =Cshift(tmp,mu+1,-1);
-	ref=ref + tmp + Gamma(Gmu[mu])*tmp;
-      }
-      ref = -0.5*ref;
-    }
-
-    LatticeFermion src_e (FrbGrid);
-    LatticeFermion src_o (FrbGrid);
-    LatticeFermion r_e   (FrbGrid);
-    LatticeFermion r_o   (FrbGrid);
-    LatticeFermion r_eo  (FGrid);
-    LatticeFermion err   (FGrid);
-    {
-
-      pickCheckerboard(Even,src_e,src);
-      pickCheckerboard(Odd,src_o,src);
-
-#if defined(AVX512) 
-      const int num_cases = 6;
-      std::string fmt("A/S ; A/O ; U/S ; U/O ; G/S ; G/O ");
-#else
-      const int num_cases = 4;
-      std::string fmt("U/S ; U/O ; G/S ; G/O ");
-#endif
-      controls Cases [] = {
-#ifdef AVX512
-	{ QCD::WilsonKernelsStatic::OptInlineAsm , QCD::WilsonKernelsStatic::CommsThenCompute ,CartesianCommunicator::CommunicatorPolicySequential  },
-	{ QCD::WilsonKernelsStatic::OptInlineAsm , QCD::WilsonKernelsStatic::CommsAndCompute  ,CartesianCommunicator::CommunicatorPolicySequential  },
-#endif
-	{ QCD::WilsonKernelsStatic::OptHandUnroll, QCD::WilsonKernelsStatic::CommsThenCompute ,CartesianCommunicator::CommunicatorPolicySequential  },
-	{ QCD::WilsonKernelsStatic::OptHandUnroll, QCD::WilsonKernelsStatic::CommsAndCompute  ,CartesianCommunicator::CommunicatorPolicySequential  },
-	{ QCD::WilsonKernelsStatic::OptGeneric   , QCD::WilsonKernelsStatic::CommsThenCompute ,CartesianCommunicator::CommunicatorPolicySequential  },
-	{ QCD::WilsonKernelsStatic::OptGeneric   , QCD::WilsonKernelsStatic::CommsAndCompute  ,CartesianCommunicator::CommunicatorPolicySequential  }
-      }; 
-
-      for(int c=0;c<num_cases;c++) {
-
-	QCD::WilsonKernelsStatic::Comms = Cases[c].CommsOverlap;
-	QCD::WilsonKernelsStatic::Opt   = Cases[c].Opt;
-	CartesianCommunicator::SetCommunicatorPolicy(Cases[c].CommsAsynch);
-
-	std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-	if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptGeneric   ) std::cout << GridLogMessage<< "* Using GENERIC Nc WilsonKernels" <<std::endl;
-	if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptHandUnroll) std::cout << GridLogMessage<< "* Using Nc=3       WilsonKernels" <<std::endl;
-	if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptInlineAsm ) std::cout << GridLogMessage<< "* Using Asm Nc=3   WilsonKernels" <<std::endl;
-	if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsAndCompute ) std::cout << GridLogMessage<< "* Using Overlapped Comms/Compute" <<std::endl;
-	if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsThenCompute) std::cout << GridLogMessage<< "* Using sequential comms compute" <<std::endl;
-	if ( sizeof(Real)==4 )   std::cout << GridLogMessage<< "* SINGLE precision "<<std::endl;
-	if ( sizeof(Real)==8 )   std::cout << GridLogMessage<< "* DOUBLE precision "<<std::endl;
-	std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-
-	int nwarm = 200;
-	double t0=usecond();
-	FGrid->Barrier();
-	for(int i=0;i<nwarm;i++){
-	  Dw.DhopEO(src_o,r_e,DaggerNo);
-	}
-	FGrid->Barrier();
-	double t1=usecond();
-	//	uint64_t ncall = (uint64_t) 2.5*1000.0*1000.0*nwarm/(t1-t0);
-	//	if (ncall < 500) ncall = 500;
-	uint64_t ncall = 1000;
-
-	FGrid->Broadcast(0,&ncall,sizeof(ncall));
-
-	//	std::cout << GridLogMessage << " Estimate " << ncall << " calls per second"<<std::endl;
-	Dw.ZeroCounters();
-
-	time_statistics timestat;
-	std::vector<double> t_time(ncall);
-	for(uint64_t i=0;i<ncall;i++){
-	  t0=usecond();
-	  Dw.DhopEO(src_o,r_e,DaggerNo);
-	  t1=usecond();
-	  t_time[i] = t1-t0;
-	}
-	FGrid->Barrier();
-	
-	double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
-	double flops=(1344.0*volume)/2;
-	double mf_hi, mf_lo, mf_err;
-
-	timestat.statistics(t_time);
-	mf_hi = flops/timestat.min;
-	mf_lo = flops/timestat.max;
-	mf_err= flops/timestat.min * timestat.err/timestat.mean;
-
-	mflops = flops/timestat.mean;
-	mflops_all.push_back(mflops);
-	if ( mflops_best == 0   ) mflops_best = mflops;
-	if ( mflops_worst== 0   ) mflops_worst= mflops;
-	if ( mflops>mflops_best ) mflops_best = mflops;
-	if ( mflops<mflops_worst) mflops_worst= mflops;
-
-	std::cout<<GridLogMessage << std::fixed << std::setprecision(1)<<"Deo mflop/s =   "<< mflops << " ("<<mf_err<<") " << mf_lo<<"-"<<mf_hi <<std::endl;
-	std::cout<<GridLogMessage << std::fixed << std::setprecision(1)<<"Deo mflop/s per rank   "<< mflops/NP<<std::endl;
-	std::cout<<GridLogMessage << std::fixed << std::setprecision(1)<<"Deo mflop/s per node   "<< mflops/NN<<std::endl;
-
-	Dw.Report();
-
-	Dw.DhopEO(src_o,r_e,DaggerNo);
-	Dw.DhopOE(src_e,r_o,DaggerNo);
-	setCheckerboard(r_eo,r_o);
-	setCheckerboard(r_eo,r_e);
-	err = r_eo-ref; 
-	std::cout<<GridLogMessage << "norm diff   "<< norm2(err)<<std::endl;
-	assert((norm2(err)<1.0e-4));
-
-      }
-      robust = mflops_worst/mflops_best;
-      std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-      std::cout<<GridLogMessage << L<<"^4 x "<<Ls<< " Deo Best  mflop/s        =   "<< mflops_best << " ; " << mflops_best/NN<<" per node " <<std::endl;
-      std::cout<<GridLogMessage << L<<"^4 x "<<Ls<< " Deo Worst mflop/s        =   "<< mflops_worst<< " ; " << mflops_worst/NN<<" per node " <<std::endl;
-      std::cout<<GridLogMessage << std::fixed<<std::setprecision(3)<< L<<"^4 x "<<Ls<< " Performance Robustness   =   "<< robust  <<std::endl;
-      std::cout<<GridLogMessage <<fmt << std::endl;
-      std::cout<<GridLogMessage ;
-
-      for(int i=0;i<mflops_all.size();i++){
-	std::cout<<mflops_all[i]/NN<<" ; " ;
-      }
-      std::cout<<std::endl;
-      std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-
-    }
-    return mflops_best;
-  }
-
-};
-
-int main (int argc, char ** argv)
-{
-  Grid_init(&argc,&argv);
-
-  CartesianCommunicator::SetCommunicatorPolicy(CartesianCommunicator::CommunicatorPolicySequential);
-#ifdef KNL
-  LebesgueOrder::Block = std::vector<int>({8,2,2,2});
-#else
-  LebesgueOrder::Block = std::vector<int>({2,2,2,2});
-#endif
-  Benchmark::Decomposition();
-
-  int do_memory=1;
-  int do_comms =1;
-  int do_su3   =0;
-  int do_wilson=1;
-  int do_dwf   =1;
-
-  if ( do_su3 ) {
-    // empty for now
-  }
-#if 1
-  int sel=2;
-  std::vector<int> L_list({8,12,16,24});
-#else
-  int sel=1;
-  std::vector<int> L_list({8,12});
-#endif
-  int selm1=sel-1;
-  std::vector<double> robust_list;
-
-  std::vector<double> wilson;
-  std::vector<double> dwf4;
-  std::vector<double> dwf5;
-
-  if ( do_wilson ) {
-    int Ls=1;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << " Wilson dslash 4D vectorised" <<std::endl;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    for(int l=0;l<L_list.size();l++){
-      double robust;
-      wilson.push_back(Benchmark::DWF(1,L_list[l],robust));
-    }
-  }
-
-  int Ls=16;
-  if ( do_dwf ) {
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << " Domain wall dslash 4D vectorised" <<std::endl;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    for(int l=0;l<L_list.size();l++){
-      double robust;
-      double result = Benchmark::DWF(Ls,L_list[l],robust) ;
-      dwf4.push_back(result);
-      robust_list.push_back(robust);
-    }
-  }
-
-  if ( do_dwf ) {
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << " Domain wall dslash 4D vectorised" <<std::endl;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    for(int l=0;l<L_list.size();l++){
-      dwf5.push_back(Benchmark::DWF5(Ls,L_list[l]));
-    }
-
-  }
-
-  if ( do_dwf ) {
-
-  std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-  std::cout<<GridLogMessage << " Summary table Ls="<<Ls <<std::endl;
-  std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-  std::cout<<GridLogMessage << "L \t\t Wilson \t DWF4 \t DWF5 " <<std::endl;
-  for(int l=0;l<L_list.size();l++){
-    std::cout<<GridLogMessage << L_list[l] <<" \t\t "<< wilson[l]<<" \t "<<dwf4[l]<<" \t "<<dwf5[l] <<std::endl;
-  }
-  std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-  }
-
-  int NN=NN_global;
-  if ( do_memory ) {
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << " Memory benchmark " <<std::endl;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    Benchmark::Memory();
-  }
-
-  if ( do_comms && (NN>1) ) {
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    std::cout<<GridLogMessage << " Communications benchmark " <<std::endl;
-    std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-    Benchmark::Comms();
-  }
-
-  if ( do_dwf ) {
-  std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-  std::cout<<GridLogMessage << " Per Node Summary table Ls="<<Ls <<std::endl;
-  std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-  std::cout<<GridLogMessage << " L \t\t Wilson\t\t DWF4  \t\t DWF5 " <<std::endl;
-  for(int l=0;l<L_list.size();l++){
-    std::cout<<GridLogMessage << L_list[l] <<" \t\t "<< wilson[l]/NN<<" \t "<<dwf4[l]/NN<<" \t "<<dwf5[l] /NN<<std::endl;
-  }
-  std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-
-  std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-  std::cout<<GridLogMessage << " Comparison point     result: "  << 0.5*(dwf4[sel]+dwf4[selm1])/NN << " Mflop/s per node"<<std::endl;
-  std::cout<<GridLogMessage << " Comparison point is 0.5*("<<dwf4[sel]/NN<<"+"<<dwf4[selm1]/NN << ") "<<std::endl;
-  std::cout<<std::setprecision(3);
-  std::cout<<GridLogMessage << " Comparison point robustness: "  << robust_list[sel] <<std::endl;
-  std::cout<<GridLogMessage << "=================================================================================="<<std::endl;
-
-  }
-
-
-  Grid_finalize();
-}

benchmarks/Benchmark_comms.cc

@@ -31,32 +31,6 @@ using namespace std;
 using namespace Grid;
 using namespace Grid::QCD;
 
-struct time_statistics{
-  double mean;
-  double err;
-  double min;
-  double max;
-
-  void statistics(std::vector<double> v){
-      double sum = std::accumulate(v.begin(), v.end(), 0.0);
-      mean = sum / v.size();
-
-      std::vector<double> diff(v.size());
-      std::transform(v.begin(), v.end(), diff.begin(), [=](double x) { return x - mean; });
-      double sq_sum = std::inner_product(diff.begin(), diff.end(), diff.begin(), 0.0);
-      err = std::sqrt(sq_sum / (v.size()*(v.size() - 1)));
-
-      auto result = std::minmax_element(v.begin(), v.end());
-      min = *result.first;
-      max = *result.second;
-}
-};
-
-void header(){
-  std::cout <<GridLogMessage << " L  "<<"\t"<<" Ls  "<<"\t"
-            <<std::setw(11)<<"bytes"<<"MB/s uni (err/min/max)"<<"\t\t"<<"MB/s bidi (err/min/max)"<<std::endl;
-};
-
 int main (int argc, char ** argv)
 {
   Grid_init(&argc,&argv);
@@ -66,21 +40,17 @@ int main (int argc, char ** argv)
   int threads = GridThread::GetThreads();
   std::cout<<GridLogMessage << "Grid is setup to use "<<threads<<" threads"<<std::endl;
 
-  int Nloop=100;
+  int Nloop=10;
   int nmu=0;
-  int maxlat=32;
   for(int mu=0;mu<Nd;mu++) if (mpi_layout[mu]>1) nmu++;
 
-  std::cout << GridLogMessage << "Number of iterations to average: "<< Nloop << std::endl;
-  std::vector<double> t_time(Nloop);
-  time_statistics timestat;
-
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
   std::cout<<GridLogMessage << "= Benchmarking concurrent halo exchange in "<<nmu<<" dimensions"<<std::endl;
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-  header();
-  for(int lat=4;lat<=maxlat;lat+=4){
-    for(int Ls=8;Ls<=8;Ls*=2){
+  std::cout<<GridLogMessage << "  L  "<<"\t\t"<<" Ls  "<<"\t\t"<<"bytes"<<"\t\t"<<"MB/s uni"<<"\t\t"<<"MB/s bidi"<<std::endl;
+  int maxlat=16;
+  for(int lat=4;lat<=maxlat;lat+=2){
+    for(int Ls=1;Ls<=16;Ls*=2){
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],
       				    lat*mpi_layout[1],
@@ -88,25 +58,17 @@ int main (int argc, char ** argv)
       				    lat*mpi_layout[3]});
 
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-      RealD Nrank = Grid._Nprocessors;
-      RealD Nnode = Grid.NodeCount();
-      RealD ppn = Nrank/Nnode;
 
-      std::vector<Vector<HalfSpinColourVectorD> > xbuf(8);	
-      std::vector<Vector<HalfSpinColourVectorD> > rbuf(8);
+      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);
-      for(int mu=0;mu<8;mu++){
-	xbuf[mu].resize(lat*lat*lat*Ls);
-	rbuf[mu].resize(lat*lat*lat*Ls);
-	//	std::cout << " buffers " << std::hex << (uint64_t)&xbuf[mu][0] <<" " << (uint64_t)&rbuf[mu][0] <<std::endl;
-      }
 
-      for(int i=0;i<Nloop;i++){
       double start=usecond();
+      for(int i=0;i<Nloop;i++){
 
-	std::vector<CommsRequest_t> requests;
+	std::vector<CartesianCommunicator::CommsRequest_t> requests;
 
 	ncomm=0;
 	for(int mu=0;mu<4;mu++){
@@ -117,6 +79,7 @@ int main (int argc, char ** argv)
 	    int comm_proc=1;
 	    int xmit_to_rank;
 	    int recv_from_rank;
+	    
 	    Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
 	    Grid.SendToRecvFromBegin(requests,
 				   (void *)&xbuf[mu][0],
@@ -139,24 +102,18 @@ int main (int argc, char ** argv)
 	}
 	Grid.SendToRecvFromComplete(requests);
 	Grid.Barrier();
-	double stop=usecond();
-	t_time[i] = stop-start; // microseconds
+
       }
+      double stop=usecond();
 
-      timestat.statistics(t_time);
-
-      double dbytes    = bytes*ppn;
-      double xbytes    = dbytes*2.0*ncomm;
+      double dbytes    = bytes;
+      double xbytes    = Nloop*dbytes*2.0*ncomm;
       double rbytes    = xbytes;
       double bidibytes = xbytes+rbytes;
 
-      std::cout<<GridLogMessage << std::setw(4) << lat<<"\t"<<Ls<<"\t"
-               <<std::setw(11) << bytes<< std::fixed << std::setprecision(1) << std::setw(7)
-               <<std::right<< xbytes/timestat.mean<<"  "<< xbytes*timestat.err/(timestat.mean*timestat.mean)<< " "
-               <<xbytes/timestat.max <<" "<< xbytes/timestat.min  
-               << "\t\t"<<std::setw(7)<< bidibytes/timestat.mean<< "  " << bidibytes*timestat.err/(timestat.mean*timestat.mean) << " "
-               << bidibytes/timestat.max << " " << bidibytes/timestat.min << std::endl;
+      double time = stop-start; // microseconds
 
+      std::cout<<GridLogMessage << lat<<"\t\t"<<Ls<<"\t\t"<<bytes<<"\t\t"<<xbytes/time<<"\t\t"<<bidibytes/time<<std::endl;
     }
   }    
 
@@ -164,32 +121,25 @@ int main (int argc, char ** argv)
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
   std::cout<<GridLogMessage << "= Benchmarking sequential halo exchange in "<<nmu<<" dimensions"<<std::endl;
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-  header();
+  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<=maxlat;lat+=4){
-    for(int Ls=8;Ls<=8;Ls*=2){
+
+  for(int lat=4;lat<=maxlat;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);
-      RealD Nrank = Grid._Nprocessors;
-      RealD Nnode = Grid.NodeCount();
-      RealD ppn = Nrank/Nnode;
 
-      std::vector<Vector<HalfSpinColourVectorD> > xbuf(8);
-      std::vector<Vector<HalfSpinColourVectorD> > rbuf(8);
+      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));
 
-      for(int mu=0;mu<8;mu++){
-	xbuf[mu].resize(lat*lat*lat*Ls);
-	rbuf[mu].resize(lat*lat*lat*Ls);
-	//	std::cout << " buffers " << std::hex << (uint64_t)&xbuf[mu][0] <<" " << (uint64_t)&rbuf[mu][0] <<std::endl;
-      }
 
       int ncomm;
       int bytes=lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD);
 
-      for(int i=0;i<Nloop;i++){
       double start=usecond();
+      for(int i=0;i<Nloop;i++){
     
 	ncomm=0;
 	for(int mu=0;mu<4;mu++){
@@ -202,7 +152,7 @@ int main (int argc, char ** argv)
 	    int recv_from_rank;
 	    
 	    {
-	      std::vector<CommsRequest_t> requests;
+	      std::vector<CartesianCommunicator::CommsRequest_t> requests;
 	      Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
 	      Grid.SendToRecvFromBegin(requests,
 				       (void *)&xbuf[mu][0],
@@ -215,7 +165,7 @@ int main (int argc, char ** argv)
 
 	    comm_proc = mpi_layout[mu]-1;
 	    {
-	      std::vector<CommsRequest_t> requests;
+	      std::vector<CartesianCommunicator::CommsRequest_t> requests;
 	      Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
 	      Grid.SendToRecvFromBegin(requests,
 				       (void *)&xbuf[mu+4][0],
@@ -228,37 +178,30 @@ int main (int argc, char ** argv)
 	  }
 	}
 	Grid.Barrier();
-	double stop=usecond();
-	t_time[i] = stop-start; // microseconds
-
       }
 
-      timestat.statistics(t_time);
+      double stop=usecond();
       
-      double dbytes    = bytes*ppn;
-      double xbytes    = dbytes*2.0*ncomm;
+      double dbytes    = bytes;
+      double xbytes    = Nloop*dbytes*2.0*ncomm;
       double rbytes    = xbytes;
       double bidibytes = xbytes+rbytes;
 
-    std::cout<<GridLogMessage << std::setw(4) << lat<<"\t"<<Ls<<"\t"
-               <<std::setw(11) << bytes<< std::fixed << std::setprecision(1) << std::setw(7)
-               <<std::right<< xbytes/timestat.mean<<"  "<< xbytes*timestat.err/(timestat.mean*timestat.mean)<< " "
-               <<xbytes/timestat.max <<" "<< xbytes/timestat.min  
-               << "\t\t"<<std::setw(7)<< bidibytes/timestat.mean<< "  " << bidibytes*timestat.err/(timestat.mean*timestat.mean) << " "
-               << bidibytes/timestat.max << " " << bidibytes/timestat.min << std::endl;
+      double time = stop-start;
 
-      
+      std::cout<<GridLogMessage << lat<<"\t\t"<<Ls<<"\t\t"<<bytes<<"\t\t"<<xbytes/time<<"\t\t"<<bidibytes/time<<std::endl;
     }
   }  
 
 
+  Nloop=100;
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
   std::cout<<GridLogMessage << "= Benchmarking concurrent STENCIL halo exchange in "<<nmu<<" dimensions"<<std::endl;
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-  header();
+  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<=maxlat;lat+=4){
-    for(int Ls=8;Ls<=8;Ls*=2){
+  for(int lat=4;lat<=maxlat;lat+=2){
+    for(int Ls=1;Ls<=16;Ls*=2){
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],
       				    lat*mpi_layout[1],
@@ -266,9 +209,6 @@ int main (int argc, char ** argv)
       				    lat*mpi_layout[3]});
 
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-      RealD Nrank = Grid._Nprocessors;
-      RealD Nnode = Grid.NodeCount();
-      RealD ppn = Nrank/Nnode;
 
       std::vector<HalfSpinColourVectorD *> xbuf(8);
       std::vector<HalfSpinColourVectorD *> rbuf(8);
@@ -276,115 +216,16 @@ int main (int argc, char ** argv)
       for(int d=0;d<8;d++){
 	xbuf[d] = (HalfSpinColourVectorD *)Grid.ShmBufferMalloc(lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
 	rbuf[d] = (HalfSpinColourVectorD *)Grid.ShmBufferMalloc(lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	bzero((void *)xbuf[d],lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	bzero((void *)rbuf[d],lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
       }
 
       int ncomm;
       int bytes=lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD);
 
-      double dbytes;
+      double start=usecond();
       for(int i=0;i<Nloop;i++){
-	double start=usecond();
 
-	dbytes=0;
-	ncomm=0;
+	std::vector<CartesianCommunicator::CommsRequest_t> requests;
 
-	std::vector<CommsRequest_t> requests;
-
-	for(int mu=0;mu<4;mu++){
-	
-
-	  if (mpi_layout[mu]>1 ) {
-	  
-	    ncomm++;
-	    int comm_proc=1;
-	    int xmit_to_rank;
-	    int recv_from_rank;
-	    Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
-	    dbytes+=
-	      Grid.StencilSendToRecvFromBegin(requests,
-					      (void *)&xbuf[mu][0],
-					      xmit_to_rank,
-					      (void *)&rbuf[mu][0],
-					      recv_from_rank,
-					      bytes,mu);
-	
-	    comm_proc = mpi_layout[mu]-1;
-	  
-	    Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
-	    dbytes+=
-	      Grid.StencilSendToRecvFromBegin(requests,
-					      (void *)&xbuf[mu+4][0],
-					      xmit_to_rank,
-					      (void *)&rbuf[mu+4][0],
-					      recv_from_rank,
-					      bytes,mu+4);
-	  
-	  }
-	}
-	Grid.StencilSendToRecvFromComplete(requests,0);
-	Grid.Barrier();
-	double stop=usecond();
-	t_time[i] = stop-start; // microseconds
-	
-      }
-
-      timestat.statistics(t_time);
-
-      dbytes=dbytes*ppn;
-      double xbytes    = dbytes*0.5;
-      double rbytes    = dbytes*0.5;
-      double bidibytes = dbytes;
-
-      std::cout<<GridLogMessage << std::setw(4) << lat<<"\t"<<Ls<<"\t"
-               <<std::setw(11) << bytes<< std::fixed << std::setprecision(1) << std::setw(7)
-               <<std::right<< xbytes/timestat.mean<<"  "<< xbytes*timestat.err/(timestat.mean*timestat.mean)<< " "
-               <<xbytes/timestat.max <<" "<< xbytes/timestat.min  
-               << "\t\t"<<std::setw(7)<< bidibytes/timestat.mean<< "  " << bidibytes*timestat.err/(timestat.mean*timestat.mean) << " "
-               << bidibytes/timestat.max << " " << bidibytes/timestat.min << std::endl;
-
-
-    }
-  }    
-
-
-  std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-  std::cout<<GridLogMessage << "= Benchmarking sequential STENCIL halo exchange in "<<nmu<<" dimensions"<<std::endl;
-  std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-  header();
-
-  for(int lat=4;lat<=maxlat;lat+=4){
-    for(int Ls=8;Ls<=8;Ls*=2){
-
-      std::vector<int> latt_size  ({lat*mpi_layout[0],
-      				    lat*mpi_layout[1],
-      				    lat*mpi_layout[2],
-      				    lat*mpi_layout[3]});
-
-      GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-      RealD Nrank = Grid._Nprocessors;
-      RealD Nnode = Grid.NodeCount();
-      RealD ppn = Nrank/Nnode;
-
-      std::vector<HalfSpinColourVectorD *> xbuf(8);
-      std::vector<HalfSpinColourVectorD *> rbuf(8);
-      Grid.ShmBufferFreeAll();
-      for(int d=0;d<8;d++){
-	xbuf[d] = (HalfSpinColourVectorD *)Grid.ShmBufferMalloc(lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	rbuf[d] = (HalfSpinColourVectorD *)Grid.ShmBufferMalloc(lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	bzero((void *)xbuf[d],lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	bzero((void *)rbuf[d],lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-      }
-
-      int ncomm;
-      int bytes=lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD);
-      double dbytes;
-      for(int i=0;i<Nloop;i++){
-	double start=usecond();
-
-	std::vector<CommsRequest_t> requests;
-	dbytes=0;
 	ncomm=0;
 	for(int mu=0;mu<4;mu++){
 	
@@ -396,64 +237,52 @@ int main (int argc, char ** argv)
 	    int recv_from_rank;
 	    
 	    Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
-	    dbytes+=
-	      Grid.StencilSendToRecvFromBegin(requests,
-					      (void *)&xbuf[mu][0],
-					      xmit_to_rank,
-					      (void *)&rbuf[mu][0],
-					      recv_from_rank,
-					      bytes,mu);
-	    Grid.StencilSendToRecvFromComplete(requests,mu);
-	    requests.resize(0);
-
+	    Grid.StencilSendToRecvFromBegin(requests,
+					    (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);
-	    dbytes+=
-	      Grid.StencilSendToRecvFromBegin(requests,
-					      (void *)&xbuf[mu+4][0],
-					      xmit_to_rank,
-					      (void *)&rbuf[mu+4][0],
-					      recv_from_rank,
-					      bytes,mu+4);
-	    Grid.StencilSendToRecvFromComplete(requests,mu+4);
-	    requests.resize(0);
+	    Grid.StencilSendToRecvFromBegin(requests,
+					    (void *)&xbuf[mu+4][0],
+					    xmit_to_rank,
+					    (void *)&rbuf[mu+4][0],
+					    recv_from_rank,
+					    bytes);
 	  
 	  }
 	}
+	Grid.StencilSendToRecvFromComplete(requests);
 	Grid.Barrier();
-	double stop=usecond();
-	t_time[i] = stop-start; // microseconds
-	
+
       }
+      double stop=usecond();
 
-      timestat.statistics(t_time);
+      double dbytes    = bytes;
+      double xbytes    = Nloop*dbytes*2.0*ncomm;
+      double rbytes    = xbytes;
+      double bidibytes = xbytes+rbytes;
 
-      dbytes=dbytes*ppn;
-      double xbytes    = dbytes*0.5;
-      double rbytes    = dbytes*0.5;
-      double bidibytes = dbytes;
+      double time = stop-start; // microseconds
 
-
-      std::cout<<GridLogMessage << std::setw(4) << lat<<"\t"<<Ls<<"\t"
-               <<std::setw(11) << bytes<< std::fixed << std::setprecision(1) << std::setw(7)
-               <<std::right<< xbytes/timestat.mean<<"  "<< xbytes*timestat.err/(timestat.mean*timestat.mean)<< " "
-               <<xbytes/timestat.max <<" "<< xbytes/timestat.min  
-               << "\t\t"<<std::setw(7)<< bidibytes/timestat.mean<< "  " << bidibytes*timestat.err/(timestat.mean*timestat.mean) << " "
-               << bidibytes/timestat.max << " " << bidibytes/timestat.min << std::endl;
- 
+      std::cout<<GridLogMessage << lat<<"\t\t"<<Ls<<"\t\t"<<bytes<<"\t\t"<<xbytes/time<<"\t\t"<<bidibytes/time<<std::endl;
     }
   }    
 
 
 
+  Nloop=100;
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-  std::cout<<GridLogMessage << "= Benchmarking threaded STENCIL halo exchange in "<<nmu<<" dimensions"<<std::endl;
+  std::cout<<GridLogMessage << "= Benchmarking sequential STENCIL halo exchange in "<<nmu<<" dimensions"<<std::endl;
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-  header();
+  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<=maxlat;lat+=4){
-    for(int Ls=8;Ls<=8;Ls*=2){
+  for(int lat=4;lat<=maxlat;lat+=2){
+    for(int Ls=1;Ls<=16;Ls*=2){
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],
       				    lat*mpi_layout[1],
@@ -461,9 +290,6 @@ int main (int argc, char ** argv)
       				    lat*mpi_layout[3]});
 
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-      RealD Nrank = Grid._Nprocessors;
-      RealD Nnode = Grid.NodeCount();
-      RealD ppn = Nrank/Nnode;
 
       std::vector<HalfSpinColourVectorD *> xbuf(8);
       std::vector<HalfSpinColourVectorD *> rbuf(8);
@@ -471,71 +297,65 @@ int main (int argc, char ** argv)
       for(int d=0;d<8;d++){
 	xbuf[d] = (HalfSpinColourVectorD *)Grid.ShmBufferMalloc(lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
 	rbuf[d] = (HalfSpinColourVectorD *)Grid.ShmBufferMalloc(lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	bzero((void *)xbuf[d],lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
-	bzero((void *)rbuf[d],lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD));
       }
 
       int ncomm;
       int bytes=lat*lat*lat*Ls*sizeof(HalfSpinColourVectorD);
-      double dbytes;
+
+      double start=usecond();
       for(int i=0;i<Nloop;i++){
-	double start=usecond();
 
-	std::vector<CommsRequest_t> requests;
-	dbytes=0;
+	std::vector<CartesianCommunicator::CommsRequest_t> requests;
+
 	ncomm=0;
-
-	parallel_for(int dir=0;dir<8;dir++){
-
-	  double tbytes;
-	  int mu =dir % 4;
-
+	for(int mu=0;mu<4;mu++){
+	
 	  if (mpi_layout[mu]>1 ) {
 	  
 	    ncomm++;
+	    int comm_proc=1;
 	    int xmit_to_rank;
 	    int recv_from_rank;
-	    if ( dir == mu ) { 
-	      int comm_proc=1;
-	      Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
-	    } else { 
-	      int comm_proc = mpi_layout[mu]-1;
-	      Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
-	    }
+	    
+	    Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
+	    Grid.StencilSendToRecvFromBegin(requests,
+					    (void *)&xbuf[mu][0],
+					    xmit_to_rank,
+					    (void *)&rbuf[mu][0],
+					    recv_from_rank,
+					    bytes);
+	    //	    Grid.StencilSendToRecvFromComplete(requests);
+	    //	    requests.resize(0);
 
-	    tbytes= Grid.StencilSendToRecvFrom((void *)&xbuf[dir][0], xmit_to_rank,
-					       (void *)&rbuf[dir][0], recv_from_rank, bytes,dir);
-
-#pragma omp atomic
-	    dbytes+=tbytes;
+	    comm_proc = mpi_layout[mu]-1;
+	  
+	    Grid.ShiftedRanks(mu,comm_proc,xmit_to_rank,recv_from_rank);
+	    Grid.StencilSendToRecvFromBegin(requests,
+					    (void *)&xbuf[mu+4][0],
+					    xmit_to_rank,
+					    (void *)&rbuf[mu+4][0],
+					    recv_from_rank,
+					    bytes);
+	    Grid.StencilSendToRecvFromComplete(requests);
+	    requests.resize(0);
+	  
 	  }
 	}
 	Grid.Barrier();
-	double stop=usecond();
-	t_time[i] = stop-start; // microseconds
+
       }
+      double stop=usecond();
 
-      timestat.statistics(t_time);
+      double dbytes    = bytes;
+      double xbytes    = Nloop*dbytes*2.0*ncomm;
+      double rbytes    = xbytes;
+      double bidibytes = xbytes+rbytes;
 
-      dbytes=dbytes*ppn;
-      double xbytes    = dbytes*0.5;
-      double rbytes    = dbytes*0.5;
-      double bidibytes = dbytes;
+      double time = stop-start; // microseconds
 
-
-      std::cout<<GridLogMessage << std::setw(4) << lat<<"\t"<<Ls<<"\t"
-               <<std::setw(11) << bytes<< std::fixed << std::setprecision(1) << std::setw(7)
-               <<std::right<< xbytes/timestat.mean<<"  "<< xbytes*timestat.err/(timestat.mean*timestat.mean)<< " "
-               <<xbytes/timestat.max <<" "<< xbytes/timestat.min  
-               << "\t\t"<<std::setw(7)<< bidibytes/timestat.mean<< "  " << bidibytes*timestat.err/(timestat.mean*timestat.mean) << " "
-               << bidibytes/timestat.max << " " << bidibytes/timestat.min << std::endl;
- 
+      std::cout<<GridLogMessage << lat<<"\t\t"<<Ls<<"\t\t"<<bytes<<"\t\t"<<xbytes/time<<"\t\t"<<bidibytes/time<<std::endl;
     }
   }    
 
-  std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-  std::cout<<GridLogMessage << "= All done; Bye Bye"<<std::endl;
-  std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
-
   Grid_finalize();
 }

benchmarks/Benchmark_dwf.cc

@@ -1,22 +1,28 @@
- /*************************************************************************************
+    /*************************************************************************************
+
     Grid physics library, www.github.com/paboyle/Grid 
+
     Source file: ./benchmarks/Benchmark_dwf.cc
+
     Copyright (C) 2015
 
-    Author: Peter Boyle <paboyle@ph.ed.ac.uk>
-    Author: paboyle <paboyle@ph.ed.ac.uk>
+Author: Peter Boyle <paboyle@ph.ed.ac.uk>
+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 */
@@ -31,33 +37,27 @@ struct scal {
   d internal;
 };
 
-  Gamma::Algebra Gmu [] = {
-    Gamma::Algebra::GammaX,
-    Gamma::Algebra::GammaY,
-    Gamma::Algebra::GammaZ,
-    Gamma::Algebra::GammaT
+  Gamma::GammaMatrix Gmu [] = {
+    Gamma::GammaX,
+    Gamma::GammaY,
+    Gamma::GammaZ,
+    Gamma::GammaT
   };
 
 typedef WilsonFermion5D<DomainWallVec5dImplR> WilsonFermion5DR;
 typedef WilsonFermion5D<DomainWallVec5dImplF> WilsonFermion5DF;
 typedef WilsonFermion5D<DomainWallVec5dImplD> WilsonFermion5DD;
 
+
 int main (int argc, char ** argv)
 {
   Grid_init(&argc,&argv);
 
-
   int threads = GridThread::GetThreads();
   std::cout<<GridLogMessage << "Grid is setup to use "<<threads<<" threads"<<std::endl;
 
   std::vector<int> latt4 = GridDefaultLatt();
-  int Ls=16;
-  for(int i=0;i<argc;i++)
-    if(std::string(argv[i]) == "-Ls"){
-      std::stringstream ss(argv[i+1]); ss >> Ls;
-    }
-
-
+  const int Ls=8;
   GridCartesian         * UGrid   = SpaceTimeGrid::makeFourDimGrid(GridDefaultLatt(), GridDefaultSimd(Nd,vComplex::Nsimd()),GridDefaultMpi());
   GridRedBlackCartesian * UrbGrid = SpaceTimeGrid::makeFourDimRedBlackGrid(UGrid);
   GridCartesian         * FGrid   = SpaceTimeGrid::makeFiveDimGrid(Ls,UGrid);
@@ -71,66 +71,35 @@ int main (int argc, char ** argv)
 
   std::vector<int> seeds4({1,2,3,4});
   std::vector<int> seeds5({5,6,7,8});
-  
-  std::cout << GridLogMessage << "Initialising 4d RNG" << std::endl;
+
   GridParallelRNG          RNG4(UGrid);  RNG4.SeedFixedIntegers(seeds4);
-  std::cout << GridLogMessage << "Initialising 5d RNG" << std::endl;
   GridParallelRNG          RNG5(FGrid);  RNG5.SeedFixedIntegers(seeds5);
-  std::cout << GridLogMessage << "Initialised RNGs" << std::endl;
 
   LatticeFermion src   (FGrid); random(RNG5,src);
-#if 0
-  src = zero;
-  {
-    std::vector<int> origin({0,0,0,latt4[2]-1,0});
-    SpinColourVectorF tmp;
-    tmp=zero;
-    tmp()(0)(0)=Complex(-2.0,0.0);
-    std::cout << " source site 0 " << tmp<<std::endl;
-    pokeSite(tmp,src,origin);
-  }
-#else
-  RealD N2 = 1.0/::sqrt(norm2(src));
-  src = src*N2;
-#endif
-
-
   LatticeFermion result(FGrid); result=zero;
   LatticeFermion    ref(FGrid);    ref=zero;
   LatticeFermion    tmp(FGrid);
   LatticeFermion    err(FGrid);
 
-  std::cout << GridLogMessage << "Drawing gauge field" << std::endl;
   LatticeGaugeField Umu(UGrid); 
-  SU3::HotConfiguration(RNG4,Umu); 
-  std::cout << GridLogMessage << "Random gauge initialised " << std::endl;
-#if 0
-  Umu=1.0;
-  for(int mu=0;mu<Nd;mu++){
-    LatticeColourMatrix ttmp(UGrid);
-    ttmp = PeekIndex<LorentzIndex>(Umu,mu);
-    //    if (mu !=2 ) ttmp = 0;
-    //    ttmp = ttmp* pow(10.0,mu);
-    PokeIndex<LorentzIndex>(Umu,ttmp,mu);
-  }
-  std::cout << GridLogMessage << "Forced to diagonal " << std::endl;
-#endif
+  random(RNG4,Umu);
 
-  ////////////////////////////////////
-  // Naive wilson implementation
-  ////////////////////////////////////
-  // replicate across fifth dimension
   LatticeGaugeField Umu5d(FGrid); 
-  std::vector<LatticeColourMatrix> U(4,FGrid);
+
+  // replicate across fifth dimension
   for(int ss=0;ss<Umu._grid->oSites();ss++){
     for(int s=0;s<Ls;s++){
       Umu5d._odata[Ls*ss+s] = Umu._odata[ss];
     }
   }
+
+  ////////////////////////////////////
+  // Naive wilson implementation
+  ////////////////////////////////////
+  std::vector<LatticeColourMatrix> U(4,FGrid);
   for(int mu=0;mu<Nd;mu++){
     U[mu] = PeekIndex<LorentzIndex>(Umu5d,mu);
   }
-  std::cout << GridLogMessage << "Setting up Cshift based reference " << std::endl;
 
   if (1)
   {
@@ -151,7 +120,8 @@ int main (int argc, char ** argv)
   RealD M5  =1.8;
 
   RealD NP = UGrid->_Nprocessors;
-  RealD NN = UGrid->NodeCount();
+
+  DomainWallFermionR Dw(Umu,*FGrid,*FrbGrid,*UGrid,*UrbGrid,mass,M5);
 
   std::cout << GridLogMessage<< "*****************************************************************" <<std::endl;
   std::cout << GridLogMessage<< "* Kernel options --dslash-generic, --dslash-unroll, --dslash-asm" <<std::endl;
@@ -161,22 +131,15 @@ int main (int argc, char ** argv)
   std::cout << GridLogMessage<< "* Vectorising space-time by "<<vComplex::Nsimd()<<std::endl;
   if ( sizeof(Real)==4 )   std::cout << GridLogMessage<< "* SINGLE precision "<<std::endl;
   if ( sizeof(Real)==8 )   std::cout << GridLogMessage<< "* DOUBLE precision "<<std::endl;
-#ifdef GRID_OMP
-  if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsAndCompute ) std::cout << GridLogMessage<< "* Using Overlapped Comms/Compute" <<std::endl;
-  if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsThenCompute) std::cout << GridLogMessage<< "* Using sequential comms compute" <<std::endl;
-#endif
   if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptGeneric   ) std::cout << GridLogMessage<< "* Using GENERIC Nc WilsonKernels" <<std::endl;
   if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptHandUnroll) std::cout << GridLogMessage<< "* Using Nc=3       WilsonKernels" <<std::endl;
   if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptInlineAsm ) std::cout << GridLogMessage<< "* Using Asm Nc=3   WilsonKernels" <<std::endl;
   std::cout << GridLogMessage<< "*****************************************************************" <<std::endl;
 
-  DomainWallFermionR Dw(Umu,*FGrid,*FrbGrid,*UGrid,*UrbGrid,mass,M5);
-  int ncall =500;
+  int ncall =100;
   if (1) {
     FGrid->Barrier();
     Dw.ZeroCounters();
-    Dw.Dhop(src,result,0);
-    std::cout<<GridLogMessage<<"Called warmup"<<std::endl;
     double t0=usecond();
     for(int i=0;i<ncall;i++){
       __SSC_START;
@@ -190,55 +153,16 @@ int main (int argc, char ** argv)
     double flops=1344*volume*ncall;
 
     std::cout<<GridLogMessage << "Called Dw "<<ncall<<" times in "<<t1-t0<<" us"<<std::endl;
-    //    std::cout<<GridLogMessage << "norm result "<< norm2(result)<<std::endl;
-    //    std::cout<<GridLogMessage << "norm ref    "<< norm2(ref)<<std::endl;
+    std::cout<<GridLogMessage << "norm result "<< norm2(result)<<std::endl;
+    std::cout<<GridLogMessage << "norm ref    "<< norm2(ref)<<std::endl;
     std::cout<<GridLogMessage << "mflop/s =   "<< flops/(t1-t0)<<std::endl;
     std::cout<<GridLogMessage << "mflop/s per rank =  "<< flops/(t1-t0)/NP<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s per node =  "<< flops/(t1-t0)/NN<<std::endl;
     err = ref-result; 
     std::cout<<GridLogMessage << "norm diff   "<< norm2(err)<<std::endl;
-
-    /*
-    if(( norm2(err)>1.0e-4) ) { 
-      std::cout << "RESULT\n " << result<<std::endl;
-      std::cout << "REF   \n " << ref   <<std::endl;
-      std::cout << "ERR   \n " << err   <<std::endl;
-      FGrid->Barrier();
-      exit(-1);
-    }
-    */
     assert (norm2(err)< 1.0e-4 );
     Dw.Report();
   }
 
-  DomainWallFermionRL DwH(Umu,*FGrid,*FrbGrid,*UGrid,*UrbGrid,mass,M5);
-  if (1) {
-    FGrid->Barrier();
-    DwH.ZeroCounters();
-    DwH.Dhop(src,result,0);
-    double t0=usecond();
-    for(int i=0;i<ncall;i++){
-      __SSC_START;
-      DwH.Dhop(src,result,0);
-      __SSC_STOP;
-    }
-    double t1=usecond();
-    FGrid->Barrier();
-    
-    double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
-    double flops=1344*volume*ncall;
-
-    std::cout<<GridLogMessage << "Called half prec comms Dw "<<ncall<<" times in "<<t1-t0<<" us"<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s =   "<< flops/(t1-t0)<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s per rank =  "<< flops/(t1-t0)/NP<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s per node =  "<< flops/(t1-t0)/NN<<std::endl;
-    err = ref-result; 
-    std::cout<<GridLogMessage << "norm diff   "<< norm2(err)<<std::endl;
-
-    assert (norm2(err)< 1.0e-3 );
-    DwH.Report();
-  }
-
   if (1)
   {
 
@@ -247,10 +171,6 @@ int main (int argc, char ** argv)
     std::cout << GridLogMessage<< "* Vectorising fifth dimension by "<<vComplex::Nsimd()<<std::endl;
     if ( sizeof(Real)==4 )   std::cout << GridLogMessage<< "* SINGLE precision "<<std::endl;
     if ( sizeof(Real)==8 )   std::cout << GridLogMessage<< "* DOUBLE precision "<<std::endl;
-#ifdef GRID_OMP
-  if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsAndCompute ) std::cout << GridLogMessage<< "* Using Overlapped Comms/Compute" <<std::endl;
-  if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsThenCompute) std::cout << GridLogMessage<< "* Using sequential comms compute" <<std::endl;
-#endif
     if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptGeneric   ) std::cout << GridLogMessage<< "* Using GENERIC Nc WilsonKernels" <<std::endl;
     if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptHandUnroll) std::cout << GridLogMessage<< "* Using Nc=3       WilsonKernels" <<std::endl;
     if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptInlineAsm ) std::cout << GridLogMessage<< "* Using Asm Nc=3   WilsonKernels" <<std::endl;
@@ -262,13 +182,21 @@ int main (int argc, char ** argv)
     LatticeFermion sresult(sFGrid);
 
