diff --git a/packages/core.cmake b/packages/core.cmake
index 1ea9572de..f127f6ae8 100644
--- a/packages/core.cmake
+++ b/packages/core.cmake
@@ -1,576 +1,577 @@
#===============================================================================
# @file core.cmake
#
# @author Guillaume Anciaux <guillaume.anciaux@epfl.ch>
# @author Nicolas Richart <nicolas.richart@epfl.ch>
#
# @date creation: Mon Nov 21 2011
# @date last modification: Mon Jan 18 2016
#
# @brief package description for core
#
# @section LICENSE
#
# Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
# Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
# Solides)
#
# Akantu is free software: you can redistribute it and/or modify it under the
# terms of the GNU Lesser General Public License as published by the Free
# Software Foundation, either version 3 of the License, or (at your option) any
# later version.
#
# Akantu 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 Lesser General Public License for more
# details.
#
# You should have received a copy of the GNU Lesser General Public License
# along with Akantu. If not, see <http://www.gnu.org/licenses/>.
#
#===============================================================================
package_declare(core NOT_OPTIONAL
DESCRIPTION "core package for Akantu"
FEATURES_PUBLIC cxx_strong_enums cxx_defaulted_functions cxx_deleted_functions
FEATURES_PRIVATE cxx_auto_type cxx_lambdas cxx_nullptr
cxx_delegated_constructors cxx_range_for
)
package_declare_sources(core
common/aka_array.cc
common/aka_array.hh
common/aka_array_tmpl.hh
common/aka_blas_lapack.hh
common/aka_circular_array.hh
common/aka_circular_array_inline_impl.cc
common/aka_common.cc
common/aka_common.hh
common/aka_common_inline_impl.cc
common/aka_csr.hh
common/aka_element_classes_info_inline_impl.cc
common/aka_error.cc
common/aka_error.hh
common/aka_event_handler_manager.hh
common/aka_extern.cc
common/aka_fwd.hh
common/aka_grid_dynamic.hh
common/aka_math.cc
common/aka_math.hh
common/aka_math_tmpl.hh
common/aka_memory.cc
common/aka_memory.hh
common/aka_memory_inline_impl.cc
common/aka_random_generator.hh
common/aka_safe_enum.hh
common/aka_static_memory.cc
common/aka_static_memory.hh
common/aka_static_memory_inline_impl.cc
common/aka_static_memory_tmpl.hh
common/aka_typelist.hh
common/aka_types.hh
common/aka_visitor.hh
common/aka_voigthelper.hh
common/aka_voigthelper_tmpl.hh
common/aka_voigthelper.cc
common/aka_warning.hh
common/aka_warning_restore.hh
fe_engine/element_class.cc
fe_engine/element_class.hh
fe_engine/element_class_tmpl.hh
fe_engine/element_classes/element_class_hexahedron_8_inline_impl.cc
fe_engine/element_classes/element_class_hexahedron_20_inline_impl.cc
fe_engine/element_classes/element_class_pentahedron_6_inline_impl.cc
fe_engine/element_classes/element_class_pentahedron_15_inline_impl.cc
fe_engine/element_classes/element_class_point_1_inline_impl.cc
fe_engine/element_classes/element_class_quadrangle_4_inline_impl.cc
fe_engine/element_classes/element_class_quadrangle_8_inline_impl.cc
fe_engine/element_classes/element_class_segment_2_inline_impl.cc
fe_engine/element_classes/element_class_segment_3_inline_impl.cc
fe_engine/element_classes/element_class_tetrahedron_10_inline_impl.cc
fe_engine/element_classes/element_class_tetrahedron_4_inline_impl.cc
fe_engine/element_classes/element_class_triangle_3_inline_impl.cc
fe_engine/element_classes/element_class_triangle_6_inline_impl.cc
fe_engine/fe_engine.cc
fe_engine/fe_engine.hh
fe_engine/fe_engine_inline_impl.cc
fe_engine/fe_engine_template.hh
fe_engine/fe_engine_template_tmpl.hh
fe_engine/geometrical_element.cc
fe_engine/gauss_integration.cc
fe_engine/gauss_integration_tmpl.hh
fe_engine/integrator.hh
fe_engine/integrator_gauss.hh
fe_engine/integrator_gauss_inline_impl.cc
fe_engine/interpolation_element.cc
fe_engine/interpolation_element_tmpl.hh
fe_engine/integration_point.hh
fe_engine/shape_functions.hh
fe_engine/shape_functions_inline_impl.cc
fe_engine/shape_lagrange.cc
fe_engine/shape_lagrange.hh
fe_engine/shape_lagrange_inline_impl.cc
fe_engine/shape_linked.cc
fe_engine/shape_linked.hh
fe_engine/shape_linked_inline_impl.cc
fe_engine/element.hh
io/dumper/dumpable.hh
io/dumper/dumpable.cc
io/dumper/dumpable_dummy.hh
io/dumper/dumpable_inline_impl.hh
io/dumper/dumper_field.hh
io/dumper/dumper_material_padders.hh
io/dumper/dumper_filtered_connectivity.hh
io/dumper/dumper_element_partition.hh
io/mesh_io.cc
io/mesh_io.hh
io/mesh_io/mesh_io_abaqus.cc
io/mesh_io/mesh_io_abaqus.hh
io/mesh_io/mesh_io_diana.cc
io/mesh_io/mesh_io_diana.hh
io/mesh_io/mesh_io_msh.cc
io/mesh_io/mesh_io_msh.hh
io/model_io.cc
io/model_io.hh
io/parser/algebraic_parser.hh
io/parser/input_file_parser.hh
io/parser/parsable.cc
io/parser/parsable.hh
io/parser/parsable_tmpl.hh
io/parser/parser.cc
io/parser/parser_real.cc
io/parser/parser_random.cc
io/parser/parser_types.cc
io/parser/parser_input_files.cc
io/parser/parser.hh
io/parser/parser_tmpl.hh
io/parser/parser_grammar_tmpl.hh
io/parser/cppargparse/cppargparse.hh
io/parser/cppargparse/cppargparse.cc
io/parser/cppargparse/cppargparse_tmpl.hh
io/parser/parameter_registry.cc
io/parser/parameter_registry.hh
io/parser/parameter_registry_tmpl.hh
mesh/element_group.cc
mesh/element_group.hh
mesh/element_group_inline_impl.cc
mesh/element_type_map.hh
mesh/element_type_map_tmpl.hh
mesh/element_type_map_filter.hh
mesh/group_manager.cc
mesh/group_manager.hh
mesh/group_manager_inline_impl.cc
mesh/mesh.cc
mesh/mesh.hh
mesh/mesh_accessor.hh
mesh/mesh_accessor.cc
mesh/mesh_events.hh
mesh/mesh_filter.hh
mesh/mesh_data.cc
mesh/mesh_data.hh
mesh/mesh_data_tmpl.hh
mesh/mesh_inline_impl.cc
mesh/node_group.cc
mesh/node_group.hh
mesh/node_group_inline_impl.cc
