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openfpm_numerics
Commit 2fc10c99 authored by Pietro Incardona's avatar Pietro Incardona
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Project compile even without linear algebra

parent 6d7ddcff
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src/FiniteDifference/Derivative.hpp
View file @ 2fc10c99
......@@ -18,7 +18,7 @@
#include "Grid/comb.hpp"
#include "FiniteDifference/util/common.hpp"
#include "util/util_num.hpp"
#include <unordered_map>
/*! \brief Derivative second order on h (spacing)
*
......
src/FiniteDifference/FDScheme.hpp
View file @ 2fc10c99
......@@ -15,6 +15,9 @@
#include "data_type/scalar.hpp"
#include "NN/CellList/CellDecomposer.hpp"
#include "Grid/staggered_dist_grid_util.hpp"
#include "Grid/grid_dist_id.hpp"
#include "Vector/Vector_util.hpp"
#include "Grid/staggered_dist_grid.hpp"
/*! \brief Finite Differences
*
......
src/Makefile.am
View file @ 2fc10c99
LINKLIBS = $(PETSC_LIB) $(SUITESPARSE_LIBS) $(LAPACK_LIBS) $(BLAS_LIBS) $(METIS_LIB) $(PARMETIS_LIB) $(DEFAULT_LIB) $(PTHREAD_LIBS) $(OPT_LIBS) $(BOOST_LDFLAGS) $(BOOST_PROGRAM_OPTIONS_LIB) $(BOOST_IOSTREAMS_LIB) $(HDF5_LDFLAGS) $(HDF5_LIBS) $(LIBQUADMATH) $(PETSC_LIB)
LINKLIBS = $(PETSC_LIB) $(SUITESPARSE_LIBS) $(LAPACK_LIBS) $(BLAS_LIBS) $(METIS_LIB) $(PARMETIS_LIB) $(DEFAULT_LIB) $(PTHREAD_LIBS) $(OPT_LIBS) $(BOOST_LDFLAGS) $(BOOST_PROGRAM_OPTIONS_LIB) $(BOOST_IOSTREAMS_LIB) $(HDF5_LDFLAGS) $(HDF5_LIBS) $(LIBQUADMATH)
noinst_PROGRAMS = numerics
numerics_SOURCES = main.cpp ../../openfpm_vcluster/src/VCluster.cpp ../../openfpm_devices/src/memory/HeapMemory.cpp ../../openfpm_devices/src/memory/PtrMemory.cpp ../../openfpm_devices/src/Memleak_check.cpp
numerics_CXXFLAGS = $(AM_CXXFLAGS) $(HDF5_CPPFLAGS) $(INCLUDES_PATH) $(BOOST_CPPFLAGS) $(SUITESPARSE_INCLUDE) $(METIS_INCLUDE) $(PARMETIS_INCLUDE) $(EIGEN_INCLUDE) $(PETSC_INCLUDE) -Wno-deprecated-declarations -Wno-unused-local-typedefs
numerics_CXXFLAGS = $(AM_CXXFLAGS) $(HDF5_CPPFLAGS) $(INCLUDES_PATH) $(BOOST_CPPFLAGS) $(SUITESPARSE_INCLUDE) $(METIS_INCLUDE) $(PARMETIS_INCLUDE) $(EIGEN_INCLUDE) $(PETSC_INCLUDE) -Wno-deprecated-declarations -Wno-unused-local-typedefs
numerics_CFLAGS = $(CUDA_CFLAGS)
numerics_LDADD = $(LINKLIBS)
numerics_LDADD = $(LINKLIBS) -lmetis -lparmetis
nobase_include_HEADERS = PSE/Kernels.hpp PSE/Kernels_test_util.hpp
.cu.o :
......