     WilsonFermion5DR sDw(Umu,*sFGrid,*sFrbGrid,*sUGrid,*sUrbGrid,M5);
-
-    localConvert(src,ssrc);
+  
+    for(int x=0;x<latt4[0];x++){
+    for(int y=0;y<latt4[1];y++){
+    for(int z=0;z<latt4[2];z++){
+    for(int t=0;t<latt4[3];t++){
+    for(int s=0;s<Ls;s++){
+      std::vector<int> site({s,x,y,z,t});
+      SpinColourVector tmp;
+      peekSite(tmp,src,site);
+      pokeSite(tmp,ssrc,site);
+    }}}}}
     std::cout<<GridLogMessage<< "src norms "<< norm2(src)<<" " <<norm2(ssrc)<<std::endl;
     FGrid->Barrier();
-    sDw.Dhop(ssrc,sresult,0);
-    sDw.ZeroCounters();
     double t0=usecond();
+    sDw.ZeroCounters();
     for(int i=0;i<ncall;i++){
       __SSC_START;
       sDw.Dhop(ssrc,sresult,0);
@@ -282,53 +210,46 @@ int main (int argc, char ** argv)
     std::cout<<GridLogMessage << "Called Dw s_inner "<<ncall<<" times in "<<t1-t0<<" us"<<std::endl;
     std::cout<<GridLogMessage << "mflop/s =   "<< flops/(t1-t0)<<std::endl;
     std::cout<<GridLogMessage << "mflop/s per rank =  "<< flops/(t1-t0)/NP<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s per node =  "<< flops/(t1-t0)/NN<<std::endl;
-    //    std::cout<<GridLogMessage<< "res norms "<< norm2(result)<<" " <<norm2(sresult)<<std::endl;
     sDw.Report();
+  
+    if(0){
+      for(int i=0;i< PerformanceCounter::NumTypes(); i++ ){
+	sDw.Dhop(ssrc,sresult,0);
+	PerformanceCounter Counter(i);
+	Counter.Start();
+	sDw.Dhop(ssrc,sresult,0);
+	Counter.Stop();
+	Counter.Report();
+      }
+    }
+
+    std::cout<<GridLogMessage<< "res norms "<< norm2(result)<<" " <<norm2(sresult)<<std::endl;
+
     RealD sum=0;
+    for(int x=0;x<latt4[0];x++){
+    for(int y=0;y<latt4[1];y++){
+    for(int z=0;z<latt4[2];z++){
+    for(int t=0;t<latt4[3];t++){
+    for(int s=0;s<Ls;s++){
+      std::vector<int> site({s,x,y,z,t});
+      SpinColourVector normal, simd;
+      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<<" normal "<<normal<<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;
+    assert (sum< 1.0e-4 );
 
-    err=zero;
-    localConvert(sresult,err);
-    err = err - ref;
-    sum = norm2(err);
-    std::cout<<GridLogMessage<<" difference between normal ref and simd is "<<sum<<std::endl;
-    if(sum > 1.0e-4 ){
-      std::cout<< "sD REF\n " <<ref << std::endl;
-      std::cout<< "sD ERR   \n " <<err  <<std::endl;
-    }
-    //    assert(sum < 1.0e-4);
 
-    err=zero;
-    localConvert(sresult,err);
-    err = err - result;
-    sum = norm2(err);
-    std::cout<<GridLogMessage<<" difference between normal result and simd is "<<sum<<std::endl;
-    if(sum > 1.0e-4 ){
-      std::cout<< "sD REF\n " <<result << std::endl;
-      std::cout<< "sD ERR   \n " << err  <<std::endl;
-    }
-    assert(sum < 1.0e-4);
-
-    
-    if(1){
-      std::cout << GridLogMessage<< "*********************************************************" <<std::endl;
-      std::cout << GridLogMessage<< "* Benchmarking WilsonFermion5D<DomainWallVec5dImplR>::DhopEO "<<std::endl;
-      std::cout << GridLogMessage<< "* Vectorising fifth dimension by "<<vComplex::Nsimd()<<std::endl;
-      if ( sizeof(Real)==4 )   std::cout << GridLogMessage<< "* SINGLE precision "<<std::endl;
-      if ( sizeof(Real)==8 )   std::cout << GridLogMessage<< "* DOUBLE precision "<<std::endl;
-#ifdef GRID_OMP
-  if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsAndCompute ) std::cout << GridLogMessage<< "* Using Overlapped Comms/Compute" <<std::endl;
-  if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsThenCompute) std::cout << GridLogMessage<< "* Using sequential comms compute" <<std::endl;
-#endif
-      if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptGeneric   ) 
-	std::cout << GridLogMessage<< "* Using GENERIC Nc WilsonKernels" <<std::endl;
-      if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptHandUnroll) 
-	std::cout << GridLogMessage<< "* Using Nc=3       WilsonKernels" <<std::endl;
-      if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptInlineAsm ) 
-	std::cout << GridLogMessage<< "* Using Asm Nc=3   WilsonKernels" <<std::endl;
-      std::cout << GridLogMessage<< "*********************************************************" <<std::endl;
+    if (1) {
 
       LatticeFermion sr_eo(sFGrid);
+
       LatticeFermion ssrc_e (sFrbGrid);
       LatticeFermion ssrc_o (sFrbGrid);
       LatticeFermion sr_e   (sFrbGrid);
@@ -336,30 +257,39 @@ int main (int argc, char ** argv)
 
       pickCheckerboard(Even,ssrc_e,ssrc);
       pickCheckerboard(Odd,ssrc_o,ssrc);
-      //      setCheckerboard(sr_eo,ssrc_o);
-      //      setCheckerboard(sr_eo,ssrc_e);
+
+      setCheckerboard(sr_eo,ssrc_o);
+      setCheckerboard(sr_eo,ssrc_e);
 
       sr_e = zero;
       sr_o = zero;
 
+      std::cout << GridLogMessage<< "*********************************************************" <<std::endl;
+      std::cout << GridLogMessage<< "* Benchmarking WilsonFermion5D<DomainWallVec5dImplR>::DhopEO "<<std::endl;
+      std::cout << GridLogMessage<< "* Vectorising fifth dimension by "<<vComplex::Nsimd()<<std::endl;
+      if ( sizeof(Real)==4 )   std::cout << GridLogMessage<< "* SINGLE precision "<<std::endl;
+      if ( sizeof(Real)==8 )   std::cout << GridLogMessage<< "* DOUBLE precision "<<std::endl;
+      if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptGeneric   ) std::cout << GridLogMessage<< "* Using GENERIC Nc WilsonKernels" <<std::endl;
+      if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptHandUnroll) std::cout << GridLogMessage<< "* Using Nc=3       WilsonKernels" <<std::endl;
+      if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptInlineAsm ) std::cout << GridLogMessage<< "* Using Asm Nc=3   WilsonKernels" <<std::endl;
+      std::cout << GridLogMessage<< "*********************************************************" <<std::endl;
+
       FGrid->Barrier();
-      sDw.DhopEO(ssrc_o, sr_e, DaggerNo);
       sDw.ZeroCounters();
-      //      sDw.stat.init("DhopEO");
+      sDw.stat.init("DhopEO");
       double t0=usecond();
       for (int i = 0; i < ncall; i++) {
         sDw.DhopEO(ssrc_o, sr_e, DaggerNo);
       }
       double t1=usecond();
       FGrid->Barrier();
-      //      sDw.stat.print();
+      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 rank   "<< flops/(t1-t0)/NP<<std::endl;
-      std::cout<<GridLogMessage << "sDeo mflop/s per node   "<< flops/(t1-t0)/NN<<std::endl;
       sDw.Report();
 
       sDw.DhopEO(ssrc_o,sr_e,DaggerNo);
@@ -368,75 +298,51 @@ int main (int argc, char ** argv)
 
       pickCheckerboard(Even,ssrc_e,sresult);
       pickCheckerboard(Odd ,ssrc_o,sresult);
-
       ssrc_e = ssrc_e - sr_e;
       RealD error = norm2(ssrc_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)<< "  vec nrm"<<norm2(sr_e) <<std::endl;
       ssrc_o = ssrc_o - sr_o;
+
       error+= norm2(ssrc_o);
       std::cout<<GridLogMessage << "sO norm diff   "<< norm2(ssrc_o)<< "  vec nrm"<<norm2(sr_o) <<std::endl;
-
-      if(( error>1.0e-4) ) { 
+      if(error>1.0e-4) { 
 	setCheckerboard(ssrc,ssrc_o);
 	setCheckerboard(ssrc,ssrc_e);
-	std::cout<< "DIFF\n " <<ssrc << std::endl;
-	setCheckerboard(ssrc,sr_o);
-	setCheckerboard(ssrc,sr_e);
-	std::cout<< "CBRESULT\n " <<ssrc << std::endl;
-	std::cout<< "RESULT\n " <<sresult<< std::endl;
+	std::cout<< ssrc << std::endl;
       }
-      assert(error<1.0e-4);
     }
 
-  if(0){
-    std::cout << "Single cache warm call to sDw.Dhop " <<std::endl;
-    for(int i=0;i< PerformanceCounter::NumTypes(); i++ ){
-      sDw.Dhop(ssrc,sresult,0);
-      PerformanceCounter Counter(i);
-      Counter.Start();
-      sDw.Dhop(ssrc,sresult,0);
-      Counter.Stop();
-      Counter.Report();
-    }
-  }
 
   }
 
-
-
   if (1)
   { // Naive wilson dag implementation
     ref = zero;
     for(int mu=0;mu<Nd;mu++){
 
-      //    ref =  src - Gamma(Gamma::Algebra::GammaX)* src ; // 1+gamma_x
+      //    ref =  src - Gamma(Gamma::GammaX)* src ; // 1+gamma_x
       tmp = U[mu]*Cshift(src,mu+1,1);
       for(int i=0;i<ref._odata.size();i++){
-	ref._odata[i]+= tmp._odata[i] + Gamma(Gmu[mu])*tmp._odata[i]; ;
+  ref._odata[i]+= tmp._odata[i] + Gamma(Gmu[mu])*tmp._odata[i]; ;
       }
 
       tmp =adj(U[mu])*src;
       tmp =Cshift(tmp,mu+1,-1);
       for(int i=0;i<ref._odata.size();i++){
-	ref._odata[i]+= tmp._odata[i] - Gamma(Gmu[mu])*tmp._odata[i]; ;
+  ref._odata[i]+= tmp._odata[i] - Gamma(Gmu[mu])*tmp._odata[i]; ;
       }
     }
     ref = -0.5*ref;
   }
-  //  dump=1;
   Dw.Dhop(src,result,1);
   std::cout << GridLogMessage << "Compare to naive wilson implementation Dag to verify correctness" << std::endl;
   std::cout<<GridLogMessage << "Called DwDag"<<std::endl;
-  std::cout<<GridLogMessage << "norm dag result "<< norm2(result)<<std::endl;
-  std::cout<<GridLogMessage << "norm dag ref    "<< norm2(ref)<<std::endl;
+  std::cout<<GridLogMessage << "norm result "<< norm2(result)<<std::endl;
+  std::cout<<GridLogMessage << "norm ref    "<< norm2(ref)<<std::endl;
   err = ref-result; 
-  std::cout<<GridLogMessage << "norm dag diff   "<< norm2(err)<<std::endl;
-  if((norm2(err)>1.0e-4)){
-	std::cout<< "DAG RESULT\n "  <<ref     << std::endl;
-	std::cout<< "DAG sRESULT\n " <<result  << std::endl;
-	std::cout<< "DAG ERR   \n "  << err    <<std::endl;
-  }
+  std::cout<<GridLogMessage << "norm diff   "<< norm2(err)<<std::endl;
+  assert(norm2(err)<1.0e-4);
   LatticeFermion src_e (FrbGrid);
   LatticeFermion src_o (FrbGrid);
   LatticeFermion r_e   (FrbGrid);
@@ -444,24 +350,18 @@ int main (int argc, char ** argv)
   LatticeFermion r_eo  (FGrid);
 
 
-  std::cout<<GridLogMessage << "Calling Deo and Doe and //assert Deo+Doe == Dunprec"<<std::endl;
+  std::cout<<GridLogMessage << "Calling Deo and Doe and assert Deo+Doe == Dunprec"<<std::endl;
   pickCheckerboard(Even,src_e,src);
   pickCheckerboard(Odd,src_o,src);
 
   std::cout<<GridLogMessage << "src_e"<<norm2(src_e)<<std::endl;
   std::cout<<GridLogMessage << "src_o"<<norm2(src_o)<<std::endl;
 
-
-  // S-direction is INNERMOST and takes no part in the parity.
   std::cout << GridLogMessage<< "*********************************************************" <<std::endl;
   std::cout << GridLogMessage<< "* Benchmarking DomainWallFermionR::DhopEO                "<<std::endl;
   std::cout << GridLogMessage<< "* Vectorising space-time by "<<vComplex::Nsimd()<<std::endl;
   if ( sizeof(Real)==4 )   std::cout << GridLogMessage<< "* SINGLE precision "<<std::endl;
   if ( sizeof(Real)==8 )   std::cout << GridLogMessage<< "* DOUBLE precision "<<std::endl;
-#ifdef GRID_OMP
-  if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsAndCompute ) std::cout << GridLogMessage<< "* Using Overlapped Comms/Compute" <<std::endl;
-  if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsThenCompute) std::cout << GridLogMessage<< "* Using sequential comms compute" <<std::endl;
-#endif
   if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptGeneric   ) std::cout << GridLogMessage<< "* Using GENERIC Nc WilsonKernels" <<std::endl;
   if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptHandUnroll) std::cout << GridLogMessage<< "* Using Nc=3       WilsonKernels" <<std::endl;
   if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptInlineAsm ) std::cout << GridLogMessage<< "* Using Asm Nc=3   WilsonKernels" <<std::endl;
@@ -469,7 +369,6 @@ int main (int argc, char ** argv)
   {
     Dw.ZeroCounters();
     FGrid->Barrier();
-    Dw.DhopEO(src_o,r_e,DaggerNo);
     double t0=usecond();
     for(int i=0;i<ncall;i++){
       Dw.DhopEO(src_o,r_e,DaggerNo);
@@ -482,7 +381,6 @@ int main (int argc, char ** argv)
 
     std::cout<<GridLogMessage << "Deo mflop/s =   "<< flops/(t1-t0)<<std::endl;
     std::cout<<GridLogMessage << "Deo mflop/s per rank   "<< flops/(t1-t0)/NP<<std::endl;
-    std::cout<<GridLogMessage << "Deo mflop/s per node   "<< flops/(t1-t0)/NN<<std::endl;
     Dw.Report();
   }
   Dw.DhopEO(src_o,r_e,DaggerNo);
@@ -498,20 +396,14 @@ int main (int argc, char ** argv)
 
   err = r_eo-result; 
   std::cout<<GridLogMessage << "norm diff   "<< norm2(err)<<std::endl;
-  if((norm2(err)>1.0e-4)){
-	std::cout<< "Deo RESULT\n " <<r_eo << std::endl;
-	std::cout<< "Deo REF\n " <<result  << std::endl;
-	std::cout<< "Deo ERR   \n " << err <<std::endl;
-  }
+  assert(norm2(err)<1.0e-4);
 
   pickCheckerboard(Even,src_e,err);
   pickCheckerboard(Odd,src_o,err);
   std::cout<<GridLogMessage << "norm diff even  "<< norm2(src_e)<<std::endl;
   std::cout<<GridLogMessage << "norm diff odd   "<< norm2(src_o)<<std::endl;
-
   assert(norm2(src_e)<1.0e-4);
   assert(norm2(src_o)<1.0e-4);
-  Grid_finalize();
-  exit(0);
-}
 
+  Grid_finalize();
+}

benchmarks/Benchmark_dwf_sweep.cc

@@ -37,11 +37,11 @@ struct scal {
   d internal;
 };
 
-  Gamma::Algebra Gmu [] = {
-    Gamma::Algebra::GammaX,
-    Gamma::Algebra::GammaY,
-    Gamma::Algebra::GammaZ,
-    Gamma::Algebra::GammaT
+  Gamma::GammaMatrix Gmu [] = {
+    Gamma::GammaX,
+    Gamma::GammaY,
+    Gamma::GammaZ,
+    Gamma::GammaT
   };
 
 void benchDw(std::vector<int> & L, int Ls, int threads, int report =0 );

benchmarks/Benchmark_gparity.cc

@@ -1,190 +0,0 @@
-#include <Grid/Grid.h>
-#include <sstream>
-using namespace std;
-using namespace Grid;
-using namespace Grid::QCD;
-
-template<class d>
-struct scal {
-  d internal;
-};
-
-  Gamma::Algebra Gmu [] = {
-    Gamma::Algebra::GammaX,
-    Gamma::Algebra::GammaY,
-    Gamma::Algebra::GammaZ,
-    Gamma::Algebra::GammaT
-  };
-
-typedef typename GparityDomainWallFermionF::FermionField GparityLatticeFermionF;
-typedef typename GparityDomainWallFermionD::FermionField GparityLatticeFermionD;
-
-
-
-int main (int argc, char ** argv)
-{
-  Grid_init(&argc,&argv);
-
-  int Ls=16;
-  for(int i=0;i<argc;i++)
-    if(std::string(argv[i]) == "-Ls"){
-      std::stringstream ss(argv[i+1]); ss >> Ls;
-    }
-
-
-  int threads = GridThread::GetThreads();
-  std::cout<<GridLogMessage << "Grid is setup to use "<<threads<<" threads"<<std::endl;
-  std::cout<<GridLogMessage << "Ls = " << Ls << std::endl;
-
-  std::vector<int> latt4 = GridDefaultLatt();
-
-  GridCartesian         * UGrid   = SpaceTimeGrid::makeFourDimGrid(GridDefaultLatt(), GridDefaultSimd(Nd,vComplexF::Nsimd()),GridDefaultMpi());
-  GridRedBlackCartesian * UrbGrid = SpaceTimeGrid::makeFourDimRedBlackGrid(UGrid);
-  GridCartesian         * FGrid   = SpaceTimeGrid::makeFiveDimGrid(Ls,UGrid);
-  GridRedBlackCartesian * FrbGrid = SpaceTimeGrid::makeFiveDimRedBlackGrid(Ls,UGrid);
-
-  std::vector<int> seeds4({1,2,3,4});
-  std::vector<int> seeds5({5,6,7,8});
-  
-  std::cout << GridLogMessage << "Initialising 4d RNG" << std::endl;
-  GridParallelRNG          RNG4(UGrid);  RNG4.SeedFixedIntegers(seeds4);
-  std::cout << GridLogMessage << "Initialising 5d RNG" << std::endl;
-  GridParallelRNG          RNG5(FGrid);  RNG5.SeedFixedIntegers(seeds5);
-  std::cout << GridLogMessage << "Initialised RNGs" << std::endl;
-
-  GparityLatticeFermionF src   (FGrid); random(RNG5,src);
-  RealD N2 = 1.0/::sqrt(norm2(src));
-  src = src*N2;
-
-  GparityLatticeFermionF result(FGrid); result=zero;
-  GparityLatticeFermionF    ref(FGrid);    ref=zero;
-  GparityLatticeFermionF    tmp(FGrid);
-  GparityLatticeFermionF    err(FGrid);
-
-  std::cout << GridLogMessage << "Drawing gauge field" << std::endl;
-  LatticeGaugeFieldF Umu(UGrid); 
-  SU3::HotConfiguration(RNG4,Umu); 
-  std::cout << GridLogMessage << "Random gauge initialised " << std::endl;
-
-  RealD mass=0.1;
-  RealD M5  =1.8;
-
-  RealD NP = UGrid->_Nprocessors;
-  RealD NN = UGrid->NodeCount();
-
-  std::cout << GridLogMessage<< "*****************************************************************" <<std::endl;
-  std::cout << GridLogMessage<< "* Kernel options --dslash-generic, --dslash-unroll, --dslash-asm" <<std::endl;
-  std::cout << GridLogMessage<< "*****************************************************************" <<std::endl;
-  std::cout << GridLogMessage<< "*****************************************************************" <<std::endl;
-  std::cout << GridLogMessage<< "* Benchmarking DomainWallFermion::Dhop                  "<<std::endl;
-  std::cout << GridLogMessage<< "* Vectorising space-time by "<<vComplexF::Nsimd()<<std::endl;
-#ifdef GRID_OMP
-  if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsAndCompute ) std::cout << GridLogMessage<< "* Using Overlapped Comms/Compute" <<std::endl;
-  if ( WilsonKernelsStatic::Comms == WilsonKernelsStatic::CommsThenCompute) std::cout << GridLogMessage<< "* Using sequential comms compute" <<std::endl;
-#endif
-  if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptGeneric   ) std::cout << GridLogMessage<< "* Using GENERIC Nc WilsonKernels" <<std::endl;
-  if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptHandUnroll) std::cout << GridLogMessage<< "* Using Nc=3       WilsonKernels" <<std::endl;
-  if ( WilsonKernelsStatic::Opt == WilsonKernelsStatic::OptInlineAsm ) std::cout << GridLogMessage<< "* Using Asm Nc=3   WilsonKernels" <<std::endl;
-  std::cout << GridLogMessage<< "*****************************************************************" <<std::endl;
-
-
-
-  std::cout << GridLogMessage<< "* SINGLE/SINGLE"<<std::endl;
-  GparityDomainWallFermionF Dw(Umu,*FGrid,*FrbGrid,*UGrid,*UrbGrid,mass,M5);
-  int ncall =1000;
-  if (1) {
-    FGrid->Barrier();
-    Dw.ZeroCounters();
-    Dw.Dhop(src,result,0);
-    std::cout<<GridLogMessage<<"Called warmup"<<std::endl;
-    double t0=usecond();
-    for(int i=0;i<ncall;i++){
-      __SSC_START;
-      Dw.Dhop(src,result,0);
-      __SSC_STOP;
-    }
-    double t1=usecond();
-    FGrid->Barrier();
-    
-    double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
-    double flops=2*1344*volume*ncall;
-
-    std::cout<<GridLogMessage << "Called Dw "<<ncall<<" times in "<<t1-t0<<" us"<<std::endl;
-    //    std::cout<<GridLogMessage << "norm result "<< norm2(result)<<std::endl;
-    //    std::cout<<GridLogMessage << "norm ref    "<< norm2(ref)<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s =   "<< flops/(t1-t0)<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s per rank =  "<< flops/(t1-t0)/NP<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s per node =  "<< flops/(t1-t0)/NN<<std::endl;
-    Dw.Report();
-  }
-
-  std::cout << GridLogMessage<< "* SINGLE/HALF"<<std::endl;
-  GparityDomainWallFermionFH DwH(Umu,*FGrid,*FrbGrid,*UGrid,*UrbGrid,mass,M5);
-  if (1) {
-    FGrid->Barrier();
-    DwH.ZeroCounters();
-    DwH.Dhop(src,result,0);
-    double t0=usecond();
-    for(int i=0;i<ncall;i++){
-      __SSC_START;
-      DwH.Dhop(src,result,0);
-      __SSC_STOP;
-    }
-    double t1=usecond();
-    FGrid->Barrier();
-    
-    double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
-    double flops=2*1344*volume*ncall;
-
-    std::cout<<GridLogMessage << "Called half prec comms Dw "<<ncall<<" times in "<<t1-t0<<" us"<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s =   "<< flops/(t1-t0)<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s per rank =  "<< flops/(t1-t0)/NP<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s per node =  "<< flops/(t1-t0)/NN<<std::endl;
-    DwH.Report();
-  }
-
-  GridCartesian         * UGrid_d   = SpaceTimeGrid::makeFourDimGrid(GridDefaultLatt(), GridDefaultSimd(Nd,vComplexD::Nsimd()),GridDefaultMpi());
-  GridRedBlackCartesian * UrbGrid_d = SpaceTimeGrid::makeFourDimRedBlackGrid(UGrid_d);
-  GridCartesian         * FGrid_d   = SpaceTimeGrid::makeFiveDimGrid(Ls,UGrid_d);
-  GridRedBlackCartesian * FrbGrid_d = SpaceTimeGrid::makeFiveDimRedBlackGrid(Ls,UGrid_d);
-
-  
-  std::cout << GridLogMessage<< "* DOUBLE/DOUBLE"<<std::endl;
-  GparityLatticeFermionD src_d(FGrid_d);
-  precisionChange(src_d,src);
-
-  LatticeGaugeFieldD Umu_d(UGrid_d); 
-  precisionChange(Umu_d,Umu);
-
-  GparityLatticeFermionD result_d(FGrid_d);
-
-  GparityDomainWallFermionD DwD(Umu_d,*FGrid_d,*FrbGrid_d,*UGrid_d,*UrbGrid_d,mass,M5);
-  if (1) {
-    FGrid_d->Barrier();
-    DwD.ZeroCounters();
-    DwD.Dhop(src_d,result_d,0);
-    std::cout<<GridLogMessage<<"Called warmup"<<std::endl;
-    double t0=usecond();
-    for(int i=0;i<ncall;i++){
-      __SSC_START;
-      DwD.Dhop(src_d,result_d,0);
-      __SSC_STOP;
-    }
-    double t1=usecond();
-    FGrid_d->Barrier();
-    
-    double volume=Ls;  for(int mu=0;mu<Nd;mu++) volume=volume*latt4[mu];
-    double flops=2*1344*volume*ncall;
-
-    std::cout<<GridLogMessage << "Called Dw "<<ncall<<" times in "<<t1-t0<<" us"<<std::endl;
-    //    std::cout<<GridLogMessage << "norm result "<< norm2(result)<<std::endl;
-    //    std::cout<<GridLogMessage << "norm ref    "<< norm2(ref)<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s =   "<< flops/(t1-t0)<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s per rank =  "<< flops/(t1-t0)/NP<<std::endl;
-    std::cout<<GridLogMessage << "mflop/s per node =  "<< flops/(t1-t0)/NN<<std::endl;
-    DwD.Report();
-  }
-
-  Grid_finalize();
-}
-

benchmarks/Benchmark_memory_asynch.cc

@@ -66,8 +66,7 @@ int main (int argc, char ** argv)
 
     Vec tsum; tsum = zero;
 
-    GridParallelRNG          pRNG(&Grid);      
-    pRNG.SeedFixedIntegers(std::vector<int>({56,17,89,101}));
+    GridParallelRNG          pRNG(&Grid);      pRNG.SeedRandomDevice();
 
     std::vector<double> stop(threads);
     Vector<Vec> sum(threads);
@@ -78,7 +77,8 @@ int main (int argc, char ** argv)
     }
 
     double start=usecond();
-    parallel_for(int t=0;t<threads;t++){
+PARALLEL_FOR_LOOP
+    for(int t=0;t<threads;t++){
 
       sum[t] = x[t]._odata[0];
       for(int i=0;i<Nloop;i++){

benchmarks/Benchmark_memory_bandwidth.cc

@@ -55,21 +55,21 @@ int main (int argc, char ** argv)
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
   std::cout<<GridLogMessage << "  L  "<<"\t\t"<<"bytes"<<"\t\t\t"<<"GB/s"<<"\t\t"<<"Gflop/s"<<"\t\t seconds"<<std::endl;
   std::cout<<GridLogMessage << "----------------------------------------------------------"<<std::endl;
-  uint64_t lmax=96;
-#define NLOOP (10*lmax*lmax*lmax*lmax/vol)
-  for(int lat=8;lat<=lmax;lat+=8){
+  uint64_t lmax=44;
+#define NLOOP (1*lmax*lmax*lmax*lmax/vol)
+  for(int lat=4;lat<=lmax;lat+=4){
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],lat*mpi_layout[1],lat*mpi_layout[2],lat*mpi_layout[3]});
-      int64_t vol= latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
+      int vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
 
       uint64_t Nloop=NLOOP;
 
-      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9}));
+      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedRandomDevice();
 
-      LatticeVec z(&Grid);// random(pRNG,z);
-      LatticeVec x(&Grid);// random(pRNG,x);
-      LatticeVec y(&Grid);// random(pRNG,y);
+      LatticeVec z(&Grid); //random(pRNG,z);
+      LatticeVec x(&Grid); //random(pRNG,x);
+      LatticeVec y(&Grid); //random(pRNG,y);
       double a=2.0;
 
 
@@ -83,7 +83,7 @@ int main (int argc, char ** argv)
       double time = (stop-start)/Nloop*1000;
       
       double flops=vol*Nvec*2;// mul,add
-      double bytes=3.0*vol*Nvec*sizeof(Real);
+      double bytes=3*vol*Nvec*sizeof(Real);
       std::cout<<GridLogMessage<<std::setprecision(3) << lat<<"\t\t"<<bytes<<"   \t\t"<<bytes/time<<"\t\t"<<flops/time<<"\t\t"<<(stop-start)/1000./1000.<<std::endl;
 
     }
@@ -94,17 +94,17 @@ int main (int argc, char ** argv)
   std::cout<<GridLogMessage << "  L  "<<"\t\t"<<"bytes"<<"\t\t\t"<<"GB/s"<<"\t\t"<<"Gflop/s"<<"\t\t seconds"<<std::endl;
   std::cout<<GridLogMessage << "----------------------------------------------------------"<<std::endl;
   
-  for(int lat=8;lat<=lmax;lat+=8){
+  for(int lat=4;lat<=lmax;lat+=4){
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],lat*mpi_layout[1],lat*mpi_layout[2],lat*mpi_layout[3]});
-      int64_t vol= latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
+      int vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
 
-      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9}));
+      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedRandomDevice();
 
-      LatticeVec z(&Grid);// random(pRNG,z);
-      LatticeVec x(&Grid);// random(pRNG,x);
-      LatticeVec y(&Grid);// random(pRNG,y);
+      LatticeVec z(&Grid); //random(pRNG,z);
+      LatticeVec x(&Grid); //random(pRNG,x);
+      LatticeVec y(&Grid); //random(pRNG,y);
       double a=2.0;
 
       uint64_t Nloop=NLOOP;
@@ -119,7 +119,7 @@ int main (int argc, char ** argv)
       double time = (stop-start)/Nloop*1000;
      
       double flops=vol*Nvec*2;// mul,add
-      double bytes=3.0*vol*Nvec*sizeof(Real);
+      double bytes=3*vol*Nvec*sizeof(Real);
       std::cout<<GridLogMessage<<std::setprecision(3) << lat<<"\t\t"<<bytes<<"   \t\t"<<bytes/time<<"\t\t"<<flops/time<<"\t\t"<<(stop-start)/1000./1000.<<std::endl;
 
     }
@@ -129,20 +129,20 @@ int main (int argc, char ** argv)
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
   std::cout<<GridLogMessage << "  L  "<<"\t\t"<<"bytes"<<"\t\t\t"<<"GB/s"<<"\t\t"<<"Gflop/s"<<"\t\t seconds"<<std::endl;
 
-  for(int lat=8;lat<=lmax;lat+=8){
+  for(int lat=4;lat<=lmax;lat+=4){
 
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],lat*mpi_layout[1],lat*mpi_layout[2],lat*mpi_layout[3]});
-      int64_t vol= latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
+      int vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
       uint64_t Nloop=NLOOP;
 
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
 
-      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9}));
+      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedRandomDevice();
 
-      LatticeVec z(&Grid);// random(pRNG,z);
-      LatticeVec x(&Grid);// random(pRNG,x);
-      LatticeVec y(&Grid);// random(pRNG,y);
+      LatticeVec z(&Grid); //random(pRNG,z);
+      LatticeVec x(&Grid); //random(pRNG,x);
+      LatticeVec y(&Grid); //random(pRNG,y);
       RealD a=2.0;
 
 
@@ -154,7 +154,7 @@ int main (int argc, char ** argv)
       double stop=usecond();
       double time = (stop-start)/Nloop*1000;
       
-      double bytes=2.0*vol*Nvec*sizeof(Real);
+      double bytes=2*vol*Nvec*sizeof(Real);
       double flops=vol*Nvec*1;// mul
       std::cout<<GridLogMessage <<std::setprecision(3) << lat<<"\t\t"<<bytes<<"   \t\t"<<bytes/time<<"\t\t"<<flops/time<<"\t\t"<<(stop-start)/1000./1000.<<std::endl;
 
@@ -166,17 +166,17 @@ int main (int argc, char ** argv)
   std::cout<<GridLogMessage << "  L  "<<"\t\t"<<"bytes"<<"\t\t\t"<<"GB/s"<<"\t\t"<<"Gflop/s"<<"\t\t seconds"<<std::endl;
   std::cout<<GridLogMessage << "----------------------------------------------------------"<<std::endl;
 
-  for(int lat=8;lat<=lmax;lat+=8){
+  for(int lat=4;lat<=lmax;lat+=4){
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],lat*mpi_layout[1],lat*mpi_layout[2],lat*mpi_layout[3]});
-      int64_t vol= latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
+      int vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
       uint64_t Nloop=NLOOP;
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
 
-      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9}));
-      LatticeVec z(&Grid);// random(pRNG,z);
-      LatticeVec x(&Grid);// random(pRNG,x);
-      LatticeVec y(&Grid);// random(pRNG,y);
+      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedRandomDevice();
+      LatticeVec z(&Grid); //random(pRNG,z);
+      LatticeVec x(&Grid); //random(pRNG,x);
+      LatticeVec y(&Grid); //random(pRNG,y);
       RealD a=2.0;
       Real nn;      
       double start=usecond();
@@ -187,7 +187,7 @@ int main (int argc, char ** argv)
       double stop=usecond();
       double time = (stop-start)/Nloop*1000;
       
-      double bytes=1.0*vol*Nvec*sizeof(Real);
+      double bytes=vol*Nvec*sizeof(Real);
       double flops=vol*Nvec*2;// mul,add
       std::cout<<GridLogMessage<<std::setprecision(3) << lat<<"\t\t"<<bytes<<"  \t\t"<<bytes/time<<"\t\t"<<flops/time<< "\t\t"<<(stop-start)/1000./1000.<< "\t\t " <<std::endl;
 

benchmarks/Benchmark_mooee.cc

@@ -113,36 +113,6 @@ int main (int argc, char ** argv)
     std::cout<<GridLogMessage << "Called " #A " "<< (t1-t0)/ncall<<" us"<<std::endl;\
     std::cout<<GridLogMessage << "******************"<<std::endl;
 
-#define BENCH_ZDW(A,in,out)			\
-    zDw.CayleyZeroCounters();			\
-    zDw. A (in,out);				\
-    FGrid->Barrier();				\
-    t0=usecond();				\
-    for(int i=0;i<ncall;i++){			\
-      zDw. A (in,out);				\
-    }						\
-    t1=usecond();				\
-    FGrid->Barrier();				\
-    zDw.CayleyReport();							\
-    std::cout<<GridLogMessage << "Called ZDw " #A " "<< (t1-t0)/ncall<<" us"<<std::endl;\
-    std::cout<<GridLogMessage << "******************"<<std::endl;
-
-#define BENCH_DW_SSC(A,in,out)			\
-    Dw.CayleyZeroCounters();			\
-    Dw. A (in,out);				\
-    FGrid->Barrier();				\
-    t0=usecond();				\
-    for(int i=0;i<ncall;i++){			\
-      __SSC_START ;				\
-      Dw. A (in,out);				\
-      __SSC_STOP ;				\
-    }						\
-    t1=usecond();				\
-    FGrid->Barrier();				\
-    Dw.CayleyReport();					\
-    std::cout<<GridLogMessage << "Called " #A " "<< (t1-t0)/ncall<<" us"<<std::endl;\
-    std::cout<<GridLogMessage << "******************"<<std::endl;
-
 #define BENCH_DW_MEO(A,in,out)			\
     Dw.CayleyZeroCounters();			\
     Dw. A (in,out,0);				\
@@ -178,15 +148,9 @@ int main (int argc, char ** argv)
     LatticeFermion sref(sFGrid);
     LatticeFermion result(sFGrid);
 
-
     std::cout<<GridLogMessage << "Constructing Vec5D Dw "<<std::endl;
     DomainWallFermionVec5dR Dw(Umu,*sFGrid,*sFrbGrid,*sUGrid,*sUrbGrid,mass,M5);
 
-    RealD b=1.5;// Scale factor b+c=2, b-c=1
-    RealD c=0.5;
-    std::vector<ComplexD> gamma(Ls,std::complex<double>(1.0,0.0));
-    ZMobiusFermionVec5dR zDw(Umu,*sFGrid,*sFrbGrid,*sUGrid,*sUrbGrid,mass,M5,gamma,b,c);
-
     std::cout<<GridLogMessage << "Calling Dhop "<<std::endl;
     FGrid->Barrier();
 
@@ -209,13 +173,10 @@ int main (int argc, char ** argv)
 
     BENCH_DW_MEO(Dhop    ,src,result);
     BENCH_DW_MEO(DhopEO  ,src_o,r_e);
-    BENCH_DW_SSC(Meooe   ,src_o,r_e);
+    BENCH_DW(Meooe   ,src_o,r_e);
     BENCH_DW(Mooee   ,src_o,r_o);
     BENCH_DW(MooeeInv,src_o,r_o);
 
-    BENCH_ZDW(Mooee   ,src_o,r_o);
-    BENCH_ZDW(MooeeInv,src_o,r_o);
-
   }
 
   Grid_finalize();

benchmarks/Benchmark_staggered.cc

@@ -1,134 +0,0 @@
-    /*************************************************************************************
-
-    Grid physics library, www.github.com/paboyle/Grid 
-
-    Source file: ./benchmarks/Benchmark_staggered.cc
-
-    Copyright (C) 2015
-
-Author: Peter Boyle <paboyle@ph.ed.ac.uk>
-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/Grid.h>
-
-using namespace std;
-using namespace Grid;
-using namespace Grid::QCD;
-
-int main (int argc, char ** argv)
-{
-  Grid_init(&argc,&argv);
-
-  std::vector<int> latt_size   = GridDefaultLatt();
-  std::vector<int> simd_layout = GridDefaultSimd(Nd,vComplex::Nsimd());
-  std::vector<int> mpi_layout  = GridDefaultMpi();
-  GridCartesian               Grid(latt_size,simd_layout,mpi_layout);
-  GridRedBlackCartesian     RBGrid(&Grid);
-
-  int threads = GridThread::GetThreads();
-  std::cout<<GridLogMessage << "Grid is setup to use "<<threads<<" threads"<<std::endl;
-  std::cout<<GridLogMessage << "Grid floating point word size is REALF"<< sizeof(RealF)<<std::endl;
-  std::cout<<GridLogMessage << "Grid floating point word size is REALD"<< sizeof(RealD)<<std::endl;
-  std::cout<<GridLogMessage << "Grid floating point word size is REAL"<< sizeof(Real)<<std::endl;
-
-  std::vector<int> seeds({1,2,3,4});
-  GridParallelRNG          pRNG(&Grid);
-  pRNG.SeedFixedIntegers(seeds);
-  //  pRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9});
-
-  typedef typename ImprovedStaggeredFermionR::FermionField FermionField; 
-  typename ImprovedStaggeredFermionR::ImplParams params; 
-
-  FermionField src   (&Grid); random(pRNG,src);
-  FermionField result(&Grid); result=zero;
-  FermionField    ref(&Grid);    ref=zero;
-  FermionField    tmp(&Grid);    tmp=zero;
-  FermionField    err(&Grid);    tmp=zero;
-  LatticeGaugeField Umu(&Grid); random(pRNG,Umu);
-  std::vector<LatticeColourMatrix> U(4,&Grid);
-
-  double volume=1;
-  for(int mu=0;mu<Nd;mu++){
-    volume=volume*latt_size[mu];
-  }  
-
-  // Only one non-zero (y)
-#if 0
-  Umu=zero;
-  Complex cone(1.0,0.0);
-  for(int nn=0;nn<Nd;nn++){
-    random(pRNG,U[nn]);
-    if(1) {
-      if (nn!=2) { U[nn]=zero; std::cout<<GridLogMessage << "zeroing gauge field in dir "<<nn<<std::endl; }
-      //      else       { U[nn]= cone;std::cout<<GridLogMessage << "unit gauge field in dir "<<nn<<std::endl; }
-      else       { std::cout<<GridLogMessage << "random gauge field in dir "<<nn<<std::endl; }
-    }
-    PokeIndex<LorentzIndex>(Umu,U[nn],nn);
-  }
-#endif
-
-  for(int mu=0;mu<Nd;mu++){
-    U[mu] = PeekIndex<LorentzIndex>(Umu,mu);
-  }
-  ref = zero;
-  /*  
-  { // Naive wilson implementation
-    ref = zero;
-    for(int mu=0;mu<Nd;mu++){
-      //    ref =  src + Gamma(Gamma::GammaX)* src ; // 1-gamma_x
-      tmp = U[mu]*Cshift(src,mu,1);
-      for(int i=0;i<ref._odata.size();i++){
-	ref._odata[i]+= tmp._odata[i] - Gamma(Gmu[mu])*tmp._odata[i]; ;
-      }
-
-      tmp =adj(U[mu])*src;
-      tmp =Cshift(tmp,mu,-1);
-      for(int i=0;i<ref._odata.size();i++){
-	ref._odata[i]+= tmp._odata[i] + Gamma(Gmu[mu])*tmp._odata[i]; ;
-      }
-    }
-  }
-  ref = -0.5*ref;
-  */
-
-  RealD mass=0.1;
-  RealD c1=9.0/8.0;
-  RealD c2=-1.0/24.0;
-  RealD u0=1.0;
-  ImprovedStaggeredFermionR Ds(Umu,Umu,Grid,RBGrid,mass,c1,c2,u0,params);
-  
-  std::cout<<GridLogMessage << "Calling Ds"<<std::endl;
-  int ncall=1000;
-  double t0=usecond();
-  for(int i=0;i<ncall;i++){
-    Ds.Dhop(src,result,0);
-  }
-  double t1=usecond();
-  double flops=(16*(3*(6+8+8)) + 15*3*2)*volume*ncall; // == 66*16 +  == 1146
-  
-  std::cout<<GridLogMessage << "Called Ds"<<std::endl;
-  std::cout<<GridLogMessage << "norm result "<< norm2(result)<<std::endl;
-  std::cout<<GridLogMessage << "norm ref    "<< norm2(ref)<<std::endl;
-  std::cout<<GridLogMessage << "mflop/s =   "<< flops/(t1-t0)<<std::endl;
-  err = ref-result; 
-  std::cout<<GridLogMessage << "norm diff   "<< norm2(err)<<std::endl;
-
-  Grid_finalize();
-}

benchmarks/Benchmark_su3.cc

@@ -35,14 +35,13 @@ using namespace Grid::QCD;
 int main (int argc, char ** argv)
 {
   Grid_init(&argc,&argv);
-#define LMAX (64)
 
-  int64_t Nloop=20;
+  int Nloop=1000;
 
   std::vector<int> simd_layout = GridDefaultSimd(Nd,vComplex::Nsimd());
   std::vector<int> mpi_layout  = GridDefaultMpi();
 
-  int64_t threads = GridThread::GetThreads();
+  int threads = GridThread::GetThreads();
   std::cout<<GridLogMessage << "Grid is setup to use "<<threads<<" threads"<<std::endl;
 
   std::cout<<GridLogMessage << "===================================================================================================="<<std::endl;
@@ -51,19 +50,19 @@ int main (int argc, char ** argv)
   std::cout<<GridLogMessage << "  L  "<<"\t\t"<<"bytes"<<"\t\t\t"<<"GB/s\t\t GFlop/s"<<std::endl;
   std::cout<<GridLogMessage << "----------------------------------------------------------"<<std::endl;
 
-  for(int lat=2;lat<=LMAX;lat+=2){
+  for(int lat=2;lat<=32;lat+=2){
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],lat*mpi_layout[1],lat*mpi_layout[2],lat*mpi_layout[3]});
-      int64_t vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
+      int vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-      GridParallelRNG          pRNG(&Grid);      pRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9}));
+      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedRandomDevice();
 
-      LatticeColourMatrix z(&Grid); random(pRNG,z);
-      LatticeColourMatrix x(&Grid); random(pRNG,x);
-      LatticeColourMatrix y(&Grid); random(pRNG,y);
+      LatticeColourMatrix z(&Grid);// random(pRNG,z);
+      LatticeColourMatrix x(&Grid);// random(pRNG,x);
+      LatticeColourMatrix y(&Grid);// random(pRNG,y);
 
       double start=usecond();
-      for(int64_t i=0;i<Nloop;i++){
+      for(int i=0;i<Nloop;i++){
 	x=x*y;
       }
       double stop=usecond();
@@ -83,20 +82,20 @@ int main (int argc, char ** argv)
   std::cout<<GridLogMessage << "  L  "<<"\t\t"<<"bytes"<<"\t\t\t"<<"GB/s\t\t GFlop/s"<<std::endl;
   std::cout<<GridLogMessage << "----------------------------------------------------------"<<std::endl;
 