mesh_utils/mesh_partition.cc
mesh_utils/mesh_partition.hh
mesh_utils/mesh_partition/mesh_partition_mesh_data.cc
mesh_utils/mesh_partition/mesh_partition_mesh_data.hh
mesh_utils/mesh_partition/mesh_partition_scotch.hh
mesh_utils/mesh_utils_pbc.cc
mesh_utils/mesh_utils.cc
mesh_utils/mesh_utils.hh
mesh_utils/mesh_utils_distribution.cc
mesh_utils/mesh_utils_distribution.hh
mesh_utils/mesh_utils.hh
mesh_utils/mesh_utils_inline_impl.cc
mesh_utils/global_ids_updater.hh
mesh_utils/global_ids_updater.cc
mesh_utils/global_ids_updater_inline_impl.cc
model/boundary_condition.hh
model/boundary_condition_functor.hh
model/boundary_condition_functor_inline_impl.cc
model/boundary_condition_tmpl.hh
model/dof_manager.cc
model/dof_manager.hh
model/dof_manager_default.cc
model/dof_manager_default.hh
model/dof_manager_default_inline_impl.cc
model/dof_manager_inline_impl.cc
model/model_solver.cc
model/model_solver.hh
model/model_solver_tmpl.hh
model/non_linear_solver.cc
model/non_linear_solver.hh
model/non_linear_solver_default.hh
model/non_linear_solver_lumped.cc
model/non_linear_solver_lumped.hh
model/solver_callback.hh
model/solver_callback.cc
model/time_step_solver.hh
model/time_step_solvers/time_step_solver.cc
model/time_step_solvers/time_step_solver_default.cc
model/time_step_solvers/time_step_solver_default.hh
model/time_step_solvers/time_step_solver_default_explicit.hh
model/non_linear_solver_callback.hh
model/time_step_solvers/time_step_solver_default_solver_callback.hh
model/integration_scheme/generalized_trapezoidal.cc
model/integration_scheme/generalized_trapezoidal.hh
model/integration_scheme/integration_scheme.cc
model/integration_scheme/integration_scheme.hh
model/integration_scheme/integration_scheme_1st_order.cc
model/integration_scheme/integration_scheme_1st_order.hh
model/integration_scheme/integration_scheme_2nd_order.cc
model/integration_scheme/integration_scheme_2nd_order.hh
model/integration_scheme/newmark-beta.cc
model/integration_scheme/newmark-beta.hh
model/integration_scheme/pseudo_time.cc
model/integration_scheme/pseudo_time.hh
model/model.cc
model/model.hh
model/model_inline_impl.cc
model/solid_mechanics/material.cc
model/solid_mechanics/material.hh
model/solid_mechanics/material_inline_impl.cc
model/solid_mechanics/material_selector.hh
model/solid_mechanics/material_selector_tmpl.hh
model/solid_mechanics/materials/internal_field.hh
model/solid_mechanics/materials/internal_field_tmpl.hh
model/solid_mechanics/materials/random_internal_field.hh
model/solid_mechanics/materials/random_internal_field_tmpl.hh
model/solid_mechanics/solid_mechanics_model.cc
model/solid_mechanics/solid_mechanics_model.hh
model/solid_mechanics/solid_mechanics_model_inline_impl.cc
model/solid_mechanics/solid_mechanics_model_mass.cc
model/solid_mechanics/solid_mechanics_model_material.cc
model/solid_mechanics/solid_mechanics_model_tmpl.hh
model/solid_mechanics/solid_mechanics_model_event_handler.hh
model/solid_mechanics/materials/plane_stress_toolbox.hh
model/solid_mechanics/materials/plane_stress_toolbox_tmpl.hh
model/solid_mechanics/materials/material_core_includes.hh
model/solid_mechanics/materials/material_elastic.cc
model/solid_mechanics/materials/material_elastic.hh
model/solid_mechanics/materials/material_elastic_inline_impl.cc
model/solid_mechanics/materials/material_thermal.cc
model/solid_mechanics/materials/material_thermal.hh
model/solid_mechanics/materials/material_elastic_linear_anisotropic.cc
model/solid_mechanics/materials/material_elastic_linear_anisotropic.hh
model/solid_mechanics/materials/material_elastic_orthotropic.cc
model/solid_mechanics/materials/material_elastic_orthotropic.hh
model/solid_mechanics/materials/material_damage/material_damage.hh
model/solid_mechanics/materials/material_damage/material_damage_tmpl.hh
model/solid_mechanics/materials/material_damage/material_marigo.cc
model/solid_mechanics/materials/material_damage/material_marigo.hh
model/solid_mechanics/materials/material_damage/material_marigo_inline_impl.cc
model/solid_mechanics/materials/material_damage/material_mazars.cc
model/solid_mechanics/materials/material_damage/material_mazars.hh
model/solid_mechanics/materials/material_damage/material_mazars_inline_impl.cc
model/solid_mechanics/materials/material_finite_deformation/material_neohookean.cc
model/solid_mechanics/materials/material_finite_deformation/material_neohookean.hh
model/solid_mechanics/materials/material_finite_deformation/material_neohookean_inline_impl.cc
model/solid_mechanics/materials/material_plastic/material_plastic.cc
model/solid_mechanics/materials/material_plastic/material_plastic.hh
model/solid_mechanics/materials/material_plastic/material_plastic_inline_impl.cc
model/solid_mechanics/materials/material_plastic/material_linear_isotropic_hardening.cc
model/solid_mechanics/materials/material_plastic/material_linear_isotropic_hardening.hh
model/solid_mechanics/materials/material_plastic/material_linear_isotropic_hardening_inline_impl.cc
model/solid_mechanics/materials/material_viscoelastic/material_standard_linear_solid_deviatoric.cc
model/solid_mechanics/materials/material_viscoelastic/material_standard_linear_solid_deviatoric.hh
model/common/neighborhood_base.hh
model/common/neighborhood_base.cc
model/common/neighborhood_base_inline_impl.cc
model/common/neighborhoods_criterion_evaluation/neighborhood_max_criterion.hh
model/common/neighborhoods_criterion_evaluation/neighborhood_max_criterion.cc
model/common/neighborhoods_criterion_evaluation/neighborhood_max_criterion_inline_impl.cc
solver/sparse_solver.cc
solver/sparse_solver.hh
solver/sparse_solver_inline_impl.cc
solver/sparse_matrix.cc
solver/sparse_matrix.hh
solver/sparse_matrix_inline_impl.cc