src/Matrix/SparseMatrix.hpp
View file @ 2fc10c99
......@@ -8,7 +8,12 @@
#ifndef OPENFPM_NUMERICS_SRC_MATRIX_SPARSEMATRIX_HPP_
#define OPENFPM_NUMERICS_SRC_MATRIX_SPARSEMATRIX_HPP_
#ifdef HAVE_EIGEN
#include <Eigen/Sparse>
#define DEFAULT_MATRIX = Eigen::SparseMatrix<T,0,id_t>
#else
#define DEFAULT_MATRIX = void
#endif
/*! \brief It store the non zero elements of the matrix
*
......@@ -30,6 +35,17 @@ template<typename T, unsigned int impl> struct triplet
long int j;
T val;
triplet(long int i, long int j, T val)
{
row() = i;
col() = j;
value() = val;
}
triplet()
{
}
long int & row()
{
return i;
......@@ -53,11 +69,38 @@ template<typename T, unsigned int impl> struct triplet
* \tparam Mi implementation
*
*/
template<typename T,typename id_t ,typename Mi = Eigen::SparseMatrix<T,0,id_t>>
template<typename T,typename id_t ,typename Mi DEFAULT_MATRIX>
class SparseMatrix
{
public:
//! Triplet implementation id
typedef boost::mpl::int_<-1> triplet_impl;
//! Triplet type
typedef triplet<T,-1> triplet_type;
openfpm::vector<triplet_type> stub_vt;
int stub_i;
T stub_t;
public:
SparseMatrix(size_t N1, size_t N2) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
SparseMatrix() {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
openfpm::vector<triplet_type> & getMatrixTriplets() {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl; return stub_vt;}
const int & getMat() const {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl; return stub_i;}
int & getMat() {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl; return stub_i;}
void resize(size_t row, size_t col) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
T operator()(id_t i, id_t j) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl; return stub_t;}
bool save(const std::string & file) const {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;return true;}
bool load(const std::string & file) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl; return false;}
T getValue(size_t r, size_t c) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl; return stub_i;}
};
#ifdef HAVE_EIGEN
#include "SparseMatrix_Eigen.hpp"
#endif
#endif /* OPENFPM_NUMERICS_SRC_MATRIX_SPARSEMATRIX_HPP_ */
src/Solvers/umfpack_solver.hpp
View file @ 2fc10c99
......@@ -8,11 +8,20 @@
#ifndef OPENFPM_NUMERICS_SRC_SOLVERS_UMFPACK_SOLVER_HPP_
#define OPENFPM_NUMERICS_SRC_SOLVERS_UMFPACK_SOLVER_HPP_
#define UMFPACK_NONE 0
#define SOLVER_NOOPTION 0
#define SOLVER_PRINT_RESIDUAL_NORM_INFINITY 1
#define SOLVER_PRINT_DETERMINANT 2
#ifdef HAVE_EIGEN
/////// Compiled with EIGEN support
#include "Vector/Vector.hpp"
#include "Eigen/UmfPackSupport"
#include <Eigen/SparseLU>
#define UMFPACK_NONE 0
template<typename T>
class umfpack_solver
......@@ -25,9 +34,6 @@ public:
}
};
#define SOLVER_NOOPTION 0
#define SOLVER_PRINT_RESIDUAL_NORM_INFINITY 1
#define SOLVER_PRINT_DETERMINANT 2
template<>
class umfpack_solver<double>
......@@ -100,6 +106,41 @@ public:
}
};
#else
/////// Compiled without EIGEN support
#include "Vector/Vector.hpp"
template<typename T>
class umfpack_solver
{
public:
template<typename impl> static Vector<T> solve(const SparseMatrix<T,impl> & A, const Vector<T> & b)
{
std::cerr << __FILE__ << ":" << __LINE__ << " Error Umfpack only support double precision" << "/n";
}
};
template<>
class umfpack_solver<double>
{
public:
template<typename impl> static Vector<double> solve(SparseMatrix<double,int,impl> & A, const Vector<double> & b, size_t opt = UMFPACK_NONE)
{
std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use umfpack you must compile OpenFPM with linear algebra support" << "/n";
Vector<double> x;
return x;
}
};
#endif
#endif /* OPENFPM_NUMERICS_SRC_SOLVERS_UMFPACK_SOLVER_HPP_ */
src/Vector/Vector.hpp
View file @ 2fc10c99
......@@ -8,8 +8,6 @@
#ifndef OPENFPM_NUMERICS_SRC_VECTOR_VECTOR_HPP_
#define OPENFPM_NUMERICS_SRC_VECTOR_VECTOR_HPP_
#include <Eigen/Sparse>
/*! \brief It store one row value of a vector
*
* Given a row, store a value
......@@ -22,18 +20,50 @@ class rval
};
/* ! \brief Sparse Matrix implementation
*
* \tparam T Type of the sparse Matrix
* \tparam impl implementation
#ifdef HAVE_EIGEN
#include <Eigen/Sparse>