-  for(int lat=2;lat<=LMAX;lat+=2){
+  for(int lat=2;lat<=32;lat+=2){
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],lat*mpi_layout[1],lat*mpi_layout[2],lat*mpi_layout[3]});
-      int64_t vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
+      int vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
 
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-      GridParallelRNG          pRNG(&Grid);      pRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9}));
+      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedRandomDevice();
 
-      LatticeColourMatrix z(&Grid); random(pRNG,z);
-      LatticeColourMatrix x(&Grid); random(pRNG,x);
-      LatticeColourMatrix y(&Grid); random(pRNG,y);
+      LatticeColourMatrix z(&Grid); //random(pRNG,z);
+      LatticeColourMatrix x(&Grid); //random(pRNG,x);
+      LatticeColourMatrix y(&Grid); //random(pRNG,y);
 
       double start=usecond();
-      for(int64_t i=0;i<Nloop;i++){
+      for(int i=0;i<Nloop;i++){
 	z=x*y;
       }
       double stop=usecond();
@@ -114,20 +113,20 @@ int main (int argc, char ** argv)
   std::cout<<GridLogMessage << "  L  "<<"\t\t"<<"bytes"<<"\t\t\t"<<"GB/s\t\t GFlop/s"<<std::endl;
   std::cout<<GridLogMessage << "----------------------------------------------------------"<<std::endl;
 
-  for(int lat=2;lat<=LMAX;lat+=2){
+  for(int lat=2;lat<=32;lat+=2){
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],lat*mpi_layout[1],lat*mpi_layout[2],lat*mpi_layout[3]});
-      int64_t vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
+      int vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
 
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-      GridParallelRNG          pRNG(&Grid);      pRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9}));
+      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedRandomDevice();
 
-      LatticeColourMatrix z(&Grid); random(pRNG,z);
-      LatticeColourMatrix x(&Grid); random(pRNG,x);
-      LatticeColourMatrix y(&Grid); random(pRNG,y);
+      LatticeColourMatrix z(&Grid); //random(pRNG,z);
+      LatticeColourMatrix x(&Grid); //random(pRNG,x);
+      LatticeColourMatrix y(&Grid); //random(pRNG,y);
 
       double start=usecond();
-      for(int64_t i=0;i<Nloop;i++){
+      for(int i=0;i<Nloop;i++){
 	mult(z,x,y);
       }
       double stop=usecond();
@@ -145,20 +144,20 @@ int main (int argc, char ** argv)
   std::cout<<GridLogMessage << "  L  "<<"\t\t"<<"bytes"<<"\t\t\t"<<"GB/s\t\t GFlop/s"<<std::endl;
   std::cout<<GridLogMessage << "----------------------------------------------------------"<<std::endl;
 
-  for(int lat=2;lat<=LMAX;lat+=2){
+  for(int lat=2;lat<=32;lat+=2){
 
       std::vector<int> latt_size  ({lat*mpi_layout[0],lat*mpi_layout[1],lat*mpi_layout[2],lat*mpi_layout[3]});
-      int64_t vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
+      int vol = latt_size[0]*latt_size[1]*latt_size[2]*latt_size[3];
 
       GridCartesian     Grid(latt_size,simd_layout,mpi_layout);
-      GridParallelRNG          pRNG(&Grid);      pRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9}));
+      //      GridParallelRNG          pRNG(&Grid);      pRNG.SeedRandomDevice();
 
-      LatticeColourMatrix z(&Grid); random(pRNG,z);
-      LatticeColourMatrix x(&Grid); random(pRNG,x);
-      LatticeColourMatrix y(&Grid); random(pRNG,y);
+      LatticeColourMatrix z(&Grid); //random(pRNG,z);
+      LatticeColourMatrix x(&Grid); //random(pRNG,x);
+      LatticeColourMatrix y(&Grid); //random(pRNG,y);
 
       double start=usecond();
-      for(int64_t i=0;i<Nloop;i++){
+      for(int i=0;i<Nloop;i++){
 	mac(z,x,y);
       }
       double stop=usecond();

benchmarks/Benchmark_wilson.cc

@@ -37,11 +37,11 @@ struct scal {
   d internal;
 };
 
-  Gamma::Algebra Gmu [] = {
-    Gamma::Algebra::GammaX,
-    Gamma::Algebra::GammaY,
-    Gamma::Algebra::GammaZ,
-    Gamma::Algebra::GammaT
+  Gamma::GammaMatrix Gmu [] = {
+    Gamma::GammaX,
+    Gamma::GammaY,
+    Gamma::GammaZ,
+    Gamma::GammaT
   };
 
 bool overlapComms = false;
@@ -58,7 +58,7 @@ int main (int argc, char ** argv)
   std::vector<int> simd_layout = GridDefaultSimd(Nd,vComplex::Nsimd());
   std::vector<int> mpi_layout  = GridDefaultMpi();
   GridCartesian               Grid(latt_size,simd_layout,mpi_layout);
-  GridRedBlackCartesian     RBGrid(&Grid);
+  GridRedBlackCartesian     RBGrid(latt_size,simd_layout,mpi_layout);
 
   int threads = GridThread::GetThreads();
   std::cout<<GridLogMessage << "Grid is setup to use "<<threads<<" threads"<<std::endl;
@@ -69,7 +69,7 @@ int main (int argc, char ** argv)
   std::vector<int> seeds({1,2,3,4});
   GridParallelRNG          pRNG(&Grid);
   pRNG.SeedFixedIntegers(seeds);
-  //  pRNG.SeedFixedIntegers(std::vector<int>({45,12,81,9});
+  //  pRNG.SeedRandomDevice();
 
   LatticeFermion src   (&Grid); random(pRNG,src);
   LatticeFermion result(&Grid); result=zero;
@@ -106,7 +106,7 @@ int main (int argc, char ** argv)
   { // Naive wilson implementation
     ref = zero;
     for(int mu=0;mu<Nd;mu++){
-      //    ref =  src + Gamma(Gamma::Algebra::GammaX)* src ; // 1-gamma_x
+      //    ref =  src + Gamma(Gamma::GammaX)* src ; // 1-gamma_x
       tmp = U[mu]*Cshift(src,mu,1);
       for(int i=0;i<ref._odata.size();i++){
 	ref._odata[i]+= tmp._odata[i] - Gamma(Gmu[mu])*tmp._odata[i]; ;
@@ -159,7 +159,7 @@ int main (int argc, char ** argv)
     ref = zero;
     for(int mu=0;mu<Nd;mu++){
 
-      //    ref =  src - Gamma(Gamma::Algebra::GammaX)* src ; // 1+gamma_x
+      //    ref =  src - Gamma(Gamma::GammaX)* src ; // 1+gamma_x
       tmp = U[mu]*Cshift(src,mu,1);
       for(int i=0;i<ref._odata.size();i++){
 	ref._odata[i]+= tmp._odata[i] + Gamma(Gmu[mu])*tmp._odata[i]; ;

benchmarks/Benchmark_wilson_sweep.cc

@@ -30,11 +30,11 @@ struct scal {
   d internal;
 };
 
-Gamma::Algebra Gmu [] = {
-    Gamma::Algebra::GammaX,
-    Gamma::Algebra::GammaY,
-    Gamma::Algebra::GammaZ,
-    Gamma::Algebra::GammaT
+Gamma::GammaMatrix Gmu [] = {
+  Gamma::GammaX,
+  Gamma::GammaY,
+  Gamma::GammaZ,
+  Gamma::GammaT
 };
 
 bool overlapComms = false;
@@ -93,7 +93,7 @@ int main (int argc, char ** argv)
 	  std::cout << latt_size.back() << "\t\t";
 
 	  GridCartesian           Grid(latt_size,simd_layout,mpi_layout);
-	  GridRedBlackCartesian RBGrid(&Grid);
+	  GridRedBlackCartesian RBGrid(latt_size,simd_layout,mpi_layout);
 
 	  GridParallelRNG  pRNG(&Grid); pRNG.SeedFixedIntegers(seeds);
 	  LatticeGaugeField Umu(&Grid); random(pRNG,Umu);

benchmarks/Makefile.am

@@ -1,7 +1,11 @@
 include Make.inc
 
-bench-local: all
-	./Benchmark_su3
-	./Benchmark_memory_bandwidth
-	./Benchmark_wilson
-	./Benchmark_dwf --dslash-unroll
+simple: simple_su3_test.o simple_su3_expr.o simple_simd_test.o
+
+EXTRA_LIBRARIES = libsimple_su3_test.a libsimple_su3_expr.a libsimple_simd_test.a
+
+libsimple_su3_test_a_SOURCES = simple_su3_test.cc
+
+libsimple_su3_expr_a_SOURCES = simple_su3_expr.cc
+
+libsimple_simd_test_a_SOURCES = simple_simd_test.cc

bootstrap.sh

@@ -1,9 +1,11 @@
 #!/usr/bin/env bash
 
-EIGEN_URL='http://bitbucket.org/eigen/eigen/get/3.3.3.tar.bz2'
+EIGEN_URL='http://bitbucket.org/eigen/eigen/get/3.2.9.tar.bz2'
 
 echo "-- deploying Eigen source..."
-wget ${EIGEN_URL} --no-check-certificate && ./scripts/update_eigen.sh `basename ${EIGEN_URL}` && rm `basename ${EIGEN_URL}`
+wget ${EIGEN_URL} --no-check-certificate
+./scripts/update_eigen.sh `basename ${EIGEN_URL}`
+rm `basename ${EIGEN_URL}`
 
 echo '-- generating Make.inc files...'
 ./scripts/filelist

configure.ac

@@ -1,23 +1,16 @@
 AC_PREREQ([2.63])
-AC_INIT([Grid], [0.7.0], [https://github.com/paboyle/Grid], [Grid])
+AC_INIT([Grid], [0.6.0], [https://github.com/paboyle/Grid], [Grid])
 AC_CANONICAL_BUILD
 AC_CANONICAL_HOST
 AC_CANONICAL_TARGET
-AM_INIT_AUTOMAKE([subdir-objects 1.13])
-AM_EXTRA_RECURSIVE_TARGETS([tests bench])
+AM_INIT_AUTOMAKE(subdir-objects)
 AC_CONFIG_MACRO_DIR([m4])
 AC_CONFIG_SRCDIR([lib/Grid.h])
-AC_CONFIG_HEADERS([lib/Config.h],[sed -i 's|PACKAGE_|GRID_|' lib/Config.h])
+AC_CONFIG_HEADERS([lib/Config.h])
 m4_ifdef([AM_SILENT_RULES], [AM_SILENT_RULES([yes])])
 
-################ Get git info
-#AC_REVISION([m4_esyscmd_s([./scripts/configure.commit])])
-
-################ Set flags
-# do not move!
-CXXFLAGS="-O3 $CXXFLAGS"
-
 ############### Checks for programs
+CXXFLAGS="-O3 $CXXFLAGS"
 AC_PROG_CXX
 AC_PROG_RANLIB
 
@@ -31,14 +24,12 @@ AX_GXX_VERSION
 AC_DEFINE_UNQUOTED([GXX_VERSION],["$GXX_VERSION"],
       [version of g++ that will compile the code])
 
-
-
 ############### Checks for typedefs, structures, and compiler characteristics
 AC_TYPE_SIZE_T
 AC_TYPE_UINT32_T
 AC_TYPE_UINT64_T
 
-############### OpenMP
+############### OpenMP 
 AC_OPENMP
 ac_openmp=no
 if test "${OPENMP_CXXFLAGS}X" != "X"; then
@@ -54,14 +45,9 @@ AC_CHECK_HEADERS(malloc/malloc.h)
 AC_CHECK_HEADERS(malloc.h)
 AC_CHECK_HEADERS(endian.h)
 AC_CHECK_HEADERS(execinfo.h)
-AC_CHECK_HEADERS(numaif.h)
 AC_CHECK_DECLS([ntohll],[], [], [[#include <arpa/inet.h>]])
 AC_CHECK_DECLS([be64toh],[], [], [[#include <arpa/inet.h>]])
 
-############## Standard libraries
-AC_CHECK_LIB([m],[cos])
-AC_CHECK_LIB([stdc++],[abort])
-
 ############### GMP and MPFR
 AC_ARG_WITH([gmp],
     [AS_HELP_STRING([--with-gmp=prefix],
@@ -74,23 +60,16 @@ AC_ARG_WITH([mpfr],
     [AM_CXXFLAGS="-I$with_mpfr/include $AM_CXXFLAGS"]
     [AM_LDFLAGS="-L$with_mpfr/lib $AM_LDFLAGS"])
 
-############### FFTW3
-AC_ARG_WITH([fftw],
+############### 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"])
 
-############### LIME
-AC_ARG_WITH([lime],
-            [AS_HELP_STRING([--with-lime=prefix],
-            [try this for a non-standard install prefix of the LIME library])],
-            [AM_CXXFLAGS="-I$with_lime/include $AM_CXXFLAGS"]
-            [AM_LDFLAGS="-L$with_lime/lib $AM_LDFLAGS"])
-
-############### lapack
+############### lapack 
 AC_ARG_ENABLE([lapack],
-    [AC_HELP_STRING([--enable-lapack=yes|no|prefix], [enable LAPACK])],
+    [AC_HELP_STRING([--enable-lapack=yes|no|prefix], [enable LAPACK])], 
     [ac_LAPACK=${enable_lapack}], [ac_LAPACK=no])
 
 case ${ac_LAPACK} in
@@ -104,18 +83,6 @@ case ${ac_LAPACK} in
         AC_DEFINE([USE_LAPACK],[1],[use LAPACK]);;
 esac
 
-############### FP16 conversions
-AC_ARG_ENABLE([sfw-fp16],
-    [AC_HELP_STRING([--enable-sfw-fp16=yes|no], [enable software fp16 comms])],
-    [ac_SFW_FP16=${enable_sfw_fp16}], [ac_SFW_FP16=yes])
-case ${ac_SFW_FP16} in
-    yes)
-      AC_DEFINE([SFW_FP16],[1],[software conversion to fp16]);;
-    no);;
-    *)
-      AC_MSG_ERROR(["SFW FP16 option not supported ${ac_SFW_FP16}"]);;
-esac
-
 ############### MKL
 AC_ARG_ENABLE([mkl],
     [AC_HELP_STRING([--enable-mkl=yes|no|prefix], [enable Intel MKL for LAPACK & FFTW])],
@@ -132,16 +99,9 @@ case ${ac_MKL} in
         AC_DEFINE([USE_MKL], [1], [Define to 1 if you use the Intel MKL]);;
 esac
 
-############### HDF5
-AC_ARG_WITH([hdf5],
-    [AS_HELP_STRING([--with-hdf5=prefix],
-    [try this for a non-standard install prefix of the HDF5 library])],
-    [AM_CXXFLAGS="-I$with_hdf5/include $AM_CXXFLAGS"]
-    [AM_LDFLAGS="-L$with_hdf5/lib $AM_LDFLAGS"])
-
 ############### first-touch
 AC_ARG_ENABLE([numa],
-    [AC_HELP_STRING([--enable-numa=yes|no|prefix], [enable first touch numa opt])],
+    [AC_HELP_STRING([--enable-numa=yes|no|prefix], [enable first touch numa opt])], 
     [ac_NUMA=${enable_NUMA}],[ac_NUMA=no])
 
 case ${ac_NUMA} in
@@ -167,8 +127,8 @@ if test "${ac_MKL}x" != "nox"; then
 fi
 
 AC_SEARCH_LIBS([__gmpf_init], [gmp],
-               [AC_SEARCH_LIBS([mpfr_init], [mpfr],
-                               [AC_DEFINE([HAVE_LIBMPFR], [1],
+               [AC_SEARCH_LIBS([mpfr_init], [mpfr], 
+                               [AC_DEFINE([HAVE_LIBMPFR], [1], 
                                           [Define to 1 if you have the `MPFR' library])]
                                [have_mpfr=true], [AC_MSG_ERROR([MPFR library not found])])]
                [AC_DEFINE([HAVE_LIBGMP], [1], [Define to 1 if you have the `GMP' library])]
@@ -177,7 +137,7 @@ AC_SEARCH_LIBS([__gmpf_init], [gmp],
 if test "${ac_LAPACK}x" != "nox"; then
     AC_SEARCH_LIBS([LAPACKE_sbdsdc], [lapack], [],
                    [AC_MSG_ERROR("LAPACK enabled but library not found")])
-fi
+fi   
 
 AC_SEARCH_LIBS([fftw_execute], [fftw3],
                [AC_SEARCH_LIBS([fftwf_execute], [fftw3f], [],
@@ -185,29 +145,6 @@ AC_SEARCH_LIBS([fftw_execute], [fftw3],
                [AC_DEFINE([HAVE_FFTW], [1], [Define to 1 if you have the `FFTW' library])]
                [have_fftw=true])
 
-AC_SEARCH_LIBS([limeCreateReader], [lime],
-               [AC_DEFINE([HAVE_LIME], [1], [Define to 1 if you have the `LIME' library])]
-               [have_lime=true],
-	       [AC_MSG_WARN(C-LIME library was not found in your system.
-In order to use ILGG file format please install or provide the correct path to your installation
-Info at: http://usqcd.jlab.org/usqcd-docs/c-lime/)])
-
-AC_SEARCH_LIBS([crc32], [z],
-               [AC_DEFINE([HAVE_ZLIB], [1], [Define to 1 if you have the `LIBZ' library])]
-               [have_zlib=true] [LIBS="${LIBS} -lz"],
-	       [AC_MSG_ERROR(zlib library was not found in your system.)])
-
-AC_SEARCH_LIBS([move_pages], [numa],
-               [AC_DEFINE([HAVE_LIBNUMA], [1], [Define to 1 if you have the `LIBNUMA' library])]
-               [have_libnuma=true] [LIBS="${LIBS} -lnuma"],
-	       [AC_MSG_WARN(libnuma library was not found in your system. Some optimisations will not apply)])
-
-AC_SEARCH_LIBS([H5Fopen], [hdf5_cpp],
-               [AC_DEFINE([HAVE_HDF5], [1], [Define to 1 if you have the `HDF5' library])]
-               [have_hdf5=true]
-               [LIBS="${LIBS} -lhdf5"], [], [-lhdf5])
-AM_CONDITIONAL(BUILD_HDF5, [ test "${have_hdf5}X" == "trueX" ])
-
 CXXFLAGS=$CXXFLAGS_CPY
 LDFLAGS=$LDFLAGS_CPY
 
@@ -226,26 +163,19 @@ case ${ax_cv_cxx_compiler_vendor} in
     case ${ac_SIMD} in
       SSE4)
         AC_DEFINE([SSE4],[1],[SSE4 intrinsics])
-	case ${ac_SFW_FP16} in
-	  yes)
-	  SIMD_FLAGS='-msse4.2';;
-	  no)
-	  SIMD_FLAGS='-msse4.2 -mf16c';;
-	  *)
-          AC_MSG_ERROR(["SFW_FP16 must be either yes or no value ${ac_SFW_FP16} "]);;
-	esac;;
+        SIMD_FLAGS='-msse4.2';;
       AVX)
         AC_DEFINE([AVX1],[1],[AVX intrinsics])
-        SIMD_FLAGS='-mavx -mf16c';;
+        SIMD_FLAGS='-mavx';;
       AVXFMA4)
         AC_DEFINE([AVXFMA4],[1],[AVX intrinsics with FMA4])
-        SIMD_FLAGS='-mavx -mfma4 -mf16c';;
+        SIMD_FLAGS='-mavx -mfma4';;
       AVXFMA)
         AC_DEFINE([AVXFMA],[1],[AVX intrinsics with FMA3])
-        SIMD_FLAGS='-mavx -mfma -mf16c';;
+        SIMD_FLAGS='-mavx -mfma';;
       AVX2)
         AC_DEFINE([AVX2],[1],[AVX2 intrinsics])
-        SIMD_FLAGS='-mavx2 -mfma -mf16c';;
+        SIMD_FLAGS='-mavx2 -mfma';;
       AVX512)
         AC_DEFINE([AVX512],[1],[AVX512 intrinsics])
         SIMD_FLAGS='-mavx512f -mavx512pf -mavx512er -mavx512cd';;
@@ -254,7 +184,6 @@ case ${ax_cv_cxx_compiler_vendor} in
         SIMD_FLAGS='';;
       KNL)
         AC_DEFINE([AVX512],[1],[AVX512 intrinsics])
-        AC_DEFINE([KNL],[1],[Knights landing processor])
         SIMD_FLAGS='-march=knl';;
       GEN)
         AC_DEFINE([GEN],[1],[generic vector code])
@@ -262,9 +191,6 @@ case ${ax_cv_cxx_compiler_vendor} in
                            [generic SIMD vector width (in bytes)])
         SIMD_GEN_WIDTH_MSG=" (width= $ac_gen_simd_width)"
         SIMD_FLAGS='';;
-      NEONv8)
-        AC_DEFINE([NEONV8],[1],[ARMv8 NEON])
-        SIMD_FLAGS='-march=armv8-a';;
       QPX|BGQ)
         AC_DEFINE([QPX],[1],[QPX intrinsics for BG/Q])
         SIMD_FLAGS='';;
@@ -293,7 +219,6 @@ case ${ax_cv_cxx_compiler_vendor} in
         SIMD_FLAGS='';;
       KNL)
         AC_DEFINE([AVX512],[1],[AVX512 intrinsics for Knights Landing])
-        AC_DEFINE([KNL],[1],[Knights landing processor])
         SIMD_FLAGS='-xmic-avx512';;
       GEN)
         AC_DEFINE([GEN],[1],[generic vector code])
@@ -331,39 +256,10 @@ case ${ac_PRECISION} in
      double)
        AC_DEFINE([GRID_DEFAULT_PRECISION_DOUBLE],[1],[GRID_DEFAULT_PRECISION is DOUBLE] )
      ;;
-     *)
-     AC_MSG_ERROR([${ac_PRECISION} unsupported --enable-precision option]);
-     ;;
 esac
 
-######################  Shared memory allocation technique under MPI3
-AC_ARG_ENABLE([shm],[AC_HELP_STRING([--enable-shm=shmopen|hugetlbfs],
-              [Select SHM allocation technique])],[ac_SHM=${enable_shm}],[ac_SHM=shmopen])
-
-case ${ac_SHM} in
-
-     shmopen)
-     AC_DEFINE([GRID_MPI3_SHMOPEN],[1],[GRID_MPI3_SHMOPEN] )
-     ;;
-
-     hugetlbfs)
-     AC_DEFINE([GRID_MPI3_SHMMMAP],[1],[GRID_MPI3_SHMMMAP] )
-     ;;
-
-     *)
-     AC_MSG_ERROR([${ac_SHM} unsupported --enable-shm option]);
-     ;;
-esac
-
-######################  Shared base path for SHMMMAP
-AC_ARG_ENABLE([shmpath],[AC_HELP_STRING([--enable-shmpath=path],
-              [Select SHM mmap base path for hugetlbfs])],
-	      [ac_SHMPATH=${enable_shmpath}],
-	      [ac_SHMPATH=/var/lib/hugetlbfs/pagesize-2MB/])
-AC_DEFINE_UNQUOTED([GRID_SHM_PATH],["$ac_SHMPATH"],[Path to a hugetlbfs filesystem for MMAPing])
-
 ############### communication type selection
-AC_ARG_ENABLE([comms],[AC_HELP_STRING([--enable-comms=none|mpi|mpi-auto],
+AC_ARG_ENABLE([comms],[AC_HELP_STRING([--enable-comms=none|mpi|mpi-auto|mpi3|mpi3-auto|shmem],
               [Select communications])],[ac_COMMS=${enable_comms}],[ac_COMMS=none])
 
 case ${ac_COMMS} in
@@ -371,12 +267,24 @@ case ${ac_COMMS} in
         AC_DEFINE([GRID_COMMS_NONE],[1],[GRID_COMMS_NONE] )
         comms_type='none'
      ;;
-     mpi*)
+     mpi3l*)
+       AC_DEFINE([GRID_COMMS_MPI3L],[1],[GRID_COMMS_MPI3L] )
+       comms_type='mpi3l'
+     ;;
+     mpi3*)
         AC_DEFINE([GRID_COMMS_MPI3],[1],[GRID_COMMS_MPI3] )
         comms_type='mpi3'
      ;;
+     mpi*)
+        AC_DEFINE([GRID_COMMS_MPI],[1],[GRID_COMMS_MPI] )
+        comms_type='mpi'
+     ;;
+     shmem)
+        AC_DEFINE([GRID_COMMS_SHMEM],[1],[GRID_COMMS_SHMEM] )
+        comms_type='shmem'
+     ;;
      *)
-        AC_MSG_ERROR([${ac_COMMS} unsupported --enable-comms option]);
+        AC_MSG_ERROR([${ac_COMMS} unsupported --enable-comms option]); 
      ;;
 esac
 case ${ac_COMMS} in
@@ -394,13 +302,13 @@ esac
 AM_CONDITIONAL(BUILD_COMMS_SHMEM, [ test "${comms_type}X" == "shmemX" ])
 AM_CONDITIONAL(BUILD_COMMS_MPI,   [ test "${comms_type}X" == "mpiX" ])
 AM_CONDITIONAL(BUILD_COMMS_MPI3,  [ test "${comms_type}X" == "mpi3X" ] )
-AM_CONDITIONAL(BUILD_COMMS_MPIT,  [ test "${comms_type}X" == "mpitX" ] )
+AM_CONDITIONAL(BUILD_COMMS_MPI3L, [ test "${comms_type}X" == "mpi3lX" ] )
 AM_CONDITIONAL(BUILD_COMMS_NONE,  [ test "${comms_type}X" == "noneX" ])
 
 ############### RNG selection
-AC_ARG_ENABLE([rng],[AC_HELP_STRING([--enable-rng=ranlux48|mt19937|sitmo],\
+AC_ARG_ENABLE([rng],[AC_HELP_STRING([--enable-rng=ranlux48|mt19937],\
 	            [Select Random Number Generator to be used])],\
-	            [ac_RNG=${enable_rng}],[ac_RNG=sitmo])
+	            [ac_RNG=${enable_rng}],[ac_RNG=ranlux48])
 
 case ${ac_RNG} in
      ranlux48)
@@ -409,11 +317,8 @@ case ${ac_RNG} in
      mt19937)
       AC_DEFINE([RNG_MT19937],[1],[RNG_MT19937] )
      ;;
-     sitmo)
-      AC_DEFINE([RNG_SITMO],[1],[RNG_SITMO] )
-     ;;
      *)
-      AC_MSG_ERROR([${ac_RNG} unsupported --enable-rng option]);
+      AC_MSG_ERROR([${ac_RNG} unsupported --enable-rng option]); 
      ;;
 esac
 
@@ -430,7 +335,7 @@ case ${ac_TIMERS} in
       AC_DEFINE([TIMERS_OFF],[1],[TIMERS_OFF] )
      ;;
      *)
-      AC_MSG_ERROR([${ac_TIMERS} unsupported --enable-timers option]);
+      AC_MSG_ERROR([${ac_TIMERS} unsupported --enable-timers option]); 
      ;;
 esac
 
@@ -442,7 +347,7 @@ case ${ac_CHROMA} in
      yes|no)
      ;;
      *)
-       AC_MSG_ERROR([${ac_CHROMA} unsupported --enable-chroma option]);
+       AC_MSG_ERROR([${ac_CHROMA} unsupported --enable-chroma option]); 
      ;;
 esac
 
@@ -463,31 +368,29 @@ DX_INIT_DOXYGEN([$PACKAGE_NAME], [doxygen.cfg])
 
 ############### Ouput
 cwd=`pwd -P`; cd ${srcdir}; abs_srcdir=`pwd -P`; cd ${cwd}
-GRID_CXXFLAGS="$AM_CXXFLAGS $CXXFLAGS"
-GRID_LDFLAGS="$AM_LDFLAGS $LDFLAGS"
-GRID_LIBS=$LIBS
-GRID_SHORT_SHA=`git rev-parse --short HEAD`
-GRID_SHA=`git rev-parse HEAD`
-GRID_BRANCH=`git rev-parse --abbrev-ref HEAD`
 AM_CXXFLAGS="-I${abs_srcdir}/include $AM_CXXFLAGS"
 AM_CFLAGS="-I${abs_srcdir}/include $AM_CFLAGS"
 AM_LDFLAGS="-L${cwd}/lib $AM_LDFLAGS"
 AC_SUBST([AM_CFLAGS])
 AC_SUBST([AM_CXXFLAGS])
 AC_SUBST([AM_LDFLAGS])
-AC_SUBST([GRID_CXXFLAGS])
-AC_SUBST([GRID_LDFLAGS])
-AC_SUBST([GRID_LIBS])
-AC_SUBST([GRID_SHA])
-AC_SUBST([GRID_BRANCH])
-
-git_commit=`cd $srcdir && ./scripts/configure.commit`
+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
 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
------ GIT VERSION -------------------------------------
-$git_commit
+
 ----- PLATFORM ----------------------------------------
 architecture (build)        : $build_cpu
 os (build)                  : $build_os
@@ -497,18 +400,13 @@ compiler vendor             : ${ax_cv_cxx_compiler_vendor}
 compiler version            : ${ax_cv_gxx_version}
 ----- BUILD OPTIONS -----------------------------------
 SIMD                        : ${ac_SIMD}${SIMD_GEN_WIDTH_MSG}
-Threading                   : ${ac_openmp}
+Threading                   : ${ac_openmp} 
 Communications type         : ${comms_type}
-Shared memory allocator     : ${ac_SHM}
-Shared memory mmap path     : ${ac_SHMPATH}
 Default precision           : ${ac_PRECISION}
-Software FP16 conversion    : ${ac_SFW_FP16}
-RNG choice                  : ${ac_RNG}
+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`
-LIME (ILDG support)         : `if test "x$have_lime" = xtrue; then echo yes; else echo no; fi`
-HDF5                        : `if test "x$have_hdf5" = xtrue; then echo yes; else echo no; fi`
 build DOXYGEN documentation : `if test "$DX_FLAG_doc" = '1'; then echo yes; else echo no; fi`
 ----- BUILD FLAGS -------------------------------------
 CXXFLAGS:
@@ -517,33 +415,7 @@ LDFLAGS:
 `echo ${AM_LDFLAGS} ${LDFLAGS} | tr ' ' '\n' | sed 's/^-/    -/g'`
 LIBS:
 `echo ${LIBS} | tr ' ' '\n' | sed 's/^-/    -/g'`
--------------------------------------------------------" > grid.configure.summary
-
-GRID_SUMMARY="`cat grid.configure.summary`"
-AM_SUBST_NOTMAKE([GRID_SUMMARY])
-AC_SUBST([GRID_SUMMARY])
-
-AC_CONFIG_FILES([grid-config], [chmod +x grid-config])
-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/hadrons/Makefile)
-AC_CONFIG_FILES(tests/hmc/Makefile)
-AC_CONFIG_FILES(tests/solver/Makefile)
-AC_CONFIG_FILES(tests/lanczos/Makefile)
-AC_CONFIG_FILES(tests/smearing/Makefile)
-AC_CONFIG_FILES(tests/qdpxx/Makefile)
-AC_CONFIG_FILES(tests/testu01/Makefile)
-AC_CONFIG_FILES(benchmarks/Makefile)
-AC_CONFIG_FILES(extras/Makefile)
-AC_CONFIG_FILES(extras/Hadrons/Makefile)
-AC_OUTPUT
-
+-------------------------------------------------------" > config.summary
 echo ""
-cat grid.configure.summary
+cat config.summary
 echo ""
-

extras/Hadrons/Application.cc

@@ -1,235 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Application.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Application.hpp>
-#include <Grid/Hadrons/GeneticScheduler.hpp>
-
-using namespace Grid;
-using namespace QCD;
-using namespace Hadrons;
-
-#define BIG_SEP "==============="
-#define SEP     "---------------"
-
-/******************************************************************************
- *                       Application implementation                           *
- ******************************************************************************/
-// constructors ////////////////////////////////////////////////////////////////
-Application::Application(void)
-{
-    initLogger();
-    LOG(Message) << "Modules available:" << std::endl;
-    auto list = ModuleFactory::getInstance().getBuilderList();
-    for (auto &m: list)
-    {
-        LOG(Message) << "  " << m << std::endl;
-    }
-    auto dim = GridDefaultLatt(), mpi = GridDefaultMpi(), loc(dim);
-    locVol_ = 1;
-    for (unsigned int d = 0; d < dim.size(); ++d)
-    {
-        loc[d]  /= mpi[d];
-        locVol_ *= loc[d];
-    }
-    LOG(Message) << "Global lattice: " << dim << std::endl;
-    LOG(Message) << "MPI partition : " << mpi << std::endl;
-    LOG(Message) << "Local lattice : " << loc << std::endl;
-}
-
-Application::Application(const Application::GlobalPar &par)
-: Application()
-{
-    setPar(par);
-}
-
-Application::Application(const std::string parameterFileName)
-: Application()
-{
-    parameterFileName_ = parameterFileName;
-}
-
-// access //////////////////////////////////////////////////////////////////////
-void Application::setPar(const Application::GlobalPar &par)
-{
-    par_ = par;
-    env().setSeed(strToVec<int>(par_.seed));
-}
-
-const Application::GlobalPar & Application::getPar(void)
-{
-    return par_;
-}
-
-// execute /////////////////////////////////////////////////////////////////////
-void Application::run(void)
-{
-    if (!parameterFileName_.empty() and (vm().getNModule() == 0))
-    {
-        parseParameterFile(parameterFileName_);
-    }
-    vm().printContent();
-    env().printContent();
-    schedule();
-    printSchedule();
-    configLoop();
-}
-
-// parse parameter file ////////////////////////////////////////////////////////
-class ObjectId: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(ObjectId,
-                                    std::string, name,
-                                    std::string, type);
-};
-
-void Application::parseParameterFile(const std::string parameterFileName)
-{
-    XmlReader reader(parameterFileName);
-    GlobalPar par;
-    ObjectId  id;
-    
-    LOG(Message) << "Building application from '" << parameterFileName << "'..." << std::endl;
-    read(reader, "parameters", par);
-    setPar(par);
-    if (!push(reader, "modules"))
-    {
-        HADRON_ERROR(Parsing, "Cannot open node 'modules' in parameter file '" 
-                              + parameterFileName + "'");
-    }
-    if (!push(reader, "module"))
-    {
-        HADRON_ERROR(Parsing, "Cannot open node 'modules/module' in parameter file '" 
-                              + parameterFileName + "'");
-    }
-    do
-    {
-        read(reader, "id", id);
-        vm().createModule(id.name, id.type, reader);
-    } while (reader.nextElement("module"));
-    pop(reader);
-    pop(reader);
-}
-
-void Application::saveParameterFile(const std::string parameterFileName)
-{
-    XmlWriter          writer(parameterFileName);
-    ObjectId           id;
-    const unsigned int nMod = vm().getNModule();
-    
-    LOG(Message) << "Saving application to '" << parameterFileName << "'..." << std::endl;
-    write(writer, "parameters", getPar());
-    push(writer, "modules");
-    for (unsigned int i = 0; i < nMod; ++i)
-    {
-        push(writer, "module");
-        id.name = vm().getModuleName(i);
-        id.type = vm().getModule(i)->getRegisteredName();
-        write(writer, "id", id);
-        vm().getModule(i)->saveParameters(writer, "options");
-        pop(writer);
-    }
-    pop(writer);
-    pop(writer);
-}
-
-// schedule computation ////////////////////////////////////////////////////////
-void Application::schedule(void)
-{
-    if (!scheduled_ and !loadedSchedule_)
-    {
-        program_   = vm().schedule(par_.genetic);
-        scheduled_ = true;
-    }
-}
-
-void Application::saveSchedule(const std::string filename)
-{
-    TextWriter               writer(filename);
-    std::vector<std::string> program;
-    
-    if (!scheduled_)
-    {
-        HADRON_ERROR(Definition, "Computation not scheduled");
-    }
-    LOG(Message) << "Saving current schedule to '" << filename << "'..."
-                 << std::endl;
-    for (auto address: program_)
-    {
-        program.push_back(vm().getModuleName(address));
-    }
-    write(writer, "schedule", program);
-}
-
-void Application::loadSchedule(const std::string filename)
-{
-    TextReader               reader(filename);
-    std::vector<std::string> program;
-    
-    LOG(Message) << "Loading schedule from '" << filename << "'..."
-                 << std::endl;
-    read(reader, "schedule", program);
-    program_.clear();
-    for (auto &name: program)
-    {
-        program_.push_back(vm().getModuleAddress(name));
-    }
-    loadedSchedule_ = true;
-}
-
-void Application::printSchedule(void)
-{
-    if (!scheduled_)
-    {
-        HADRON_ERROR(Definition, "Computation not scheduled");
-    }
-    auto peak = vm().memoryNeeded(program_);
-    LOG(Message) << "Schedule (memory needed: " << sizeString(peak) << "):"
-                 << std::endl;
-    for (unsigned int i = 0; i < program_.size(); ++i)
-    {
-        LOG(Message) << std::setw(4) << i + 1 << ": "
-                     << vm().getModuleName(program_[i]) << std::endl;
-    }
-}
-
-// loop on configurations //////////////////////////////////////////////////////
-void Application::configLoop(void)
-{
-    auto range = par_.trajCounter;
-    
-    for (unsigned int t = range.start; t < range.end; t += range.step)
-    {
-        LOG(Message) << BIG_SEP << " Starting measurement for trajectory " << t
-                     << " " << BIG_SEP << std::endl;
-        vm().setTrajectory(t);
-        vm().executeProgram(program_);
-    }
-    LOG(Message) << BIG_SEP << " End of measurement " << BIG_SEP << std::endl;
-    env().freeAll();
-}

extras/Hadrons/Application.hpp

@@ -1,121 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Application.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_Application_hpp_
-#define Hadrons_Application_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/VirtualMachine.hpp>
-#include <Grid/Hadrons/Modules.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         Main program manager                               *
- ******************************************************************************/
-class Application
-{
-public:
-    class TrajRange: Serializable
-    {
-    public:
-        GRID_SERIALIZABLE_CLASS_MEMBERS(TrajRange,
-                                        unsigned int, start,
-                                        unsigned int, end,
-                                        unsigned int, step);
-    };
-    class GlobalPar: Serializable
-    {
-    public:
-        GRID_SERIALIZABLE_CLASS_MEMBERS(GlobalPar,
-                                        TrajRange,                  trajCounter,
-                                        VirtualMachine::GeneticPar, genetic,
-                                        std::string,                seed);
-    };
-public:
-    // constructors
-    Application(void);
-    Application(const GlobalPar &par);
-    Application(const std::string parameterFileName);
-    // destructor
-    virtual ~Application(void) = default;
-    // access
-    void              setPar(const GlobalPar &par);
-    const GlobalPar & getPar(void);
-    // module creation
-    template <typename M>
-    void createModule(const std::string name);
-    template <typename M>
-    void createModule(const std::string name, const typename M::Par &par);
-    // execute
-    void run(void);
-    // XML parameter file I/O
-    void parseParameterFile(const std::string parameterFileName);
-    void saveParameterFile(const std::string parameterFileName);
-    // schedule computation
-    void schedule(void);
-    void saveSchedule(const std::string filename);
-    void loadSchedule(const std::string filename);
-    void printSchedule(void);
-    // loop on configurations
-    void configLoop(void);
-private:
-    // environment shortcut
-    DEFINE_ENV_ALIAS;
-    // virtual machine shortcut
-    DEFINE_VM_ALIAS;
-private:
-    long unsigned int       locVol_;
-    std::string             parameterFileName_{""};
-    GlobalPar               par_;
-    VirtualMachine::Program program_;
-    bool                    scheduled_{false}, loadedSchedule_{false};
-};
-
-/******************************************************************************
- *                     Application template implementation                    *
- ******************************************************************************/
-// module creation /////////////////////////////////////////////////////////////
-template <typename M>
-void Application::createModule(const std::string name)
-{
-    vm().createModule<M>(name);
-    scheduled_ = false;
-}
-
-template <typename M>
-void Application::createModule(const std::string name,
-                               const typename M::Par &par)
-{
-    vm().createModule<M>(name, par);
-    scheduled_ = false;
-}
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_Application_hpp_

extras/Hadrons/Environment.cc

@@ -1,391 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Environment.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Environment.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-using namespace Grid;
-using namespace QCD;
-using namespace Hadrons;
-
-#define ERROR_NO_ADDRESS(address)\
-HADRON_ERROR(Definition, "no object with address " + std::to_string(address));
-
-/******************************************************************************
- *                       Environment implementation                           *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-Environment::Environment(void)
-{
-    dim_ = GridDefaultLatt();
-    nd_  = dim_.size();
-    grid4d_.reset(SpaceTimeGrid::makeFourDimGrid(
-        dim_, GridDefaultSimd(nd_, vComplex::Nsimd()),
-        GridDefaultMpi()));
-    gridRb4d_.reset(SpaceTimeGrid::makeFourDimRedBlackGrid(grid4d_.get()));
-    auto loc = getGrid()->LocalDimensions();
-    locVol_ = 1;
-    for (unsigned int d = 0; d < loc.size(); ++d)
-    {
-        locVol_ *= loc[d];
-    }
-    rng4d_.reset(new GridParallelRNG(grid4d_.get()));
-}
-
-// grids ///////////////////////////////////////////////////////////////////////
-void Environment::createGrid(const unsigned int Ls)
-{
-    if (grid5d_.find(Ls) == grid5d_.end())
-    {
-        auto g = getGrid();
-        
-        grid5d_[Ls].reset(SpaceTimeGrid::makeFiveDimGrid(Ls, g));
-        gridRb5d_[Ls].reset(SpaceTimeGrid::makeFiveDimRedBlackGrid(Ls, g));
-    }
-}
-
-GridCartesian * Environment::getGrid(const unsigned int Ls) const
-{
-    try
-    {
-        if (Ls == 1)
-        {
-            return grid4d_.get();
-        }
-        else
-        {
-            return grid5d_.at(Ls).get();
-        }
-    }
-    catch(std::out_of_range &)
-    {
-        HADRON_ERROR(Definition, "no grid with Ls= " + std::to_string(Ls));
-    }
-}
-
-GridRedBlackCartesian * Environment::getRbGrid(const unsigned int Ls) const
-{
-    try
-    {
-        if (Ls == 1)
-        {
-            return gridRb4d_.get();
-        }
-        else
-        {
-            return gridRb5d_.at(Ls).get();
-        }
-    }
-    catch(std::out_of_range &)
-    {
-        HADRON_ERROR(Definition, "no red-black 5D grid with Ls= " + std::to_string(Ls));
-    }
-}
-
-unsigned int Environment::getNd(void) const
-{
-    return nd_;
-}
-
-std::vector<int> Environment::getDim(void) const
-{
-    return dim_;
-}
-
-int Environment::getDim(const unsigned int mu) const
-{
-    return dim_[mu];
-}
-
-unsigned long int Environment::getLocalVolume(void) const
-{
-    return locVol_;
-}
-
-// random number generator /////////////////////////////////////////////////////
-void Environment::setSeed(const std::vector<int> &seed)
-{
-    rng4d_->SeedFixedIntegers(seed);
-}
-
-GridParallelRNG * Environment::get4dRng(void) const
-{
-    return rng4d_.get();
-}
-
-// general memory management ///////////////////////////////////////////////////
-void Environment::addObject(const std::string name, const int moduleAddress)
-{
-    if (!hasObject(name))
-    {
-        ObjInfo info;
-        
-        info.name   = name;
-        info.module = moduleAddress;
-        info.data   = nullptr;
-        object_.push_back(std::move(info));
-        objectAddress_[name] = static_cast<unsigned int>(object_.size() - 1);
-    }
-    else
-    {
-        HADRON_ERROR(Definition, "object '" + name + "' already exists");
-    }
-}
-
-void Environment::setObjectModule(const unsigned int objAddress,
-                                  const int modAddress)
-{
-    object_[objAddress].module = modAddress;
-}
-
-unsigned int Environment::getMaxAddress(void) const
-{
-    return object_.size();
-}
-
-unsigned int Environment::getObjectAddress(const std::string name) const
-{
-    if (hasObject(name))
-    {
-        return objectAddress_.at(name);
-    }
-    else
-    {
-        HADRON_ERROR(Definition, "no object with name '" + name + "'");
-    }
-}
-
-std::string Environment::getObjectName(const unsigned int address) const
-{
-    if (hasObject(address))
-    {
-        return object_[address].name;
-    }
-    else
-    {
-        ERROR_NO_ADDRESS(address);
-    }
-}
-
-std::string Environment::getObjectType(const unsigned int address) const
-{
-    if (hasObject(address))
-    {
-        if (object_[address].type)
-        {
-            return typeName(object_[address].type);
-        }
-        else
-        {
-            return "<no type>";
-        }
-    }
-    else
-    {
-        ERROR_NO_ADDRESS(address);
-    }
-}
-
-std::string Environment::getObjectType(const std::string name) const
-{
-    return getObjectType(getObjectAddress(name));
-}
-
-Environment::Size Environment::getObjectSize(const unsigned int address) const
-{
-    if (hasObject(address))
-    {
-        return object_[address].size;
-    }
-    else
-    {
-        ERROR_NO_ADDRESS(address);
-    }
-}
-
-Environment::Size Environment::getObjectSize(const std::string name) const
-{
-    return getObjectSize(getObjectAddress(name));
-}
-
-Environment::Storage Environment::getObjectStorage(const unsigned int address) const
-{
-    if (hasObject(address))
-    {
-        return object_[address].storage;
-    }
-    else
-    {
-        ERROR_NO_ADDRESS(address);
-    }
-}
-
-Environment::Storage Environment::getObjectStorage(const std::string name) const
-{
-    return getObjectStorage(getObjectAddress(name));
-}
-
-int Environment::getObjectModule(const unsigned int address) const
-{
-    if (hasObject(address))
-    {
-        return object_[address].module;
-    }
-    else
-    {
-        ERROR_NO_ADDRESS(address);
-    }
-}
-
-int Environment::getObjectModule(const std::string name) const
-{
-    return getObjectModule(getObjectAddress(name));
-}
-
-unsigned int Environment::getObjectLs(const unsigned int address) const
-{
-    if (hasObject(address))
-    {
-        return object_[address].Ls;
-    }
-    else
-    {
-        ERROR_NO_ADDRESS(address);
-    }
-}
-
-unsigned int Environment::getObjectLs(const std::string name) const
-{
-    return getObjectLs(getObjectAddress(name));
-}
-
-bool Environment::hasObject(const unsigned int address) const
-{
-    return (address < object_.size());
-}
-
-bool Environment::hasObject(const std::string name) const
-{
-    auto it = objectAddress_.find(name);
-    
-    return ((it != objectAddress_.end()) and hasObject(it->second));
-}
-
-bool Environment::hasCreatedObject(const unsigned int address) const
-{
-    if (hasObject(address))
-    {
-        return (object_[address].data != nullptr);
-    }
-    else
-    {
-        return false;
-    }
-}
-
-bool Environment::hasCreatedObject(const std::string name) const
-{
-    if (hasObject(name))
-    {
-        return hasCreatedObject(getObjectAddress(name));
-    }
-    else
-    {
-        return false;
-    }
-}
-
-bool Environment::isObject5d(const unsigned int address) const
-{
-    return (getObjectLs(address) > 1);
-}
-
-bool Environment::isObject5d(const std::string name) const
-{
-    return (getObjectLs(name) > 1);
-}
-
-Environment::Size Environment::getTotalSize(void) const
-{
-    Environment::Size size = 0;
-    
-    for (auto &o: object_)
-    {
-        size += o.size;
-    }
-    
-    return size;
-}
-
-void Environment::freeObject(const unsigned int address)
-{
-    if (hasCreatedObject(address))
-    {
-        LOG(Message) << "Destroying object '" << object_[address].name
-                     << "'" << std::endl;
-    }
-    object_[address].size = 0;
-    object_[address].type = nullptr;
-    object_[address].data.reset(nullptr);
-}
-
-void Environment::freeObject(const std::string name)
-{
-    freeObject(getObjectAddress(name));
-}
-
-void Environment::freeAll(void)
-{
-    for (unsigned int i = 0; i < object_.size(); ++i)
-    {
-        freeObject(i);
-    }
-}
-
-void Environment::protectObjects(const bool protect)
-{
-    protect_ = protect;
-}
-
-bool Environment::objectsProtected(void) const
-{
-    return protect_;
-}
-
-// print environment content ///////////////////////////////////////////////////
-void Environment::printContent(void) const
-{
-    LOG(Debug) << "Objects: " << std::endl;
-    for (unsigned int i = 0; i < object_.size(); ++i)
-    {
-        LOG(Debug) << std::setw(4) << i << ": "
-                   << getObjectName(i) << " ("
-                   << sizeString(getObjectSize(i)) << ")" << std::endl;
-    }
-}