solver/sparse_matrix_aij.cc
solver/sparse_matrix_aij.hh
solver/sparse_matrix_aij_inline_impl.cc
+ solver/terms_to_assemble.hh
synchronizer/communication_descriptor_tmpl.hh
synchronizer/communications_tmpl.hh
synchronizer/communication_buffer.hh
synchronizer/communication_buffer_inline_impl.cc
synchronizer/communication_descriptor.hh
synchronizer/communication_tag.hh
synchronizer/communications.hh
synchronizer/data_accessor.cc
synchronizer/data_accessor.hh
synchronizer/element_synchronizer.cc
synchronizer/element_synchronizer.hh
synchronizer/node_synchronizer.cc
synchronizer/node_synchronizer.hh
synchronizer/dof_synchronizer.cc
synchronizer/dof_synchronizer.hh
synchronizer/dof_synchronizer_inline_impl.cc
synchronizer/element_info_per_processor.cc
synchronizer/element_info_per_processor.hh
synchronizer/element_info_per_processor_tmpl.hh
synchronizer/filtered_synchronizer.cc
synchronizer/filtered_synchronizer.hh
synchronizer/grid_synchronizer.cc
synchronizer/grid_synchronizer.hh
synchronizer/master_element_info_per_processor.cc
synchronizer/node_info_per_processor.cc
synchronizer/node_info_per_processor.hh
synchronizer/real_static_communicator.hh
synchronizer/slave_element_info_per_processor.cc
synchronizer/static_communicator.cc
synchronizer/static_communicator.hh
synchronizer/static_communicator_dummy.hh
synchronizer/static_communicator_inline_impl.hh
synchronizer/synchronizer.cc
synchronizer/synchronizer.hh
synchronizer/synchronizer_impl.hh
synchronizer/synchronizer_impl_tmpl.hh
synchronizer/synchronizer_registry.cc
synchronizer/synchronizer_registry.hh
synchronizer/synchronizer_tmpl.hh
)
package_declare_elements(core
ELEMENT_TYPES
_point_1
_segment_2
_segment_3
_triangle_3
_triangle_6
_quadrangle_4
_quadrangle_8
_tetrahedron_4
_tetrahedron_10
_pentahedron_6
_pentahedron_15
_hexahedron_8
_hexahedron_20
KIND regular
GEOMETRICAL_TYPES
_gt_point
_gt_segment_2
_gt_segment_3
_gt_triangle_3
_gt_triangle_6
_gt_quadrangle_4
_gt_quadrangle_8
_gt_tetrahedron_4
_gt_tetrahedron_10
_gt_hexahedron_8
_gt_hexahedron_20
_gt_pentahedron_6
_gt_pentahedron_15
INTERPOLATION_TYPES
_itp_lagrange_point_1
_itp_lagrange_segment_2
_itp_lagrange_segment_3
_itp_lagrange_triangle_3
_itp_lagrange_triangle_6
_itp_lagrange_quadrangle_4
_itp_serendip_quadrangle_8
_itp_lagrange_tetrahedron_4
_itp_lagrange_tetrahedron_10
_itp_lagrange_hexahedron_8
_itp_serendip_hexahedron_20
_itp_lagrange_pentahedron_6
_itp_lagrange_pentahedron_15
GEOMETRICAL_SHAPES
_gst_point
_gst_triangle
_gst_square
_gst_prism
GAUSS_INTEGRATION_TYPES
_git_point
_git_segment
_git_triangle
_git_tetrahedron
_git_pentahedron
INTERPOLATION_KIND _itk_lagrangian
FE_ENGINE_LISTS
gradient_on_integration_points
interpolate_on_integration_points
interpolate
compute_normals_on_integration_points
inverse_map
contains
compute_shapes
compute_shapes_derivatives
get_shapes_derivatives
)
package_declare_material_infos(core
LIST AKANTU_CORE_MATERIAL_LIST
INCLUDE material_core_includes.hh
)
package_declare_documentation_files(core
manual.sty
manual.cls
manual.tex
manual-macros.sty
manual-titlepages.tex
manual-introduction.tex
manual-gettingstarted.tex
manual-io.tex
manual-feengine.tex
manual-solidmechanicsmodel.tex
manual-constitutive-laws.tex
manual-lumping.tex
manual-elements.tex
manual-appendix-elements.tex
manual-appendix-materials.tex
manual-appendix-packages.tex
manual-backmatter.tex
manual-bibliography.bib
manual-bibliographystyle.bst
figures/bc_and_ic_example.pdf
figures/boundary.pdf
figures/boundary.svg
figures/dirichlet.pdf
figures/dirichlet.svg
figures/doc_wheel.pdf
figures/doc_wheel.svg
figures/dynamic_analysis.png
figures/explicit_dynamic.pdf
figures/explicit_dynamic.svg
figures/static.pdf
figures/static.svg
figures/hooke_law.pdf
figures/hot-point-1.png
figures/hot-point-2.png
figures/implicit_dynamic.pdf
figures/implicit_dynamic.svg
figures/insertion.pdf
figures/interpolate.pdf
figures/interpolate.svg
figures/problemDomain.pdf_tex
figures/problemDomain.pdf
figures/static_analysis.png
figures/stress_strain_el.pdf
figures/tangent.pdf
figures/tangent.svg
figures/vectors.pdf
figures/vectors.svg
figures/stress_strain_neo.pdf
figures/visco_elastic_law.pdf
figures/isotropic_hardening_plasticity.pdf
figures/stress_strain_visco.pdf
figures/elements/hexahedron_8.pdf
figures/elements/hexahedron_8.svg
figures/elements/quadrangle_4.pdf
figures/elements/quadrangle_4.svg
figures/elements/quadrangle_8.pdf
figures/elements/quadrangle_8.svg
figures/elements/segment_2.pdf
figures/elements/segment_2.svg
figures/elements/segment_3.pdf
figures/elements/segment_3.svg
figures/elements/tetrahedron_10.pdf
figures/elements/tetrahedron_10.svg
figures/elements/tetrahedron_4.pdf
figures/elements/tetrahedron_4.svg
figures/elements/triangle_3.pdf
figures/elements/triangle_3.svg
figures/elements/triangle_6.pdf
figures/elements/triangle_6.svg
figures/elements/xtemp.pdf
)
package_declare_documentation(core
"This package is the core engine of \\akantu. It depends on:"
"\\begin{itemize}"
"\\item A C++ compiler (\\href{http://gcc.gnu.org/}{GCC} >= 4, or \\href{https://software.intel.com/en-us/intel-compilers}{Intel})."
"\\item The cross-platform, open-source \\href{http://www.cmake.org/}{CMake} build system."
"\\item The \\href{http://www.boost.org/}{Boost} C++ portable libraries."
"\\item The \\href{http://www.zlib.net/}{zlib} compression library."
"\\end{itemize}"
""
"Under Ubuntu (14.04 LTS) the installation can be performed using the commands:"
"\\begin{command}"
" > sudo apt-get install cmake libboost-dev zlib1g-dev g++"
"\\end{command}"
""
"Under Mac OS X the installation requires the following steps:"
"\\begin{itemize}"
"\\item Install Xcode"
"\\item Install the command line tools."