#define DEFAULT_VECTOR = Eigen::Matrix<T, Eigen::Dynamic, 1>
#else
#define DEFAULT_VECTOR = void
#endif
/* ! \brief Sparse Matrix implementation stub object when OpenFPM is compiled with no linear algebra support
*
*/
template<typename T,typename impl = Eigen::Matrix<T, Eigen::Dynamic, 1> >
template<typename T,typename impl DEFAULT_VECTOR >
class Vector
{
T stub;
int stub_i;
public:
Vector(const Vector<T> & v) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
Vector(const Vector<T> && v) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
Vector(size_t n) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
Vector() {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
void resize(size_t row) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
void insert(size_t i, T val) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
inline T & insert(size_t i) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;return stub;}
inline const T & insert(size_t i) const {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl; return stub;}
const T & operator()(size_t i) const {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;return stub;}
T & operator()(size_t i) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;return stub;}
void scatter() {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
void fromFile(std::string file) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl;}
Vector<T> & operator=(const Vector<T> & v) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl; return *this;}
Vector<T> & operator=(const Vector<T> && v) {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl; return *this;}
int & getVec() {std::cerr << __FILE__ << ":" << __LINE__ << " Error in order to use this class you must compile OpenFPM with linear algebra support" << std::endl; return stub_i;}
};
#ifdef HAVE_EIGEN
#include "Vector_eigen.hpp"
#endif
#ifdef HAVE_PETSC
#define OFPM_PETSC_VEC Vec
#include "Vector_petsc.hpp"
#else
#define OFPM_PETSC_VEC void
#endif
#endif /* OPENFPM_NUMERICS_SRC_VECTOR_VECTOR_HPP_ */
src/Vector/Vector_eigen.hpp
View file @ 2fc10c99
......@@ -11,12 +11,12 @@
#include <type_traits>
#include "util/mul_array_extents.hpp"
#include <fstream>
#include "Vector_eigen_util.hpp"
#include "Grid/staggered_dist_grid.hpp"
#include "Space/Ghost.hpp"
#include "FiniteDifference/util/common.hpp"
#include <boost/mpl/vector_c.hpp>
#include <unordered_map>
#include "Vector_util.hpp"
#define EIGEN_RVAL 1
......
src/Vector/Vector_eigen_util.hpp deleted 100644 → 0
View file @ 6d7ddcff
/*
* Vector_util.hpp
*
* Created on: Dec 7, 2015
* Author: i-bird
*/
#ifndef OPENFPM_NUMERICS_SRC_VECTOR_VECTOR_EIGEN_UTIL_HPP_
#define OPENFPM_NUMERICS_SRC_VECTOR_VECTOR_EIGEN_UTIL_HPP_
#include "Grid/grid_dist_key.hpp"
#include "Space/Shape/HyperCube.hpp"
/*! \brief Copy scalar elements
*
* \tparam copy_type Type that should be copied
* \tparam T property id to copy
* \tparam Ev Type of source the Vector
* \tparam sa dimensionality of the array 0 is a scalar
*
*/
template<typename copy_type, typename T, typename Ev, typename Eqs_sys, int sa>
struct copy_ele_sca_array
{
template<typename Grid> inline static void copy(Grid & grid_dst, const grid_dist_key_dx<Eqs_sys::dims> & key, const Ev & x,size_t lin_id, size_t base_id, size_t gs_size)
{
grid_dst.template get<T::value>(key) = x(lin_id * Eqs_sys::nvar + base_id);
}
};
/*! \brief Copy 1D array elements
*
* spacialization in case of 1D array
*
* \tparam copy_type Type that should be copied
* \tparam T property id to copy
* \tparam Ev Type of source the Vector
*
*/
template<typename copy_type, typename T, typename Ev, typename Eqs_sys>
struct copy_ele_sca_array<copy_type,T,Ev,Eqs_sys,1>
{
template<typename Grid> inline static void copy(Grid & grid_dst, const grid_dist_key_dx<Eqs_sys::dims> & key, const Ev & x,size_t lin_id, size_t base_id, size_t gs_size)
{
for (size_t i = 0 ; i < std::extent<copy_type>::value ; i++)
{
grid_dst.template get<T::value>(key)[i] = x(lin_id * Eqs_sys::nvar + base_id + i);
}
}
};
/*! \brief this class is a functor for "for_each" algorithm
*
* This class is a functor for "for_each" algorithm. For each
* element of the boost::vector the operator() is called.