extras/Hadrons/Environment.hpp

@@ -1,313 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Environment.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_Environment_hpp_
-#define Hadrons_Environment_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         Global environment                                 *
- ******************************************************************************/
-class Object
-{
-public:
-    Object(void) = default;
-    virtual ~Object(void) = default;
-};
-
-template <typename T>
-class Holder: public Object
-{
-public:
-    Holder(void) = default;
-    Holder(T *pt);
-    virtual ~Holder(void) = default;
-    T &       get(void) const;
-    T *       getPt(void) const;
-    void      reset(T *pt);
-private:
-    std::unique_ptr<T> objPt_{nullptr};
-};
-
-#define DEFINE_ENV_ALIAS \
-inline Environment & env(void) const\
-{\
-    return Environment::getInstance();\
-}
-
-class Environment
-{
-    SINGLETON(Environment);
-public:
-    typedef SITE_SIZE_TYPE                         Size;
-    typedef std::unique_ptr<GridCartesian>         GridPt;
-    typedef std::unique_ptr<GridRedBlackCartesian> GridRbPt;
-    typedef std::unique_ptr<GridParallelRNG>       RngPt;
-    enum class Storage {object, cache, temporary};
-private:
-    struct ObjInfo
-    {
-        Size                    size{0};
-        Storage                 storage{Storage::object};
-        unsigned int            Ls{0};
-        const std::type_info    *type{nullptr};
-        std::string             name;
-        int                     module{-1};
-        std::unique_ptr<Object> data{nullptr};
-    };
-public:
-    // grids
-    void                    createGrid(const unsigned int Ls);
-    GridCartesian *         getGrid(const unsigned int Ls = 1) const;
-    GridRedBlackCartesian * getRbGrid(const unsigned int Ls = 1) const;
-    std::vector<int>        getDim(void) const;
-    int                     getDim(const unsigned int mu) const;
-    unsigned long int       getLocalVolume(void) const;
-    unsigned int            getNd(void) const;
-    // random number generator
-    void                    setSeed(const std::vector<int> &seed);
-    GridParallelRNG *       get4dRng(void) const;
-    // general memory management
-    void                    addObject(const std::string name,
-                                      const int moduleAddress = -1);
-    template <typename B, typename T, typename ... Ts>
-    void                    createDerivedObject(const std::string name,
-                                                const Environment::Storage storage,
-                                                const unsigned int Ls,
-                                                Ts && ... args);
-    template <typename T, typename ... Ts>
-    void                    createObject(const std::string name,
-                                         const Environment::Storage storage,
-                                         const unsigned int Ls,
-                                         Ts && ... args);
-    void                    setObjectModule(const unsigned int objAddress,
-                                            const int modAddress);
-    template <typename T>
-    T *                     getObject(const unsigned int address) const;
-    template <typename T>
-    T *                     getObject(const std::string name) const;
-    unsigned int            getMaxAddress(void) const;
-    unsigned int            getObjectAddress(const std::string name) const;
-    std::string             getObjectName(const unsigned int address) const;
-    std::string             getObjectType(const unsigned int address) const;
-    std::string             getObjectType(const std::string name) const;
-    Size                    getObjectSize(const unsigned int address) const;
-    Size                    getObjectSize(const std::string name) const;
-    Storage                 getObjectStorage(const unsigned int address) const;
-    Storage                 getObjectStorage(const std::string name) const;
-    int                     getObjectModule(const unsigned int address) const;
-    int                     getObjectModule(const std::string name) const;
-    unsigned int            getObjectLs(const unsigned int address) const;
-    unsigned int            getObjectLs(const std::string name) const;
-    bool                    hasObject(const unsigned int address) const;
-    bool                    hasObject(const std::string name) const;
-    bool                    hasCreatedObject(const unsigned int address) const;
-    bool                    hasCreatedObject(const std::string name) const;
-    bool                    isObject5d(const unsigned int address) const;
-    bool                    isObject5d(const std::string name) const;
-    template <typename T>
-    bool                    isObjectOfType(const unsigned int address) const;
-    template <typename T>
-    bool                    isObjectOfType(const std::string name) const;
-    Environment::Size       getTotalSize(void) const;
-    void                    freeObject(const unsigned int address);
-    void                    freeObject(const std::string name);
-    void                    freeAll(void);
-    void                    protectObjects(const bool protect);
-    bool                    objectsProtected(void) const;
-    // print environment content
-    void                    printContent(void) const;
-private:
-    // general
-    unsigned long int                      locVol_;
-    bool                                   protect_{true};
-    // grids
-    std::vector<int>                       dim_;
-    GridPt                                 grid4d_;
-    std::map<unsigned int, GridPt>         grid5d_;
-    GridRbPt                               gridRb4d_;
-    std::map<unsigned int, GridRbPt>       gridRb5d_;
-    unsigned int                           nd_;
-    // random number generator
-    RngPt                                  rng4d_;
-    // object store
-    std::vector<ObjInfo>                   object_;
-    std::map<std::string, unsigned int>    objectAddress_;
-};
-
-/******************************************************************************
- *                       Holder template implementation                       *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename T>
-Holder<T>::Holder(T *pt)
-: objPt_(pt)
-{}
-
-// access //////////////////////////////////////////////////////////////////////
-template <typename T>
-T & Holder<T>::get(void) const
-{
-    return &objPt_.get();
-}
-
-template <typename T>
-T * Holder<T>::getPt(void) const
-{
-    return objPt_.get();
-}
-
-template <typename T>
-void Holder<T>::reset(T *pt)
-{
-    objPt_.reset(pt);
-}
-
-/******************************************************************************
- *                     Environment template implementation                    *
- ******************************************************************************/
-// general memory management ///////////////////////////////////////////////////
-template <typename B, typename T, typename ... Ts>
-void Environment::createDerivedObject(const std::string name,
-                                      const Environment::Storage storage,
-                                      const unsigned int Ls,
-                                      Ts && ... args)
-{
-    if (!hasObject(name))
-    {
-        addObject(name);
-    }
-    
-    unsigned int address = getObjectAddress(name);
-    
-    if (!object_[address].data or !objectsProtected())
-    {
-        MemoryStats memStats;
-    
-        if (!MemoryProfiler::stats)
-        {
-            MemoryProfiler::stats = &memStats;
-        }
-        size_t initMem           = MemoryProfiler::stats->currentlyAllocated;
-        object_[address].storage = storage;
-        object_[address].Ls      = Ls;
-        object_[address].data.reset(new Holder<B>(new T(std::forward<Ts>(args)...)));
-        object_[address].size    = MemoryProfiler::stats->maxAllocated - initMem;
-        object_[address].type    = &typeid(T);
-        if (MemoryProfiler::stats == &memStats)
-        {
-            MemoryProfiler::stats = nullptr;
-        }
-    }
-    // object already exists, no error if it is a cache, error otherwise
-    else if ((object_[address].storage != Storage::cache) or 
-             (object_[address].storage != storage)        or
-             (object_[address].name    != name)           or
-             (object_[address].type    != &typeid(T)))
-    {
-        HADRON_ERROR(Definition, "object '" + name + "' already allocated");
-    }
-}
-
-template <typename T, typename ... Ts>
-void Environment::createObject(const std::string name, 
-                               const Environment::Storage storage,
-                               const unsigned int Ls,
-                               Ts && ... args)
-{
-    createDerivedObject<T, T>(name, storage, Ls, std::forward<Ts>(args)...);
-}
-
-template <typename T>
-T * Environment::getObject(const unsigned int address) const
-{
-    if (hasObject(address))
-    {
-        if (hasCreatedObject(address))
-        {
-            if (auto h = dynamic_cast<Holder<T> *>(object_[address].data.get()))
-            {
-                return h->getPt();
-            }
-            else
-            {
-                HADRON_ERROR(Definition, "object with address " + std::to_string(address) +
-                            " does not have type '" + typeName(&typeid(T)) +
-                            "' (has type '" + getObjectType(address) + "')");
-            }
-        }
-        else
-        {
-            HADRON_ERROR(Definition, "object with address " + std::to_string(address) +
-                         " is empty");
-        }
-    }
-    else
-    {
-        HADRON_ERROR(Definition, "no object with address " + std::to_string(address));
-    }
-}
-
-template <typename T>
-T * Environment::getObject(const std::string name) const
-{
-    return getObject<T>(getObjectAddress(name));
-}
-
-template <typename T>
-bool Environment::isObjectOfType(const unsigned int address) const
-{
-    if (hasObject(address))
-    {
-        if (auto h = dynamic_cast<Holder<T> *>(object_[address].data.get()))
-        {
-            return true;
-        }
-        else
-        {
-            return false;
-        }
-    }
-    else
-    {
-        HADRON_ERROR(Definition, "no object with address " + std::to_string(address));
-    }
-}
-
-template <typename T>
-bool Environment::isObjectOfType(const std::string name) const
-{
-    return isObjectOfType<T>(getObjectAddress(name));
-}
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_Environment_hpp_

extras/Hadrons/Exceptions.cc

@@ -1,57 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Exceptions.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Exceptions.hpp>
-
-#ifndef ERR_SUFF
-#define ERR_SUFF " (" + loc + ")"
-#endif
-
-#define CONST_EXC(name, init) \
-name::name(std::string msg, std::string loc)\
-:init\
-{}
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace Exceptions;
-
-// logic errors
-CONST_EXC(Logic, logic_error(msg + ERR_SUFF))
-CONST_EXC(Definition, Logic("definition error: " + msg, loc))
-CONST_EXC(Implementation, Logic("implementation error: " + msg, loc))
-CONST_EXC(Range, Logic("range error: " + msg, loc))
-CONST_EXC(Size, Logic("size error: " + msg, loc))
-// runtime errors
-CONST_EXC(Runtime, runtime_error(msg + ERR_SUFF))
-CONST_EXC(Argument, Runtime("argument error: " + msg, loc))
-CONST_EXC(Io, Runtime("IO error: " + msg, loc))
-CONST_EXC(Memory, Runtime("memory error: " + msg, loc))
-CONST_EXC(Parsing, Runtime("parsing error: " + msg, loc))
-CONST_EXC(Program, Runtime("program error: " + msg, loc))
-CONST_EXC(System, Runtime("system error: " + msg, loc))

extras/Hadrons/Exceptions.hpp

@@ -1,72 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Exceptions.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_Exceptions_hpp_
-#define Hadrons_Exceptions_hpp_
-
-#include <stdexcept>
-#ifndef Hadrons_Global_hpp_
-#include <Grid/Hadrons/Global.hpp>
-#endif
-
-#define SRC_LOC std::string(__FUNCTION__) + " at " + std::string(__FILE__) + ":"\
-                + std::to_string(__LINE__)
-#define HADRON_ERROR(exc, msg)\
-LOG(Error) << msg << std::endl;\
-throw(Exceptions::exc(msg, SRC_LOC));
-
-#define DECL_EXC(name, base) \
-class name: public base\
-{\
-public:\
-    name(std::string msg, std::string loc);\
-}
-
-BEGIN_HADRONS_NAMESPACE
-
-namespace Exceptions
-{
-    // logic errors
-    DECL_EXC(Logic, std::logic_error);
-    DECL_EXC(Definition, Logic);
-    DECL_EXC(Implementation, Logic);
-    DECL_EXC(Range, Logic);
-    DECL_EXC(Size, Logic);
-    // runtime errors
-    DECL_EXC(Runtime, std::runtime_error);
-    DECL_EXC(Argument, Runtime);
-    DECL_EXC(Io, Runtime);
-    DECL_EXC(Memory, Runtime);
-    DECL_EXC(Parsing, Runtime);
-    DECL_EXC(Program, Runtime);
-    DECL_EXC(System, Runtime);
-}
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_Exceptions_hpp_

extras/Hadrons/Factory.hpp

@@ -1,105 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Factory.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_Factory_hpp_
-#define Hadrons_Factory_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                        abstract factory class                              *
- ******************************************************************************/
-template <typename T>
-class Factory
-{
-public:
-    typedef std::function<std::unique_ptr<T>(const std::string)> Func;
-public:
-    // constructor
-    Factory(void) = default;
-    // destructor
-    virtual ~Factory(void) = default;
-    // registration
-    void registerBuilder(const std::string type, const Func &f);
-    // get builder list
-    std::vector<std::string> getBuilderList(void) const;
-    // factory
-    std::unique_ptr<T> create(const std::string type,
-                              const std::string name) const;
-private:
-    std::map<std::string, Func> builder_;
-};
-
-/******************************************************************************
- *                         template implementation                            *
- ******************************************************************************/
-// registration ////////////////////////////////////////////////////////////////
-template <typename T>
-void Factory<T>::registerBuilder(const std::string type, const Func &f)
-{
-    builder_[type] = f;
-}
-
-// get module list /////////////////////////////////////////////////////////////
-template <typename T>
-std::vector<std::string> Factory<T>::getBuilderList(void) const
-{
-    std::vector<std::string> list;
-    
-    for (auto &b: builder_)
-    {
-        list.push_back(b.first);
-    }
-    
-    return list;
-}
-
-// factory /////////////////////////////////////////////////////////////////////
-template <typename T>
-std::unique_ptr<T> Factory<T>::create(const std::string type,
-                                      const std::string name) const
-{
-    Func func;
-    
-    try
-    {
-        func = builder_.at(type);
-    }
-    catch (std::out_of_range &)
-    {
-        HADRON_ERROR(Argument, "object of type '" + type + "' unknown");
-    }
-    
-    return func(name);
-}
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_Factory_hpp_

extras/Hadrons/GeneticScheduler.hpp

@@ -1,323 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/GeneticScheduler.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_GeneticScheduler_hpp_
-#define Hadrons_GeneticScheduler_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Graph.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                   Scheduler based on a genetic algorithm                   *
- ******************************************************************************/
-template <typename V, typename T>
-class GeneticScheduler
-{
-public:
-    typedef std::vector<T>                 Gene;
-    typedef std::pair<Gene *, Gene *>      GenePair;
-    typedef std::function<V(const Gene &)> ObjFunc;
-    struct Parameters
-    {
-        double       mutationRate;
-        unsigned int popSize, seed;
-    };
-public:
-    // constructor
-    GeneticScheduler(Graph<T> &graph, const ObjFunc &func,
-                     const Parameters &par);
-    // destructor
-    virtual ~GeneticScheduler(void) = default;
-    // access
-    const Gene & getMinSchedule(void);
-    int          getMinValue(void);
-    // breed a new generation
-    void nextGeneration(void);
-    // heuristic benchmarks
-    void benchmarkCrossover(const unsigned int nIt);
-    // print population
-    friend std::ostream & operator<<(std::ostream &out,
-                                     const GeneticScheduler<V, T> &s)
-    {
-        out << "[";
-        for (auto &p: s.population_)
-        {
-            out << p.first << ", ";
-        }
-        out << "\b\b]";
-        
-        return out;
-    }
-private:
-    // evolution steps
-    void initPopulation(void);
-    void doCrossover(void);
-    void doMutation(void);
-    // genetic operators
-    GenePair selectPair(void);
-    void     crossover(Gene &c1, Gene &c2, const Gene &p1, const Gene &p2);
-    void     mutation(Gene &m, const Gene &c);
-    
-private:
-    Graph<T>               &graph_;
-    const ObjFunc          &func_;
-    const Parameters       par_;
-    std::multimap<V, Gene> population_;
-    std::mt19937           gen_;
-};
-
-/******************************************************************************
- *                       template implementation                              *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename V, typename T>
-GeneticScheduler<V, T>::GeneticScheduler(Graph<T> &graph, const ObjFunc &func,
-                                      const Parameters &par)
-: graph_(graph)
-, func_(func)
-, par_(par)
-{
-    gen_.seed(par_.seed);
-}
-
-// access //////////////////////////////////////////////////////////////////////
-template <typename V, typename T>
-const typename GeneticScheduler<V, T>::Gene &
-GeneticScheduler<V, T>::getMinSchedule(void)
-{
-    return population_.begin()->second;
-}
-
-template <typename V, typename T>
-int GeneticScheduler<V, T>::getMinValue(void)
-{
-    return population_.begin()->first;
-}
-
-// breed a new generation //////////////////////////////////////////////////////
-template <typename V, typename T>
-void GeneticScheduler<V, T>::nextGeneration(void)
-{
-    // random initialization of the population if necessary
-    if (population_.size() != par_.popSize)
-    {
-        initPopulation();
-    }
-    LOG(Debug) << "Starting population:\n" << *this << std::endl;
-    
-    // random mutations
-    //PARALLEL_FOR_LOOP
-    for (unsigned int i = 0; i < par_.popSize; ++i)
-    {
-        doMutation();
-    }
-    LOG(Debug) << "After mutations:\n" << *this << std::endl;
-    
-    // mating
-    //PARALLEL_FOR_LOOP
-    for (unsigned int i = 0; i < par_.popSize/2; ++i)
-    {
-        doCrossover();
-    }
-    LOG(Debug) << "After mating:\n" << *this << std::endl;
-    
-    // grim reaper
-    auto it = population_.begin();
-    
-    std::advance(it, par_.popSize);
-    population_.erase(it, population_.end());
-    LOG(Debug) << "After grim reaper:\n" << *this << std::endl;
-}
-
-// evolution steps /////////////////////////////////////////////////////////////
-template <typename V, typename T>
-void GeneticScheduler<V, T>::initPopulation(void)
-{
-    population_.clear();
-    for (unsigned int i = 0; i < par_.popSize; ++i)
-    {
-        auto p = graph_.topoSort(gen_);
-        
-        population_.insert(std::make_pair(func_(p), p));
-    }
-}
-
-template <typename V, typename T>
-void GeneticScheduler<V, T>::doCrossover(void)
-{
-    auto p = selectPair();
-    Gene &p1 = *(p.first), &p2 = *(p.second);
-    Gene c1, c2;
-    
-    crossover(c1, c2, p1, p2);
-    PARALLEL_CRITICAL
-    {
-        population_.insert(std::make_pair(func_(c1), c1));
-        population_.insert(std::make_pair(func_(c2), c2));
-    }
-}
-
-template <typename V, typename T>
-void GeneticScheduler<V, T>::doMutation(void)
-{
-    std::uniform_real_distribution<double>      mdis(0., 1.);
-    std::uniform_int_distribution<unsigned int> pdis(0, population_.size() - 1);
-    
-    if (mdis(gen_) < par_.mutationRate)
-    {
-        Gene m;
-        auto it = population_.begin();
-        
-        std::advance(it, pdis(gen_));
-        mutation(m, it->second);
-        PARALLEL_CRITICAL
-        {
-            population_.insert(std::make_pair(func_(m), m));
-        }
-    }
-}
-
-// genetic operators ///////////////////////////////////////////////////////////
-template <typename V, typename T>
-typename GeneticScheduler<V, T>::GenePair GeneticScheduler<V, T>::selectPair(void)
-{
-    std::vector<double> prob;
-    unsigned int        ind;
-    Gene                *p1, *p2;
-    const double        max = population_.rbegin()->first;
-    
-
-    for (auto &c: population_)
-    {
-        prob.push_back(std::exp((c.first-1.)/max));
-    }        
-    std::discrete_distribution<unsigned int> dis1(prob.begin(), prob.end());
-    auto rIt = population_.begin();
-    ind = dis1(gen_);
-    std::advance(rIt, ind);
-    p1 = &(rIt->second);
-    prob[ind] = 0.;
-    std::discrete_distribution<unsigned int> dis2(prob.begin(), prob.end());
-    rIt = population_.begin();
-    std::advance(rIt, dis2(gen_));
-    p2 = &(rIt->second);
-    
-    return std::make_pair(p1, p2);
-}
-
-template <typename V, typename T>
-void GeneticScheduler<V, T>::crossover(Gene &c1, Gene &c2, const Gene &p1,
-                                    const Gene &p2)
-{
-    Gene                                        buf;
-    std::uniform_int_distribution<unsigned int> dis(0, p1.size() - 1);
-    unsigned int                                cut = dis(gen_);
-    
-    c1.clear();
-    buf = p2;
-    for (unsigned int i = 0; i < cut; ++i)
-    {
-        c1.push_back(p1[i]);
-        buf.erase(std::find(buf.begin(), buf.end(), p1[i]));
-    }
-    for (unsigned int i = 0; i < buf.size(); ++i)
-    {
-        c1.push_back(buf[i]);
-    }
-    c2.clear();
-    buf = p2;
-    for (unsigned int i = cut; i < p1.size(); ++i)
-    {
-        buf.erase(std::find(buf.begin(), buf.end(), p1[i]));
-    }
-    for (unsigned int i = 0; i < buf.size(); ++i)
-    {
-        c2.push_back(buf[i]);
-    }
-    for (unsigned int i = cut; i < p1.size(); ++i)
-    {
-        c2.push_back(p1[i]);
-    }
-}
-
-template <typename V, typename T>
-void GeneticScheduler<V, T>::mutation(Gene &m, const Gene &c)
-{
-    Gene                                        buf;
-    std::uniform_int_distribution<unsigned int> dis(0, c.size() - 1);
-    unsigned int                                cut = dis(gen_);
-    Graph<T>                                    g1 = graph_, g2 = graph_;
-    
-    for (unsigned int i = 0; i < cut; ++i)
-    {
-        g1.removeVertex(c[i]);
-    }
-    for (unsigned int i = cut; i < c.size(); ++i)
-    {
-        g2.removeVertex(c[i]);
-    }
-    if (g1.size() > 0)
-    {
-        buf = g1.topoSort(gen_);
-    }
-    if (g2.size() > 0)
-    {
-        m = g2.topoSort(gen_);
-    }
-    for (unsigned int i = cut; i < c.size(); ++i)
-    {
-        m.push_back(buf[i - cut]);
-    }
-}
-
-template <typename V, typename T>
-void GeneticScheduler<V, T>::benchmarkCrossover(const unsigned int nIt)
-{
-    Gene   p1, p2, c1, c2;
-    double neg = 0., eq = 0., pos = 0., total;
-    int    improvement;
-    
-    LOG(Message) << "Benchmarking crossover..." << std::endl;
-    for (unsigned int i = 0; i < nIt; ++i)
-    {
-        p1 = graph_.topoSort(gen_);
-        p2 = graph_.topoSort(gen_);
-        crossover(c1, c2, p1, p2);
-        improvement = (func_(c1) + func_(c2) - func_(p1) - func_(p2))/2;
-        if (improvement < 0) neg++; else if (improvement == 0) eq++; else pos++;
-    }
-    total = neg + eq + pos;
-    LOG(Message) << "  -: " << neg/total << "  =: " << eq/total
-                 << "  +: " << pos/total << std::endl;
-}
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_GeneticScheduler_hpp_

extras/Hadrons/Global.cc

@@ -1,76 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Global.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Global.hpp>
-
-using namespace Grid;
-using namespace QCD;
-using namespace Hadrons;
-
-HadronsLogger Hadrons::HadronsLogError(1,"Error");
-HadronsLogger Hadrons::HadronsLogWarning(1,"Warning");
-HadronsLogger Hadrons::HadronsLogMessage(1,"Message");
-HadronsLogger Hadrons::HadronsLogIterative(1,"Iterative");
-HadronsLogger Hadrons::HadronsLogDebug(1,"Debug");
-
-void Hadrons::initLogger(void)
-{
-    auto w = std::string("Hadrons").length();
-    GridLogError.setTopWidth(w);
-    GridLogWarning.setTopWidth(w);
-    GridLogMessage.setTopWidth(w);
-    GridLogIterative.setTopWidth(w);
-    GridLogDebug.setTopWidth(w);
-    HadronsLogError.Active(GridLogError.isActive());
-    HadronsLogWarning.Active(GridLogWarning.isActive());
-    HadronsLogMessage.Active(GridLogMessage.isActive());
-    HadronsLogIterative.Active(GridLogIterative.isActive());
-    HadronsLogDebug.Active(GridLogDebug.isActive());
-}
-
-// type utilities //////////////////////////////////////////////////////////////
-constexpr unsigned int maxNameSize = 1024u;
-
-std::string Hadrons::typeName(const std::type_info *info)
-{
-    char        *buf;
-    std::string name;
-    
-    buf  = abi::__cxa_demangle(info->name(), nullptr, nullptr, nullptr);
-    name = buf;
-    free(buf);
-    
-    return name;
-}
-
-// default writers/readers /////////////////////////////////////////////////////
-#ifdef HAVE_HDF5
-const std::string Hadrons::resultFileExt = "h5";
-#else
-const std::string Hadrons::resultFileExt = "xml";
-#endif

extras/Hadrons/Global.hpp

@@ -1,187 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Global.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_Global_hpp_
-#define Hadrons_Global_hpp_
-
-#include <set>
-#include <stack>
-#include <Grid/Grid.h>
-#include <cxxabi.h>
-
-#ifndef SITE_SIZE_TYPE
-#define SITE_SIZE_TYPE size_t
-#endif
-
-#define BEGIN_HADRONS_NAMESPACE \
-namespace Grid {\
-using namespace QCD;\
-namespace Hadrons {\
-using Grid::operator<<;
-#define END_HADRONS_NAMESPACE }}
-
-#define BEGIN_MODULE_NAMESPACE(name)\
-namespace name {\
-using Grid::operator<<;
-#define END_MODULE_NAMESPACE }
-
-/* the 'using Grid::operator<<;' statement prevents a very nasty compilation
- * error with GCC 5 (clang & GCC 6 compile fine without it).
- */
-
-#ifndef FIMPL
-#define FIMPL WilsonImplR
-#endif
-#ifndef SIMPL
-#define SIMPL ScalarImplCR
-#endif
-#ifndef GIMPL
-#define GIMPL GimplTypesR
-#endif
-
-BEGIN_HADRONS_NAMESPACE
-
-// type aliases
-#define FERM_TYPE_ALIASES(FImpl, suffix)\
-typedef FermionOperator<FImpl>                        FMat##suffix;            \
-typedef typename FImpl::FermionField                  FermionField##suffix;    \
-typedef typename FImpl::PropagatorField               PropagatorField##suffix; \
-typedef typename FImpl::SitePropagator::scalar_object SitePropagator##suffix;  \
-typedef std::vector<SitePropagator##suffix>           SlicedPropagator##suffix;
-
-#define GAUGE_TYPE_ALIASES(FImpl, suffix)\
-typedef typename FImpl::DoubledGaugeField DoubledGaugeField##suffix;
-
-#define SCALAR_TYPE_ALIASES(SImpl, suffix)\
-typedef typename SImpl::Field ScalarField##suffix;\
-typedef typename SImpl::Field PropagatorField##suffix;
-
-#define SOLVER_TYPE_ALIASES(FImpl, suffix)\
-typedef std::function<void(FermionField##suffix &,\
-                      const FermionField##suffix &)> SolverFn##suffix;
-
-#define SINK_TYPE_ALIASES(suffix)\
-typedef std::function<SlicedPropagator##suffix\
-                      (const PropagatorField##suffix &)> SinkFn##suffix;
-
-#define FGS_TYPE_ALIASES(FImpl, suffix)\
-FERM_TYPE_ALIASES(FImpl, suffix)\
-GAUGE_TYPE_ALIASES(FImpl, suffix)\
-SOLVER_TYPE_ALIASES(FImpl, suffix)
-
-// logger
-class HadronsLogger: public Logger
-{
-public:
-    HadronsLogger(int on, std::string nm): Logger("Hadrons", on, nm,
-                                                  GridLogColours, "BLACK"){};
-};
-
-#define LOG(channel) std::cout << HadronsLog##channel
-#define DEBUG_VAR(var) LOG(Debug) << #var << "= " << (var) << std::endl;
-
-extern HadronsLogger HadronsLogError;
-extern HadronsLogger HadronsLogWarning;
-extern HadronsLogger HadronsLogMessage;
-extern HadronsLogger HadronsLogIterative;
-extern HadronsLogger HadronsLogDebug;
-
-void initLogger(void);
-
-// singleton pattern
-#define SINGLETON(name)\
-public:\
-    name(const name &e) = delete;\
-    void operator=(const name &e) = delete;\
-    static name & getInstance(void)\
-    {\
-        static name e;\
-        return e;\
-    }\
-private:\
-    name(void);
-
-#define SINGLETON_DEFCTOR(name)\
-public:\
-    name(const name &e) = delete;\
-    void operator=(const name &e) = delete;\
-    static name & getInstance(void)\
-    {\
-        static name e;\
-        return e;\
-    }\
-private:\
-    name(void) = default;
-
-// type utilities
-template <typename T>
-const std::type_info * typeIdPt(const T &x)
-{
-    return &typeid(x);
-}
-
-std::string typeName(const std::type_info *info);
-
-template <typename T>
-const std::type_info * typeIdPt(void)
-{
-    return &typeid(T);
-}
-
-template <typename T>
-std::string typeName(const T &x)
-{
-    return typeName(typeIdPt(x));
-}
-
-template <typename T>
-std::string typeName(void)
-{
-    return typeName(typeIdPt<T>());
-}
-
-// default writers/readers
-extern const std::string resultFileExt;
-
-#ifdef HAVE_HDF5
-typedef Hdf5Reader ResultReader;
-typedef Hdf5Writer ResultWriter;
-#else
-typedef XmlReader ResultReader;
-typedef XmlWriter ResultWriter;
-#endif
-
-#define RESULT_FILE_NAME(name) \
-name + "." + std::to_string(vm().getTrajectory()) + "." + resultFileExt
-
-END_HADRONS_NAMESPACE
-
-#include <Grid/Hadrons/Exceptions.hpp>
-
-#endif // Hadrons_Global_hpp_

extras/Hadrons/Graph.hpp

@@ -1,759 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Graph.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_Graph_hpp_
-#define Hadrons_Graph_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                          Oriented graph class                              *
- ******************************************************************************/
-// I/O for edges
-template <typename T>
-std::ostream & operator<<(std::ostream &out, const std::pair<T, T> &e)
-{
-    out << "\""  << e.first << "\" -> \"" << e.second << "\"";
-    
-    return out;
-}
-
-// main class
-template <typename T>
-class Graph
-{
-public:
-    typedef std::pair<T, T> Edge;
-public:
-    // constructor
-    Graph(void);
-    // destructor
-    virtual ~Graph(void) = default;
-    // access
-    void           addVertex(const T &value);
-    void           addEdge(const Edge &e);
-    void           addEdge(const T &start, const T &end);
-    std::vector<T> getVertices(void) const;
-    void           removeVertex(const T &value);
-    void           removeEdge(const Edge &e);
-    void           removeEdge(const T &start, const T &end);
-    unsigned int   size(void) const;
-    // tests
-    bool gotValue(const T &value) const;
-    // graph topological manipulations
-    std::vector<T>              getAdjacentVertices(const T &value) const;
-    std::vector<T>              getChildren(const T &value) const;
-    std::vector<T>              getParents(const T &value) const;
-    std::vector<T>              getRoots(void) const;
-    std::vector<Graph<T>>       getConnectedComponents(void) const;
-    std::vector<T>              topoSort(void);
-    template <typename Gen>
-    std::vector<T>              topoSort(Gen &gen);
-    std::vector<std::vector<T>> allTopoSort(void);
-    // I/O
-    friend std::ostream & operator<<(std::ostream &out, const Graph<T> &g)
-    {
-        out << "{";
-        for (auto &e: g.edgeSet_)
-        {
-            out << e << ", ";
-        }
-        if (g.edgeSet_.size() != 0)
-        {
-            out << "\b\b";
-        }
-        out << "}";
-        
-        return out;
-    }
-private:
-    // vertex marking
-    void      mark(const T &value, const bool doMark = true);
-    void      markAll(const bool doMark = true);
-    void      unmark(const T &value);
-    void      unmarkAll(void);
-    bool      isMarked(const T &value) const;
-    const T * getFirstMarked(const bool isMarked = true) const;
-    template <typename Gen>
-    const T * getRandomMarked(const bool isMarked, Gen &gen);
-    const T * getFirstUnmarked(void) const;
-    template <typename Gen>
-    const T * getRandomUnmarked(Gen &gen);
-    // prune marked/unmarked vertices
-    void removeMarked(const bool isMarked = true);
-    void removeUnmarked(void);
-    // depth-first search marking
-    void depthFirstSearch(void);
-    void depthFirstSearch(const T &root);
-private:
-    std::map<T, bool>  isMarked_;
-    std::set<Edge>     edgeSet_;
-};
-
-// build depedency matrix from topological sorts
-template <typename T>
-std::map<T, std::map<T, bool>>
-makeDependencyMatrix(const std::vector<std::vector<T>> &topSort);
-
-/******************************************************************************
- *                       template implementation                              *
- ******************************************************************************
- * in all the following V is the number of vertex and E is the number of edge
- * in the worst case E = V^2
- */
-
-// constructor /////////////////////////////////////////////////////////////////
-template <typename T>
-Graph<T>::Graph(void)
-{}
-
-// access //////////////////////////////////////////////////////////////////////
-// complexity: log(V)
-template <typename T>
-void Graph<T>::addVertex(const T &value)
-{
-    isMarked_[value] = false;
-}
-
-// complexity: O(log(V))
-template <typename T>
-void Graph<T>::addEdge(const Edge &e)
-{
-    addVertex(e.first);
-    addVertex(e.second);
-    edgeSet_.insert(e);
-}
-
-// complexity: O(log(V))
-template <typename T>
-void Graph<T>::addEdge(const T &start, const T &end)
-{
-    addEdge(Edge(start, end));
-}
-
-template <typename T>
-std::vector<T> Graph<T>::getVertices(void) const
-{
-    std::vector<T> vertex;
-    
-    for (auto &v: isMarked_)
-    {
-        vertex.push_back(v.first);
-    }
-    
-    return vertex;
-}
-
-// complexity: O(V*log(V))
-template <typename T>
-void Graph<T>::removeVertex(const T &value)
-{
-    // remove vertex from the mark table
-    auto vIt = isMarked_.find(value);
-    
-    if (vIt != isMarked_.end())
-    {
-        isMarked_.erase(vIt);
-    }
-    else
-    {
-        HADRON_ERROR(Range, "vertex does not exists");
-    }
-
-    // remove all edges containing the vertex
-    auto pred = [&value](const Edge &e)
-    {
-        return ((e.first == value) or (e.second == value));
-    };
-    auto eIt = find_if(edgeSet_.begin(), edgeSet_.end(), pred);
-    
-    while (eIt != edgeSet_.end())
-    {
-        edgeSet_.erase(eIt);
-        eIt = find_if(edgeSet_.begin(), edgeSet_.end(), pred);
-    }
-}
-
-// complexity: O(log(V))
-template <typename T>
-void Graph<T>::removeEdge(const Edge &e)
-{
-    auto eIt = edgeSet_.find(e);
-    
-    if (eIt != edgeSet_.end())
-    {
-        edgeSet_.erase(eIt);
-    }
-    else
-    {
-        HADRON_ERROR(Range, "edge does not exists");
-    }
-}
-
-// complexity: O(log(V))
-template <typename T>
-void Graph<T>::removeEdge(const T &start, const T &end)
-{
-    removeEdge(Edge(start, end));
-}
-
-// complexity: O(1)
-template <typename T>
-unsigned int Graph<T>::size(void) const
-{
-    return isMarked_.size();
-}
-
-// tests ///////////////////////////////////////////////////////////////////////
-// complexity: O(log(V))
-template <typename T>
-bool Graph<T>::gotValue(const T &value) const
-{
-    auto it = isMarked_.find(value);
-    
-    if (it == isMarked_.end())
-    {
-        return false;
-    }
-    else
-    {
-        return true;
-    }
-}
-
-// vertex marking //////////////////////////////////////////////////////////////
-// complexity: O(log(V))
-template <typename T>
-void Graph<T>::mark(const T &value, const bool doMark)
-{
-    if (gotValue(value))
-    {
-        isMarked_[value] = doMark;
-    }
-    else
-    {
-        HADRON_ERROR(Range, "vertex does not exists");
-    }
-}
-
-// complexity: O(V*log(V))
-template <typename T>
-void Graph<T>::markAll(const bool doMark)
-{
-    for (auto &v: isMarked_)
-    {
-        mark(v.first, doMark);
-    }
-}
-
-// complexity: O(log(V))
-template <typename T>
-void Graph<T>::unmark(const T &value)
-{
-    mark(value, false);
-}
-
-// complexity: O(V*log(V))
-template <typename T>
-void Graph<T>::unmarkAll(void)
-{
-    markAll(false);
-}
-
-// complexity: O(log(V))
-template <typename T>
-bool Graph<T>::isMarked(const T &value) const
-{
-    if (gotValue(value))
-    {
-        return isMarked_.at(value);
-    }
-    else
-    {
-        HADRON_ERROR(Range, "vertex does not exists");
-        
-        return false;
-    }
-}
-
-// complexity: O(log(V))
-template <typename T>
-const T * Graph<T>::getFirstMarked(const bool isMarked) const
-{
-    auto pred = [&isMarked](const std::pair<T, bool> &v)
-    {
-        return (v.second == isMarked);
-    };
-    auto vIt = std::find_if(isMarked_.begin(), isMarked_.end(), pred);
-    
-    if (vIt != isMarked_.end())
-    {
-        return &(vIt->first);
-    }
-    else
-    {
-        return nullptr;
-    }
-}
-
-// complexity: O(log(V))
-template <typename T>
-template <typename Gen>
-const T * Graph<T>::getRandomMarked(const bool isMarked, Gen &gen)
-{
-    auto pred = [&isMarked](const std::pair<T, bool> &v)
-    {
-        return (v.second == isMarked);
-    };
-    std::uniform_int_distribution<unsigned int> dis(0, size() - 1);
-    auto                                        rIt = isMarked_.begin();
-    
-    std::advance(rIt, dis(gen));
-    auto vIt = std::find_if(rIt, isMarked_.end(), pred);
-    if (vIt != isMarked_.end())
-    {
-        return &(vIt->first);
-    }
-    else
-    {
-        vIt = std::find_if(isMarked_.begin(), rIt, pred);
-        if (vIt != rIt)
-        {
-            return &(vIt->first);
-        }
-        else
-        {
-            return nullptr;
-        }
-    }
-}
-
-// complexity: O(log(V))
-template <typename T>
-const T * Graph<T>::getFirstUnmarked(void) const
-{
-    return getFirstMarked(false);
-}
-
-// complexity: O(log(V))
-template <typename T>
-template <typename Gen>
-const T * Graph<T>::getRandomUnmarked(Gen &gen)
-{
-    return getRandomMarked(false, gen);
-}
-
-// prune marked/unmarked vertices //////////////////////////////////////////////
-// complexity: O(V^2*log(V))
-template <typename T>
-void Graph<T>::removeMarked(const bool isMarked)
-{
-    auto isMarkedCopy = isMarked_;
-    
-    for (auto &v: isMarkedCopy)
-    {
-        if (v.second == isMarked)
-        {
-            removeVertex(v.first);
-        }
-    }
-}
-
-// complexity: O(V^2*log(V))
-template <typename T>
-void Graph<T>::removeUnmarked(void)
-{
-    removeMarked(false);
-}
-
-// depth-first search marking //////////////////////////////////////////////////
-// complexity: O(V*log(V))
-template <typename T>
-void Graph<T>::depthFirstSearch(void)
-{
-    depthFirstSearch(isMarked_.begin()->first);
-}
-
-// complexity: O(V*log(V))
-template <typename T>
-void Graph<T>::depthFirstSearch(const T &root)
-{
-    std::vector<T> adjacentVertex;
-    
-    mark(root);
-    adjacentVertex = getAdjacentVertices(root);
-    for (auto &v: adjacentVertex)
-    {
-        if (!isMarked(v))
-        {
-            depthFirstSearch(v);
-        }
-    }
-}
-
-// graph topological manipulations /////////////////////////////////////////////
-// complexity: O(V*log(V))
-template <typename T>
-std::vector<T> Graph<T>::getAdjacentVertices(const T &value) const
-{
-    std::vector<T> adjacentVertex;
-    
-    auto pred = [&value](const Edge &e)
-    {
-        return ((e.first == value) or (e.second == value));
-    };
-    auto eIt = std::find_if(edgeSet_.begin(), edgeSet_.end(), pred);
-    
-    while (eIt != edgeSet_.end())
-    {
-        if (eIt->first == value)
-        {
-            adjacentVertex.push_back((*eIt).second);
-        }
-        else if (eIt->second == value)
-        {
-            adjacentVertex.push_back((*eIt).first);
-        }
-        eIt = std::find_if(++eIt, edgeSet_.end(), pred);
-    }
-    
-    return adjacentVertex;
-}
-
-// complexity: O(V*log(V))
-template <typename T>
-std::vector<T> Graph<T>::getChildren(const T &value) const
-{
-    std::vector<T> child;
-    
-    auto pred = [&value](const Edge &e)
-    {
-        return (e.first == value);
-    };
-    auto eIt = std::find_if(edgeSet_.begin(), edgeSet_.end(), pred);
-    
-    while (eIt != edgeSet_.end())
-    {
-        child.push_back((*eIt).second);
-        eIt = std::find_if(++eIt, edgeSet_.end(), pred);
-    }
-    
-    return child;
-}
-
-// complexity: O(V*log(V))
-template <typename T>
-std::vector<T> Graph<T>::getParents(const T &value) const
-{
-    std::vector<T> parent;
-    
-    auto pred = [&value](const Edge &e)
-    {
-        return (e.second == value);
-    };
-    auto eIt = std::find_if(edgeSet_.begin(), edgeSet_.end(), pred);
-    
-    while (eIt != edgeSet_.end())
-    {
-        parent.push_back((*eIt).first);
-        eIt = std::find_if(++eIt, edgeSet_.end(), pred);
-    }
-    
-    return parent;
-}
-
-// complexity: O(V^2*log(V))
-template <typename T>
-std::vector<T> Graph<T>::getRoots(void) const
-{
-    std::vector<T> root;
-    
-    for (auto &v: isMarked_)
-    {
-        auto parent = getParents(v.first);
-        
-        if (parent.size() == 0)
-        {
-            root.push_back(v.first);
-        }
-    }
-    
-    return root;
-}
-
-// complexity: O(V^2*log(V))
-template <typename T>
-std::vector<Graph<T>> Graph<T>::getConnectedComponents(void) const
-{
-    std::vector<Graph<T>> res;
-    Graph<T>              copy(*this);
-    
-    while (copy.size() > 0)
-    {
-        copy.depthFirstSearch();
-        res.push_back(copy);
-        res.back().removeUnmarked();
-        res.back().unmarkAll();
-        copy.removeMarked();
-        copy.unmarkAll();
-    }
-    
-    return res;
-}
-
-// topological sort using a directed DFS algorithm
-// complexity: O(V*log(V))
-template <typename T>
-std::vector<T> Graph<T>::topoSort(void)
-{
-    std::stack<T>     buf;
-    std::vector<T>    res;
-    const T           *vPt;
-    std::map<T, bool> tmpMarked(isMarked_);
-
-    // visit function
-    std::function<void(const T &)> visit = [&](const T &v)
-    {
-        if (tmpMarked.at(v))
-        {
-            HADRON_ERROR(Range, "cannot topologically sort a cyclic graph");
-        }
-        if (!isMarked(v))
-        {
-            std::vector<T> child = getChildren(v);
-
-            tmpMarked[v] = true;
-            for (auto &c: child)
-            {
-                visit(c);
-            }
-            mark(v);
-            tmpMarked[v] = false;
-            buf.push(v);
-        }
-    };
-    
-    // reset temporary marks
-    for (auto &v: tmpMarked)
-    {
-        tmpMarked.at(v.first) = false;
-    }
-    
-    // loop on unmarked vertices
-    unmarkAll();
-    vPt = getFirstUnmarked();
-    while (vPt)
-    {
-        visit(*vPt);
-        vPt = getFirstUnmarked();
-    }
-    unmarkAll();
-    
-    // create result vector
-    while (!buf.empty())
-    {
-        res.push_back(buf.top());
-        buf.pop();
-    }
-    
-    return res;
-}
-
-// random version of the topological sort
-// complexity: O(V*log(V))
-template <typename T>
-template <typename Gen>
-std::vector<T> Graph<T>::topoSort(Gen &gen)
-{
-    std::stack<T>     buf;
-    std::vector<T>    res;
-    const T           *vPt;
-    std::map<T, bool> tmpMarked(isMarked_);
-    
-    // visit function
-    std::function<void(const T &)> visit = [&](const T &v)
-    {
-        if (tmpMarked.at(v))
-        {
-            HADRON_ERROR(Range, "cannot topologically sort a cyclic graph");
-        }
-        if (!isMarked(v))
-        {
-            std::vector<T> child = getChildren(v);
-            
-            tmpMarked[v] = true;
-            std::shuffle(child.begin(), child.end(), gen);
-            for (auto &c: child)
-            {
-                visit(c);
-            }
-            mark(v);
-            tmpMarked[v] = false;
-            buf.push(v);
-        }
-    };
-    
-    // reset temporary marks
-    for (auto &v: tmpMarked)
-    {
-        tmpMarked.at(v.first) = false;
-    }
-    
-    // loop on unmarked vertices
-    unmarkAll();
-    vPt = getRandomUnmarked(gen);
-    while (vPt)
-    {
-        visit(*vPt);
-        vPt = getRandomUnmarked(gen);
-    }
-    unmarkAll();
-    
-    // create result vector
-    while (!buf.empty())
-    {
-        res.push_back(buf.top());
-        buf.pop();
-    }
-    
-    return res;
-}
-
-// generate all possible topological sorts
-// Y. L. Varol & D. Rotem, Comput. J. 24(1), pp. 83–84, 1981
-// http://comjnl.oupjournals.org/cgi/doi/10.1093/comjnl/24.1.83
-// complexity: O(V*log(V)) (from the paper, but really ?)
-template <typename T>
-std::vector<std::vector<T>> Graph<T>::allTopoSort(void)
-{
-    std::vector<std::vector<T>>    res;
-    std::map<T, std::map<T, bool>> iMat;
-    
-    // create incidence matrix
-    for (auto &v1: isMarked_)
-    for (auto &v2: isMarked_)
-    {
-        iMat[v1.first][v2.first] = false;
-    }
-    for (auto &v: isMarked_)
-    {
-        auto cVec = getChildren(v.first);
-        
-        for (auto &c: cVec)
-        {
-            iMat[v.first][c] = true;
-        }
-    }
-    
-    // generate initial topological sort
-    res.push_back(topoSort());
-    
-    // generate all other topological sorts by permutation
-    std::vector<T>            p = res[0];
-    const unsigned int        n = size();
-    std::vector<unsigned int> loc(n);
-    unsigned int              i, k, k1;
-    T                         obj_k, obj_k1;
-    bool                      isFinal;
-    
-    for (unsigned int j = 0; j < n; ++j)
-    {
-        loc[j] = j;
-    }
-    i = 0;
-    while (i < n-1)
-    {
-        k      = loc[i];
-        k1     = k + 1;
-        obj_k  = p[k];
-        if (k1 >= n)
-        {
-            isFinal = true;
-            obj_k1  = obj_k;
-        }
-        else
-        {
-            isFinal = false;
-            obj_k1  = p[k1];
-        }
-        if (iMat[res[0][i]][obj_k1] or isFinal)
-        {
-            for (unsigned int l = k; l >= i + 1; --l)
-            {
-                p[l]   = p[l-1];
-            }
-            p[i]   = obj_k;
-            loc[i] = i;
-            i++;
-        }
-        else
-        {
-            p[k]   = obj_k1;
-            p[k1]  = obj_k;
-            loc[i] = k1;
-            i      = 0;
-            res.push_back(p);
-        }
-    }
-    
-    return res;
-}
-
-// build depedency matrix from topological sorts ///////////////////////////////
-// complexity: something like O(V^2*log(V!))
-template <typename T>
-std::map<T, std::map<T, bool>>
-makeDependencyMatrix(const std::vector<std::vector<T>> &topSort)
-{
-    std::map<T, std::map<T, bool>> m;
-    const std::vector<T>           &vList = topSort[0];
-    
-    for (auto &v1: vList)
-    for (auto &v2: vList)
-    {
-        bool dep = true;
-        
-        for (auto &t: topSort)
-        {
-            auto i1 = std::find(t.begin(), t.end(), v1);
-            auto i2 = std::find(t.begin(), t.end(), v2);
-            
-            dep = dep and (i1 - i2 > 0);
-            if (!dep) break;
-        }
-        m[v1][v2] = dep;
-    }
-    
-    return m;
-}
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_Graph_hpp_