"\\item Install the MacPorts project which allows to automatically"
"download and install opensource packages."
"\\end{itemize}"
"Then the following commands should be typed in a terminal:"
"\\begin{command}"
" > sudo port install cmake gcc48 boost"
"\\end{command}"
)
find_program(READLINK_COMMAND readlink)
find_program(ADDR2LINE_COMMAND addr2line)
find_program(PATCH_COMMAND patch)
mark_as_advanced(READLINK_COMMAND)
mark_as_advanced(ADDR2LINE_COMMAND)
include(CheckFunctionExists)
check_function_exists(clock_gettime _clock_gettime)
include(CheckCXXSymbolExists)
check_cxx_symbol_exists(strdup cstring AKANTU_HAS_STRDUP)
if(NOT _clock_gettime)
set(AKANTU_USE_OBSOLETE_GETTIMEOFDAY ON CACHE INTERNAL "" FORCE)
else()
set(AKANTU_USE_OBSOLETE_GETTIMEOFDAY OFF CACHE INTERNAL "" FORCE)
endif()
package_declare_extra_files_to_package(core
SOURCES
common/aka_element_classes_info.hh.in
common/aka_config.hh.in
model/solid_mechanics/material_list.hh.in
)
if(CMAKE_CXX_COMPILER_ID STREQUAL "Clang" AND (NOT CMAKE_CXX_COMPILER_VERSION VERSION_LESS 3.9))
package_set_compile_flags(core CXX "-Wno-undefined-var-template")
endif()
if(DEFINED AKANTU_CXX11_FLAGS)
package_declare(core_cxx11 NOT_OPTIONAL
DESCRIPTION "C++ 11 additions for Akantu core"
COMPILE_FLAGS CXX "${AKANTU_CXX11_FLAGS}")
if(CMAKE_CXX_COMPILER_ID STREQUAL "GNU")
if(CMAKE_CXX_COMPILER_VERSION VERSION_LESS "4.6")
set(AKANTU_CORE_CXX11 OFF CACHE BOOL "C++ 11 additions for Akantu core - not supported by the selected compiler" FORCE)
endif()
endif()
package_declare_documentation(core_cxx11
"This option activates some features of the C++11 standard. This is usable with GCC>=4.7 or Intel>=13.")
else()
if(CMAKE_VERSION VERSION_LESS 3.1)
message(FATAL_ERROR "Since version 3.0 Akantu requires at least c++11 capable compiler")
endif()
endif()
diff --git a/src/fe_engine/fe_engine.hh b/src/fe_engine/fe_engine.hh
index b662f5305..046eab625 100644
--- a/src/fe_engine/fe_engine.hh
+++ b/src/fe_engine/fe_engine.hh
@@ -1,405 +1,385 @@
/**
* @file fe_engine.hh
*
* @author Guillaume Anciaux <guillaume.anciaux@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Fri Jun 18 2010
* @date last modification: Thu Oct 22 2015
*
* @brief FEM class
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_FE_ENGINE_HH__
#define __AKANTU_FE_ENGINE_HH__
/* -------------------------------------------------------------------------- */
#include "aka_memory.hh"
-#include "mesh.hh"
-#include "element_class.hh"
-#include "integration_point.hh"
-
+#include "element_type_map.hh"
/* -------------------------------------------------------------------------- */
+
namespace akantu {
- class Integrator;
- class ShapeFunctions;
- class DOFManager;
+class Mesh;
+class Integrator;
+class ShapeFunctions;
+class DOFManager;
+class Element;
}
/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
/**
- * The generic FEEngine class derived in a FEEngineTemplate class containing the
+ * The generic FEEngine class derived in a FEEngineTemplate class
+ * containing the
* shape functions and the integration method
*/
class FEEngine : protected Memory {
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
public:
-
- FEEngine(Mesh & mesh, UInt spatial_dimension = _all_dimensions,
- ID id = "fem", MemoryID memory_id = 0);
+ FEEngine(Mesh & mesh, UInt spatial_dimension = _all_dimensions, ID id = "fem",
+ MemoryID memory_id = 0);
virtual ~FEEngine();
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
public:
/// pre-compute all the shape functions, their derivatives and the jacobians
- virtual void initShapeFunctions(const GhostType & ghost_type = _not_ghost) = 0;
+ virtual void
+ initShapeFunctions(const GhostType & ghost_type = _not_ghost) = 0;
/// extract the nodal values and store them per element
- template<typename T>
- static void extractNodalToElementField(const Mesh & mesh,
- const Array<T> & nodal_f,
- Array<T> & elemental_f,
- const ElementType & type,
- const GhostType & ghost_type = _not_ghost,
- const Array<UInt> & filter_elements = empty_filter);
+ template <typename T>
+ static void extractNodalToElementField(
+ const Mesh & mesh, const Array<T> & nodal_f, Array<T> & elemental_f,
+ const ElementType & type, const GhostType & ghost_type = _not_ghost,
+ const Array<UInt> & filter_elements = empty_filter);
/// filter a field
- template<typename T>
- static void filterElementalData(const Mesh & mesh,
- const Array<T> & quad_f,
- Array<T> & filtered_f,
- const ElementType & type,
- const GhostType & ghost_type = _not_ghost,
- const Array<UInt> & filter_elements = empty_filter);
-
-
+ template <typename T>
+ static void
+ filterElementalData(const Mesh & mesh, const Array<T> & quad_f,
+ Array<T> & filtered_f, const ElementType & type,
+ const GhostType & ghost_type = _not_ghost,
+ const Array<UInt> & filter_elements = empty_filter);
/* ------------------------------------------------------------------------ */
/* Integration method bridges */
/* ------------------------------------------------------------------------ */
/// integrate f for all elements of type "type"
- virtual void integrate(const Array<Real> & f,
- Array<Real> &intf,
- UInt nb_degree_of_freedom,
- const ElementType & type,
- const GhostType & ghost_type = _not_ghost,
- const Array<UInt> & filter_elements = empty_filter) const = 0;
+ virtual void
+ integrate(const Array<Real> & f, Array<Real> & intf,
+ UInt nb_degree_of_freedom, const ElementType & type,
+ const GhostType & ghost_type = _not_ghost,
+ const Array<UInt> & filter_elements = empty_filter) const = 0;
/// integrate a scalar value f on all elements of type "type"
- virtual Real integrate(const Array<Real> & f,
- const ElementType & type,
- const GhostType & ghost_type = _not_ghost,
- const Array<UInt> & filter_elements = empty_filter) const = 0;
-
- /// integrate f for all integration points of type "type" but don't sum over all integration points
- virtual void integrateOnIntegrationPoints(const Array<Real> & f,
- Array<Real> &intf,
- UInt nb_degree_of_freedom,
- const ElementType & type,
- const GhostType & ghost_type = _not_ghost,
- const Array<UInt> & filter_elements = empty_filter) const = 0;
+ virtual Real
+ integrate(const Array<Real> & f, const ElementType & type,
+ const GhostType & ghost_type = _not_ghost,
+ const Array<UInt> & filter_elements = empty_filter) const = 0;