* Is mainly used to copy from the Vector to the grid target
* \note properties can be scalars or arrays of C++ primitives
*
* \tparam Eqs_sys System of equation information
* \tparam S type of destination grid
* \tparam Ev type of vector
*
*/
template<typename Eqs_sys, typename S, typename Ev>
struct copy_ele
{
//! destination grid element
const grid_dist_key_dx<Eqs_sys::dims> key;
//! destination grid
S & grid_dst;
//! source element inside the Eigen vector
size_t lin_id;
//! counter
size_t prp_id;
//! It is basically the number of grid points the Eigen vector has inside
size_t gs_size;
//! source Eigen vector
const Ev & x;
/*! \brief constructor
*
* It define the copy parameters.
*
* \param key destination position
* \param grid_dst grid destination
* \param v Source Eigen vector
*
*/
inline copy_ele(const grid_dist_key_dx<Eqs_sys::dims> & key, S & grid_dst, const Ev & x, size_t lin_id, size_t gs_size)
:key(key),grid_dst(grid_dst),lin_id(lin_id),prp_id(0),gs_size(gs_size),x(x){};
#ifdef SE_CLASS1
/*! \brief Constructor
*
* Calling this constructor produce an error. This class store the reference of the object,
* this mean that the object passed must not be a temporal object
*
*/
inline copy_ele(grid_dist_key_dx<Eqs_sys::dims> & key, S & grid_dst, Ev && x)
:key(key),grid_dst(grid_dst),x(x)
{std::cerr << "Error: " <<__FILE__ << ":" << __LINE__ << " Passing a temporal object";};
#endif
//! It call the copy function for each property
template<typename T>
inline void operator()(T& t)
{
// This is the type of the object we have to copy
typedef typename boost::mpl::at_c<typename S::value_type::type,T::value>::type copy_type;
copy_ele_sca_array<copy_type,T,Ev,Eqs_sys,std::is_array<copy_type>::value>::copy(grid_dst,key,x,lin_id,prp_id,gs_size);
prp_id += array_extents<copy_type>::mul();
}
};
#endif /* OPENFPM_NUMERICS_SRC_VECTOR_VECTOR_EIGEN_UTIL_HPP_ */
src/Vector/Vector_unit_tests.hpp
View file @ 2fc10c99
......@@ -139,7 +139,7 @@ BOOST_AUTO_TEST_CASE(vector_petsc_parallel)
// 3 Processors 9x9 Matrix to invert
Vector<double,Vec> v(9);
Vector<double,OFPM_PETSC_VEC> v(9);
if (vcl.getProcessUnitID() == 0)
{
......@@ -161,7 +161,7 @@ BOOST_AUTO_TEST_CASE(vector_petsc_parallel)
v.insert(8,8);
}
Vector<double,Vec> v3;
Vector<double,OFPM_PETSC_VEC> v3;
v3 = v;
if (vcl.getProcessUnitID() == 0)
......@@ -217,7 +217,7 @@ BOOST_AUTO_TEST_CASE(vector_petsc_parallel)
BOOST_REQUIRE_EQUAL(v3(2),9);
}
Vec & v2 = v.getVec();
auto & v2 = v.getVec();
}
BOOST_AUTO_TEST_SUITE_END()
......
src/util/grid_dist_testing.hpp
View file @ 2fc10c99
......@@ -9,6 +9,7 @@
#define OPENFPM_NUMERICS_SRC_UTIL_GRID_DIST_TESTING_HPP_
#include "data_type/scalar.hpp"
#include "Grid/grid_dist_key.hpp"
template<unsigned int dim>
class grid_dist_testing
......
src/util/util_num.hpp
View file @ 2fc10c99
......@@ -10,6 +10,7 @@
#include "util/common.hpp"
#include "grid_dist_testing.hpp"
#include "Grid/grid_dist_id.hpp"
template<typename T, typename Sfinae = void>
struct is_const_field: std::false_type {};
......
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