extras/Hadrons/HadronsXmlRun.cc

@@ -1,73 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/HadronsXmlRun.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Application.hpp>
-
-using namespace Grid;
-using namespace QCD;
-using namespace Hadrons;
-
-int main(int argc, char *argv[])
-{
-    // parse command line
-    std::string parameterFileName, scheduleFileName = "";
-    
-    if (argc < 2)
-    {
-        std::cerr << "usage: " << argv[0] << " <parameter file> [<precomputed schedule>] [Grid options]";
-        std::cerr << std::endl;
-        std::exit(EXIT_FAILURE);
-    }
-    parameterFileName = argv[1];
-    if (argc > 2)
-    {
-        if (argv[2][0] != '-')
-        {
-            scheduleFileName = argv[2];
-        }
-    }
-    
-    // initialization
-    Grid_init(&argc, &argv);
-    
-    // execution
-    Application application(parameterFileName);
-    
-    application.parseParameterFile(parameterFileName);
-    if (!scheduleFileName.empty())
-    {
-        application.loadSchedule(scheduleFileName);
-    }
-    application.run();
-    
-    // epilogue
-    LOG(Message) << "Grid is finalizing now" << std::endl;
-    Grid_finalize();
-    
-    return EXIT_SUCCESS;
-}

extras/Hadrons/HadronsXmlSchedule.cc

@@ -1,65 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/HadronsXmlSchedule.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Application.hpp>
-
-using namespace Grid;
-using namespace QCD;
-using namespace Hadrons;
-
-int main(int argc, char *argv[])
-{
-    // parse command line
-    std::string parameterFileName, scheduleFileName;
-    
-    if (argc < 3)
-    {
-        std::cerr << "usage: " << argv[0] << " <parameter file> <schedule output> [Grid options]";
-        std::cerr << std::endl;
-        std::exit(EXIT_FAILURE);
-    }
-    parameterFileName = argv[1];
-    scheduleFileName  = argv[2];
-    
-    // initialization
-    Grid_init(&argc, &argv);
-    
-    // execution
-    Application application;
-    
-    application.parseParameterFile(parameterFileName);
-    application.schedule();
-    application.printSchedule();
-    application.saveSchedule(scheduleFileName);
-    
-    // epilogue
-    LOG(Message) << "Grid is finalizing now" << std::endl;
-    Grid_finalize();
-    
-    return EXIT_SUCCESS;
-}

extras/Hadrons/Makefile.am

@@ -1,33 +0,0 @@
-lib_LIBRARIES = libHadrons.a
-bin_PROGRAMS  = HadronsXmlRun HadronsXmlSchedule
-
-include modules.inc
-
-libHadrons_a_SOURCES = \
-    $(modules_cc)      \
-    Application.cc     \
-    Environment.cc     \
-	Exceptions.cc      \
-    Global.cc          \
-    Module.cc		   \
-	VirtualMachine.cc
-libHadrons_adir = $(pkgincludedir)/Hadrons
-nobase_libHadrons_a_HEADERS = \
-	$(modules_hpp)            \
-	Application.hpp           \
-	Environment.hpp           \
-	Exceptions.hpp            \
-	Factory.hpp               \
-	GeneticScheduler.hpp      \
-	Global.hpp                \
-	Graph.hpp                 \
-	Module.hpp                \
-	Modules.hpp               \
-	ModuleFactory.hpp         \
-	VirtualMachine.hpp
-
-HadronsXmlRun_SOURCES = HadronsXmlRun.cc
-HadronsXmlRun_LDADD   = libHadrons.a -lGrid
-
-HadronsXmlSchedule_SOURCES = HadronsXmlSchedule.cc
-HadronsXmlSchedule_LDADD   = libHadrons.a -lGrid

extras/Hadrons/Module.cc

@@ -1,61 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Module.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Module.hpp>
-
-using namespace Grid;
-using namespace QCD;
-using namespace Hadrons;
-
-/******************************************************************************
- *                       ModuleBase implementation                            *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-ModuleBase::ModuleBase(const std::string name)
-: name_(name)
-{}
-
-// access //////////////////////////////////////////////////////////////////////
-std::string ModuleBase::getName(void) const
-{
-    return name_;
-}
-
-// get factory registration name if available
-std::string ModuleBase::getRegisteredName(void)
-{
-    HADRON_ERROR(Definition, "module '" + getName() + "' has no registered type"
-                 + " in the factory");
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void ModuleBase::operator()(void)
-{
-    setup();
-    execute();
-}

extras/Hadrons/Module.hpp

@@ -1,254 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Module.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_Module_hpp_
-#define Hadrons_Module_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/VirtualMachine.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-// module registration macros
-#define MODULE_REGISTER(mod, base)\
-class mod: public base\
-{\
-public:\
-    typedef base Base;\
-    using Base::Base;\
-    virtual std::string getRegisteredName(void)\
-    {\
-        return std::string(#mod);\
-    }\
-};\
-class mod##ModuleRegistrar\
-{\
-public:\
-    mod##ModuleRegistrar(void)\
-    {\
-        ModuleFactory &modFac = ModuleFactory::getInstance();\
-        modFac.registerBuilder(#mod, [&](const std::string name)\
-                              {\
-                                  return std::unique_ptr<mod>(new mod(name));\
-                              });\
-    }\
-};\
-static mod##ModuleRegistrar mod##ModuleRegistrarInstance;
-
-#define MODULE_REGISTER_NS(mod, base, ns)\
-class mod: public base\
-{\
-public:\
-    typedef base Base;\
-    using Base::Base;\
-    virtual std::string getRegisteredName(void)\
-    {\
-        return std::string(#ns "::" #mod);\
-    }\
-};\
-class ns##mod##ModuleRegistrar\
-{\
-public:\
-    ns##mod##ModuleRegistrar(void)\
-    {\
-        ModuleFactory &modFac = ModuleFactory::getInstance();\
-        modFac.registerBuilder(#ns "::" #mod, [&](const std::string name)\
-                              {\
-                                  return std::unique_ptr<ns::mod>(new ns::mod(name));\
-                              });\
-    }\
-};\
-static ns##mod##ModuleRegistrar ns##mod##ModuleRegistrarInstance;
-
-#define ARG(...) __VA_ARGS__
-#define MACRO_REDIRECT(arg1, arg2, arg3, macro, ...) macro
-
-#define envGet(type, name)\
-*env().template getObject<type>(name)
-
-#define envGetTmp(type, var)\
-type &var = *env().template getObject<type>(getName() + "_tmp_" + #var)
-
-#define envHasType(type, name)\
-env().template isObjectOfType<type>(name)
-
-#define envCreate(type, name, Ls, ...)\
-env().template createObject<type>(name, Environment::Storage::object, Ls, __VA_ARGS__)
-
-#define envCreateDerived(base, type, name, Ls, ...)\
-env().template createDerivedObject<base, type>(name, Environment::Storage::object, Ls, __VA_ARGS__)
-
-#define envCreateLat4(type, name)\
-envCreate(type, name, 1, env().getGrid())
-
-#define envCreateLat5(type, name, Ls)\
-envCreate(type, name, Ls, env().getGrid(Ls))
-
-#define envCreateLat(...)\
-MACRO_REDIRECT(__VA_ARGS__, envCreateLat5, envCreateLat4)(__VA_ARGS__)
-
-#define envCache(type, name, Ls, ...)\
-env().template createObject<type>(name, Environment::Storage::cache, Ls, __VA_ARGS__)
-
-#define envCacheLat4(type, name)\
-envCache(type, name, 1, env().getGrid())
-
-#define envCacheLat5(type, name, Ls)\
-envCache(type, name, Ls, env().getGrid(Ls))
-
-#define envCacheLat(...)\
-MACRO_REDIRECT(__VA_ARGS__, envCacheLat5, envCacheLat4)(__VA_ARGS__)
-
-#define envTmp(type, name, Ls, ...)\
-env().template createObject<type>(getName() + "_tmp_" + name,         \
-                                  Environment::Storage::temporary, Ls, __VA_ARGS__)
-
-#define envTmpLat4(type, name)\
-envTmp(type, name, 1, env().getGrid())
-
-#define envTmpLat5(type, name, Ls)\
-envTmp(type, name, Ls, env().getGrid(Ls))
-
-#define envTmpLat(...)\
-MACRO_REDIRECT(__VA_ARGS__, envTmpLat5, envTmpLat4)(__VA_ARGS__)
-
-/******************************************************************************
- *                            Module class                                    *
- ******************************************************************************/
-// base class
-class ModuleBase
-{
-public:
-    // constructor
-    ModuleBase(const std::string name);
-    // destructor
-    virtual ~ModuleBase(void) = default;
-    // access
-    std::string getName(void) const;
-    // get factory registration name if available
-    virtual std::string getRegisteredName(void);
-    // dependencies/products
-    virtual std::vector<std::string> getInput(void) = 0;
-    virtual std::vector<std::string> getReference(void)
-    {
-        return std::vector<std::string>(0);
-    };
-    virtual std::vector<std::string> getOutput(void) = 0;
-    // parse parameters
-    virtual void parseParameters(XmlReader &reader, const std::string name) = 0;
-    virtual void saveParameters(XmlWriter &writer, const std::string name) = 0;
-    // setup
-    virtual void setup(void) {};
-    virtual void execute(void) = 0;
-    // execution
-    void operator()(void);
-protected:
-    // environment shortcut
-    DEFINE_ENV_ALIAS;
-    // virtual machine shortcut
-    DEFINE_VM_ALIAS;
-private:
-    std::string name_;
-};
-
-// derived class, templating the parameter class
-template <typename P>
-class Module: public ModuleBase
-{
-public:
-    typedef P Par;
-public:
-    // constructor
-    Module(const std::string name);
-    // destructor
-    virtual ~Module(void) = default;
-    // parse parameters
-    virtual void parseParameters(XmlReader &reader, const std::string name);
-    virtual void saveParameters(XmlWriter &writer, const std::string name);
-    // parameter access
-    const P & par(void) const;
-    void      setPar(const P &par);
-private:
-    P par_;
-};
-
-// no parameter type
-class NoPar {};
-
-template <>
-class Module<NoPar>: public ModuleBase
-{
-public:
-    // constructor
-    Module(const std::string name): ModuleBase(name) {};
-    // destructor
-    virtual ~Module(void) = default;
-    // parse parameters (do nothing)
-    virtual void parseParameters(XmlReader &reader, const std::string name) {};
-    virtual void saveParameters(XmlWriter &writer, const std::string name)
-    {
-        push(writer, "options");
-        pop(writer);
-    };
-};
-
-/******************************************************************************
- *                           Template implementation                          *
- ******************************************************************************/
-template <typename P>
-Module<P>::Module(const std::string name)
-: ModuleBase(name)
-{}
-
-template <typename P>
-void Module<P>::parseParameters(XmlReader &reader, const std::string name)
-{
-    read(reader, name, par_);
-}
-
-template <typename P>
-void Module<P>::saveParameters(XmlWriter &writer, const std::string name)
-{
-    write(writer, name, par_);
-}
-
-template <typename P>
-const P & Module<P>::par(void) const
-{
-    return par_;
-}
-
-template <typename P>
-void Module<P>::setPar(const P &par)
-{
-    par_ = par;
-}
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_Module_hpp_

extras/Hadrons/ModuleFactory.hpp

@@ -1,48 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/ModuleFactory.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_ModuleFactory_hpp_
-#define Hadrons_ModuleFactory_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Factory.hpp>
-#include <Grid/Hadrons/Module.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                            ModuleFactory                                   *
- ******************************************************************************/
-class ModuleFactory: public Factory<ModuleBase>
-{
-    SINGLETON_DEFCTOR(ModuleFactory)
-};
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_ModuleFactory_hpp_

extras/Hadrons/Modules.hpp

@@ -1,64 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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/Hadrons/Modules/MContraction/Baryon.hpp>
-#include <Grid/Hadrons/Modules/MContraction/Meson.hpp>
-#include <Grid/Hadrons/Modules/MContraction/WeakHamiltonian.hpp>
-#include <Grid/Hadrons/Modules/MContraction/WeakHamiltonianNonEye.hpp>
-#include <Grid/Hadrons/Modules/MContraction/DiscLoop.hpp>
-#include <Grid/Hadrons/Modules/MContraction/WeakNeutral4ptDisc.hpp>
-#include <Grid/Hadrons/Modules/MContraction/Gamma3pt.hpp>
-#include <Grid/Hadrons/Modules/MContraction/WardIdentity.hpp>
-#include <Grid/Hadrons/Modules/MContraction/WeakHamiltonianEye.hpp>
-#include <Grid/Hadrons/Modules/MFermion/GaugeProp.hpp>
-#include <Grid/Hadrons/Modules/MSource/SeqGamma.hpp>
-#include <Grid/Hadrons/Modules/MSource/Point.hpp>
-#include <Grid/Hadrons/Modules/MSource/Wall.hpp>
-#include <Grid/Hadrons/Modules/MSource/Z2.hpp>
-#include <Grid/Hadrons/Modules/MSource/SeqConserved.hpp>
-#include <Grid/Hadrons/Modules/MSink/Smear.hpp>
-#include <Grid/Hadrons/Modules/MSink/Point.hpp>
-#include <Grid/Hadrons/Modules/MSolver/RBPrecCG.hpp>
-#include <Grid/Hadrons/Modules/MGauge/Unit.hpp>
-#include <Grid/Hadrons/Modules/MGauge/Random.hpp>
-#include <Grid/Hadrons/Modules/MGauge/StochEm.hpp>
-#include <Grid/Hadrons/Modules/MGauge/FundtoHirep.hpp>
-#include <Grid/Hadrons/Modules/MUtilities/TestSeqGamma.hpp>
-#include <Grid/Hadrons/Modules/MUtilities/TestSeqConserved.hpp>
-#include <Grid/Hadrons/Modules/MLoop/NoiseLoop.hpp>
-#include <Grid/Hadrons/Modules/MScalar/FreeProp.hpp>
-#include <Grid/Hadrons/Modules/MScalar/Scalar.hpp>
-#include <Grid/Hadrons/Modules/MScalar/ChargedProp.hpp>
-#include <Grid/Hadrons/Modules/MAction/DWF.hpp>
-#include <Grid/Hadrons/Modules/MAction/Wilson.hpp>
-#include <Grid/Hadrons/Modules/MAction/WilsonClover.hpp>
-#include <Grid/Hadrons/Modules/MScalarSUN/TrMag.hpp>
-#include <Grid/Hadrons/Modules/MScalarSUN/TwoPoint.hpp>
-#include <Grid/Hadrons/Modules/MScalarSUN/TrPhi.hpp>
-#include <Grid/Hadrons/Modules/MIO/LoadNersc.hpp>
-#include <Grid/Hadrons/Modules/MIO/LoadBinary.hpp>

extras/Hadrons/Modules/MAction/DWF.hpp

@@ -1,135 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MAction/DWF.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MAction_DWF_hpp_
-#define Hadrons_MAction_DWF_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                     Domain wall quark action                               *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MAction)
-
-class DWFPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(DWFPar,
-                                    std::string, gauge,
-                                    unsigned int, Ls,
-                                    double      , mass,
-                                    double      , M5,
-                                    std::string , boundary);
-};
-
-template <typename FImpl>
-class TDWF: public Module<DWFPar>
-{
-public:
-    FGS_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TDWF(const std::string name);
-    // destructor
-    virtual ~TDWF(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(DWF, TDWF<FIMPL>, MAction);
-
-/******************************************************************************
- *                        DWF template implementation                         *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TDWF<FImpl>::TDWF(const std::string name)
-: Module<DWFPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TDWF<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().gauge};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TDWF<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TDWF<FImpl>::setup(void)
-{
-    LOG(Message) << "Setting up domain wall fermion matrix with m= "
-                 << par().mass << ", M5= " << par().M5 << " and Ls= "
-                 << par().Ls << " using gauge field '" << par().gauge << "'"
-                 << std::endl;
-    LOG(Message) << "Fermion boundary conditions: " << par().boundary
-                 << std::endl;
-                 
-    env().createGrid(par().Ls);
-    auto &U    = envGet(LatticeGaugeField, par().gauge);
-    auto &g4   = *env().getGrid();
-    auto &grb4 = *env().getRbGrid();
-    auto &g5   = *env().getGrid(par().Ls);
-    auto &grb5 = *env().getRbGrid(par().Ls);
-    std::vector<Complex> boundary = strToVec<Complex>(par().boundary);
-    typename DomainWallFermion<FImpl>::ImplParams implParams(boundary);
-    envCreateDerived(FMat, DomainWallFermion<FImpl>, getName(), par().Ls, U, g5,
-                     grb5, g4, grb4, par().mass, par().M5, implParams);
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TDWF<FImpl>::execute(void)
-{}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MAction_DWF_hpp_

extras/Hadrons/Modules/MAction/Wilson.hpp

@@ -1,128 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MAction/Wilson.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MAction_Wilson_hpp_
-#define Hadrons_MAction_Wilson_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                            TWilson quark action                            *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MAction)
-
-class WilsonPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(WilsonPar,
-                                    std::string, gauge,
-                                    double     , mass,
-                                    std::string, boundary);
-};
-
-template <typename FImpl>
-class TWilson: public Module<WilsonPar>
-{
-public:
-    FGS_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TWilson(const std::string name);
-    // destructor
-    virtual ~TWilson(void) = default;
-    // dependencies/products
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(Wilson, TWilson<FIMPL>, MAction);
-
-/******************************************************************************
- *                     TWilson template implementation                        *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TWilson<FImpl>::TWilson(const std::string name)
-: Module<WilsonPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TWilson<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().gauge};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TWilson<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TWilson<FImpl>::setup(void)
-{
-    LOG(Message) << "Setting up TWilson fermion matrix with m= " << par().mass
-                 << " using gauge field '" << par().gauge << "'" << std::endl;
-    LOG(Message) << "Fermion boundary conditions: " << par().boundary
-                 << std::endl;
-                 
-    auto &U      = envGet(LatticeGaugeField, par().gauge);
-    auto &grid   = *env().getGrid();
-    auto &gridRb = *env().getRbGrid();
-    std::vector<Complex> boundary = strToVec<Complex>(par().boundary);
-    typename WilsonFermion<FImpl>::ImplParams implParams(boundary);
-    envCreateDerived(FMat, WilsonFermion<FImpl>, getName(), 1, U, grid, gridRb,
-                     par().mass, implParams);
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TWilson<FImpl>::execute()
-{}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_Wilson_hpp_

extras/Hadrons/Modules/MAction/WilsonClover.hpp

@@ -1,153 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MAction/Wilson.hpp
-
-Copyright (C) 2015
-Copyright (C) 2016
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_MAction_WilsonClover_hpp_
-#define Hadrons_MAction_WilsonClover_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                            TWilson quark action                            *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MAction)
-
-class WilsonCloverPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(WilsonCloverPar,
-                                    std::string, gauge,
-                                    double     , mass,
-				                    double     , csw_r,
-				                    double     , csw_t,
-				                    WilsonAnisotropyCoefficients ,clover_anisotropy,
-                                    std::string, boundary
-				    );
-};
-
-template <typename FImpl>
-class TWilsonClover: public Module<WilsonCloverPar>
-{
-public:
-    FGS_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TWilsonClover(const std::string name);
-    // destructor
-    virtual ~TWilsonClover(void) = default;
-    // dependencies/products
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(WilsonClover, TWilsonClover<FIMPL>, MAction);
-
-/******************************************************************************
- *                     TWilsonClover template implementation                        *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TWilsonClover<FImpl>::TWilsonClover(const std::string name)
-: Module<WilsonCloverPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TWilsonClover<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().gauge};
-
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TWilsonClover<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TWilsonClover<FImpl>::setup(void)
-{
-    //unsigned int size;
-
-    // size = 2*env().template lattice4dSize<typename FImpl::DoubledGaugeField>();
-    // env().registerObject(getName(), size);
-
-
-    LOG(Message) << "Setting up TWilsonClover fermion matrix with m= " << par().mass
-                 << " using gauge field '" << par().gauge << "'" << std::endl;
-    LOG(Message) << "Fermion boundary conditions: " << par().boundary 
-                 << std::endl;
-    LOG(Message) << "Clover term csw_r: " << par().csw_r
-                 << " csw_t: " << par().csw_t
-                 << std::endl;
-    auto &U      = envGet(LatticeGaugeField, par().gauge);
-    auto &grid   = *env().getGrid();
-    auto &gridRb = *env().getRbGrid();
-    std::vector<Complex> boundary = strToVec<Complex>(par().boundary);
-    typename WilsonCloverFermion<FImpl>::ImplParams implParams(boundary);
-    envCreateDerived(FMat, WilsonCloverFermion<FImpl>, getName(), 1, U, grid, gridRb, par().mass,
-						  par().csw_r,
-						  par().csw_t,
-					      par().clover_anisotropy,
-						  implParams); 
-
-
-    //FMat *fMatPt = new WilsonCloverFermion<FImpl>(U, grid, gridRb, par().mass,
-	//					  par().csw_r,
-	//					  par().csw_t,
-	//				      par().clover_anisotropy,
-	//					  implParams);
-    //env().setObject(getName(), fMatPt);
-
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TWilsonClover<FImpl>::execute()
-{
-
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_WilsonClover_hpp_

extras/Hadrons/Modules/MContraction/Baryon.hpp

@@ -1,141 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/Baryon.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MContraction_Baryon_hpp_
-#define Hadrons_MContraction_Baryon_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                               Baryon                                       *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MContraction)
-
-class BaryonPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(BaryonPar,
-                                    std::string, q1,
-                                    std::string, q2,
-                                    std::string, q3,
-                                    std::string, output);
-};
-
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-class TBaryon: public Module<BaryonPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl1, 1);
-    FERM_TYPE_ALIASES(FImpl2, 2);
-    FERM_TYPE_ALIASES(FImpl3, 3);
-    class Result: Serializable
-    {
-    public:
-        GRID_SERIALIZABLE_CLASS_MEMBERS(Result,
-                                        std::vector<std::vector<std::vector<Complex>>>, corr);
-    };
-public:
-    // constructor
-    TBaryon(const std::string name);
-    // destructor
-    virtual ~TBaryon(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(Baryon, ARG(TBaryon<FIMPL, FIMPL, FIMPL>), MContraction);
-
-/******************************************************************************
- *                         TBaryon implementation                             *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-TBaryon<FImpl1, FImpl2, FImpl3>::TBaryon(const std::string name)
-: Module<BaryonPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-std::vector<std::string> TBaryon<FImpl1, FImpl2, FImpl3>::getInput(void)
-{
-    std::vector<std::string> input = {par().q1, par().q2, par().q3};
-    
-    return input;
-}
-
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-std::vector<std::string> TBaryon<FImpl1, FImpl2, FImpl3>::getOutput(void)
-{
-    std::vector<std::string> out = {};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-void TBaryon<FImpl1, FImpl2, FImpl3>::setup(void)
-{
-    envTmpLat(LatticeComplex, "c");
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-void TBaryon<FImpl1, FImpl2, FImpl3>::execute(void)
-{
-    LOG(Message) << "Computing baryon contractions '" << getName() << "' using"
-                 << " quarks '" << par().q1 << "', '" << par().q2 << "', and '"
-                 << par().q3 << "'" << std::endl;
-    
-    ResultWriter writer(RESULT_FILE_NAME(par().output));
-    auto       &q1 = envGet(PropagatorField1, par().q1);
-    auto       &q2 = envGet(PropagatorField2, par().q2);
-    auto       &q3 = envGet(PropagatorField3, par().q2);
-    envGetTmp(LatticeComplex, c);
-    Result     result;
-    
-    // FIXME: do contractions
-    
-    // write(writer, "meson", result);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MContraction_Baryon_hpp_

extras/Hadrons/Modules/MContraction/DiscLoop.hpp

@@ -1,146 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/DiscLoop.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MContraction_DiscLoop_hpp_
-#define Hadrons_MContraction_DiscLoop_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                                DiscLoop                                    *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MContraction)
-
-class DiscLoopPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(DiscLoopPar,
-                                    std::string,    q_loop,
-                                    Gamma::Algebra, gamma,
-                                    std::string,    output);
-};
-
-template <typename FImpl>
-class TDiscLoop: public Module<DiscLoopPar>
-{
-    FERM_TYPE_ALIASES(FImpl,);
-    class Result: Serializable
-    {
-    public:
-        GRID_SERIALIZABLE_CLASS_MEMBERS(Result,
-                                        Gamma::Algebra, gamma,
-                                        std::vector<Complex>, corr);
-    };
-public:
-    // constructor
-    TDiscLoop(const std::string name);
-    // destructor
-    virtual ~TDiscLoop(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(DiscLoop, TDiscLoop<FIMPL>, MContraction);
-
-/******************************************************************************
- *                       TDiscLoop implementation                             *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TDiscLoop<FImpl>::TDiscLoop(const std::string name)
-: Module<DiscLoopPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TDiscLoop<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().q_loop};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TDiscLoop<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TDiscLoop<FImpl>::setup(void)
-{
-    envTmpLat(LatticeComplex, "c");
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TDiscLoop<FImpl>::execute(void)
-{
-    LOG(Message) << "Computing disconnected loop contraction '" << getName() 
-                 << "' using '" << par().q_loop << "' with " << par().gamma 
-                 << " insertion." << std::endl;
-
-    ResultWriter          writer(RESULT_FILE_NAME(par().output));
-    auto                  &q_loop = envGet(PropagatorField, par().q_loop);
-    Gamma                 gamma(par().gamma);
-    std::vector<TComplex> buf;
-    Result                result;
-
-    envGetTmp(LatticeComplex, c);
-    c = trace(gamma*q_loop);
-    sliceSum(c, buf, Tp);
-
-    result.gamma = par().gamma;
-    result.corr.resize(buf.size());
-    for (unsigned int t = 0; t < buf.size(); ++t)
-    {
-        result.corr[t] = TensorRemove(buf[t]);
-    }
-
-    write(writer, "disc", result);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MContraction_DiscLoop_hpp_

extras/Hadrons/Modules/MContraction/Gamma3pt.hpp

@@ -1,186 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/Gamma3pt.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MContraction_Gamma3pt_hpp_
-#define Hadrons_MContraction_Gamma3pt_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/*
- * 3pt contraction with gamma matrix insertion.
- *
- * Schematic:
- *
- *             q2           q3
- *        /----<------*------<----¬
- *       /          gamma          \
- *      /                           \
- *   i *                            * f
- *      \                          /
- *       \                        /
- *        \----------->----------/
- *                   q1
- *
- *      trace(g5*q1*adj(q2)*g5*gamma*q3)
- * 
- *  options:
- *   - q1: sink smeared propagator, source at i
- *   - q2: propagator, source at i
- *   - q3: propagator, source at f
- *   - gamma: gamma matrix to insert
- *   - tSnk: sink position for propagator q1.
- *
- */
-
-/******************************************************************************
- *                               Gamma3pt                                     *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MContraction)
-
-class Gamma3ptPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(Gamma3ptPar,
-                                    std::string,    q1,
-                                    std::string,    q2,
-                                    std::string,    q3,
-                                    Gamma::Algebra, gamma,
-                                    unsigned int,   tSnk,
-                                    std::string,    output);
-};
-
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-class TGamma3pt: public Module<Gamma3ptPar>
-{
-    FERM_TYPE_ALIASES(FImpl1, 1);
-    FERM_TYPE_ALIASES(FImpl2, 2);
-    FERM_TYPE_ALIASES(FImpl3, 3);
-    class Result: Serializable
-    {
-    public:
-        GRID_SERIALIZABLE_CLASS_MEMBERS(Result,
-                                        Gamma::Algebra, gamma,
-                                        std::vector<Complex>, corr);
-    };
-public:
-    // constructor
-    TGamma3pt(const std::string name);
-    // destructor
-    virtual ~TGamma3pt(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(Gamma3pt, ARG(TGamma3pt<FIMPL, FIMPL, FIMPL>), MContraction);
-
-/******************************************************************************
- *                       TGamma3pt implementation                             *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-TGamma3pt<FImpl1, FImpl2, FImpl3>::TGamma3pt(const std::string name)
-: Module<Gamma3ptPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-std::vector<std::string> TGamma3pt<FImpl1, FImpl2, FImpl3>::getInput(void)
-{
-    std::vector<std::string> in = {par().q1, par().q2, par().q3};
-    
-    return in;
-}
-
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-std::vector<std::string> TGamma3pt<FImpl1, FImpl2, FImpl3>::getOutput(void)
-{
-    std::vector<std::string> out = {};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-void TGamma3pt<FImpl1, FImpl2, FImpl3>::setup(void)
-{
-    envTmpLat(LatticeComplex, "c");
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2, typename FImpl3>
-void TGamma3pt<FImpl1, FImpl2, FImpl3>::execute(void)
-{
-    LOG(Message) << "Computing 3pt contractions '" << getName() << "' using"
-                 << " quarks '" << par().q1 << "', '" << par().q2 << "' and '"
-                 << par().q3 << "', with " << par().gamma << " insertion." 
-                 << std::endl;
-
-    // Initialise variables. q2 and q3 are normal propagators, q1 may be 
-    // sink smeared.
-    ResultWriter          writer(RESULT_FILE_NAME(par().output));
-    auto                  &q1 = envGet(SlicedPropagator1, par().q1);
-    auto                  &q2 = envGet(PropagatorField2, par().q2);
-    auto                  &q3 = envGet(PropagatorField2, par().q3);
-    Gamma                 g5(Gamma::Algebra::Gamma5);
-    Gamma                 gamma(par().gamma);
-    std::vector<TComplex> buf;
-    Result                result;
-    
-    // Extract relevant timeslice of sinked propagator q1, then contract &
-    // sum over all spacial positions of gamma insertion.
-    SitePropagator1 q1Snk = q1[par().tSnk];
-    envGetTmp(LatticeComplex, c);
-    c = trace(g5*q1Snk*adj(q2)*(g5*gamma)*q3);
-    sliceSum(c, buf, Tp);
-
-    result.gamma = par().gamma;
-    result.corr.resize(buf.size());
-    for (unsigned int t = 0; t < buf.size(); ++t)
-    {
-        result.corr[t] = TensorRemove(buf[t]);
-    }
-
-    write(writer, "gamma3pt", result);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MContraction_Gamma3pt_hpp_

extras/Hadrons/Modules/MContraction/Meson.hpp

@@ -1,249 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/Meson.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MContraction_Meson_hpp_
-#define Hadrons_MContraction_Meson_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/*
- 
- Meson contractions
- -----------------------------
- 
- * options:
- - q1: input propagator 1 (string)
- - q2: input propagator 2 (string)
- - gammas: gamma products to insert at sink & source, pairs of gamma matrices 
-           (space-separated strings) in angled brackets (i.e. <g_sink g_src>),
-           in a sequence (e.g. "<Gamma5 Gamma5><Gamma5 GammaT>").
-
-           Special values: "all" - perform all possible contractions.
- - sink: module to compute the sink to use in contraction (string).
-*/
-
-/******************************************************************************
- *                                TMeson                                       *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MContraction)
-
-typedef std::pair<Gamma::Algebra, Gamma::Algebra> GammaPair;
-
-class MesonPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(MesonPar,
-                                    std::string, q1,
-                                    std::string, q2,
-                                    std::string, gammas,
-                                    std::string, sink,
-                                    std::string, output);
-};
-
-template <typename FImpl1, typename FImpl2>
-class TMeson: public Module<MesonPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl1, 1);
-    FERM_TYPE_ALIASES(FImpl2, 2);
-    FERM_TYPE_ALIASES(ScalarImplCR, Scalar);
-    SINK_TYPE_ALIASES(Scalar);
-    class Result: Serializable
-    {
-    public:
-        GRID_SERIALIZABLE_CLASS_MEMBERS(Result,
-                                        Gamma::Algebra, gamma_snk,
-                                        Gamma::Algebra, gamma_src,
-                                        std::vector<Complex>, corr);
-    };
-public:
-    // constructor
-    TMeson(const std::string name);
-    // destructor
-    virtual ~TMeson(void) = default;
-    // dependencies/products
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    virtual void parseGammaString(std::vector<GammaPair> &gammaList);
-protected:
-    // execution
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(Meson, ARG(TMeson<FIMPL, FIMPL>), MContraction);
-
-/******************************************************************************
- *                           TMeson implementation                            *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2>
-TMeson<FImpl1, FImpl2>::TMeson(const std::string name)
-: Module<MesonPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2>
-std::vector<std::string> TMeson<FImpl1, FImpl2>::getInput(void)
-{
-    std::vector<std::string> input = {par().q1, par().q2, par().sink};
-    
-    return input;
-}
-
-template <typename FImpl1, typename FImpl2>
-std::vector<std::string> TMeson<FImpl1, FImpl2>::getOutput(void)
-{
-    std::vector<std::string> output = {};
-    
-    return output;
-}
-
-template <typename FImpl1, typename FImpl2>
-void TMeson<FImpl1, FImpl2>::parseGammaString(std::vector<GammaPair> &gammaList)
-{
-    gammaList.clear();
-    // Determine gamma matrices to insert at source/sink.
-    if (par().gammas.compare("all") == 0)
-    {
-        // Do all contractions.
-        for (unsigned int i = 1; i < Gamma::nGamma; i += 2)
-        {
-            for (unsigned int j = 1; j < Gamma::nGamma; j += 2)
-            {
-                gammaList.push_back(std::make_pair((Gamma::Algebra)i, 
-                                                   (Gamma::Algebra)j));
-            }
-        }
-    }
-    else
-    {
-        // Parse individual contractions from input string.
-        gammaList = strToVec<GammaPair>(par().gammas);
-    } 
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl1, typename FImpl2>
-void TMeson<FImpl1, FImpl2>::setup(void)
-{
-    envTmpLat(LatticeComplex, "c");
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-#define mesonConnected(q1, q2, gSnk, gSrc) \
-(g5*(gSnk))*(q1)*(adj(gSrc)*g5)*adj(q2)
-
-template <typename FImpl1, typename FImpl2>
-void TMeson<FImpl1, FImpl2>::execute(void)
-{
-    LOG(Message) << "Computing meson contractions '" << getName() << "' using"
-                 << " quarks '" << par().q1 << "' and '" << par().q2 << "'"
-                 << std::endl;
-
-    ResultWriter           writer(RESULT_FILE_NAME(par().output));
-    std::vector<TComplex>  buf;
-    std::vector<Result>    result;
-    Gamma                  g5(Gamma::Algebra::Gamma5);
-    std::vector<GammaPair> gammaList;
-    int                    nt = env().getDim(Tp);
-    
-    parseGammaString(gammaList);
-    result.resize(gammaList.size());
-    for (unsigned int i = 0; i < result.size(); ++i)
-    {
-        result[i].gamma_snk = gammaList[i].first;
-        result[i].gamma_src = gammaList[i].second;
-        result[i].corr.resize(nt);
-    }
-    if (envHasType(SlicedPropagator1, par().q1) and
-        envHasType(SlicedPropagator2, par().q2))
-    {
-        auto &q1 = envGet(SlicedPropagator1, par().q1);
-        auto &q2 = envGet(SlicedPropagator2, par().q2);
-        
-        LOG(Message) << "(propagator already sinked)" << std::endl;
-        for (unsigned int i = 0; i < result.size(); ++i)
-        {
-            Gamma gSnk(gammaList[i].first);
-            Gamma gSrc(gammaList[i].second);
-            
-            for (unsigned int t = 0; t < buf.size(); ++t)
-            {
-                result[i].corr[t] = TensorRemove(trace(mesonConnected(q1[t], q2[t], gSnk, gSrc)));
-            }
-        }
-    }
-    else
-    {
-        auto &q1 = envGet(PropagatorField1, par().q1);
-        auto &q2 = envGet(PropagatorField2, par().q2);
-        
-        envGetTmp(LatticeComplex, c);
-        LOG(Message) << "(using sink '" << par().sink << "')" << std::endl;
-        for (unsigned int i = 0; i < result.size(); ++i)
-        {
-            Gamma       gSnk(gammaList[i].first);
-            Gamma       gSrc(gammaList[i].second);
-            std::string ns;
-                
-            ns = vm().getModuleNamespace(env().getObjectModule(par().sink));
-            if (ns == "MSource")
-            {
-                PropagatorField1 &sink = envGet(PropagatorField1, par().sink);
-                
-                c = trace(mesonConnected(q1, q2, gSnk, gSrc)*sink);
-                sliceSum(c, buf, Tp);
-            }
-            else if (ns == "MSink")
-            {
-                SinkFnScalar &sink = envGet(SinkFnScalar, par().sink);
-                
-                c   = trace(mesonConnected(q1, q2, gSnk, gSrc));
-                buf = sink(c);
-            }
-            for (unsigned int t = 0; t < buf.size(); ++t)
-            {
-                result[i].corr[t] = TensorRemove(buf[t]);
-            }
-        }
-    }
-    write(writer, "meson", result);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MContraction_Meson_hpp_