+
+ /// integrate f for all integration points of type "type" but don't sum over
+ /// all integration points
+ virtual void integrateOnIntegrationPoints(
+ const Array<Real> & f, Array<Real> & intf, UInt nb_degree_of_freedom,
+ const ElementType & type, const GhostType & ghost_type = _not_ghost,
+ const Array<UInt> & filter_elements = empty_filter) const = 0;
/// integrate one element scalar value on all elements of type "type"
- virtual Real integrate(const Vector<Real> & f,
- const ElementType & type,
- UInt index, const GhostType & ghost_type = _not_ghost) const = 0;
-
+ virtual Real integrate(const Vector<Real> & f, const ElementType & type,
+ UInt index,
+ const GhostType & ghost_type = _not_ghost) const = 0;
- /* ------------------------------------------------------------------------ */
- /* compatibility with old FEEngine fashion */
- /* ------------------------------------------------------------------------ */
+/* ------------------------------------------------------------------------ */
+/* compatibility with old FEEngine fashion */
+/* ------------------------------------------------------------------------ */
#ifndef SWIG
/// get the number of integration points
- virtual UInt getNbIntegrationPoints(const ElementType & type,
- const GhostType & ghost_type = _not_ghost) const = 0;
+ virtual UInt
+ getNbIntegrationPoints(const ElementType & type,
+ const GhostType & ghost_type = _not_ghost) const = 0;
/// get the precomputed shapes
- const virtual Array<Real> & getShapes(const ElementType & type,
- const GhostType & ghost_type = _not_ghost,
- UInt id = 0) const = 0;
+ const virtual Array<Real> &
+ getShapes(const ElementType & type, const GhostType & ghost_type = _not_ghost,
+ UInt id = 0) const = 0;
/// get the derivatives of shapes
- const virtual Array<Real> & getShapesDerivatives(const ElementType & type,
- const GhostType & ghost_type = _not_ghost,
- UInt id = 0) const = 0;
+ const virtual Array<Real> &
+ getShapesDerivatives(const ElementType & type,
+ const GhostType & ghost_type = _not_ghost,
+ UInt id = 0) const = 0;
/// get integration points
- const virtual Matrix<Real> & getIntegrationPoints(const ElementType & type,
- const GhostType & ghost_type = _not_ghost) const = 0;
+ const virtual Matrix<Real> &
+ getIntegrationPoints(const ElementType & type,
+ const GhostType & ghost_type = _not_ghost) const = 0;
#endif
/* ------------------------------------------------------------------------ */
/* Shape method bridges */
/* ------------------------------------------------------------------------ */
- /// Compute the gradient nablauq on the integration points of an element type from nodal values u
- virtual
- void gradientOnIntegrationPoints(const Array<Real> &u,
- Array<Real> &nablauq,
- const UInt nb_degree_of_freedom,
- const ElementType & type,
- const GhostType & ghost_type = _not_ghost,
- const Array<UInt> & filter_elements = empty_filter) const = 0;
-
- /// Interpolate a nodal field u at the integration points of an element type -> uq
- virtual
- void interpolateOnIntegrationPoints(const Array<Real> &u,
- Array<Real> &uq,
- UInt nb_degree_of_freedom,
- const ElementType & type,
- const GhostType & ghost_type = _not_ghost,
- const Array<UInt> & filter_elements = empty_filter) const = 0;
-
- /// Interpolate a nodal field u at the integration points of many element types -> uq
- virtual
- void interpolateOnIntegrationPoints(const Array<Real> & u,
- ElementTypeMapArray<Real> & uq,
- const ElementTypeMapArray<UInt> * filter_elements = NULL) const = 0;
-
- /// Compute the interpolation point position in the global coordinates for many element types
- virtual
- void computeIntegrationPointsCoordinates(ElementTypeMapArray<Real> & integration_points_coordinates,
- const ElementTypeMapArray<UInt> * filter_elements = NULL) const = 0;
-
- /// Compute the interpolation point position in the global coordinates for an element type
- virtual
- void computeIntegrationPointsCoordinates(Array<Real> & integration_points_coordinates,
- const ElementType & type,
- const GhostType & ghost_type = _not_ghost,
- const Array<UInt> & filter_elements = empty_filter) const = 0;
-
- /// Build pre-computed matrices for interpolation of field form integration points at other given positions (interpolation_points)
- virtual
- void initElementalFieldInterpolationFromIntegrationPoints(const ElementTypeMapArray<Real> & interpolation_points_coordinates,
- ElementTypeMapArray<Real> & interpolation_points_coordinates_matrices,
- ElementTypeMapArray<Real> & integration_points_coordinates_inv_matrices,
- const ElementTypeMapArray<UInt> * element_filter) const = 0;
-
- /// interpolate field at given position (interpolation_points) from given values of this field at integration points (field)
- virtual
- void interpolateElementalFieldFromIntegrationPoints(const ElementTypeMapArray<Real> & field,
- const ElementTypeMapArray<Real> & interpolation_points_coordinates,
- ElementTypeMapArray<Real> & result,
- const GhostType ghost_type,
- const ElementTypeMapArray<UInt> * element_filter) const = 0;
-
- /// Interpolate field at given position from given values of this field at integration points (field)
- /// using matrices precomputed with initElementalFieldInterplationFromIntegrationPoints
- virtual
- void interpolateElementalFieldFromIntegrationPoints(const ElementTypeMapArray<Real> & field,
- const ElementTypeMapArray<Real> & interpolation_points_coordinates_matrices,
- const ElementTypeMapArray<Real> & integration_points_coordinates_inv_matrices,
- ElementTypeMapArray<Real> & result,
- const GhostType ghost_type,
- const ElementTypeMapArray<UInt> * element_filter) const = 0;
+ /// Compute the gradient nablauq on the integration points of an element type
+ /// from nodal values u
+ virtual void gradientOnIntegrationPoints(
+ const Array<Real> & u, Array<Real> & nablauq,
+ const UInt nb_degree_of_freedom, const ElementType & type,
+ const GhostType & ghost_type = _not_ghost,
+ const Array<UInt> & filter_elements = empty_filter) const = 0;
+
+ /// Interpolate a nodal field u at the integration points of an element type
+ /// -> uq
+ virtual void interpolateOnIntegrationPoints(
+ const Array<Real> & u, Array<Real> & uq, UInt nb_degree_of_freedom,
+ const ElementType & type, const GhostType & ghost_type = _not_ghost,