extras/Hadrons/Modules/MContraction/WardIdentity.hpp

@@ -1,224 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/WardIdentity.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MContraction_WardIdentity_hpp_
-#define Hadrons_MContraction_WardIdentity_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/*
-  Ward Identity contractions
- -----------------------------
- 
- * options:
- - q:          propagator, 5D if available (string)
- - action:     action module used for propagator solution (string)
- - mass:       mass of quark (double)
- - test_axial: whether or not to test PCAC relation.
-*/
-
-/******************************************************************************
- *                              WardIdentity                                  *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MContraction)
-
-class WardIdentityPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(WardIdentityPar,
-                                    std::string, q,
-                                    std::string, action,
-                                    double,      mass,
-                                    bool,        test_axial);
-};
-
-template <typename FImpl>
-class TWardIdentity: public Module<WardIdentityPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TWardIdentity(const std::string name);
-    // destructor
-    virtual ~TWardIdentity(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-private:
-    unsigned int Ls_;
-};
-
-MODULE_REGISTER_NS(WardIdentity, TWardIdentity<FIMPL>, MContraction);
-
-/******************************************************************************
- *                     TWardIdentity implementation                           *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TWardIdentity<FImpl>::TWardIdentity(const std::string name)
-: Module<WardIdentityPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TWardIdentity<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().q, par().action};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TWardIdentity<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TWardIdentity<FImpl>::setup(void)
-{
-    Ls_ = env().getObjectLs(par().q);
-    if (Ls_ != env().getObjectLs(par().action))
-    {
-        HADRON_ERROR(Size, "Ls mismatch between quark action and propagator");
-    }
-    envTmpLat(PropagatorField, "tmp");
-    envTmpLat(PropagatorField, "vector_WI");
-    if (par().test_axial)
-    {
-        envTmpLat(PropagatorField, "psi");
-        envTmpLat(LatticeComplex,  "PP");
-        envTmpLat(LatticeComplex,  "axial_defect");
-        envTmpLat(LatticeComplex,  "PJ5q");
-    }
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TWardIdentity<FImpl>::execute(void)
-{
-    LOG(Message) << "Performing Ward Identity checks for quark '" << par().q
-                 << "'." << std::endl;
-
-    auto  &q   = envGet(PropagatorField, par().q);
-    auto  &act = envGet(FMat, par().action);
-    Gamma g5(Gamma::Algebra::Gamma5);
-
-    // Compute D_mu V_mu, D here is backward derivative.
-    envGetTmp(PropagatorField, tmp);
-    envGetTmp(PropagatorField, vector_WI);
-    vector_WI    = zero;
-    for (unsigned int mu = 0; mu < Nd; ++mu)
-    {
-        act.ContractConservedCurrent(q, q, tmp, Current::Vector, mu);
-        tmp -= Cshift(tmp, mu, -1);
-        vector_WI += tmp;
-    }
-
-    // Test ward identity D_mu V_mu = 0;
-    LOG(Message) << "Vector Ward Identity check Delta_mu V_mu = " 
-                 << norm2(vector_WI) << std::endl;
-
-    if (par().test_axial)
-    {
-        envGetTmp(PropagatorField, psi);
-        envGetTmp(LatticeComplex, PP);
-        envGetTmp(LatticeComplex, axial_defect);
-        envGetTmp(LatticeComplex, PJ5q);
-        std::vector<TComplex> axial_buf;
-
-        // Compute <P|D_mu A_mu>, D is backwards derivative.
-        axial_defect = zero;
-        for (unsigned int mu = 0; mu < Nd; ++mu)
-        {
-            act.ContractConservedCurrent(q, q, tmp, Current::Axial, mu);
-            tmp -= Cshift(tmp, mu, -1);
-            axial_defect += trace(g5*tmp);
-        }
-
-        // Get <P|J5q> for 5D (zero for 4D) and <P|P>.
-        PJ5q = zero;
-        if (Ls_ > 1)
-        {
-            // <P|P>
-            ExtractSlice(tmp, q, 0, 0);
-            psi  = 0.5 * (tmp - g5*tmp);
-            ExtractSlice(tmp, q, Ls_ - 1, 0);
-            psi += 0.5 * (tmp + g5*tmp);
-            PP = trace(adj(psi)*psi);
-
-            // <P|5Jq>
-            ExtractSlice(tmp, q, Ls_/2 - 1, 0);
-            psi  = 0.5 * (tmp + g5*tmp);
-            ExtractSlice(tmp, q, Ls_/2, 0);
-            psi += 0.5 * (tmp - g5*tmp);
-            PJ5q = trace(adj(psi)*psi);
-        }
-        else
-        {
-            PP = trace(adj(q)*q);
-        }
-
-        // Test ward identity <P|D_mu A_mu> = 2m<P|P> + 2<P|J5q>
-        LOG(Message) << "|D_mu A_mu|^2 = " << norm2(axial_defect) << std::endl;
-        LOG(Message) << "|PP|^2        = " << norm2(PP) << std::endl;
-        LOG(Message) << "|PJ5q|^2      = " << norm2(PJ5q) << std::endl;
-        LOG(Message) << "Axial Ward Identity defect Delta_mu A_mu = "
-                     << norm2(axial_defect) << std::endl;
-    
-        // Axial defect by timeslice.
-        axial_defect -= 2.*(par().mass*PP + PJ5q);
-        LOG(Message) << "Check Axial defect by timeslice" << std::endl;
-        sliceSum(axial_defect, axial_buf, Tp);
-        for (int t = 0; t < axial_buf.size(); ++t)
-        {
-            LOG(Message) << "t = " << t << ": " 
-                         << TensorRemove(axial_buf[t]) << std::endl;
-        }
-    }
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_WardIdentity_hpp_

extras/Hadrons/Modules/MContraction/WeakHamiltonian.hpp

@@ -1,118 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/WeakHamiltonian.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MContraction_WeakHamiltonian_hpp_
-#define Hadrons_MContraction_WeakHamiltonian_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         WeakHamiltonian                                    *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MContraction)
-
-/*******************************************************************************
- * Utilities for contractions involving the Weak Hamiltonian.
- ******************************************************************************/
-//// Sum and store correlator.
-#define MAKE_DIAG(exp, buf, res, n)\
-sliceSum(exp, buf, Tp);\
-res.name = (n);\
-res.corr.resize(buf.size());\
-for (unsigned int t = 0; t < buf.size(); ++t)\
-{\
-    res.corr[t] = TensorRemove(buf[t]);\
-}
-
-//// Contraction of mu index: use 'mu' variable in exp.
-#define SUM_MU(buf,exp)\
-buf = zero;\
-for (unsigned int mu = 0; mu < ndim; ++mu)\
-{\
-    buf += exp;\
-}
-
-enum 
-{
-  i_V = 0,
-  i_A = 1,
-  n_i = 2
-};
-
-class WeakHamiltonianPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(WeakHamiltonianPar,
-                                    std::string, q1,
-                                    std::string, q2,
-                                    std::string, q3,
-                                    std::string, q4,
-                                    unsigned int, tSnk,
-                                    std::string, output);
-};
-
-#define MAKE_WEAK_MODULE(modname)\
-class T##modname: public Module<WeakHamiltonianPar>\
-{\
-public:\
-    FERM_TYPE_ALIASES(FIMPL,)\
-    class Result: Serializable\
-    {\
-    public:\
-        GRID_SERIALIZABLE_CLASS_MEMBERS(Result,\
-                                        std::string, name,\
-                                        std::vector<Complex>, corr);\
-    };\
-public:\
-    /* constructor */ \
-    T##modname(const std::string name);\
-    /* destructor */ \
-    virtual ~T##modname(void) = default;\
-    /* dependency relation */ \
-    virtual std::vector<std::string> getInput(void);\
-    virtual std::vector<std::string> getOutput(void);\
-public:\
-    std::vector<std::string> VA_label = {"V", "A"};\
-protected:\
-    /* setup */ \
-    virtual void setup(void);\
-    /* execution */ \
-    virtual void execute(void);\
-};\
-MODULE_REGISTER_NS(modname, T##modname, MContraction);
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MContraction_WeakHamiltonian_hpp_

extras/Hadrons/Modules/MContraction/WeakHamiltonianEye.cc

@@ -1,151 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/WeakHamiltonianEye.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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/Hadrons/Modules/MContraction/WeakHamiltonianEye.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace MContraction;
-
-/*
- * Weak Hamiltonian current-current contractions, Eye-type.
- * 
- * These contractions are generated by the Q1 and Q2 operators in the physical
- * basis (see e.g. Fig 3 of arXiv:1507.03094).
- * 
- * Schematics:        q4                 |                  
- *                  /-<-¬                |                             
- *                 /     \               |             q2           q3
- *                 \     /               |        /----<------*------<----¬                        
- *            q2    \   /    q3          |       /          /-*-¬          \
- *       /-----<-----* *-----<----¬      |      /          /     \          \
- *    i *            H_W           * f   |   i *           \     /  q4      * f
- *       \                        /      |      \           \->-/          /   
- *        \                      /       |       \                        /       
- *         \---------->---------/        |        \----------->----------/        
- *                   q1                  |                   q1                  
- *                                       |
- *                Saucer (S)             |                  Eye (E)
- * 
- * S: trace(q3*g5*q1*adj(q2)*g5*gL[mu][p_1]*q4*gL[mu][p_2])
- * E: trace(q3*g5*q1*adj(q2)*g5*gL[mu][p_1])*trace(q4*gL[mu][p_2])
- * 
- * Note q1 must be sink smeared.
- */
-
-/******************************************************************************
- *                  TWeakHamiltonianEye implementation                        *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-TWeakHamiltonianEye::TWeakHamiltonianEye(const std::string name)
-: Module<WeakHamiltonianPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> TWeakHamiltonianEye::getInput(void)
-{
-    std::vector<std::string> in = {par().q1, par().q2, par().q3, par().q4};
-    
-    return in;
-}
-
-std::vector<std::string> TWeakHamiltonianEye::getOutput(void)
-{
-    std::vector<std::string> out = {};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void TWeakHamiltonianEye::setup(void)
-{
-    unsigned int ndim = env().getNd();
-
-    envTmpLat(LatticeComplex,  "expbuf");
-    envTmpLat(PropagatorField, "tmp1");
-    envTmpLat(LatticeComplex,  "tmp2");
-    envTmp(std::vector<PropagatorField>, "S_body", 1, ndim, PropagatorField(env().getGrid()));
-    envTmp(std::vector<PropagatorField>, "S_loop", 1, ndim, PropagatorField(env().getGrid()));
-    envTmp(std::vector<LatticeComplex>,  "E_body", 1, ndim, LatticeComplex(env().getGrid()));
-    envTmp(std::vector<LatticeComplex>,  "E_loop", 1, ndim, LatticeComplex(env().getGrid()));
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void TWeakHamiltonianEye::execute(void)
-{
-    LOG(Message) << "Computing Weak Hamiltonian (Eye type) contractions '" 
-                 << getName() << "' using quarks '" << par().q1 << "', '" 
-                 << par().q2 << ", '" << par().q3 << "' and '" << par().q4 
-                 << "'." << std::endl;
-
-    ResultWriter           writer(RESULT_FILE_NAME(par().output));
-    auto                   &q1 = envGet(SlicedPropagator, par().q1);
-    auto                   &q2 = envGet(PropagatorField, par().q2);
-    auto                   &q3 = envGet(PropagatorField, par().q3);
-    auto                   &q4 = envGet(PropagatorField, par().q4);
-    Gamma                  g5  = Gamma(Gamma::Algebra::Gamma5);
-    std::vector<TComplex>  corrbuf;
-    std::vector<Result>    result(n_eye_diag);
-    unsigned int ndim    = env().getNd();
-
-    envGetTmp(LatticeComplex,               expbuf); 
-    envGetTmp(PropagatorField,              tmp1);
-    envGetTmp(LatticeComplex,               tmp2);
-    envGetTmp(std::vector<PropagatorField>, S_body);
-    envGetTmp(std::vector<PropagatorField>, S_loop);
-    envGetTmp(std::vector<LatticeComplex>,  E_body);
-    envGetTmp(std::vector<LatticeComplex>,  E_loop);
-
-    // Get sink timeslice of q1.
-    SitePropagator q1Snk = q1[par().tSnk];
-
-    // Setup for S-type contractions.
-    for (int mu = 0; mu < ndim; ++mu)
-    {
-        S_body[mu] = MAKE_SE_BODY(q1Snk, q2, q3, GammaL(Gamma::gmu[mu]));
-        S_loop[mu] = MAKE_SE_LOOP(q4, GammaL(Gamma::gmu[mu]));
-    }
-
-    // Perform S-type contractions.    
-    SUM_MU(expbuf, trace(S_body[mu]*S_loop[mu]))
-    MAKE_DIAG(expbuf, corrbuf, result[S_diag], "HW_S")
-
-    // Recycle sub-expressions for E-type contractions.
-    for (unsigned int mu = 0; mu < ndim; ++mu)
-    {
-        E_body[mu] = trace(S_body[mu]);
-        E_loop[mu] = trace(S_loop[mu]);
-    }
-
-    // Perform E-type contractions.
-    SUM_MU(expbuf, E_body[mu]*E_loop[mu])
-    MAKE_DIAG(expbuf, corrbuf, result[E_diag], "HW_E")
-
-    write(writer, "HW_Eye", result);
-}

extras/Hadrons/Modules/MContraction/WeakHamiltonianEye.hpp

@@ -1,59 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/WeakHamiltonianEye.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MContraction_WeakHamiltonianEye_hpp_
-#define Hadrons_MContraction_WeakHamiltonianEye_hpp_
-
-#include <Grid/Hadrons/Modules/MContraction/WeakHamiltonian.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         WeakHamiltonianEye                                 *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MContraction)
-
-enum
-{
-    S_diag = 0,
-    E_diag = 1,
-    n_eye_diag = 2
-};
-
-// Saucer and Eye subdiagram contractions.
-#define MAKE_SE_BODY(Q_1, Q_2, Q_3, gamma) (Q_3*g5*Q_1*adj(Q_2)*g5*gamma)
-#define MAKE_SE_LOOP(Q_loop, gamma) (Q_loop*gamma)
-
-MAKE_WEAK_MODULE(WeakHamiltonianEye)
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MContraction_WeakHamiltonianEye_hpp_

extras/Hadrons/Modules/MContraction/WeakHamiltonianNonEye.cc

@@ -1,148 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/WeakHamiltonianNonEye.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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/Hadrons/Modules/MContraction/WeakHamiltonianNonEye.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace MContraction;
-
-/*
- * Weak Hamiltonian current-current contractions, Non-Eye-type.
- * 
- * These contractions are generated by the Q1 and Q2 operators in the physical
- * basis (see e.g. Fig 3 of arXiv:1507.03094).
- * 
- * Schematic:     
- *            q2             q3          |           q2              q3
- *          /--<--¬       /--<--¬        |        /--<--¬         /--<--¬       
- *         /       \     /       \       |       /       \       /       \      
- *        /         \   /         \      |      /         \     /         \     
- *       /           \ /           \     |     /           \   /           \    
- *    i *             * H_W         *  f |  i *             * * H_W         * f 
- *      \             *             |    |     \           /   \           /
- *       \           / \           /     |      \         /     \         /    
- *        \         /   \         /      |       \       /       \       /  
- *         \       /     \       /       |        \-->--/         \-->--/      
- *          \-->--/       \-->--/        |          q1               q4 
- *            q1             q4          |
- *                Connected (C)          |                 Wing (W)
- *
- * C: trace(q1*adj(q2)*g5*gL[mu]*q3*adj(q4)*g5*gL[mu])
- * W: trace(q1*adj(q2)*g5*gL[mu])*trace(q3*adj(q4)*g5*gL[mu])
- * 
- */
-
-/******************************************************************************
- *                  TWeakHamiltonianNonEye implementation                     *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-TWeakHamiltonianNonEye::TWeakHamiltonianNonEye(const std::string name)
-: Module<WeakHamiltonianPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> TWeakHamiltonianNonEye::getInput(void)
-{
-    std::vector<std::string> in = {par().q1, par().q2, par().q3, par().q4};
-    
-    return in;
-}
-
-std::vector<std::string> TWeakHamiltonianNonEye::getOutput(void)
-{
-    std::vector<std::string> out = {};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void TWeakHamiltonianNonEye::setup(void)
-{
-    unsigned int ndim = env().getNd();
-
-    envTmpLat(LatticeComplex,  "expbuf");
-    envTmpLat(PropagatorField, "tmp1");
-    envTmpLat(LatticeComplex,  "tmp2");
-    envTmp(std::vector<PropagatorField>, "C_i_side_loop", 1, ndim, PropagatorField(env().getGrid()));
-    envTmp(std::vector<PropagatorField>, "C_f_side_loop", 1, ndim, PropagatorField(env().getGrid()));
-    envTmp(std::vector<LatticeComplex>,  "W_i_side_loop", 1, ndim, LatticeComplex(env().getGrid()));
-    envTmp(std::vector<LatticeComplex>,  "W_f_side_loop", 1, ndim, LatticeComplex(env().getGrid()));
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void TWeakHamiltonianNonEye::execute(void)
-{
-    LOG(Message) << "Computing Weak Hamiltonian (Non-Eye type) contractions '" 
-                 << getName() << "' using quarks '" << par().q1 << "', '" 
-                 << par().q2 << ", '" << par().q3 << "' and '" << par().q4 
-                 << "'." << std::endl;
-    
-    ResultWriter          writer(RESULT_FILE_NAME(par().output));
-    auto                  &q1 = envGet(PropagatorField, par().q1);
-    auto                  &q2 = envGet(PropagatorField, par().q2);
-    auto                  &q3 = envGet(PropagatorField, par().q3);
-    auto                  &q4 = envGet(PropagatorField, par().q4);
-    Gamma                 g5  = Gamma(Gamma::Algebra::Gamma5);
-    std::vector<TComplex> corrbuf;
-    std::vector<Result>   result(n_noneye_diag); 
-    unsigned int          ndim = env().getNd();
-
-    envGetTmp(LatticeComplex,               expbuf); 
-    envGetTmp(PropagatorField,              tmp1);
-    envGetTmp(LatticeComplex,               tmp2);
-    envGetTmp(std::vector<PropagatorField>, C_i_side_loop);
-    envGetTmp(std::vector<PropagatorField>, C_f_side_loop);
-    envGetTmp(std::vector<LatticeComplex>,  W_i_side_loop);
-    envGetTmp(std::vector<LatticeComplex>,  W_f_side_loop);
-
-    // Setup for C-type contractions.
-    for (int mu = 0; mu < ndim; ++mu)
-    {
-        C_i_side_loop[mu] = MAKE_CW_SUBDIAG(q1, q2, GammaL(Gamma::gmu[mu]));
-        C_f_side_loop[mu] = MAKE_CW_SUBDIAG(q3, q4, GammaL(Gamma::gmu[mu]));
-    }
-
-    // Perform C-type contractions.    
-    SUM_MU(expbuf, trace(C_i_side_loop[mu]*C_f_side_loop[mu]))
-    MAKE_DIAG(expbuf, corrbuf, result[C_diag], "HW_C")
-
-    // Recycle sub-expressions for W-type contractions.
-    for (unsigned int mu = 0; mu < ndim; ++mu)
-    {
-        W_i_side_loop[mu] = trace(C_i_side_loop[mu]);
-        W_f_side_loop[mu] = trace(C_f_side_loop[mu]);
-    }
-
-    // Perform W-type contractions.
-    SUM_MU(expbuf, W_i_side_loop[mu]*W_f_side_loop[mu])
-    MAKE_DIAG(expbuf, corrbuf, result[W_diag], "HW_W")
-
-    write(writer, "HW_NonEye", result);
-}

extras/Hadrons/Modules/MContraction/WeakHamiltonianNonEye.hpp

@@ -1,58 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/WeakHamiltonianNonEye.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MContraction_WeakHamiltonianNonEye_hpp_
-#define Hadrons_MContraction_WeakHamiltonianNonEye_hpp_
-
-#include <Grid/Hadrons/Modules/MContraction/WeakHamiltonian.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         WeakHamiltonianNonEye                              *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MContraction)
-
-enum
-{
-    W_diag = 0,
-    C_diag = 1,
-    n_noneye_diag = 2
-};
-
-// Wing and Connected subdiagram contractions
-#define MAKE_CW_SUBDIAG(Q_1, Q_2, gamma) (Q_1*adj(Q_2)*g5*gamma)
-
-MAKE_WEAK_MODULE(WeakHamiltonianNonEye)
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MContraction_WeakHamiltonianNonEye_hpp_

extras/Hadrons/Modules/MContraction/WeakNeutral4ptDisc.cc

@@ -1,142 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/WeakNeutral4ptDisc.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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/Hadrons/Modules/MContraction/WeakNeutral4ptDisc.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace MContraction;
-
-/*
- * Weak Hamiltonian + current contractions, disconnected topology for neutral 
- * mesons.
- * 
- * These contractions are generated by operators Q_1,...,10 of the dS=1 Weak
- * Hamiltonian in the physical basis and an additional current J (see e.g. 
- * Fig 11 of arXiv:1507.03094).
- * 
- * Schematic:
- *                        
- *           q2          q4             q3
- *       /--<--¬     /---<--¬       /---<--¬
- *     /         \ /         \     /        \
- *  i *           * H_W      |  J *          * f
- *     \         / \         /     \        /
- *      \--->---/   \-------/       \------/
- *          q1 
- * 
- * options
- * - q1: input propagator 1 (string)
- * - q2: input propagator 2 (string)
- * - q3: input propagator 3 (string), assumed to be sequential propagator 
- * - q4: input propagator 4 (string), assumed to be a loop
- * 
- * type 1: trace(q1*adj(q2)*g5*gL[mu])*trace(loop*gL[mu])*trace(q3*g5)
- * type 2: trace(q1*adj(q2)*g5*gL[mu]*loop*gL[mu])*trace(q3*g5)
- */
-
-/*******************************************************************************
- *                  TWeakNeutral4ptDisc implementation                         *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-TWeakNeutral4ptDisc::TWeakNeutral4ptDisc(const std::string name)
-: Module<WeakHamiltonianPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> TWeakNeutral4ptDisc::getInput(void)
-{
-    std::vector<std::string> in = {par().q1, par().q2, par().q3, par().q4};
-    
-    return in;
-}
-
-std::vector<std::string> TWeakNeutral4ptDisc::getOutput(void)
-{
-    std::vector<std::string> out = {};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void TWeakNeutral4ptDisc::setup(void)
-{
-    unsigned int ndim = env().getNd();
-
-    envTmpLat(LatticeComplex,  "expbuf");
-    envTmpLat(PropagatorField, "tmp");
-    envTmpLat(LatticeComplex,  "curr");
-    envTmp(std::vector<PropagatorField>, "meson", 1, ndim, PropagatorField(env().getGrid()));
-    envTmp(std::vector<PropagatorField>, "loop", 1, ndim,  PropagatorField(env().getGrid()));
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void TWeakNeutral4ptDisc::execute(void)
-{
-    LOG(Message) << "Computing Weak Hamiltonian neutral disconnected contractions '" 
-                 << getName() << "' using quarks '" << par().q1 << "', '" 
-                 << par().q2 << ", '" << par().q3 << "' and '" << par().q4 
-                 << "'." << std::endl;
-
-    ResultWriter          writer(RESULT_FILE_NAME(par().output));
-    auto                  &q1 = envGet(PropagatorField, par().q1);
-    auto                  &q2 = envGet(PropagatorField, par().q2);
-    auto                  &q3 = envGet(PropagatorField, par().q3);
-    auto                  &q4 = envGet(PropagatorField, par().q4);
-    Gamma                 g5  = Gamma(Gamma::Algebra::Gamma5);
-    std::vector<TComplex> corrbuf;
-    std::vector<Result>   result(n_neut_disc_diag);
-    unsigned int          ndim = env().getNd();
-
-    envGetTmp(LatticeComplex,               expbuf); 
-    envGetTmp(PropagatorField,              tmp);
-    envGetTmp(LatticeComplex,               curr);
-    envGetTmp(std::vector<PropagatorField>, meson);
-    envGetTmp(std::vector<PropagatorField>, loop);
-
-    // Setup for type 1 contractions.
-    for (int mu = 0; mu < ndim; ++mu)
-    {
-        meson[mu] = MAKE_DISC_MESON(q1, q2, GammaL(Gamma::gmu[mu]));
-        loop[mu] = MAKE_DISC_LOOP(q4, GammaL(Gamma::gmu[mu]));
-    }
-    curr = MAKE_DISC_CURR(q3, GammaL(Gamma::Algebra::Gamma5));
-
-    // Perform type 1 contractions.    
-    SUM_MU(expbuf, trace(meson[mu]*loop[mu]))
-    expbuf *= curr;
-    MAKE_DIAG(expbuf, corrbuf, result[neut_disc_1_diag], "HW_disc0_1")
-
-    // Perform type 2 contractions.
-    SUM_MU(expbuf, trace(meson[mu])*trace(loop[mu]))
-    expbuf *= curr;
-    MAKE_DIAG(expbuf, corrbuf, result[neut_disc_2_diag], "HW_disc0_2")
-
-    write(writer, "HW_disc0", result);
-}

extras/Hadrons/Modules/MContraction/WeakNeutral4ptDisc.hpp

@@ -1,60 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MContraction/WeakNeutral4ptDisc.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MContraction_WeakNeutral4ptDisc_hpp_
-#define Hadrons_MContraction_WeakNeutral4ptDisc_hpp_
-
-#include <Grid/Hadrons/Modules/MContraction/WeakHamiltonian.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         WeakNeutral4ptDisc                                 *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MContraction)
-
-enum
-{
-    neut_disc_1_diag = 0,
-    neut_disc_2_diag = 1,
-    n_neut_disc_diag = 2
-};
-
-// Neutral 4pt disconnected subdiagram contractions.
-#define MAKE_DISC_MESON(Q_1, Q_2, gamma) (Q_1*adj(Q_2)*g5*gamma)
-#define MAKE_DISC_LOOP(Q_LOOP, gamma) (Q_LOOP*gamma)
-#define MAKE_DISC_CURR(Q_c, gamma) (trace(Q_c*gamma))
-
-MAKE_WEAK_MODULE(WeakNeutral4ptDisc)
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MContraction_WeakNeutral4ptDisc_hpp_

extras/Hadrons/Modules/MFermion/GaugeProp.hpp

@@ -1,202 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MFermion/GaugeProp.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MFermion_GaugeProp_hpp_
-#define Hadrons_MFermion_GaugeProp_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- * 5D -> 4D and 4D -> 5D conversions.                                         *
- ******************************************************************************/
-template<class vobj> // Note that 5D object is modified.
-inline void make_4D(Lattice<vobj> &in_5d, Lattice<vobj> &out_4d, int Ls)
-{
-    axpby_ssp_pminus(in_5d, 0., in_5d, 1., in_5d, 0, 0);
-    axpby_ssp_pplus(in_5d, 1., in_5d, 1., in_5d, 0, Ls-1);
-    ExtractSlice(out_4d, in_5d, 0, 0);
-}
-
-template<class vobj>
-inline void make_5D(Lattice<vobj> &in_4d, Lattice<vobj> &out_5d, int Ls)
-{
-    out_5d = zero;
-    InsertSlice(in_4d, out_5d, 0, 0);
-    InsertSlice(in_4d, out_5d, Ls-1, 0);
-    axpby_ssp_pplus(out_5d, 0., out_5d, 1., out_5d, 0, 0);
-    axpby_ssp_pminus(out_5d, 0., out_5d, 1., out_5d, Ls-1, Ls-1);
-}
-
-/******************************************************************************
- *                                GaugeProp                                   *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MFermion)
-
-class GaugePropPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(GaugePropPar,
-                                    std::string, source,
-                                    std::string, solver);
-};
-
-template <typename FImpl>
-class TGaugeProp: public Module<GaugePropPar>
-{
-public:
-    FGS_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TGaugeProp(const std::string name);
-    // destructor
-    virtual ~TGaugeProp(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-private:
-    unsigned int Ls_;
-    SolverFn     *solver_{nullptr};
-};
-
-MODULE_REGISTER_NS(GaugeProp, TGaugeProp<FIMPL>, MFermion);
-/******************************************************************************
- *                      TGaugeProp implementation                             *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TGaugeProp<FImpl>::TGaugeProp(const std::string name)
-: Module<GaugePropPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TGaugeProp<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().source, par().solver};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TGaugeProp<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName(), getName() + "_5d"};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TGaugeProp<FImpl>::setup(void)
-{
-    Ls_ = env().getObjectLs(par().solver);
-    envCreateLat(PropagatorField, getName());
-    envTmpLat(FermionField, "source", Ls_);
-    envTmpLat(FermionField, "sol", Ls_);
-    envTmpLat(FermionField, "tmp");
-    if (Ls_ > 1)
-    {
-        envCreateLat(PropagatorField, getName() + "_5d", Ls_);
-    }
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TGaugeProp<FImpl>::execute(void)
-{
-    LOG(Message) << "Computing quark propagator '" << getName() << "'"
-                 << std::endl;
-    
-    std::string propName = (Ls_ == 1) ? getName() : (getName() + "_5d");
-    auto        &prop    = envGet(PropagatorField, propName);
-    auto        &fullSrc = envGet(PropagatorField, par().source);
-    auto        &solver  = envGet(SolverFn, par().solver);
-    
-    envGetTmp(FermionField, source);
-    envGetTmp(FermionField, sol);
-    envGetTmp(FermionField, tmp);
-    LOG(Message) << "Inverting using solver '" << par().solver
-                 << "' on source '" << par().source << "'" << std::endl;
-    for (unsigned int s = 0; s < Ns; ++s)
-      for (unsigned int c = 0; c < FImpl::Dimension; ++c)
-    {
-        LOG(Message) << "Inversion for spin= " << s << ", color= " << c
-                     << std::endl;
-        // source conversion for 4D sources
-        if (!env().isObject5d(par().source))
-        {
-            if (Ls_ == 1)
-            {
-               PropToFerm<FImpl>(source, fullSrc, s, c);
-            }
-            else
-            {
-                PropToFerm<FImpl>(tmp, fullSrc, s, c);
-                make_5D(tmp, source, Ls_);
-            }
-        }
-        // source conversion for 5D sources
-        else
-        {
-            if (Ls_ != env().getObjectLs(par().source))
-            {
-                HADRON_ERROR(Size, "Ls mismatch between quark action and source");
-            }
-            else
-            {
-                PropToFerm<FImpl>(source, fullSrc, s, c);
-            }
-        }
-        sol = zero;
-        solver(sol, source);
-        FermToProp<FImpl>(prop, sol, s, c);
-        // create 4D propagators from 5D one if necessary
-        if (Ls_ > 1)
-        {
-            PropagatorField &p4d = envGet(PropagatorField, getName());
-            make_4D(sol, tmp, Ls_);
-            FermToProp<FImpl>(p4d, tmp, s, c);
-        }
-    }
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MFermion_GaugeProp_hpp_

extras/Hadrons/Modules/MGauge/FundtoHirep.cc

@@ -1,75 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MGauge/FundtoHirep.cc
-
-Copyright (C) 2015
-Copyright (C) 2016
-
-
-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/Hadrons/Modules/MGauge/FundtoHirep.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace MGauge;
-
-// constructor /////////////////////////////////////////////////////////////////
-template <class Rep>
-TFundtoHirep<Rep>::TFundtoHirep(const std::string name)
-: Module<FundtoHirepPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <class Rep>
-std::vector<std::string> TFundtoHirep<Rep>::getInput(void)
-{
-    std::vector<std::string> in;
-    return in;
-}
-
-template <class Rep>
-std::vector<std::string> TFundtoHirep<Rep>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename Rep>
-void TFundtoHirep<Rep>::setup(void)
-{
-    env().template registerLattice<typename Rep::LatticeField>(getName());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <class Rep>
-void TFundtoHirep<Rep>::execute(void)
-{
-    auto &U      = *env().template getObject<LatticeGaugeField>(par().gaugeconf);
-    LOG(Message) << "Transforming Representation" << std::endl;
-
-    Rep TargetRepresentation(U._grid);
-    TargetRepresentation.update_representation(U);
-
-   typename Rep::LatticeField &URep = *env().template createLattice<typename Rep::LatticeField>(getName());
-    URep = TargetRepresentation.U;
-}

extras/Hadrons/Modules/MGauge/FundtoHirep.hpp

@@ -1,77 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MGauge/FundtoHirep.hpp
-
-Copyright (C) 2015
-Copyright (C) 2016
-
-Author: David Preti <david.preti@to.infn.it>
-	Guido Cossu <guido.cossu@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 Hadrons_MGauge_FundtoHirep_hpp_
-#define Hadrons_MGauge_FundtoHirep_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         Load a NERSC configuration                         *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MGauge)
-
-class FundtoHirepPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(FundtoHirepPar,
-                                    std::string, gaugeconf);
-};
-
-template <class Rep>
-class TFundtoHirep: public Module<FundtoHirepPar>
-{
-public:
-    // constructor
-    TFundtoHirep(const std::string name);
-    // destructor
-    virtual ~TFundtoHirep(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    void setup(void);
-    // execution
-    void execute(void);
-};
-
-//MODULE_REGISTER_NS(FundtoAdjoint,   TFundtoHirep<AdjointRepresentation>, MGauge);
-//MODULE_REGISTER_NS(FundtoTwoIndexSym, TFundtoHirep<TwoIndexSymmetricRepresentation>, MGauge);
-//MODULE_REGISTER_NS(FundtoTwoIndexAsym, TFundtoHirep<TwoIndexAntiSymmetricRepresentation>, MGauge);
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MGauge_FundtoHirep_hpp_

extras/Hadrons/Modules/MGauge/Random.cc

@@ -1,71 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MGauge/Random.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Modules/MGauge/Random.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace MGauge;
-
-/******************************************************************************
-*                           TRandom implementation                            *
-******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-TRandom::TRandom(const std::string name)
-: Module<NoPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> TRandom::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-std::vector<std::string> TRandom::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void TRandom::setup(void)
-{
-    envCreateLat(LatticeGaugeField, getName());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void TRandom::execute(void)
-{
-    LOG(Message) << "Generating random gauge configuration" << std::endl;
-    
-    auto &U = envGet(LatticeGaugeField, getName());
-    SU3::HotConfiguration(*env().get4dRng(), U);
-}

extras/Hadrons/Modules/MGauge/Random.hpp

@@ -1,66 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MGauge/Random.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_MGauge_Random_hpp_
-#define Hadrons_MGauge_Random_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                             Random gauge                                   *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MGauge)
-
-class TRandom: public Module<NoPar>
-{
-public:
-    // constructor
-    TRandom(const std::string name);
-    // destructor
-    virtual ~TRandom(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(Random, TRandom, MGauge);
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MGauge_Random_hpp_

extras/Hadrons/Modules/MGauge/StochEm.cc

@@ -1,84 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MGauge/StochEm.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Modules/MGauge/StochEm.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace MGauge;
-
-/******************************************************************************
-*                  TStochEm implementation                             *
-******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-TStochEm::TStochEm(const std::string name)
-: Module<StochEmPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> TStochEm::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-std::vector<std::string> TStochEm::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void TStochEm::setup(void)
-{
-    if (!env().hasCreatedObject("_" + getName() + "_weight"))
-    {
-        envCacheLat(EmComp, "_" + getName() + "_weight");
-    }
-    envCreateLat(EmField, getName());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void TStochEm::execute(void)
-{
-    LOG(Message) << "Generating stochatic EM potential..." << std::endl;
-
-    PhotonR photon(par().gauge, par().zmScheme);
-    auto    &a = envGet(EmField, getName());
-    auto    &w = envGet(EmComp, "_" + getName() + "_weight");
-    
-    if (!env().hasCreatedObject("_" + getName() + "_weight"))
-    {
-        LOG(Message) << "Caching stochatic EM potential weight (gauge: "
-                     << par().gauge << ", zero-mode scheme: "
-                     << par().zmScheme << ")..." << std::endl;
-        photon.StochasticWeight(w);
-    }
-    photon.StochasticField(a, *env().get4dRng(), w);
-}

extras/Hadrons/Modules/MGauge/StochEm.hpp

@@ -1,76 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MGauge/StochEm.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-#ifndef Hadrons_MGauge_StochEm_hpp_
-#define Hadrons_MGauge_StochEm_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         StochEm                                 *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MGauge)
-
-class StochEmPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(StochEmPar,
-                                    PhotonR::Gauge,    gauge,
-                                    PhotonR::ZmScheme, zmScheme);
-};
-
-class TStochEm: public Module<StochEmPar>
-{
-public:
-    typedef PhotonR::GaugeField     EmField;
-    typedef PhotonR::GaugeLinkField EmComp;
-public:
-    // constructor
-    TStochEm(const std::string name);
-    // destructor
-    virtual ~TStochEm(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(StochEm, TStochEm, MGauge);
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MGauge_StochEm_hpp_

extras/Hadrons/Modules/MGauge/Unit.cc

@@ -1,69 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MGauge/Unit.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Modules/MGauge/Unit.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace MGauge;
-
-/******************************************************************************
-*                            TUnit implementation                             *
-******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-TUnit::TUnit(const std::string name)
-: Module<NoPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> TUnit::getInput(void)
-{
-    return std::vector<std::string>();
-}
-
-std::vector<std::string> TUnit::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void TUnit::setup(void)
-{
-    envCreateLat(LatticeGaugeField, getName());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void TUnit::execute(void)
-{
-    LOG(Message) << "Creating unit gauge configuration" << std::endl;
-    
-    auto &U = envGet(LatticeGaugeField, getName());
-    SU3::ColdConfiguration(*env().get4dRng(), U);
-}

extras/Hadrons/Modules/MGauge/Unit.hpp

@@ -1,66 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MGauge/Unit.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_MGauge_Unit_hpp_
-#define Hadrons_MGauge_Unit_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                              Unit gauge                                    *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MGauge)
-
-class TUnit: public Module<NoPar>
-{
-public:
-    // constructor
-    TUnit(const std::string name);
-    // destructor
-    virtual ~TUnit(void) = default;
-    // dependencies/products
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(Unit, TUnit, MGauge);
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MGauge_Unit_hpp_

extras/Hadrons/Modules/MIO/LoadBinary.hpp

@@ -1,140 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MIO/LoadBinary.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-#ifndef Hadrons_MIO_LoadBinary_hpp_
-#define Hadrons_MIO_LoadBinary_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                       Load a binary configurations                         *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MIO)
-
-class LoadBinaryPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(LoadBinaryPar,
-                                    std::string, file,
-                                    std::string, format);
-};
-
-template <typename Impl>
-class TLoadBinary: public Module<LoadBinaryPar>
-{
-public:
-    typedef typename Impl::Field                  Field;
-    typedef typename Impl::Simd                   Simd;
-    typedef typename Field::vector_object         vobj;
-    typedef typename vobj::scalar_object          sobj;
-    typedef typename sobj::DoublePrecision        sobj_double;
-    typedef BinarySimpleMunger<sobj_double, sobj> Munger;
-public:
-    // constructor
-    TLoadBinary(const std::string name);
-    // destructor
-    virtual ~TLoadBinary(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(LoadBinary, TLoadBinary<GIMPL>, MIO);
-MODULE_REGISTER_NS(LoadBinaryScalarSU2, TLoadBinary<ScalarNxNAdjImplR<2>>, MIO);
-MODULE_REGISTER_NS(LoadBinaryScalarSU3, TLoadBinary<ScalarNxNAdjImplR<3>>, MIO);
-MODULE_REGISTER_NS(LoadBinaryScalarSU4, TLoadBinary<ScalarNxNAdjImplR<4>>, MIO);
-MODULE_REGISTER_NS(LoadBinaryScalarSU5, TLoadBinary<ScalarNxNAdjImplR<5>>, MIO);
-MODULE_REGISTER_NS(LoadBinaryScalarSU6, TLoadBinary<ScalarNxNAdjImplR<6>>, MIO);
-
-/******************************************************************************
- *                         TLoadBinary implementation                         *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename Impl>
-TLoadBinary<Impl>::TLoadBinary(const std::string name)
-: Module<LoadBinaryPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename Impl>
-std::vector<std::string> TLoadBinary<Impl>::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-template <typename Impl>
-std::vector<std::string> TLoadBinary<Impl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename Impl>
-void TLoadBinary<Impl>::setup(void)
-{
-    envCreateLat(Field, getName());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename Impl>
-void TLoadBinary<Impl>::execute(void)
-{
-    Munger      munge;
-    uint32_t    nersc_csum, scidac_csuma, scidac_csumb;
-    auto        &U = envGet(Field, getName());
-    std::string filename = par().file + "."
-                           + std::to_string(vm().getTrajectory());
-
-    LOG(Message) << "Loading " << par().format 
-                 << " binary configuration from file '" << filename
-                 << "'" << std::endl;
-    BinaryIO::readLatticeObject<vobj, sobj_double>(U, filename, munge, 0, 
-                                                   par().format, nersc_csum,
-                                                   scidac_csuma, scidac_csumb);
-    LOG(Message) << "Checksums:" << std::endl;
-    LOG(Message) << "  NERSC    " << nersc_csum << std::endl;
-    LOG(Message) << "  SciDAC A " << scidac_csuma << std::endl;
-    LOG(Message) << "  SciDAC B " << scidac_csumb << std::endl;
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MIO_LoadBinary_hpp_

extras/Hadrons/Modules/MIO/LoadNersc.cc

@@ -1,76 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MIO/LoadNersc.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Modules/MIO/LoadNersc.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace MIO;
-
-/******************************************************************************
-*                       TLoadNersc implementation                             *
-******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-TLoadNersc::TLoadNersc(const std::string name)
-: Module<LoadNerscPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> TLoadNersc::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-std::vector<std::string> TLoadNersc::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void TLoadNersc::setup(void)
-{
-    envCreateLat(LatticeGaugeField, getName());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void TLoadNersc::execute(void)
-{
-    FieldMetaData header;
-    std::string   fileName = par().file + "."
-                             + std::to_string(vm().getTrajectory());
-    LOG(Message) << "Loading NERSC configuration from file '" << fileName
-                 << "'" << std::endl;
-
-    auto &U = envGet(LatticeGaugeField, getName());
-    NerscIO::readConfiguration(U, header, fileName);
-    LOG(Message) << "NERSC header:" << std::endl;
-    dump_meta_data(header, LOG(Message));
-}

extras/Hadrons/Modules/MIO/LoadNersc.hpp

@@ -1,71 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MIO/LoadNersc.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-#ifndef Hadrons_MIO_LoadNersc_hpp_
-#define Hadrons_MIO_LoadNersc_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                       Load a NERSC configuration                           *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MIO)
-
-class LoadNerscPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(LoadNerscPar,
-                                    std::string, file);
-};
-
-class TLoadNersc: public Module<LoadNerscPar>
-{
-public:
-    // constructor
-    TLoadNersc(const std::string name);
-    // destructor
-    virtual ~TLoadNersc(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(LoadNersc, TLoadNersc, MIO);
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MIO_LoadNersc_hpp_

extras/Hadrons/Modules/MLoop/NoiseLoop.hpp

@@ -1,134 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MLoop/NoiseLoop.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MLoop_NoiseLoop_hpp_
-#define Hadrons_MLoop_NoiseLoop_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/*
- 
- Noise loop propagator
- -----------------------------
- * loop_x = q_x * adj(eta_x)
- 
- * options:
- - q = Result of inversion on noise source.
- - eta = noise source.
-
- */
-
-
-/******************************************************************************
- *                         NoiseLoop                                          *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MLoop)
-
-class NoiseLoopPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(NoiseLoopPar,
-                                    std::string, q,
-                                    std::string, eta);
-};
-
-template <typename FImpl>
-class TNoiseLoop: public Module<NoiseLoopPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TNoiseLoop(const std::string name);
-    // destructor
-    virtual ~TNoiseLoop(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(NoiseLoop, TNoiseLoop<FIMPL>, MLoop);
-
-/******************************************************************************
- *                 TNoiseLoop implementation                                  *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TNoiseLoop<FImpl>::TNoiseLoop(const std::string name)
-: Module<NoiseLoopPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TNoiseLoop<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().q, par().eta};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TNoiseLoop<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TNoiseLoop<FImpl>::setup(void)
-{
-    envCreateLat(PropagatorField, getName());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TNoiseLoop<FImpl>::execute(void)
-{
-    auto &loop = envGet(PropagatorField, getName());
-    auto &q    = envGet(PropagatorField, par().q);
-    auto &eta  = envGet(PropagatorField, par().eta);
-    loop = q*adj(eta);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MLoop_NoiseLoop_hpp_