+ const Array<UInt> & filter_elements = empty_filter) const = 0;
+
+ /// Interpolate a nodal field u at the integration points of many element
+ /// types -> uq
+ virtual void interpolateOnIntegrationPoints(
+ const Array<Real> & u, ElementTypeMapArray<Real> & uq,
+ const ElementTypeMapArray<UInt> * filter_elements = NULL) const = 0;
+
+ /// Compute the interpolation point position in the global coordinates for
+ /// many element types
+ virtual void computeIntegrationPointsCoordinates(
+ ElementTypeMapArray<Real> & integration_points_coordinates,
+ const ElementTypeMapArray<UInt> * filter_elements = NULL) const = 0;
+
+ /// Compute the interpolation point position in the global coordinates for an
+ /// element type
+ virtual void computeIntegrationPointsCoordinates(
+ Array<Real> & integration_points_coordinates, const ElementType & type,
+ const GhostType & ghost_type = _not_ghost,
+ const Array<UInt> & filter_elements = empty_filter) const = 0;
+
+ /// Build pre-computed matrices for interpolation of field form integration
+ /// points at other given positions (interpolation_points)
+ virtual void initElementalFieldInterpolationFromIntegrationPoints(
+ const ElementTypeMapArray<Real> & interpolation_points_coordinates,
+ ElementTypeMapArray<Real> & interpolation_points_coordinates_matrices,
+ ElementTypeMapArray<Real> & integration_points_coordinates_inv_matrices,
+ const ElementTypeMapArray<UInt> * element_filter) const = 0;
+
+ /// interpolate field at given position (interpolation_points) from given
+ /// values of this field at integration points (field)
+ virtual void interpolateElementalFieldFromIntegrationPoints(
+ const ElementTypeMapArray<Real> & field,
+ const ElementTypeMapArray<Real> & interpolation_points_coordinates,
+ ElementTypeMapArray<Real> & result, const GhostType ghost_type,
+ const ElementTypeMapArray<UInt> * element_filter) const = 0;
+
+ /// Interpolate field at given position from given values of this field at
+ /// integration points (field)
+ /// using matrices precomputed with
+ /// initElementalFieldInterplationFromIntegrationPoints
+ virtual void interpolateElementalFieldFromIntegrationPoints(
+ const ElementTypeMapArray<Real> & field,
+ const ElementTypeMapArray<Real> &
+ interpolation_points_coordinates_matrices,
+ const ElementTypeMapArray<Real> &
+ integration_points_coordinates_inv_matrices,
+ ElementTypeMapArray<Real> & result, const GhostType ghost_type,
+ const ElementTypeMapArray<UInt> * element_filter) const = 0;
/// interpolate on a phyiscal point inside an element
- virtual
- void interpolate(const Vector<Real> & real_coords,
- const Matrix<Real> & nodal_values,
- Vector<Real> & interpolated,
- const Element & element) const = 0;
+ virtual void interpolate(const Vector<Real> & real_coords,
+ const Matrix<Real> & nodal_values,
+ Vector<Real> & interpolated,
+ const Element & element) const = 0;
/// compute the shape on a provided point
- virtual
- void computeShapes(const Vector<Real> & real_coords,
- UInt elem,
- const ElementType & type,
- Vector<Real> & shapes,
- const GhostType & ghost_type = _not_ghost) const = 0;
+ virtual void
+ computeShapes(const Vector<Real> & real_coords, UInt elem,
+ const ElementType & type, Vector<Real> & shapes,
+ const GhostType & ghost_type = _not_ghost) const = 0;
/// compute the shape derivatives on a provided point
- virtual
- void computeShapeDerivatives(const Vector<Real> & real__coords,
- UInt element,
- const ElementType & type,
- Matrix<Real> & shape_derivatives,
- const GhostType & ghost_type = _not_ghost) const = 0;
+ virtual void
+ computeShapeDerivatives(const Vector<Real> & real__coords, UInt element,
+ const ElementType & type,
+ Matrix<Real> & shape_derivatives,
+ const GhostType & ghost_type = _not_ghost) const = 0;
/* ------------------------------------------------------------------------ */
/* Other methods */
/* ------------------------------------------------------------------------ */
/// pre-compute normals on integration points
- virtual void computeNormalsOnIntegrationPoints(const GhostType & ghost_type = _not_ghost) = 0;
+ virtual void computeNormalsOnIntegrationPoints(
+ const GhostType & ghost_type = _not_ghost) = 0;
/// pre-compute normals on integration points
- virtual void computeNormalsOnIntegrationPoints(__attribute__((unused)) const Array<Real> & field,
- __attribute__((unused)) const GhostType & ghost_type = _not_ghost) {
+ virtual void computeNormalsOnIntegrationPoints(
+ __attribute__((unused)) const Array<Real> & field,
+ __attribute__((unused)) const GhostType & ghost_type = _not_ghost) {
AKANTU_DEBUG_TO_IMPLEMENT();
}
/// pre-compute normals on integration points
- virtual void computeNormalsOnIntegrationPoints(__attribute__((unused)) const Array<Real> & field,
- __attribute__((unused)) Array<Real> & normal,
- __attribute__((unused)) const ElementType & type,
- __attribute__((unused)) const GhostType & ghost_type = _not_ghost) const {
+ virtual void computeNormalsOnIntegrationPoints(
+ __attribute__((unused)) const Array<Real> & field,
+ __attribute__((unused)) Array<Real> & normal,
+ __attribute__((unused)) const ElementType & type,
+ __attribute__((unused)) const GhostType & ghost_type = _not_ghost) const {
AKANTU_DEBUG_TO_IMPLEMENT();
}
-
- // /// assemble vectors
- // void assembleArray(const Array<Real> & elementary_vect,
- // Array<Real> & nodal_values,
- // const Array<Int> & equation_number,
- // UInt nb_degree_of_freedom,
- // const ElementType & type,
- // const GhostType & ghost_type = _not_ghost,
- // const Array<UInt> & filter_elements = empty_filter,
- // Real scale_factor = 1) const;
-
- // /// assemble matrix in the complete sparse matrix
- // void assembleMatrix(const Array<Real> & elementary_mat,
- // SparseMatrix & matrix,
- // UInt nb_degree_of_freedom,
- // const ElementType & type,
- // const GhostType & ghost_type = _not_ghost,
- // const Array<UInt> & filter_elements = empty_filter) const;
-
-
/// assemble a field as a lumped matrix (ex. rho in lumped mass)
- virtual void assembleFieldLumped(__attribute__ ((unused)) const Array<Real> & field,
- __attribute__ ((unused)) const ID & lumped,
- __attribute__ ((unused)) const ID & dof_id,
- __attribute__ ((unused)) DOFManager & dof_manager,
- __attribute__ ((unused)) ElementType type,
- __attribute__ ((unused)) const GhostType & ghost_type) const {
+ virtual void assembleFieldLumped(__attribute__((unused))
+ const Array<Real> & field,
+ __attribute__((unused)) const ID & lumped,
+ __attribute__((unused)) const ID & dof_id,
+ __attribute__((unused))
+ DOFManager & dof_manager,
+ __attribute__((unused)) ElementType type,
+ __attribute__((unused))
+ const GhostType & ghost_type) const {
AKANTU_DEBUG_TO_IMPLEMENT();
};
-
/// assemble a field as a matrix (ex. rho to mass matrix)
- virtual void assembleFieldMatrix(__attribute__ ((unused)) const Array<Real> & field_1,
- __attribute__ ((unused)) UInt nb_degree_of_freedom,
- __attribute__ ((unused)) SparseMatrix & matrix,
- __attribute__ ((unused)) ElementType type,
- __attribute__ ((unused)) const GhostType & ghost_type) const {
+ virtual void
+ assembleFieldMatrix(__attribute__((unused)) const Array<Real> & field_1,
+ __attribute__((unused)) UInt nb_degree_of_freedom,
+ __attribute__((unused)) SparseMatrix & matrix,
+ __attribute__((unused)) ElementType type,
+ __attribute__((unused))
+ const GhostType & ghost_type) const {
AKANTU_DEBUG_TO_IMPLEMENT();
}
-
#ifdef AKANTU_STRUCTURAL_MECHANICS
- /// assemble a field as a matrix for structural elements (ex. rho to mass matrix)
- virtual void assembleFieldMatrix(__attribute__ ((unused)) const Array<Real> & field_1,
- __attribute__ ((unused)) UInt nb_degree_of_freedom,
- __attribute__ ((unused)) SparseMatrix & M,
- __attribute__ ((unused)) Array<Real> * n,
- __attribute__ ((unused)) ElementTypeMapArray<Real> & rotation_mat,
- __attribute__ ((unused)) ElementType type,
- __attribute__ ((unused)) const GhostType & ghost_type) const {
-
- AKANTU_DEBUG_TO_IMPLEMENT();
- }
+ /// assemble a field as a matrix for structural elements (ex. rho to mass
+ /// matrix)
+ virtual void assembleFieldMatrix(
+ __attribute__((unused)) const Array<Real> & field_1,
+ __attribute__((unused)) UInt nb_degree_of_freedom,
+ __attribute__((unused)) SparseMatrix & M,
+ __attribute__((unused)) Array<Real> * n,
+ __attribute__((unused)) ElementTypeMapArray<Real> & rotation_mat,
+ __attribute__((unused)) ElementType type,
+ __attribute__((unused)) const GhostType & ghost_type) const {
+
+ AKANTU_DEBUG_TO_IMPLEMENT();
+ }
/// compute shapes function in a matrix for structural elements
- virtual void computeShapesMatrix(__attribute__ ((unused))const ElementType & type,
- __attribute__ ((unused))UInt nb_degree_of_freedom,
- __attribute__ ((unused))UInt nb_nodes_per_element,
- __attribute__ ((unused))Array<Real> * n,
- __attribute__ ((unused))UInt id,
- __attribute__ ((unused))UInt degree_to_interpolate,
- __attribute__ ((unused))UInt degree_interpolated,
- __attribute__ ((unused))const bool sign,
- __attribute__ ((unused))const GhostType & ghost_type) const {
+ virtual void computeShapesMatrix(
+ __attribute__((unused)) const ElementType & type,
+ __attribute__((unused)) UInt nb_degree_of_freedom,
+ __attribute__((unused)) UInt nb_nodes_per_element,
+ __attribute__((unused)) Array<Real> * n, __attribute__((unused)) UInt id,
+ __attribute__((unused)) UInt degree_to_interpolate,
+ __attribute__((unused)) UInt degree_interpolated,
+ __attribute__((unused)) const bool sign,
+ __attribute__((unused)) const GhostType & ghost_type) const {
AKANTU_DEBUG_TO_IMPLEMENT();
}
#endif
/// function to print the containt of the class
virtual void printself(std::ostream & stream, int indent = 0) const;
private:
/// initialise the class
void init();
/* ------------------------------------------------------------------------ */
/* Accessors */
/* ------------------------------------------------------------------------ */
public:
/// get the dimension of the element handeled by this fe_engine object
AKANTU_GET_MACRO(ElementDimension, element_dimension, UInt);
/// get the mesh contained in the fem object
AKANTU_GET_MACRO(Mesh, mesh, const Mesh &);
/// get the mesh contained in the fem object
AKANTU_GET_MACRO_NOT_CONST(Mesh, mesh, Mesh &);
/// get the in-radius of an element
- static inline Real getElementInradius(const Matrix<Real> & coord, const ElementType & type);
+ static inline Real getElementInradius(const Matrix<Real> & coord,
+ const ElementType & type);
/// get the normals on integration points
- AKANTU_GET_MACRO_BY_ELEMENT_TYPE_CONST(NormalsOnIntegrationPoints, normals_on_integration_points, Real);
+ AKANTU_GET_MACRO_BY_ELEMENT_TYPE_CONST(NormalsOnIntegrationPoints,
+ normals_on_integration_points, Real);
/// get cohesive element type for a given facet type
- static inline ElementType getCohesiveElementType(const ElementType & type_facet);
+ static inline ElementType
+ getCohesiveElementType(const ElementType & type_facet);
/// get igfem element type for a given regular type
- static inline Vector<ElementType> getIGFEMElementTypes(const ElementType & type);
+ static inline Vector<ElementType>
+ getIGFEMElementTypes(const ElementType & type);
/// get the interpolation element associated to an element type
- static inline InterpolationType getInterpolationType(const ElementType & el_type);
+ static inline InterpolationType
+ getInterpolationType(const ElementType & el_type);
- /// get the shape function class (probably useless: see getShapeFunction in fe_engine_template.hh)
+ /// get the shape function class (probably useless: see getShapeFunction in
+ /// fe_engine_template.hh)
virtual const ShapeFunctions & getShapeFunctionsInterface() const = 0;
- /// get the integrator class (probably useless: see getIntegrator in fe_engine_template.hh)
+ /// get the integrator class (probably useless: see getIntegrator in
+ /// fe_engine_template.hh)
virtual const Integrator & getIntegratorInterface() const = 0;
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
protected:
/// spatial dimension of the problem
UInt element_dimension;
/// the mesh on which all computation are made
Mesh & mesh;
/// normals at integration points
ElementTypeMapArray<Real> normals_on_integration_points;
-
};
/* -------------------------------------------------------------------------- */
/* inline functions */
/* -------------------------------------------------------------------------- */
/// standard output stream operator
-inline std::ostream & operator <<(std::ostream & stream, const FEEngine & _this)
-{
- _this.printself(stream);