extras/Hadrons/Modules/MScalar/ChargedProp.cc

@@ -1,249 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MScalar/ChargedProp.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: James Harrison <jch1g10@soton.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/Hadrons/Modules/MScalar/ChargedProp.hpp>
-#include <Grid/Hadrons/Modules/MScalar/Scalar.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace MScalar;
-
-/******************************************************************************
-*                     TChargedProp implementation                             *
-******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-TChargedProp::TChargedProp(const std::string name)
-: Module<ChargedPropPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> TChargedProp::getInput(void)
-{
-    std::vector<std::string> in = {par().source, par().emField};
-    
-    return in;
-}
-
-std::vector<std::string> TChargedProp::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void TChargedProp::setup(void)
-{
-    freeMomPropName_ = FREEMOMPROP(par().mass);
-    phaseName_.clear();
-    for (unsigned int mu = 0; mu < env().getNd(); ++mu)
-    {
-        phaseName_.push_back("_shiftphase_" + std::to_string(mu));
-    }
-    GFSrcName_ = getName() + "_DinvSrc";
-    fftName_   = getName() + "_fft";
-
-    freeMomPropDone_ = env().hasCreatedObject(freeMomPropName_);
-    GFSrcDone_       = env().hasCreatedObject(GFSrcName_);
-    phasesDone_      = env().hasCreatedObject(phaseName_[0]);
-    envCacheLat(ScalarField, freeMomPropName_);
-    for (unsigned int mu = 0; mu < env().getNd(); ++mu)
-    {
-        envCacheLat(ScalarField, phaseName_[mu]);
-    }
-    envCacheLat(ScalarField, GFSrcName_);
-    envCreateLat(ScalarField, getName());
-    envTmpLat(ScalarField, "buf");
-    envTmpLat(ScalarField, "result");
-    envTmpLat(ScalarField, "Amu");
-    envCache(FFT, fftName_, 1, env().getGrid());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void TChargedProp::execute(void)
-{
-    // CACHING ANALYTIC EXPRESSIONS
-    makeCaches();
-
-    // PROPAGATOR CALCULATION
-    LOG(Message) << "Computing charged scalar propagator"
-                 << " (mass= " << par().mass
-                 << ", charge= " << par().charge << ")..." << std::endl;
-    
-    auto   &prop  = envGet(ScalarField, getName());
-    auto   &GFSrc = envGet(ScalarField, GFSrcName_);
-    auto   &G     = envGet(ScalarField, freeMomPropName_);
-    auto   &fft   = envGet(FFT, fftName_);
-    double q      = par().charge;
-    envGetTmp(ScalarField, result); 
-    envGetTmp(ScalarField, buf); 
-
-    // G*F*Src
-    prop = GFSrc;
-
-    // - q*G*momD1*G*F*Src (momD1 = F*D1*Finv)
-    buf = GFSrc;
-    momD1(buf, fft);
-    buf = G*buf;
-    prop = prop - q*buf;
-
-    // + q^2*G*momD1*G*momD1*G*F*Src (here buf = G*momD1*G*F*Src)
-    momD1(buf, fft);
-    prop = prop + q*q*G*buf;
-
-    // - q^2*G*momD2*G*F*Src (momD2 = F*D2*Finv)
-    buf = GFSrc;
-    momD2(buf, fft);
-    prop = prop - q*q*G*buf;
-
-    // final FT
-    fft.FFT_all_dim(prop, prop, FFT::backward);
-    
-    // OUTPUT IF NECESSARY
-    if (!par().output.empty())
-    {
-        std::string           filename = par().output + "." +
-                                         std::to_string(vm().getTrajectory());
-        
-        LOG(Message) << "Saving zero-momentum projection to '"
-                     << filename << "'..." << std::endl;
-        
-        ResultWriter          writer(RESULT_FILE_NAME(par().output));
-        std::vector<TComplex> vecBuf;
-        std::vector<Complex>  result;
-        
-        sliceSum(prop, vecBuf, Tp);
-        result.resize(vecBuf.size());
-        for (unsigned int t = 0; t < vecBuf.size(); ++t)
-        {
-            result[t] = TensorRemove(vecBuf[t]);
-        }
-        write(writer, "charge", q);
-        write(writer, "prop", result);
-    }
-}
-
-void TChargedProp::makeCaches(void)
-{
-    auto &freeMomProp = envGet(ScalarField, freeMomPropName_);
-    auto &GFSrc       = envGet(ScalarField, GFSrcName_);
-    auto &fft         = envGet(FFT, fftName_);
-
-    if (!freeMomPropDone_)
-    {
-        LOG(Message) << "Caching momentum space free scalar propagator"
-                     << " (mass= " << par().mass << ")..." << std::endl;
-        SIMPL::MomentumSpacePropagator(freeMomProp, par().mass);
-    }
-    if (!GFSrcDone_)
-    {   
-        FFT  fft(env().getGrid());
-        auto &source = envGet(ScalarField, par().source);
-
-        LOG(Message) << "Caching G*F*src..." << std::endl;
-        fft.FFT_all_dim(GFSrc, source, FFT::forward);
-        GFSrc = freeMomProp*GFSrc;
-    }
-    if (!phasesDone_)
-    {
-        std::vector<int> &l = env().getGrid()->_fdimensions;
-        Complex          ci(0.0,1.0);
-        
-        LOG(Message) << "Caching shift phases..." << std::endl;
-        for (unsigned int mu = 0; mu < env().getNd(); ++mu)
-        {
-            Real twoPiL = M_PI*2./l[mu];
-            auto &phmu  = envGet(ScalarField, phaseName_[mu]);
-            
-            LatticeCoordinate(phmu, mu);
-            phmu = exp(ci*twoPiL*phmu);
-            phase_.push_back(&phmu);
-        }
-    }
-}
-
-void TChargedProp::momD1(ScalarField &s, FFT &fft)
-{
-    auto        &A = envGet(EmField, par().emField);
-    Complex     ci(0.0,1.0);
-
-    envGetTmp(ScalarField, buf);
-    envGetTmp(ScalarField, result);
-    envGetTmp(ScalarField, Amu);
-
-    result = zero;
-    for (unsigned int mu = 0; mu < env().getNd(); ++mu)
-    {
-        Amu = peekLorentz(A, mu);
-        buf = (*phase_[mu])*s;
-        fft.FFT_all_dim(buf, buf, FFT::backward);
-        buf = Amu*buf;
-        fft.FFT_all_dim(buf, buf, FFT::forward);
-        result = result - ci*buf;
-    }
-    fft.FFT_all_dim(s, s, FFT::backward);
-    for (unsigned int mu = 0; mu < env().getNd(); ++mu)
-    {
-        Amu = peekLorentz(A, mu);
-        buf = Amu*s;
-        fft.FFT_all_dim(buf, buf, FFT::forward);
-        result = result + ci*adj(*phase_[mu])*buf;
-    }
-
-    s = result;
-}
-
-void TChargedProp::momD2(ScalarField &s, FFT &fft)
-{
-    auto &A = envGet(EmField, par().emField);
-
-    envGetTmp(ScalarField, buf);
-    envGetTmp(ScalarField, result);
-    envGetTmp(ScalarField, Amu);
-
-    result = zero;
-    for (unsigned int mu = 0; mu < env().getNd(); ++mu)
-    {
-        Amu = peekLorentz(A, mu);
-        buf = (*phase_[mu])*s;
-        fft.FFT_all_dim(buf, buf, FFT::backward);
-        buf = Amu*Amu*buf;
-        fft.FFT_all_dim(buf, buf, FFT::forward);
-        result = result + .5*buf;
-    }
-    fft.FFT_all_dim(s, s, FFT::backward);
-    for (unsigned int mu = 0; mu < env().getNd(); ++mu)
-    {
-        Amu = peekLorentz(A, mu);        
-        buf = Amu*Amu*s;
-        fft.FFT_all_dim(buf, buf, FFT::forward);
-        result = result + .5*adj(*phase_[mu])*buf;
-    }
-
-    s = result;
-}

extras/Hadrons/Modules/MScalar/ChargedProp.hpp

@@ -1,89 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MScalar/ChargedProp.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-#ifndef Hadrons_MScalar_ChargedProp_hpp_
-#define Hadrons_MScalar_ChargedProp_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                       Charged scalar propagator                            *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MScalar)
-
-class ChargedPropPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(ChargedPropPar,
-                                    std::string, emField,
-                                    std::string, source,
-                                    double,      mass,
-                                    double,      charge,
-                                    std::string, output);
-};
-
-class TChargedProp: public Module<ChargedPropPar>
-{
-public:
-    SCALAR_TYPE_ALIASES(SIMPL,);
-    typedef PhotonR::GaugeField     EmField;
-    typedef PhotonR::GaugeLinkField EmComp;
-public:
-    // constructor
-    TChargedProp(const std::string name);
-    // destructor
-    virtual ~TChargedProp(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-private:
-    void makeCaches(void);
-    void momD1(ScalarField &s, FFT &fft);
-    void momD2(ScalarField &s, FFT &fft);
-private:
-    bool                       freeMomPropDone_, GFSrcDone_, phasesDone_;
-    std::string                freeMomPropName_, GFSrcName_, fftName_;
-    std::vector<std::string>   phaseName_;
-    std::vector<ScalarField *> phase_;
-};
-
-MODULE_REGISTER_NS(ChargedProp, TChargedProp, MScalar);
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MScalar_ChargedProp_hpp_

extras/Hadrons/Modules/MScalar/FreeProp.cc

@@ -1,99 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MScalar/FreeProp.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/Modules/MScalar/FreeProp.hpp>
-#include <Grid/Hadrons/Modules/MScalar/Scalar.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace MScalar;
-
-/******************************************************************************
-*                        TFreeProp implementation                             *
-******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-TFreeProp::TFreeProp(const std::string name)
-: Module<FreePropPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> TFreeProp::getInput(void)
-{
-    std::vector<std::string> in = {par().source};
-    
-    return in;
-}
-
-std::vector<std::string> TFreeProp::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void TFreeProp::setup(void)
-{
-    freeMomPropName_ = FREEMOMPROP(par().mass);
-    
-    freePropDone_ = env().hasCreatedObject(freeMomPropName_);
-    envCacheLat(ScalarField, freeMomPropName_);
-    envCreateLat(ScalarField, getName());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void TFreeProp::execute(void)
-{
-    auto &freeMomProp = envGet(ScalarField, freeMomPropName_);
-    auto &prop        = envGet(ScalarField, getName());
-    auto &source      = envGet(ScalarField, par().source);
-
-    if (!freePropDone_)
-    {
-        LOG(Message) << "Caching momentum space free scalar propagator"
-                     << " (mass= " << par().mass << ")..." << std::endl;
-        SIMPL::MomentumSpacePropagator(freeMomProp, par().mass);
-    }
-    LOG(Message) << "Computing free scalar propagator..." << std::endl;
-    SIMPL::FreePropagator(source, prop, freeMomProp);
-    
-    if (!par().output.empty())
-    {
-        TextWriter            writer(par().output + "." +
-                                     std::to_string(vm().getTrajectory()));
-        std::vector<TComplex> buf;
-        std::vector<Complex>  result;
-        
-        sliceSum(prop, buf, Tp);
-        result.resize(buf.size());
-        for (unsigned int t = 0; t < buf.size(); ++t)
-        {
-            result[t] = TensorRemove(buf[t]);
-        }
-        write(writer, "prop", result);
-    }
-}

extras/Hadrons/Modules/MScalar/FreeProp.hpp

@@ -1,79 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MScalar/FreeProp.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-#ifndef Hadrons_MScalar_FreeProp_hpp_
-#define Hadrons_MScalar_FreeProp_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                               FreeProp                                     *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MScalar)
-
-class FreePropPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(FreePropPar,
-                                    std::string, source,
-                                    double,      mass,
-                                    std::string, output);
-};
-
-class TFreeProp: public Module<FreePropPar>
-{
-public:
-    SCALAR_TYPE_ALIASES(SIMPL,);
-public:
-    // constructor
-    TFreeProp(const std::string name);
-    // destructor
-    virtual ~TFreeProp(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-private:
-    std::string freeMomPropName_;
-    bool        freePropDone_;
-};
-
-MODULE_REGISTER_NS(FreeProp, TFreeProp, MScalar);
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MScalar_FreeProp_hpp_

extras/Hadrons/Modules/MScalar/Scalar.hpp

@@ -1,33 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MScalar/Scalar.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-#ifndef Hadrons_Scalar_hpp_
-#define Hadrons_Scalar_hpp_
-
-#define FREEMOMPROP(m) "_scalar_mom_prop_" + std::to_string(m)
-
-#endif // Hadrons_Scalar_hpp_

extras/Hadrons/Modules/MScalarSUN/TrMag.hpp

@@ -1,146 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MScalarSUN/TrMag.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-#ifndef Hadrons_MScalarSUN_TrMag_hpp_
-#define Hadrons_MScalarSUN_TrMag_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                       Module to compute tr(mag^n)                          *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MScalarSUN)
-
-class TrMagPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(TrMagPar,
-                                    std::string,  field,
-                                    unsigned int, maxPow,
-                                    std::string,  output);
-};
-
-template <typename SImpl>
-class TTrMag: public Module<TrMagPar>
-{
-public:
-    typedef typename SImpl::Field        Field;
-    typedef typename SImpl::ComplexField ComplexField;
-    class Result: Serializable
-    {
-    public:
-        GRID_SERIALIZABLE_CLASS_MEMBERS(Result,
-                                        std::string, op,
-                                        Real,        value);
-    };
-public:
-    // constructor
-    TTrMag(const std::string name);
-    // destructor
-    virtual ~TTrMag(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(TrMagSU2, TTrMag<ScalarNxNAdjImplR<2>>, MScalarSUN);
-MODULE_REGISTER_NS(TrMagSU3, TTrMag<ScalarNxNAdjImplR<3>>, MScalarSUN);
-MODULE_REGISTER_NS(TrMagSU4, TTrMag<ScalarNxNAdjImplR<4>>, MScalarSUN);
-MODULE_REGISTER_NS(TrMagSU5, TTrMag<ScalarNxNAdjImplR<5>>, MScalarSUN);
-MODULE_REGISTER_NS(TrMagSU6, TTrMag<ScalarNxNAdjImplR<6>>, MScalarSUN);
-
-/******************************************************************************
- *                         TTrMag implementation                              *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename SImpl>
-TTrMag<SImpl>::TTrMag(const std::string name)
-: Module<TrMagPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename SImpl>
-std::vector<std::string> TTrMag<SImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().field};
-    
-    return in;
-}
-
-template <typename SImpl>
-std::vector<std::string> TTrMag<SImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename SImpl>
-void TTrMag<SImpl>::setup(void)
-{}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename SImpl>
-void TTrMag<SImpl>::execute(void)
-{
-    LOG(Message) << "Computing tr(mag^n) for n even up to " << par().maxPow
-                 << "..." << std::endl;
-
-    std::vector<Result> result;
-    ResultWriter        writer(RESULT_FILE_NAME(par().output));
-    auto                &phi = envGet(Field, par().field);
-
-    auto m2 = sum(phi), mn = m2;
-
-    m2 = -m2*m2;
-    mn = 1.;
-    for (unsigned int n = 2; n <= par().maxPow; n += 2)
-    {
-        Result r;
-
-        mn = mn*m2;
-        r.op    = "tr(mag^" + std::to_string(n) + ")";
-        r.value = TensorRemove(trace(mn)).real();
-        result.push_back(r);
-    }
-    write(writer, "trmag", result);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MScalarSUN_TrMag_hpp_

extras/Hadrons/Modules/MScalarSUN/TrPhi.hpp

@@ -1,182 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MScalarSUN/TrPhi.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-#ifndef Hadrons_MScalarSUN_TrPhi_hpp_
-#define Hadrons_MScalarSUN_TrPhi_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         Module to compute tr(phi^n)                        *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MScalarSUN)
-
-class TrPhiPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(TrPhiPar,
-                                    std::string,  field,
-                                    unsigned int, maxPow,
-                                    std::string,  output);
-};
-
-template <typename SImpl>
-class TTrPhi: public Module<TrPhiPar>
-{
-public:
-    typedef typename SImpl::Field        Field;
-    typedef typename SImpl::ComplexField ComplexField;
-    class Result: Serializable
-    {
-    public:
-        GRID_SERIALIZABLE_CLASS_MEMBERS(Result,
-                                        std::string, op,
-                                        Real,        value);
-    };
-public:
-    // constructor
-    TTrPhi(const std::string name);
-    // destructor
-    virtual ~TTrPhi(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-private:
-    // output name generator
-    std::string outName(const unsigned int n);
-};
-
-MODULE_REGISTER_NS(TrPhiSU2, TTrPhi<ScalarNxNAdjImplR<2>>, MScalarSUN);
-MODULE_REGISTER_NS(TrPhiSU3, TTrPhi<ScalarNxNAdjImplR<3>>, MScalarSUN);
-MODULE_REGISTER_NS(TrPhiSU4, TTrPhi<ScalarNxNAdjImplR<4>>, MScalarSUN);
-MODULE_REGISTER_NS(TrPhiSU5, TTrPhi<ScalarNxNAdjImplR<5>>, MScalarSUN);
-MODULE_REGISTER_NS(TrPhiSU6, TTrPhi<ScalarNxNAdjImplR<6>>, MScalarSUN);
-
-/******************************************************************************
- *                          TTrPhi implementation                             *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename SImpl>
-TTrPhi<SImpl>::TTrPhi(const std::string name)
-: Module<TrPhiPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename SImpl>
-std::vector<std::string> TTrPhi<SImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().field};
-    
-    return in;
-}
-
-template <typename SImpl>
-std::vector<std::string> TTrPhi<SImpl>::getOutput(void)
-{
-    std::vector<std::string> out;
-
-    for (unsigned int n = 2; n <= par().maxPow; n += 2)
-    {
-        out.push_back(outName(n));
-    }
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename SImpl>
-void TTrPhi<SImpl>::setup(void)
-{
-    if (par().maxPow < 2)
-    {
-        HADRON_ERROR(Size, "'maxPow' should be at least equal to 2");
-    }
-    envTmpLat(Field, "phi2");
-    envTmpLat(Field, "buf");
-    for (unsigned int n = 2; n <= par().maxPow; n += 2)
-    {
-        envCreateLat(ComplexField, outName(n));
-    }
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename SImpl>
-void TTrPhi<SImpl>::execute(void)
-{
-    LOG(Message) << "Computing tr(phi^n) for n even up to " << par().maxPow
-                 << "..." << std::endl; 
-
-    std::vector<Result> result;
-    auto                &phi = envGet(Field, par().field);
-
-    envGetTmp(Field, phi2);
-    envGetTmp(Field, buf);
-    buf  = 1.;
-    phi2 = -phi*phi; 
-    for (unsigned int n = 2; n <= par().maxPow; n += 2)
-    {
-        auto &phin = envGet(ComplexField, outName(n));
-
-        buf  = buf*phi2;
-        phin = trace(buf);
-        if (!par().output.empty())
-        {
-            Result r;
-
-            r.op    = "tr(phi^" + std::to_string(n) + ")";
-            r.value = TensorRemove(sum(phin)).real();
-            result.push_back(r);
-        }
-    }
-    if (result.size() > 0)
-    {
-        ResultWriter writer(RESULT_FILE_NAME(par().output));
-
-        write(writer, "trphi", result);
-    }
-}
-
-// output name generator ///////////////////////////////////////////////////////
-template <typename SImpl>
-std::string TTrPhi<SImpl>::outName(const unsigned int n)
-{
-    return getName() + "_" + std::to_string(n);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MScalarSUN_TrPhi_hpp_

extras/Hadrons/Modules/MScalarSUN/TwoPoint.hpp

@@ -1,184 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MScalarSUN/TwoPoint.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-#ifndef Hadrons_MScalarSUN_TwoPoint_hpp_
-#define Hadrons_MScalarSUN_TwoPoint_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                 2-pt functions for a given set of operators                *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MScalarSUN)
-
-class TwoPointPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(TwoPointPar,
-                                    std::vector<std::string>, op,
-                                    std::string,              output);
-};
-
-template <typename SImpl>
-class TTwoPoint: public Module<TwoPointPar>
-{
-public:
-    typedef typename SImpl::Field        Field;
-    typedef typename SImpl::ComplexField ComplexField;
-    class Result: Serializable
-    {
-    public:
-        GRID_SERIALIZABLE_CLASS_MEMBERS(Result,
-                                        std::string, sink,
-                                        std::string, source,
-                                        std::vector<Complex>, data);
-    };
-public:
-    // constructor
-    TTwoPoint(const std::string name);
-    // destructor
-    virtual ~TTwoPoint(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-private:
-    // make 2-pt function
-    template <class SinkSite, class SourceSite>
-    std::vector<Complex> makeTwoPoint(const std::vector<SinkSite>   &sink,
-                                      const std::vector<SourceSite> &source);
-};
-
-MODULE_REGISTER_NS(TwoPointSU2, TTwoPoint<ScalarNxNAdjImplR<2>>, MScalarSUN);
-MODULE_REGISTER_NS(TwoPointSU3, TTwoPoint<ScalarNxNAdjImplR<3>>, MScalarSUN);
-MODULE_REGISTER_NS(TwoPointSU4, TTwoPoint<ScalarNxNAdjImplR<4>>, MScalarSUN);
-MODULE_REGISTER_NS(TwoPointSU5, TTwoPoint<ScalarNxNAdjImplR<5>>, MScalarSUN);
-MODULE_REGISTER_NS(TwoPointSU6, TTwoPoint<ScalarNxNAdjImplR<6>>, MScalarSUN);
-
-/******************************************************************************
- *                 TTwoPoint implementation                             *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename SImpl>
-TTwoPoint<SImpl>::TTwoPoint(const std::string name)
-: Module<TwoPointPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename SImpl>
-std::vector<std::string> TTwoPoint<SImpl>::getInput(void)
-{   
-    return par().op;
-}
-
-template <typename SImpl>
-std::vector<std::string> TTwoPoint<SImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {};
-
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename SImpl>
-void TTwoPoint<SImpl>::setup(void)
-{
-    const unsigned int nt = env().getDim().back();
-    envTmp(std::vector<std::vector<TComplex>>, "slicedOp", 1, par().op.size(), 
-           std::vector<TComplex>(nt));
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename SImpl>
-void TTwoPoint<SImpl>::execute(void)
-{
-    LOG(Message) << "Computing 2-point functions for operators:" << std::endl;
-    for (auto &o: par().op)
-    {
-        LOG(Message) << "  '" << o << "'" << std::endl;
-    }
-
-    ResultWriter        writer(RESULT_FILE_NAME(par().output));
-    const unsigned int  nd = env().getDim().size();
-    std::vector<Result> result;
-    
-    envGetTmp(std::vector<std::vector<TComplex>>, slicedOp);
-    for (unsigned int i = 0; i < par().op.size(); ++i)
-    {
-        auto &op = envGet(ComplexField, par().op[i]);
-
-        sliceSum(op, slicedOp[i], nd - 1);
-    }
-    for (unsigned int i = 0; i < par().op.size(); ++i)
-    for (unsigned int j = 0; j < par().op.size(); ++j)
-    {
-        Result r;
-
-        r.sink   = par().op[i];
-        r.source = par().op[j];
-        r.data   = makeTwoPoint(slicedOp[i], slicedOp[j]);
-        result.push_back(r);
-    }
-    write(writer, "twopt", result);
-}
-
-// make 2-pt function //////////////////////////////////////////////////////////
-template <class SImpl>
-template <class SinkSite, class SourceSite>
-std::vector<Complex> TTwoPoint<SImpl>::makeTwoPoint(
-                                  const std::vector<SinkSite>   &sink,
-                                  const std::vector<SourceSite> &source)
-{
-    assert(sink.size() == source.size());
-    
-    unsigned int         nt = sink.size();
-    std::vector<Complex> res(nt, 0.);
-    
-    for (unsigned int dt = 0; dt < nt; ++dt)
-    {
-        for (unsigned int t  = 0; t < nt; ++t)
-        {
-            res[dt] += TensorRemove(trace(sink[(t+dt)%nt]*source[t]));
-        }
-        res[dt] *= 1./static_cast<double>(nt);
-    }
-    
-    return res;
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MScalarSUN_TwoPoint_hpp_

extras/Hadrons/Modules/MSink/Point.hpp

@@ -1,155 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MSink/Point.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MSink_Point_hpp_
-#define Hadrons_MSink_Point_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                                   Point                                    *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MSink)
-
-class PointPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(PointPar,
-                                    std::string, mom);
-};
-
-template <typename FImpl>
-class TPoint: public Module<PointPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl,);
-    SINK_TYPE_ALIASES();
-public:
-    // constructor
-    TPoint(const std::string name);
-    // destructor
-    virtual ~TPoint(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-private:
-    bool        hasPhase_{false}; 
-    std::string momphName_;
-};
-
-MODULE_REGISTER_NS(Point,       TPoint<FIMPL>,        MSink);
-MODULE_REGISTER_NS(ScalarPoint, TPoint<ScalarImplCR>, MSink);
-
-/******************************************************************************
- *                          TPoint implementation                             *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TPoint<FImpl>::TPoint(const std::string name)
-: Module<PointPar>(name)
-, momphName_ (name + "_momph")
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TPoint<FImpl>::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TPoint<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TPoint<FImpl>::setup(void)
-{
-    envTmpLat(LatticeComplex, "coor");
-    envCacheLat(LatticeComplex, momphName_);
-    envCreate(SinkFn, getName(), 1, nullptr);
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TPoint<FImpl>::execute(void)
-{   
-    LOG(Message) << "Setting up point sink function for momentum ["
-                 << par().mom << "]" << std::endl;
-
-    auto &ph = envGet(LatticeComplex, momphName_);
-    
-    if (!hasPhase_)
-    {
-        Complex           i(0.0,1.0);
-        std::vector<Real> p;
-
-        envGetTmp(LatticeComplex, coor);
-        p  = strToVec<Real>(par().mom);
-        ph = zero;
-        for(unsigned int mu = 0; mu < env().getNd(); mu++)
-        {
-            LatticeCoordinate(coor, mu);
-            ph = ph + (p[mu]/env().getGrid()->_fdimensions[mu])*coor;
-        }
-        ph = exp((Real)(2*M_PI)*i*ph);
-        hasPhase_ = true;
-    }
-    auto sink = [&ph](const PropagatorField &field)
-    {
-        SlicedPropagator res;
-        PropagatorField  tmp = ph*field;
-        
-        sliceSum(tmp, res, Tp);
-        
-        return res;
-    };
-    envGet(SinkFn, getName()) = sink;
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MSink_Point_hpp_

extras/Hadrons/Modules/MSink/Smear.hpp

@@ -1,127 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MSink/Smear.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MSink_Smear_hpp_
-#define Hadrons_MSink_Smear_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                                 Smear                                      *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MSink)
-
-class SmearPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(SmearPar,
-                                    std::string, q,
-                                    std::string, sink);
-};
-
-template <typename FImpl>
-class TSmear: public Module<SmearPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl,);
-    SINK_TYPE_ALIASES();
-public:
-    // constructor
-    TSmear(const std::string name);
-    // destructor
-    virtual ~TSmear(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(Smear, TSmear<FIMPL>, MSink);
-
-/******************************************************************************
- *                          TSmear implementation                             *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TSmear<FImpl>::TSmear(const std::string name)
-: Module<SmearPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TSmear<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().q, par().sink};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TSmear<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TSmear<FImpl>::setup(void)
-{
-    envCreate(SlicedPropagator, getName(), 1, env().getDim(Tp));
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TSmear<FImpl>::execute(void)
-{
-    LOG(Message) << "Sink smearing propagator '" << par().q
-                 << "' using sink function '" << par().sink << "'."
-                 << std::endl;
-
-    auto &sink = envGet(SinkFn, par().sink);
-    auto &q    = envGet(PropagatorField, par().q);
-    auto &out  = envGet(SlicedPropagator, getName());
-    
-    out = sink(q);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MSink_Smear_hpp_

extras/Hadrons/Modules/MSolver/RBPrecCG.hpp

@@ -1,137 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MSolver/RBPrecCG.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_MSolver_RBPrecCG_hpp_
-#define Hadrons_MSolver_RBPrecCG_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                     Schur red-black preconditioned CG                      *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MSolver)
-
-class RBPrecCGPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(RBPrecCGPar,
-                                    std::string, action,
-                                    double     , residual);
-};
-
-template <typename FImpl>
-class TRBPrecCG: public Module<RBPrecCGPar>
-{
-public:
-    FGS_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TRBPrecCG(const std::string name);
-    // destructor
-    virtual ~TRBPrecCG(void) = default;
-    // dependencies/products
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getReference(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(RBPrecCG, TRBPrecCG<FIMPL>, MSolver);
-
-/******************************************************************************
- *                      TRBPrecCG template implementation                     *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TRBPrecCG<FImpl>::TRBPrecCG(const std::string name)
-: Module(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TRBPrecCG<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TRBPrecCG<FImpl>::getReference(void)
-{
-    std::vector<std::string> ref = {par().action};
-    
-    return ref;
-}
-
-template <typename FImpl>
-std::vector<std::string> TRBPrecCG<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TRBPrecCG<FImpl>::setup(void)
-{
-    LOG(Message) << "setting up Schur red-black preconditioned CG for"
-                 << " action '" << par().action << "' with residual "
-                 << par().residual << std::endl;
-
-    auto Ls     = env().getObjectLs(par().action);
-    auto &mat   = envGet(FMat, par().action);
-    auto solver = [&mat, this](FermionField &sol, const FermionField &source)
-    {
-        ConjugateGradient<FermionField>           cg(par().residual, 10000);
-        SchurRedBlackDiagMooeeSolve<FermionField> schurSolver(cg);
-        
-        schurSolver(mat, source, sol);
-    };
-    envCreate(SolverFn, getName(), Ls, solver);
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TRBPrecCG<FImpl>::execute(void)
-{}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MSolver_RBPrecCG_hpp_

extras/Hadrons/Modules/MSource/Point.hpp

@@ -1,138 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MSource/Point.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MSource_Point_hpp_
-#define Hadrons_MSource_Point_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/*
- 
- Point source
- ------------
- * src_x = delta_x,position
- 
- * options:
- - position: space-separated integer sequence (e.g. "0 1 1 0")
- 
- */
-
-/******************************************************************************
- *                                  TPoint                                     *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MSource)
-
-class PointPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(PointPar,
-                                    std::string, position);
-};
-
-template <typename FImpl>
-class TPoint: public Module<PointPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TPoint(const std::string name);
-    // destructor
-    virtual ~TPoint(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(Point,       TPoint<FIMPL>,        MSource);
-MODULE_REGISTER_NS(ScalarPoint, TPoint<ScalarImplCR>, MSource);
-
-/******************************************************************************
- *                       TPoint template implementation                       *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TPoint<FImpl>::TPoint(const std::string name)
-: Module<PointPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TPoint<FImpl>::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TPoint<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TPoint<FImpl>::setup(void)
-{
-    envCreateLat(PropagatorField, getName());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TPoint<FImpl>::execute(void)
-{
-    LOG(Message) << "Creating point source at position [" << par().position
-                << "]" << std::endl;
-
-    std::vector<int> position = strToVec<int>(par().position);
-    auto             &src     = envGet(PropagatorField, getName());
-    SitePropagator   id;
-    
-    id  = 1.;
-    src = zero;
-    pokeSite(id, src, position);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MSource_Point_hpp_

extras/Hadrons/Modules/MSource/SeqConserved.hpp

@@ -1,160 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MSource/SeqConserved.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MSource_SeqConserved_hpp_
-#define Hadrons_MSource_SeqConserved_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/*
- 
- Sequential source
- -----------------------------
- * src_x = q_x * theta(x_3 - tA) * theta(tB - x_3) * J_mu * exp(i x.mom)
- 
- * options:
- - q: input propagator (string)
- - action: fermion action used for propagator q (string)
- - tA: begin timeslice (integer)
- - tB: end timesilce (integer)
- - curr_type: type of conserved current to insert (Current)
- - mu: Lorentz index of current to insert (integer)
- - mom: momentum insertion, space-separated float sequence (e.g ".1 .2 1. 0.")
- 
- */
-
-/******************************************************************************
- *                              SeqConserved                                  *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MSource)
-
-class SeqConservedPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(SeqConservedPar,
-                                    std::string,  q,
-                                    std::string,  action,
-                                    unsigned int, tA,
-                                    unsigned int, tB,
-                                    Current,      curr_type,
-                                    unsigned int, mu,
-                                    std::string,  mom);
-};
-
-template <typename FImpl>
-class TSeqConserved: public Module<SeqConservedPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TSeqConserved(const std::string name);
-    // destructor
-    virtual ~TSeqConserved(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(SeqConserved, TSeqConserved<FIMPL>, MSource);
-
-/******************************************************************************
- *                      TSeqConserved implementation                          *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TSeqConserved<FImpl>::TSeqConserved(const std::string name)
-: Module<SeqConservedPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TSeqConserved<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().q, par().action};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TSeqConserved<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TSeqConserved<FImpl>::setup(void)
-{
-    auto Ls_ = env().getObjectLs(par().action);
-    envCreateLat(PropagatorField, getName(), Ls_);
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TSeqConserved<FImpl>::execute(void)
-{
-    if (par().tA == par().tB)
-    {
-        LOG(Message) << "Generating sequential source with conserved "
-                     << par().curr_type << " current insertion (mu = " 
-                     << par().mu << ") at " << "t = " << par().tA << std::endl;
-    }
-    else
-    {
-        LOG(Message) << "Generating sequential source with conserved "
-                     << par().curr_type << " current insertion (mu = " 
-                     << par().mu << ") for " << par().tA << " <= t <= " 
-                     << par().tB << std::endl;
-    }
-    auto &src = envGet(PropagatorField, getName());
-    auto &q   = envGet(PropagatorField, par().q);
-    auto &mat = envGet(FMat, par().action);
-
-    std::vector<Real> mom = strToVec<Real>(par().mom);
-    mat.SeqConservedCurrent(q, src, par().curr_type, par().mu, 
-                            mom, par().tA, par().tB);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_SeqConserved_hpp_

extras/Hadrons/Modules/MSource/SeqGamma.hpp

@@ -1,178 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MSource/SeqGamma.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MSource_SeqGamma_hpp_
-#define Hadrons_MSource_SeqGamma_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/*
- 
- Sequential source
- -----------------------------
- * src_x = q_x * theta(x_3 - tA) * theta(tB - x_3) * gamma * exp(i x.mom)
- 
- * options:
- - q: input propagator (string)
- - tA: begin timeslice (integer)
- - tB: end timesilce (integer)
- - gamma: gamma product to insert (integer)
- - mom: momentum insertion, space-separated float sequence (e.g ".1 .2 1. 0.")
- 
- */
-
-/******************************************************************************
- *                         SeqGamma                                 *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MSource)
-
-class SeqGammaPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(SeqGammaPar,
-                                    std::string,    q,
-                                    unsigned int,   tA,
-                                    unsigned int,   tB,
-                                    Gamma::Algebra, gamma,
-                                    std::string,    mom);
-};
-
-template <typename FImpl>
-class TSeqGamma: public Module<SeqGammaPar>
-{
-public:
-    FGS_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TSeqGamma(const std::string name);
-    // destructor
-    virtual ~TSeqGamma(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-private:
-    bool        hasPhase_{false};
-    std::string momphName_, tName_;
-};
-
-MODULE_REGISTER_NS(SeqGamma, TSeqGamma<FIMPL>, MSource);
-
-/******************************************************************************
- *                         TSeqGamma implementation                           *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TSeqGamma<FImpl>::TSeqGamma(const std::string name)
-: Module<SeqGammaPar>(name)
-, momphName_ (name + "_momph")
-, tName_ (name + "_t")
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TSeqGamma<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().q};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TSeqGamma<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TSeqGamma<FImpl>::setup(void)
-{
-    envCreateLat(PropagatorField, getName());
-    envCacheLat(Lattice<iScalar<vInteger>>, tName_);
-    envCacheLat(LatticeComplex, momphName_);
-    envTmpLat(LatticeComplex, "coor");
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TSeqGamma<FImpl>::execute(void)
-{
-    if (par().tA == par().tB)
-    {
-        LOG(Message) << "Generating gamma_" << par().gamma
-                     << " sequential source at t= " << par().tA << std::endl;
-    }
-    else
-    {
-        LOG(Message) << "Generating gamma_" << par().gamma
-                     << " sequential source for "
-                     << par().tA << " <= t <= " << par().tB << std::endl;
-    }
-    auto  &src = envGet(PropagatorField, getName());
-    auto  &q   = envGet(PropagatorField, par().q);
-    auto  &ph  = envGet(LatticeComplex, momphName_);
-    auto  &t   = envGet(Lattice<iScalar<vInteger>>, tName_);
-    Gamma g(par().gamma);
-    
-    if (!hasPhase_)
-    {
-        Complex           i(0.0,1.0);
-        std::vector<Real> p;
-
-        envGetTmp(LatticeComplex, coor);
-        p  = strToVec<Real>(par().mom);
-        ph = zero;
-        for(unsigned int mu = 0; mu < env().getNd(); mu++)
-        {
-            LatticeCoordinate(coor, mu);
-            ph = ph + (p[mu]/env().getGrid()->_fdimensions[mu])*coor;
-        }
-        ph = exp((Real)(2*M_PI)*i*ph);
-        LatticeCoordinate(t, Tp);
-        hasPhase_ = true;
-    }
-    src = where((t >= par().tA) and (t <= par().tB), ph*(g*q), 0.*q);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MSource_SeqGamma_hpp_

extras/Hadrons/Modules/MSource/Wall.hpp

@@ -1,161 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MSource/Wall.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MSource_WallSource_hpp_
-#define Hadrons_MSource_WallSource_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/*
- 
- Wall source
- -----------------------------
- * src_x = delta(x_3 - tW) * exp(i x.mom)
- 
- * options:
- - tW: source timeslice (integer)
- - mom: momentum insertion, space-separated float sequence (e.g ".1 .2 1. 0.")
- 
- */
-
-/******************************************************************************
- *                         Wall                                               *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MSource)
-
-class WallPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(WallPar,
-                                    unsigned int, tW,
-                                    std::string, mom);
-};
-
-template <typename FImpl>
-class TWall: public Module<WallPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TWall(const std::string name);
-    // destructor
-    virtual ~TWall(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-private:
-    bool        hasPhase_{false};
-    std::string momphName_, tName_;
-};
-
-MODULE_REGISTER_NS(Wall, TWall<FIMPL>, MSource);
-
-/******************************************************************************
- *                 TWall implementation                                       *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TWall<FImpl>::TWall(const std::string name)
-: Module<WallPar>(name)
-, momphName_ (name + "_momph")
-, tName_ (name + "_t")
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TWall<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TWall<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TWall<FImpl>::setup(void)
-{
-    envCreateLat(PropagatorField, getName());
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TWall<FImpl>::execute(void)
-{    
-    LOG(Message) << "Generating wall source at t = " << par().tW 
-                 << " with momentum " << par().mom << std::endl;
-    
-    auto  &src = envGet(PropagatorField, getName());
-    auto  &ph  = envGet(LatticeComplex, momphName_);
-    auto  &t   = envGet(Lattice<iScalar<vInteger>>, tName_);
-    
-    if (!hasPhase_)
-    {
-        Complex           i(0.0,1.0);
-        std::vector<Real> p;
-
-        envGetTmp(LatticeComplex, coor);
-        p  = strToVec<Real>(par().mom);
-        ph = zero;
-        for(unsigned int mu = 0; mu < env().getNd(); mu++)
-        {
-            LatticeCoordinate(coor, mu);
-            ph = ph + (p[mu]/env().getGrid()->_fdimensions[mu])*coor;
-        }
-        ph = exp((Real)(2*M_PI)*i*ph);
-        LatticeCoordinate(t, Tp);
-        hasPhase_ = true;
-    }
-
-    src = 1.;
-    src = where((t == par().tW), src*ph, 0.*src);
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MSource_WallSource_hpp_

extras/Hadrons/Modules/MSource/Z2.hpp

@@ -1,163 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MSource/Z2.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_MSource_Z2_hpp_
-#define Hadrons_MSource_Z2_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/*
- 
- Z_2 stochastic source
- -----------------------------
- * src_x = eta_x * theta(x_3 - tA) * theta(tB - x_3)
- 
- the eta_x are independent uniform random numbers in {+/- 1 +/- i}
- 
- * options:
- - tA: begin timeslice (integer)
- - tB: end timesilce (integer)
- 
- */
- 
-/******************************************************************************
- *                          Z2 stochastic source                              *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MSource)
-
-class Z2Par: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(Z2Par,
-                                    unsigned int, tA,
-                                    unsigned int, tB);
-};
-
-template <typename FImpl>
-class TZ2: public Module<Z2Par>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TZ2(const std::string name);
-    // destructor
-    virtual ~TZ2(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-private:
-    bool        hasT_{false};
-    std::string tName_;
-};
-
-MODULE_REGISTER_NS(Z2,       TZ2<FIMPL>,        MSource);
-MODULE_REGISTER_NS(ScalarZ2, TZ2<ScalarImplCR>, MSource);
-
-/******************************************************************************
- *                       TZ2 template implementation                          *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TZ2<FImpl>::TZ2(const std::string name)
-: Module<Z2Par>(name)
-, tName_ (name + "_t")
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TZ2<FImpl>::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TZ2<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TZ2<FImpl>::setup(void)
-{
-    envCreateLat(PropagatorField, getName());
-    envCacheLat(Lattice<iScalar<vInteger>>, tName_);
-    envTmpLat(LatticeComplex, "eta");
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TZ2<FImpl>::execute(void)
-{
-    if (par().tA == par().tB)
-    {
-        LOG(Message) << "Generating Z_2 wall source at t= " << par().tA
-                     << std::endl;
-    }
-    else
-    {
-        LOG(Message) << "Generating Z_2 band for " << par().tA << " <= t <= "
-                     << par().tB << std::endl;
-    }
-    
-    auto    &src = envGet(PropagatorField, getName());
-    auto    &t   = envGet(Lattice<iScalar<vInteger>>, tName_);
-    Complex shift(1., 1.);
-
-    if (!hasT_)
-    {
-        LatticeCoordinate(t, Tp);
-        hasT_ = true;
-    }
-    envGetTmp(LatticeComplex, eta);
-    bernoulli(*env().get4dRng(), eta);
-    eta = (2.*eta - shift)*(1./::sqrt(2.));
-    eta = where((t >= par().tA) and (t <= par().tB), eta, 0.*eta);
-    src = 1.;
-    src = src*eta;
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_MSource_Z2_hpp_

extras/Hadrons/Modules/MUtilities/TestSeqConserved.hpp

@@ -1,186 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MUtilities/TestSeqConserved.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MUtilities_TestSeqConserved_hpp_
-#define Hadrons_MUtilities_TestSeqConserved_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/*
-  Ward Identity contractions using sequential propagators.
- -----------------------------
- 
- * options:
- - q:      point source propagator, 5D if available (string)
- - qSeq:   result of sequential insertion of conserved current using q (string)
- - action: action used for computation of q (string)
- - origin: string giving point source origin of q (string)
- - t_J:    time at which sequential current is inserted (int)
- - mu:     Lorentz index of current inserted (int)
- - curr:   current type, e.g. vector/axial (Current)
-*/
-
-/******************************************************************************
- *                            TestSeqConserved                                *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MUtilities)
-
-class TestSeqConservedPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(TestSeqConservedPar,
-                                    std::string,  q,
-                                    std::string,  qSeq,
-                                    std::string,  action,
-                                    std::string,  origin,
-                                    unsigned int, t_J,
-                                    unsigned int, mu,
-                                    Current,      curr);
-};
-
-template <typename FImpl>
-class TTestSeqConserved: public Module<TestSeqConservedPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TTestSeqConserved(const std::string name);
-    // destructor
-    virtual ~TTestSeqConserved(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(TestSeqConserved, TTestSeqConserved<FIMPL>, MUtilities);
-
-/******************************************************************************
- *                     TTestSeqConserved implementation                       *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TTestSeqConserved<FImpl>::TTestSeqConserved(const std::string name)
-: Module<TestSeqConservedPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TTestSeqConserved<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().q, par().qSeq, par().action};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TTestSeqConserved<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TTestSeqConserved<FImpl>::setup(void)
-{
-    auto Ls = env().getObjectLs(par().q);
-    if (Ls != env().getObjectLs(par().action))
-    {
-        HADRON_ERROR(Size, "Ls mismatch between quark action and propagator");
-    }
-    envTmpLat(PropagatorField, "tmp");
-    envTmpLat(LatticeComplex, "c");
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TTestSeqConserved<FImpl>::execute(void)
-{
-    // Check sequential insertion of current gives same result as conserved 
-    // current sink upon contraction. Assume q uses a point source.
-
-    auto                  &q    = envGet(PropagatorField, par().q);
-    auto                  &qSeq = envGet(PropagatorField, par().qSeq);
-    auto                  &act  = envGet(FMat, par().action);
-    Gamma                 g5(Gamma::Algebra::Gamma5);
-    Gamma::Algebra        gA = (par().curr == Current::Axial) ?
-                                  Gamma::Algebra::Gamma5 :
-                                  Gamma::Algebra::Identity;
-    Gamma                 g(gA);
-    SitePropagator        qSite;
-    Complex               test_S, test_V, check_S, check_V;
-    std::vector<TComplex> check_buf;
-    std::vector<int>      siteCoord;
-
-    envGetTmp(PropagatorField, tmp);
-    envGetTmp(LatticeComplex, c);
-    siteCoord = strToVec<int>(par().origin);
-    peekSite(qSite, qSeq, siteCoord);
-    test_S = trace(qSite*g);
-    test_V = trace(qSite*g*Gamma::gmu[par().mu]);
-    act.ContractConservedCurrent(q, q, tmp, par().curr, par().mu);
-    c = trace(tmp*g);
-    sliceSum(c, check_buf, Tp);
-    check_S = TensorRemove(check_buf[par().t_J]);
-
-    c = trace(tmp*g*Gamma::gmu[par().mu]);
-    sliceSum(c, check_buf, Tp);
-    check_V = TensorRemove(check_buf[par().t_J]);
-
-    LOG(Message) << "Test S  = " << abs(test_S)   << std::endl;
-    LOG(Message) << "Test V  = " << abs(test_V) << std::endl;
-    LOG(Message) << "Check S = " << abs(check_S) << std::endl;
-    LOG(Message) << "Check V = " << abs(check_V) << std::endl;
-
-    // Check difference = 0
-    check_S -= test_S;
-    check_V -= test_V;
-
-    LOG(Message) << "Consistency check for sequential conserved " 
-                 << par().curr << " current insertion: " << std::endl; 
-    LOG(Message) << "Diff S  = " << abs(check_S) << std::endl;
-    LOG(Message) << "Diff V  = " << abs(check_V) << std::endl;
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_TestSeqConserved_hpp_

extras/Hadrons/Modules/MUtilities/TestSeqGamma.hpp

@@ -1,150 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/Modules/MUtilities/TestSeqGamma.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.com>
-Author: Lanny91 <andrew.lawson@gmail.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 */
-
-#ifndef Hadrons_MUtilities_TestSeqGamma_hpp_
-#define Hadrons_MUtilities_TestSeqGamma_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                              TestSeqGamma                                  *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(MUtilities)
-
-class TestSeqGammaPar: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(TestSeqGammaPar,
-                                    std::string,    q,
-                                    std::string,    qSeq,
-                                    std::string,    origin,
-                                    Gamma::Algebra, gamma,
-                                    unsigned int,   t_g);
-};
-
-template <typename FImpl>
-class TTestSeqGamma: public Module<TestSeqGammaPar>
-{
-public:
-    FERM_TYPE_ALIASES(FImpl,);
-public:
-    // constructor
-    TTestSeqGamma(const std::string name);
-    // destructor
-    virtual ~TTestSeqGamma(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-protected:
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(TestSeqGamma, TTestSeqGamma<FIMPL>, MUtilities);
-
-/******************************************************************************
- *                      TTestSeqGamma implementation                          *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-TTestSeqGamma<FImpl>::TTestSeqGamma(const std::string name)
-: Module<TestSeqGammaPar>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> TTestSeqGamma<FImpl>::getInput(void)
-{
-    std::vector<std::string> in = {par().q, par().qSeq};
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> TTestSeqGamma<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TTestSeqGamma<FImpl>::setup(void)
-{
-    envTmpLat(LatticeComplex, "c");
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void TTestSeqGamma<FImpl>::execute(void)
-{
-    auto                  &q    = envGet(PropagatorField, par().q);
-    auto                  &qSeq = envGet(PropagatorField, par().qSeq);
-    Gamma                 g5(Gamma::Algebra::Gamma5);
-    Gamma                 g(par().gamma);
-    SitePropagator        qSite;
-    Complex               test, check;
-    std::vector<TComplex> check_buf;
-    std::vector<int>      siteCoord;
-
-    // Check sequential insertion of gamma matrix gives same result as 
-    // insertion of gamma at sink upon contraction. Assume q uses a point 
-    // source.
-    
-    envGetTmp(LatticeComplex, c);
-    siteCoord = strToVec<int>(par().origin);
-    peekSite(qSite, qSeq, siteCoord);
-    test = trace(g*qSite);
-
-    c = trace(adj(g)*g5*adj(q)*g5*g*q);
-    sliceSum(c, check_buf, Tp);
-    check = TensorRemove(check_buf[par().t_g]);
-
-    LOG(Message) << "Seq Result = " << abs(test)  << std::endl;
-    LOG(Message) << "Reference  = " << abs(check) << std::endl;
-
-    // Check difference = 0
-    check -= test;
-
-    LOG(Message) << "Consistency check for sequential " << par().gamma  
-                 << " insertion = " << abs(check) << std::endl;
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_TestSeqGamma_hpp_

extras/Hadrons/Modules/templates/Module.cc.template

@@ -1,39 +0,0 @@
-#include <Grid/Hadrons/Modules/___FILEBASENAME___.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-
-/******************************************************************************
-*                  T___FILEBASENAME___ implementation                             *
-******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-T___FILEBASENAME___::T___FILEBASENAME___(const std::string name)
-: Module<___FILEBASENAME___Par>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> T___FILEBASENAME___::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-std::vector<std::string> T___FILEBASENAME___::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void T___FILEBASENAME___::setup(void)
-{
-
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void T___FILEBASENAME___::execute(void)
-{
-
-}

extras/Hadrons/Modules/templates/Module.hpp.template

@@ -1,40 +0,0 @@
-#ifndef Hadrons____FILEBASENAME____hpp_
-#define Hadrons____FILEBASENAME____hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         ___FILEBASENAME___                                 *
- ******************************************************************************/
-class ___FILEBASENAME___Par: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(___FILEBASENAME___Par, 
-                                    unsigned int, i);
-};
-
-class T___FILEBASENAME___: public Module<___FILEBASENAME___Par>
-{
-public:
-    // constructor
-    T___FILEBASENAME___(const std::string name);
-    // destructor
-    virtual ~T___FILEBASENAME___(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER(___FILEBASENAME___, T___FILEBASENAME___);
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons____FILEBASENAME____hpp_

extras/Hadrons/Modules/templates/Module_in_NS.cc.template

@@ -1,40 +0,0 @@
-#include <Grid/Hadrons/Modules/___NAMESPACE___/___FILEBASENAME___.hpp>
-
-using namespace Grid;
-using namespace Hadrons;
-using namespace ___NAMESPACE___;
-
-/******************************************************************************
-*                  T___FILEBASENAME___ implementation                             *
-******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-T___FILEBASENAME___::T___FILEBASENAME___(const std::string name)
-: Module<___FILEBASENAME___Par>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-std::vector<std::string> T___FILEBASENAME___::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-std::vector<std::string> T___FILEBASENAME___::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-void T___FILEBASENAME___::setup(void)
-{
-
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-void T___FILEBASENAME___::execute(void)
-{
-
-}

extras/Hadrons/Modules/templates/Module_in_NS.hpp.template

@@ -1,44 +0,0 @@
-#ifndef Hadrons____NAMESPACE_______FILEBASENAME____hpp_
-#define Hadrons____NAMESPACE_______FILEBASENAME____hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         ___FILEBASENAME___                                 *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(___NAMESPACE___)
-
-class ___FILEBASENAME___Par: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(___FILEBASENAME___Par,
-                                    unsigned int, i);
-};
-
-class T___FILEBASENAME___: public Module<___FILEBASENAME___Par>
-{
-public:
-    // constructor
-    T___FILEBASENAME___(const std::string name);
-    // destructor
-    virtual ~T___FILEBASENAME___(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(___FILEBASENAME___, T___FILEBASENAME___, ___NAMESPACE___);
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons____NAMESPACE_______FILEBASENAME____hpp_

extras/Hadrons/Modules/templates/Module_tmp.hpp.template

@@ -1,81 +0,0 @@
-#ifndef Hadrons____FILEBASENAME____hpp_
-#define Hadrons____FILEBASENAME____hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         ___FILEBASENAME___                                 *
- ******************************************************************************/
-class ___FILEBASENAME___Par: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(___FILEBASENAME___Par,
-                                    unsigned int, i);
-};
-
-template <typename FImpl>
-class T___FILEBASENAME___: public Module<___FILEBASENAME___Par>
-{
-public:
-    // constructor
-    T___FILEBASENAME___(const std::string name);
-    // destructor
-    virtual ~T___FILEBASENAME___(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER(___FILEBASENAME___, T___FILEBASENAME___<FIMPL>);
-
-/******************************************************************************
- *                 T___FILEBASENAME___ implementation                             *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-T___FILEBASENAME___<FImpl>::T___FILEBASENAME___(const std::string name)
-: Module<___FILEBASENAME___Par>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> T___FILEBASENAME___<FImpl>::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> T___FILEBASENAME___<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void T___FILEBASENAME___<FImpl>::setup(void)
-{
-    
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void T___FILEBASENAME___<FImpl>::execute(void)
-{
-    
-}
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons____FILEBASENAME____hpp_

extras/Hadrons/Modules/templates/Module_tmp_in_NS.hpp.template

@@ -1,85 +0,0 @@
-#ifndef Hadrons____NAMESPACE_______FILEBASENAME____hpp_
-#define Hadrons____NAMESPACE_______FILEBASENAME____hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Module.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-/******************************************************************************
- *                         ___FILEBASENAME___                                 *
- ******************************************************************************/
-BEGIN_MODULE_NAMESPACE(___NAMESPACE___)
-
-class ___FILEBASENAME___Par: Serializable
-{
-public:
-    GRID_SERIALIZABLE_CLASS_MEMBERS(___FILEBASENAME___Par,
-                                    unsigned int, i);
-};
-
-template <typename FImpl>
-class T___FILEBASENAME___: public Module<___FILEBASENAME___Par>
-{
-public:
-    // constructor
-    T___FILEBASENAME___(const std::string name);
-    // destructor
-    virtual ~T___FILEBASENAME___(void) = default;
-    // dependency relation
-    virtual std::vector<std::string> getInput(void);
-    virtual std::vector<std::string> getOutput(void);
-    // setup
-    virtual void setup(void);
-    // execution
-    virtual void execute(void);
-};
-
-MODULE_REGISTER_NS(___FILEBASENAME___, T___FILEBASENAME___<FIMPL>, ___NAMESPACE___);
-
-/******************************************************************************
- *                 T___FILEBASENAME___ implementation                             *
- ******************************************************************************/
-// constructor /////////////////////////////////////////////////////////////////
-template <typename FImpl>
-T___FILEBASENAME___<FImpl>::T___FILEBASENAME___(const std::string name)
-: Module<___FILEBASENAME___Par>(name)
-{}
-
-// dependencies/products ///////////////////////////////////////////////////////
-template <typename FImpl>
-std::vector<std::string> T___FILEBASENAME___<FImpl>::getInput(void)
-{
-    std::vector<std::string> in;
-    
-    return in;
-}
-
-template <typename FImpl>
-std::vector<std::string> T___FILEBASENAME___<FImpl>::getOutput(void)
-{
-    std::vector<std::string> out = {getName()};
-    
-    return out;
-}
-
-// setup ///////////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void T___FILEBASENAME___<FImpl>::setup(void)
-{
-    
-}
-
-// execution ///////////////////////////////////////////////////////////////////
-template <typename FImpl>
-void T___FILEBASENAME___<FImpl>::execute(void)
-{
-    
-}
-
-END_MODULE_NAMESPACE
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons____NAMESPACE_______FILEBASENAME____hpp_

extras/Hadrons/VirtualMachine.cc

@@ -1,622 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/VirtualMachine.cc
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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/Hadrons/VirtualMachine.hpp>
-#include <Grid/Hadrons/GeneticScheduler.hpp>
-#include <Grid/Hadrons/ModuleFactory.hpp>
-
-using namespace Grid;
-using namespace QCD;
-using namespace Hadrons;
-
-/******************************************************************************
- *                      VirtualMachine implementation                         *
- ******************************************************************************/
-// trajectory counter //////////////////////////////////////////////////////////
-void VirtualMachine::setTrajectory(const unsigned int traj)
-{
-    traj_ = traj;
-}
-
-unsigned int VirtualMachine::getTrajectory(void) const
-{
-    return traj_;
-}
-
-// module management ///////////////////////////////////////////////////////////
-void VirtualMachine::pushModule(VirtualMachine::ModPt &pt)
-{
-    std::string name = pt->getName();
-    
-    if (!hasModule(name))
-    {
-        std::vector<unsigned int> inputAddress;
-        unsigned int              address;
-        ModuleInfo                m;
-        
-        // module registration -------------------------------------------------
-        m.data = std::move(pt);
-        m.type = typeIdPt(*m.data.get());
-        m.name = name;
-        // input dependencies
-        for (auto &in: m.data->getInput())
-        {
-            if (!env().hasObject(in))
-            {
-                // if object does not exist, add it with no creator module
-                env().addObject(in , -1);
-            }
-            m.input.push_back(env().getObjectAddress(in));
-        }
-        // reference dependencies
-        for (auto &ref: m.data->getReference())
-        {
-            if (!env().hasObject(ref))
-            {
-                // if object does not exist, add it with no creator module
-                env().addObject(ref , -1);
-            }
-            m.input.push_back(env().getObjectAddress(ref));
-        }
-        auto inCopy = m.input;
-        // if module has inputs with references, they need to be added as
-        // an input
-        for (auto &in: inCopy)
-        {
-            int inm = env().getObjectModule(in);
-
-            if (inm > 0)
-            {
-                if (getModule(inm)->getReference().size() > 0)
-                {
-                    for (auto &rin: getModule(inm)->getReference())
-                    {
-                        m.input.push_back(env().getObjectAddress(rin));
-                    }
-                }
-            }
-        }
-        module_.push_back(std::move(m));
-        address              = static_cast<unsigned int>(module_.size() - 1);
-        moduleAddress_[name] = address;
-        // connecting outputs to potential inputs ------------------------------
-        for (auto &out: getModule(address)->getOutput())
-        {
-            if (!env().hasObject(out))
-            {
-                // output does not exists, add it
-                env().addObject(out, address);
-            }
-            else
-            {
-                if (env().getObjectModule(env().getObjectAddress(out)) < 0)
-                {
-                    // output exists but without creator, correct it
-                    env().setObjectModule(env().getObjectAddress(out), address);
-                }
-                else
-                {
-                    // output already fully registered, error
-                    HADRON_ERROR(Definition, "object '" + out
-                                 + "' is already produced by module '"
-                                 + module_[env().getObjectModule(out)].name
-                                 + "' (while pushing module '" + name + "')");
-                }
-                if (getModule(address)->getReference().size() > 0)
-                {
-                    // module has references, dependency should be propagated
-                    // to children modules; find module with `out` as an input
-                    // and add references to their input
-                    auto pred = [this, out](const ModuleInfo &n)
-                    {
-                        auto &in = n.input;
-                        auto it  = std::find(in.begin(), in.end(), 
-                                             env().getObjectAddress(out));
-                        
-                        return (it != in.end());
-                    };
-                    auto it = std::find_if(module_.begin(), module_.end(), pred);
-                    while (it != module_.end())
-                    {
-                        for (auto &ref: getModule(address)->getReference())
-                        {
-                            it->input.push_back(env().getObjectAddress(ref));
-                        }
-                        it = std::find_if(++it, module_.end(), pred);
-                    }   
-                }
-            }
-        }
-        graphOutdated_         = true;
-        memoryProfileOutdated_ = true;
-    }
-    else
-    {
-        HADRON_ERROR(Definition, "module '" + name + "' already exists");
-    }
-}
-
-unsigned int VirtualMachine::getNModule(void) const
-{
-    return module_.size();
-}
-
-void VirtualMachine::createModule(const std::string name, const std::string type,
-                                  XmlReader &reader)
-{
-    auto &factory = ModuleFactory::getInstance();
-    auto pt       = factory.create(type, name);
-    
-    pt->parseParameters(reader, "options");
-    pushModule(pt);
-}
-
-ModuleBase * VirtualMachine::getModule(const unsigned int address) const
-{
-    if (hasModule(address))
-    {
-        return module_[address].data.get();
-    }
-    else
-    {
-        HADRON_ERROR(Definition, "no module with address " + std::to_string(address));
-    }
-}
-
-ModuleBase * VirtualMachine::getModule(const std::string name) const
-{
-    return getModule(getModuleAddress(name));
-}
-
-unsigned int VirtualMachine::getModuleAddress(const std::string name) const
-{
-    if (hasModule(name))
-    {
-        return moduleAddress_.at(name);
-    }
-    else
-    {
-        HADRON_ERROR(Definition, "no module with name '" + name + "'");
-    }
-}
-
-std::string VirtualMachine::getModuleName(const unsigned int address) const
-{
-    if (hasModule(address))
-    {
-        return module_[address].name;
-    }
-    else
-    {
-        HADRON_ERROR(Definition, "no module with address " + std::to_string(address));
-    }
-}
-
-std::string VirtualMachine::getModuleType(const unsigned int address) const
-{
-    if (hasModule(address))
-    {
-        return typeName(module_[address].type);
-    }
-    else
-    {
-        HADRON_ERROR(Definition, "no module with address " + std::to_string(address));
-    }
-}
-
-std::string VirtualMachine::getModuleType(const std::string name) const
-{
-    return getModuleType(getModuleAddress(name));
-}
-
-std::string VirtualMachine::getModuleNamespace(const unsigned int address) const
-{
-    std::string type = getModuleType(address), ns;
-    
-    auto pos2 = type.rfind("::");
-    auto pos1 = type.rfind("::", pos2 - 2);
-    
-    return type.substr(pos1 + 2, pos2 - pos1 - 2);
-}
-
-std::string VirtualMachine::getModuleNamespace(const std::string name) const
-{
-    return getModuleNamespace(getModuleAddress(name));
-}
-
-bool VirtualMachine::hasModule(const unsigned int address) const
-{
-    return (address < module_.size());
-}
-
-bool VirtualMachine::hasModule(const std::string name) const
-{
-    return (moduleAddress_.find(name) != moduleAddress_.end());
-}
-
-// print VM content ////////////////////////////////////////////////////////////
-void VirtualMachine::printContent(void) const
-{
-    LOG(Debug) << "Modules: " << std::endl;
-    for (unsigned int i = 0; i < module_.size(); ++i)
-    {
-        LOG(Debug) << std::setw(4) << i << ": "
-                   << getModuleName(i) << std::endl;
-    }
-}
-
-// module graph ////////////////////////////////////////////////////////////////
-Graph<unsigned int> VirtualMachine::getModuleGraph(void)
-{
-    if (graphOutdated_)
-    {
-        makeModuleGraph();
-        graphOutdated_ = false;
-    }
-
-    return graph_;
-}
-
-void VirtualMachine::makeModuleGraph(void)
-{
-    Graph<unsigned int> graph;
-    
-    // create vertices
-    for (unsigned int m = 0; m < module_.size(); ++m)
-    {
-        graph.addVertex(m);
-    }
-    // create edges
-    for (unsigned int m = 0; m < module_.size(); ++m)
-    {
-        for (auto &in: module_[m].input)
-        {
-            graph.addEdge(env().getObjectModule(in), m);
-        }
-    }
-    graph_ = graph;
-}
-
-// memory profile //////////////////////////////////////////////////////////////
-const VirtualMachine::MemoryProfile & VirtualMachine::getMemoryProfile(void)
-{
-    if (memoryProfileOutdated_)
-    {
-        makeMemoryProfile();
-        memoryProfileOutdated_ = false;
-    }
-
-    return profile_;
-}
-
-void VirtualMachine::makeMemoryProfile(void)
-{
-    bool protect = env().objectsProtected();
-    bool hmsg    = HadronsLogMessage.isActive();
-    bool gmsg    = GridLogMessage.isActive();
-    bool err     = HadronsLogError.isActive();
-    auto program = getModuleGraph().topoSort();
-
-    resetProfile();
-    profile_.module.resize(getNModule());
-    env().protectObjects(false);
-    GridLogMessage.Active(false);
-    HadronsLogMessage.Active(false);
-    HadronsLogError.Active(false);
-    for (auto it = program.rbegin(); it != program.rend(); ++it) 
-    {
-        auto a = *it;
-
-        if (profile_.module[a].empty())
-        {
-            LOG(Debug) << "Profiling memory for module '" << module_[a].name
-                       << "' (" << a << ")..." << std::endl;
-            memoryProfile(a);
-            env().freeAll();
-        }
-    }
-    env().protectObjects(protect);
-    GridLogMessage.Active(gmsg);
-    HadronsLogMessage.Active(hmsg);
-    HadronsLogError.Active(err);
-    LOG(Debug) << "Memory profile:" << std::endl;
-    LOG(Debug) << "----------------" << std::endl;
-    for (unsigned int a = 0; a < profile_.module.size(); ++a)
-    {
-        LOG(Debug) << getModuleName(a) << " (" << a << ")" << std::endl;
-        for (auto &o: profile_.module[a])
-        {
-            LOG(Debug) << "|__ " << env().getObjectName(o.first) << " ("
-                       << sizeString(o.second) << ")" << std::endl;
-        }
-        LOG(Debug) << std::endl;
-    }
-    LOG(Debug) << "----------------" << std::endl;
-}
-
-void VirtualMachine::resetProfile(void)
-{
-    profile_.module.clear();
-    profile_.object.clear();
-}
-
-void VirtualMachine::resizeProfile(void)
-{
-    if (env().getMaxAddress() > profile_.object.size())
-    {
-        MemoryPrint empty;
-
-        empty.size   = 0;
-        empty.module = -1;
-        profile_.object.resize(env().getMaxAddress(), empty);
-    }
-}
-
-void VirtualMachine::updateProfile(const unsigned int address)
-{
-    resizeProfile();
-    for (unsigned int a = 0; a < env().getMaxAddress(); ++a)
-    {
-        if (env().hasCreatedObject(a) and (profile_.object[a].module == -1))
-        {
-            profile_.object[a].size     = env().getObjectSize(a);
-            profile_.object[a].storage  = env().getObjectStorage(a);
-            profile_.object[a].module   = address;
-            profile_.module[address][a] = profile_.object[a].size;
-            if (env().getObjectModule(a) < 0)
-            {
-                env().setObjectModule(a, address);
-            }
-        }
-    }
-}
-
-void VirtualMachine::cleanEnvironment(void)
-{
-    resizeProfile();
-    for (unsigned int a = 0; a < env().getMaxAddress(); ++a)
-    {
-        if (env().hasCreatedObject(a) and (profile_.object[a].module == -1))
-        {
-            env().freeObject(a);
-        }
-    }
-}
-
-void VirtualMachine::memoryProfile(const unsigned int address)
-{
-    auto m = getModule(address);
-
-    LOG(Debug) << "Setting up module '" << m->getName() 
-               << "' (" << address << ")..." << std::endl;
-    try
-    {
-        m->setup();
-        updateProfile(address);
-    }
-    catch (Exceptions::Definition &)
-    {
-        cleanEnvironment();
-        for (auto &in: m->getInput())
-        {
-            memoryProfile(env().getObjectModule(in));
-        }
-        for (auto &ref: m->getReference())
-        {
-            memoryProfile(env().getObjectModule(ref));
-        }
-        m->setup();
-        updateProfile(address);
-    }
-}
-
-void VirtualMachine::memoryProfile(const std::string name)
-{
-    memoryProfile(getModuleAddress(name));
-}
-
-// garbage collector ///////////////////////////////////////////////////////////
-VirtualMachine::GarbageSchedule 
-VirtualMachine::makeGarbageSchedule(const Program &p) const
-{
-    GarbageSchedule freeProg;
-    
-    freeProg.resize(p.size());
-    for (unsigned int a = 0; a < env().getMaxAddress(); ++a)
-    {
-        if (env().getObjectStorage(a) == Environment::Storage::temporary)
-        {
-            auto it = std::find(p.begin(), p.end(), env().getObjectModule(a));
-
-            if (it != p.end())
-            {
-                freeProg[std::distance(p.begin(), it)].insert(a);
-            }
-        }
-        else if (env().getObjectStorage(a) == Environment::Storage::object)
-        {
-            auto pred = [a, this](const unsigned int b)
-            {
-                auto &in = module_[b].input;
-                auto it  = std::find(in.begin(), in.end(), a);
-                
-                return (it != in.end()) or (b == env().getObjectModule(a));
-            };
-            auto it = std::find_if(p.rbegin(), p.rend(), pred);
-            if (it != p.rend())
-            {
-                freeProg[std::distance(it, p.rend()) - 1].insert(a);
-            }
-        }
-    }
-
-    return freeProg;
-}
-
-// high-water memory function //////////////////////////////////////////////////
-VirtualMachine::Size VirtualMachine::memoryNeeded(const Program &p)
-{
-    const MemoryProfile &profile = getMemoryProfile();
-    GarbageSchedule     freep    = makeGarbageSchedule(p);
-    Size                current = 0, max = 0;
-
-    for (unsigned int i = 0; i < p.size(); ++i)
-    {
-        for (auto &o: profile.module[p[i]])
-        {
-            current += o.second;
-        }
-        max = std::max(current, max);
-        for (auto &o: freep[i])
-        {
-            current -= profile.object[o].size;
-        }
-    }
-
-    return max;
-}
-
-// genetic scheduler ///////////////////////////////////////////////////////////
-VirtualMachine::Program VirtualMachine::schedule(const GeneticPar &par)
-{
-    typedef GeneticScheduler<Size, unsigned int> Scheduler;
-
-    auto graph = getModuleGraph();
-
-    //constrained topological sort using a genetic algorithm
-    LOG(Message) << "Scheduling computation..." << std::endl;
-    LOG(Message) << "               #module= " << graph.size() << std::endl;
-    LOG(Message) << "       population size= " << par.popSize << std::endl;
-    LOG(Message) << "       max. generation= " << par.maxGen << std::endl;
-    LOG(Message) << "  max. cst. generation= " << par.maxCstGen << std::endl;
-    LOG(Message) << "         mutation rate= " << par.mutationRate << std::endl;
-    
-    unsigned int          k = 0, gen, prevPeak, nCstPeak = 0;
-    std::random_device    rd;
-    Scheduler::Parameters gpar;
-    
-    gpar.popSize      = par.popSize;
-    gpar.mutationRate = par.mutationRate;
-    gpar.seed         = rd();
-    CartesianCommunicator::BroadcastWorld(0, &(gpar.seed), sizeof(gpar.seed));
-    Scheduler::ObjFunc memPeak = [this](const Program &p)->Size
-    {
-        return memoryNeeded(p);
-    };
-    Scheduler scheduler(graph, memPeak, gpar);
-    gen = 0;
-    do
-    {
-        LOG(Debug) << "Generation " << gen << ":" << std::endl;
-        scheduler.nextGeneration();
-        if (gen != 0)
-        {
-            if (prevPeak == scheduler.getMinValue())
-            {
-                nCstPeak++;
-            }
-            else
-            {
-                nCstPeak = 0;
-            }
-        }
-        
-        prevPeak = scheduler.getMinValue();
-        if (gen % 10 == 0)
-        {
-            LOG(Iterative) << "Generation " << gen << ": "
-                           << sizeString(scheduler.getMinValue()) << std::endl;
-        }
-        
-        gen++;
-    } while ((gen < par.maxGen) and (nCstPeak < par.maxCstGen));
-    
-    return scheduler.getMinSchedule();
-}
-
-// general execution ///////////////////////////////////////////////////////////
-#define BIG_SEP "==============="
-#define SEP     "---------------"
-#define MEM_MSG(size) sizeString(size)
-
-void VirtualMachine::executeProgram(const Program &p) const
-{
-    Size            memPeak = 0, sizeBefore, sizeAfter;
-    GarbageSchedule freeProg;
-    
-    // build garbage collection schedule
-    LOG(Debug) << "Building garbage collection schedule..." << std::endl;
-    freeProg = makeGarbageSchedule(p);
-
-    // program execution
-    LOG(Debug) << "Executing program..." << std::endl;
-    for (unsigned int i = 0; i < p.size(); ++i)
-    {
-        // execute module
-        LOG(Message) << SEP << " Measurement step " << i + 1 << "/"
-                     << p.size() << " (module '" << module_[p[i]].name
-                     << "') " << SEP << std::endl;
-        (*module_[p[i]].data)();
-        sizeBefore = env().getTotalSize();
-        // print used memory after execution
-        LOG(Message) << "Allocated objects: " << MEM_MSG(sizeBefore)
-                     << std::endl;
-        if (sizeBefore > memPeak)
-        {
-            memPeak = sizeBefore;
-        }
-        // garbage collection for step i
-        LOG(Message) << "Garbage collection..." << std::endl;
-        for (auto &j: freeProg[i])
-        {
-            env().freeObject(j);
-        }
-        // print used memory after garbage collection if necessary
-        sizeAfter = env().getTotalSize();
-        if (sizeBefore != sizeAfter)
-        {
-            LOG(Message) << "Allocated objects: " << MEM_MSG(sizeAfter)
-                            << std::endl;
-        }
-        else
-        {
-            LOG(Message) << "Nothing to free" << std::endl;
-        }
-    }
-}
-
-void VirtualMachine::executeProgram(const std::vector<std::string> &p) const
-{
-    Program pAddress;
-    
-    for (auto &n: p)
-    {
-        pAddress.push_back(getModuleAddress(n));
-    }
-    executeProgram(pAddress);
-}

extras/Hadrons/VirtualMachine.hpp

@@ -1,207 +0,0 @@
-/*************************************************************************************
-
-Grid physics library, www.github.com/paboyle/Grid 
-
-Source file: extras/Hadrons/VirtualMachine.hpp
-
-Copyright (C) 2015-2018
-
-Author: Antonin Portelli <antonin.portelli@me.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 */
-
-#ifndef Hadrons_VirtualMachine_hpp_
-#define Hadrons_VirtualMachine_hpp_
-
-#include <Grid/Hadrons/Global.hpp>
-#include <Grid/Hadrons/Graph.hpp>
-#include <Grid/Hadrons/Environment.hpp>
-
-BEGIN_HADRONS_NAMESPACE
-
-#define DEFINE_VM_ALIAS \
-inline VirtualMachine & vm(void) const\
-{\
-    return VirtualMachine::getInstance();\
-}
-
-/******************************************************************************
- *                   Virtual machine for module execution                     *
- ******************************************************************************/
-// forward declaration of Module
-class ModuleBase;
-
-class VirtualMachine
-{
-    SINGLETON_DEFCTOR(VirtualMachine);
-public:
-    typedef SITE_SIZE_TYPE                      Size;
-    typedef std::unique_ptr<ModuleBase>         ModPt;
-    typedef std::vector<std::set<unsigned int>> GarbageSchedule;
-    typedef std::vector<unsigned int>           Program;
-    struct MemoryPrint
-    {
-        Size                 size;
-        Environment::Storage storage;
-        int                  module;
-    };
-    struct MemoryProfile
-    {
-        std::vector<std::map<unsigned int, Size>> module;
-        std::vector<MemoryPrint>                  object;
-    };
-    class GeneticPar: Serializable
-    {
-    public:
-        GeneticPar(void):
-            popSize{20}, maxGen{1000}, maxCstGen{100}, mutationRate{.1} {};
-    public:
-        GRID_SERIALIZABLE_CLASS_MEMBERS(GeneticPar,
-                                        unsigned int, popSize,
-                                        unsigned int, maxGen,
-                                        unsigned int, maxCstGen,
-                                        double      , mutationRate);
-    };
-private:
-    struct ModuleInfo
-    {
-        const std::type_info      *type{nullptr};
-        std::string               name;
-        ModPt                     data{nullptr};
-        std::vector<unsigned int> input;
-        size_t                    maxAllocated;
-    };
-public:
-    // trajectory counter
-    void                setTrajectory(const unsigned int traj);
-    unsigned int        getTrajectory(void) const;
-    // module management
-    void                pushModule(ModPt &pt);
-    template <typename M>
-    void                createModule(const std::string name);
-    template <typename M>
-    void                createModule(const std::string name,
-                                         const typename M::Par &par);
-    void                createModule(const std::string name,
-                                         const std::string type,
-                                         XmlReader &reader);
-    unsigned int        getNModule(void) const;
-    ModuleBase *        getModule(const unsigned int address) const;
-    ModuleBase *        getModule(const std::string name) const;
-    template <typename M>
-    M *                 getModule(const unsigned int address) const;
-    template <typename M>
-    M *                 getModule(const std::string name) const;
-    unsigned int        getModuleAddress(const std::string name) const;
-    std::string         getModuleName(const unsigned int address) const;
-    std::string         getModuleType(const unsigned int address) const;
-    std::string         getModuleType(const std::string name) const;
-    std::string         getModuleNamespace(const unsigned int address) const;
-    std::string         getModuleNamespace(const std::string name) const;
-    bool                hasModule(const unsigned int address) const;
-    bool                hasModule(const std::string name) const;
-    // print VM content
-    void                printContent(void) const;
-    // module graph (could be a const reference if topoSort was const)
-    Graph<unsigned int> getModuleGraph(void);
-    // memory profile
-    const MemoryProfile &getMemoryProfile(void);
-    // garbage collector
-    GarbageSchedule     makeGarbageSchedule(const Program &p) const;
-    // high-water memory function
-    Size                memoryNeeded(const Program &p);
-    // genetic scheduler
-    Program             schedule(const GeneticPar &par);
-    // general execution
-    void                executeProgram(const Program &p) const;
-    void                executeProgram(const std::vector<std::string> &p) const;
-private:
-    // environment shortcut
-    DEFINE_ENV_ALIAS;
-    // module graph
-    void makeModuleGraph(void);
-    // memory profile
-    void makeMemoryProfile(void);
-    void resetProfile(void);
-    void resizeProfile(void);
-    void updateProfile(const unsigned int address);
-    void cleanEnvironment(void);
-    void memoryProfile(const std::string name);
-    void memoryProfile(const unsigned int address);
-private:
-    // general
-    unsigned int                        traj_;
-    // module and related maps
-    std::vector<ModuleInfo>             module_;
-    std::map<std::string, unsigned int> moduleAddress_;
-    std::string                         currentModule_{""};
-    // module graph
-    bool                                graphOutdated_{true};
-    Graph<unsigned int>                 graph_;
-    // memory profile
-    bool                                memoryProfileOutdated_{true};
-    MemoryProfile                       profile_;
-};
-
-/******************************************************************************
- *                   VirtualMachine template implementation                   *
- ******************************************************************************/
-// module management ///////////////////////////////////////////////////////////
-template <typename M>
-void VirtualMachine::createModule(const std::string name)
-{
-    ModPt pt(new M(name));
-    
-    pushModule(pt);
-}
-
-template <typename M>
-void VirtualMachine::createModule(const std::string name,
-                               const typename M::Par &par)
-{
-    ModPt pt(new M(name));
-    
-    static_cast<M *>(pt.get())->setPar(par);
-    pushModule(pt);
-}
-
-template <typename M>
-M * VirtualMachine::getModule(const unsigned int address) const
-{
-    if (auto *pt = dynamic_cast<M *>(getModule(address)))
-    {
-        return pt;
-    }
-    else
-    {
-        HADRON_ERROR(Definition, "module '" + module_[address].name
-                     + "' does not have type " + typeid(M).name()
-                     + "(has type: " + getModuleType(address) + ")");
-    }
-}
-
-template <typename M>
-M * VirtualMachine::getModule(const std::string name) const
-{
-    return getModule<M>(getModuleAddress(name));
-}
-
-END_HADRONS_NAMESPACE
-
-#endif // Hadrons_VirtualMachine_hpp_

extras/Hadrons/add_module.sh

@@ -1,31 +0,0 @@
-#!/usr/bin/env bash
-
-if (( $# != 1 && $# != 2)); then
-    echo "usage: `basename $0` <module name> [<namespace>]" 1>&2
-    exit 1
-fi
-NAME=$1
-NS=$2
-
-if (( $# == 1 )); then
-	if [ -e "Modules/${NAME}.cc" ] || [ -e "Modules/${NAME}.hpp" ]; then
-	    echo "error: files Modules/${NAME}.* already exists" 1>&2
-	    exit 1
-	fi
-	sed "s/___FILEBASENAME___/${NAME}/g" Modules/templates/Module.cc.template > Modules/${NAME}.cc
-	sed "s/___FILEBASENAME___/${NAME}/g" Modules/templates/Module.hpp.template > Modules/${NAME}.hpp
-elif (( $# == 2 )); then
-	mkdir -p Modules/${NS}
-	if [ -e "Modules/${NS}/${NAME}.cc" ] || [ -e "Modules/${NS}/${NAME}.hpp" ]; then
-	    echo "error: files Modules/${NS}/${NAME}.* already exists" 1>&2
-	    exit 1
-	fi
-	TMPCC=".${NS}.${NAME}.tmp.cc"
-	TMPHPP=".${NS}.${NAME}.tmp.hpp"
-	sed "s/___FILEBASENAME___/${NAME}/g" Modules/templates/Module_in_NS.cc.template  > ${TMPCC}
-	sed "s/___FILEBASENAME___/${NAME}/g" Modules/templates/Module_in_NS.hpp.template > ${TMPHPP}
-	sed "s/___NAMESPACE___/${NS}/g" ${TMPCC}  > Modules/${NS}/${NAME}.cc
-	sed "s/___NAMESPACE___/${NS}/g" ${TMPHPP} > Modules/${NS}/${NAME}.hpp
-	rm -f ${TMPCC} ${TMPHPP}
-fi
-./make_module_list.sh

extras/Hadrons/add_module_template.sh

@@ -1,28 +0,0 @@
-#!/usr/bin/env bash
-
-if (( $# != 1 && $# != 2)); then
-    echo "usage: `basename $0` <module name> [<namespace>]" 1>&2
-    exit 1
-fi
-NAME=$1
-NS=$2
-
-if (( $# == 1 )); then
-	if [ -e "Modules/${NAME}.cc" ] || [ -e "Modules/${NAME}.hpp" ]; then
-	    echo "error: files Modules/${NAME}.* already exists" 1>&2
-	    exit 1
-	fi
-	sed "s/___FILEBASENAME___/${NAME}/g" Modules/templates/Module_tmp.hpp.template > Modules/${NAME}.hpp
-elif (( $# == 2 )); then
-	mkdir -p Modules/${NS}
-	if [ -e "Modules/${NS}/${NAME}.cc" ] || [ -e "Modules/${NS}/${NAME}.hpp" ]; then
-	    echo "error: files Modules/${NS}/${NAME}.* already exists" 1>&2
-	    exit 1
-	fi
-	TMPCC=".${NS}.${NAME}.tmp.cc"
-	TMPHPP=".${NS}.${NAME}.tmp.hpp"
-	sed "s/___FILEBASENAME___/${NAME}/g" Modules/templates/Module_tmp_in_NS.hpp.template > ${TMPHPP}
-	sed "s/___NAMESPACE___/${NS}/g" ${TMPHPP} > Modules/${NS}/${NAME}.hpp
-	rm -f ${TMPCC} ${TMPHPP}
-fi
-./make_module_list.sh

extras/Hadrons/make_module_list.sh

@@ -1,12 +0,0 @@
-#!/usr/bin/env bash
-
-echo 'modules_cc =\' > modules.inc
-find Modules -name '*.cc' -type f -print | sed 's/^/  /;$q;s/$/ \\/' >> modules.inc
-echo '' >> modules.inc
-echo 'modules_hpp =\' >> modules.inc
-find Modules -name '*.hpp' -type f -print | sed 's/^/  /;$q;s/$/ \\/' >> modules.inc
-echo '' >> modules.inc
-rm -f Modules.hpp
-for f in `find Modules -name '*.hpp'`; do
-	echo "#include <Grid/Hadrons/${f}>" >> Modules.hpp
-done

extras/Hadrons/modules.inc

@@ -1,52 +0,0 @@
-modules_cc =\
-  Modules/MScalar/ChargedProp.cc \
-  Modules/MScalar/FreeProp.cc \
-  Modules/MContraction/WeakHamiltonianEye.cc \
-  Modules/MContraction/WeakNeutral4ptDisc.cc \
-  Modules/MContraction/WeakHamiltonianNonEye.cc \
-  Modules/MGauge/Unit.cc \
-  Modules/MGauge/StochEm.cc \
-  Modules/MGauge/Random.cc \
-  Modules/MGauge/FundtoHirep.cc \
-  Modules/MScalar/FreeProp.cc \
-  Modules/MScalar/ChargedProp.cc \
-  Modules/MIO/LoadNersc.cc
-
-modules_hpp =\
-  Modules/MContraction/Baryon.hpp \
-  Modules/MContraction/Meson.hpp \
-  Modules/MContraction/WeakHamiltonian.hpp \
-  Modules/MContraction/WeakHamiltonianNonEye.hpp \
-  Modules/MContraction/DiscLoop.hpp \
-  Modules/MContraction/WeakNeutral4ptDisc.hpp \
-  Modules/MContraction/Gamma3pt.hpp \
-  Modules/MContraction/WardIdentity.hpp \
-  Modules/MContraction/WeakHamiltonianEye.hpp \
-  Modules/MFermion/GaugeProp.hpp \
-  Modules/MSource/SeqGamma.hpp \
-  Modules/MSource/Point.hpp \
-  Modules/MSource/Wall.hpp \
-  Modules/MSource/Z2.hpp \
-  Modules/MSource/SeqConserved.hpp \
-  Modules/MSink/Smear.hpp \
-  Modules/MSink/Point.hpp \
-  Modules/MSolver/RBPrecCG.hpp \
-  Modules/MGauge/Unit.hpp \
-  Modules/MGauge/Random.hpp \
-  Modules/MGauge/StochEm.hpp \
-  Modules/MGauge/FundtoHirep.hpp \
-  Modules/MUtilities/TestSeqGamma.hpp \
-  Modules/MUtilities/TestSeqConserved.hpp \
-  Modules/MLoop/NoiseLoop.hpp \
-  Modules/MScalar/FreeProp.hpp \
-  Modules/MScalar/Scalar.hpp \
-  Modules/MScalar/ChargedProp.hpp \
-  Modules/MAction/DWF.hpp \
-  Modules/MAction/Wilson.hpp \
-  Modules/MAction/WilsonClover.hpp \
-  Modules/MScalarSUN/TrMag.hpp \
-  Modules/MScalarSUN/TwoPoint.hpp \
-  Modules/MScalarSUN/TrPhi.hpp \
-  Modules/MIO/LoadNersc.hpp \
-  Modules/MIO/LoadBinary.hpp
-

extras/Makefile.am

@@ -1 +0,0 @@
-SUBDIRS = Hadrons

extras/qed-fvol/Global.cc

@@ -1,11 +0,0 @@
-#include <qed-fvol/Global.hpp>
-
-using namespace Grid;
-using namespace QCD;
-using namespace QedFVol;
-
-QedFVolLogger QedFVol::QedFVolLogError(1,"Error");
-QedFVolLogger QedFVol::QedFVolLogWarning(1,"Warning");
-QedFVolLogger QedFVol::QedFVolLogMessage(1,"Message");
-QedFVolLogger QedFVol::QedFVolLogIterative(1,"Iterative");
-QedFVolLogger QedFVol::QedFVolLogDebug(1,"Debug");

extras/qed-fvol/Global.hpp

@@ -1,42 +0,0 @@
-#ifndef QedFVol_Global_hpp_
-#define QedFVol_Global_hpp_
-
-#include <Grid/Grid.h>
-
-#define BEGIN_QEDFVOL_NAMESPACE \
-namespace Grid {\
-using namespace QCD;\
-namespace QedFVol {\
-using Grid::operator<<;
-#define END_QEDFVOL_NAMESPACE }}
-
-/* the 'using Grid::operator<<;' statement prevents a very nasty compilation
- * error with GCC (clang compiles fine without it).
- */
-
-BEGIN_QEDFVOL_NAMESPACE
-
-class QedFVolLogger: public Logger
-{
-public:
-    QedFVolLogger(int on, std::string nm): Logger("QedFVol", on, nm,
-                                                  GridLogColours, "BLACK"){};
-};
-
-#define LOG(channel) std::cout << QedFVolLog##channel
-#define QEDFVOL_ERROR(msg)\
-LOG(Error) << msg << " (" << __FUNCTION__ << " at " << __FILE__ << ":"\
-           << __LINE__ << ")" << std::endl;\
-abort();
-
-#define DEBUG_VAR(var) LOG(Debug) << #var << "= " << (var) << std::endl;
-
-extern QedFVolLogger QedFVolLogError;
-extern QedFVolLogger QedFVolLogWarning;
-extern QedFVolLogger QedFVolLogMessage;
-extern QedFVolLogger QedFVolLogIterative;
-extern QedFVolLogger QedFVolLogDebug;
-
-END_QEDFVOL_NAMESPACE
-
-#endif // QedFVol_Global_hpp_