- return stream;
-}
-
-
-/// standard output stream operator
-inline std::ostream & operator <<(std::ostream & stream, const IntegrationPoint & _this)
-{
+inline std::ostream & operator<<(std::ostream & stream,
+ const FEEngine & _this) {
_this.printself(stream);
return stream;
}
__END_AKANTU__
#include "fe_engine_inline_impl.cc"
#include "fe_engine_template.hh"
#endif /* __AKANTU_FE_ENGINE_HH__ */
diff --git a/src/fe_engine/fe_engine_inline_impl.cc b/src/fe_engine/fe_engine_inline_impl.cc
index 671f5fc74..f44c2c0d9 100644
--- a/src/fe_engine/fe_engine_inline_impl.cc
+++ b/src/fe_engine/fe_engine_inline_impl.cc
@@ -1,209 +1,218 @@
/**
* @file fe_engine_inline_impl.cc
*
* @author Guillaume Anciaux <guillaume.anciaux@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Tue Jul 20 2010
* @date last modification: Sat Sep 05 2015
*
* @brief Implementation of the inline functions of the FEEngine Class
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
-
/* -------------------------------------------------------------------------- */
+#include "fe_engine.hh"
+#include "mesh.hh"
+#include "element_class.hh"
+/* -------------------------------------------------------------------------- */
+
+#ifndef __AKANTU_FE_ENGINE_INLINE_IMPL_CC__
+#define __AKANTU_FE_ENGINE_INLINE_IMPL_CC__
+
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
inline Real FEEngine::getElementInradius(const Matrix<Real> & coord,
const ElementType & type) {
AKANTU_DEBUG_IN();
Real inradius = 0;
#define GET_INRADIUS(type) inradius = ElementClass<type>::getInradius(coord);
AKANTU_BOOST_ALL_ELEMENT_SWITCH(GET_INRADIUS);
#undef GET_INRADIUS
AKANTU_DEBUG_OUT();
return inradius;
}
/* -------------------------------------------------------------------------- */
inline InterpolationType
FEEngine::getInterpolationType(const ElementType & type) {
AKANTU_DEBUG_IN();
InterpolationType itp_type = _itp_not_defined;
#define GET_ITP(type) itp_type = ElementClassProperty<type>::interpolation_type;
AKANTU_BOOST_ALL_ELEMENT_SWITCH(GET_ITP);
#undef GET_ITP
AKANTU_DEBUG_OUT();
return itp_type;
}
/* -------------------------------------------------------------------------- */
/// @todo rewrite this function in order to get the cohesive element
/// type directly from the facet
#if defined(AKANTU_COHESIVE_ELEMENT)
inline ElementType
FEEngine::getCohesiveElementType(const ElementType & type_facet) {
AKANTU_DEBUG_IN();
ElementType type_cohesive = _not_defined;
if (type_facet == _point_1)
type_cohesive = _cohesive_1d_2;
else if (type_facet == _segment_2)
type_cohesive = _cohesive_2d_4;
else if (type_facet == _segment_3)
type_cohesive = _cohesive_2d_6;
else if (type_facet == _triangle_3)
type_cohesive = _cohesive_3d_6;
else if (type_facet == _triangle_6)
type_cohesive = _cohesive_3d_12;
else if (type_facet == _quadrangle_4)
type_cohesive = _cohesive_3d_8;
else if (type_facet == _quadrangle_8)
type_cohesive = _cohesive_3d_16;
AKANTU_DEBUG_OUT();
return type_cohesive;
}
#else
inline ElementType
FEEngine::getCohesiveElementType(__attribute__((unused))
const ElementType & type_facet) {
return _not_defined;
}
#endif
/* -------------------------------------------------------------------------- */
#if defined(AKANTU_IGFEM)
__END_AKANTU__
#include "igfem_helper.hh"
__BEGIN_AKANTU__
inline Vector<ElementType>
FEEngine::getIGFEMElementTypes(const ElementType & type) {
#define GET_IGFEM_ELEMENT_TYPES(type) \
return IGFEMHelper::getIGFEMElementTypes<type>();
AKANTU_BOOST_REGULAR_ELEMENT_SWITCH(GET_IGFEM_ELEMENT_TYPES);
#undef GET_IGFEM_ELEMENT_TYPES
}
#endif
/* -------------------------------------------------------------------------- */
template <typename T>
void FEEngine::extractNodalToElementField(const Mesh & mesh,
const Array<T> & nodal_f,
Array<T> & elemental_f,
const ElementType & type,
const GhostType & ghost_type,
const Array<UInt> & filter_elements) {
AKANTU_DEBUG_IN();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_degree_of_freedom = nodal_f.getNbComponent();
UInt nb_element = mesh.getNbElement(type, ghost_type);
UInt * conn_val = mesh.getConnectivity(type, ghost_type).storage();
if (filter_elements != empty_filter) {
nb_element = filter_elements.getSize();
}
elemental_f.resize(nb_element);
T * nodal_f_val = nodal_f.storage();
T * f_val = elemental_f.storage();
UInt * el_conn;
for (UInt el = 0; el < nb_element; ++el) {
if (filter_elements != empty_filter)
el_conn = conn_val + filter_elements(el) * nb_nodes_per_element;
else
el_conn = conn_val + el * nb_nodes_per_element;
for (UInt n = 0; n < nb_nodes_per_element; ++n) {
UInt node = *(el_conn + n);
std::copy(nodal_f_val + node * nb_degree_of_freedom,
nodal_f_val + (node + 1) * nb_degree_of_freedom, f_val);
f_val += nb_degree_of_freedom;
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <typename T>
void FEEngine::filterElementalData(const Mesh & mesh, const Array<T> & elem_f,
Array<T> & filtered_f,
const ElementType & type,
const GhostType & ghost_type,
const Array<UInt> & filter_elements) {
AKANTU_DEBUG_IN();
UInt nb_element = mesh.getNbElement(type, ghost_type);
if (nb_element == 0) {
filtered_f.resize(0);
return;
}
UInt nb_degree_of_freedom = elem_f.getNbComponent();
UInt nb_data_per_element = elem_f.getSize() / nb_element;
if (filter_elements != empty_filter) {
nb_element = filter_elements.getSize();
}
filtered_f.resize(nb_element * nb_data_per_element);
T * elem_f_val = elem_f.storage();
T * f_val = filtered_f.storage();
UInt el_offset;
for (UInt el = 0; el < nb_element; ++el) {
if (filter_elements != empty_filter)
el_offset = filter_elements(el);
else
el_offset = el;
std::copy(elem_f_val +
el_offset * nb_data_per_element * nb_degree_of_freedom,
elem_f_val +
(el_offset + 1) * nb_data_per_element * nb_degree_of_freedom,
f_val);
f_val += nb_degree_of_freedom * nb_data_per_element;
}
AKANTU_DEBUG_OUT();
}
__END_AKANTU__
+
+#endif /* __AKANTU_FE_ENGINE_INLINE_IMPL_CC__ */
diff --git a/src/fe_engine/integration_point.hh b/src/fe_engine/integration_point.hh
index eb9677fe0..58d3fbab9 100644
--- a/src/fe_engine/integration_point.hh
+++ b/src/fe_engine/integration_point.hh
@@ -1,157 +1,169 @@
/**
* @file integration_point.hh
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Wed Jun 17 2015
* @date last modification: Sun Nov 15 2015
*
* @brief definition of the class IntegrationPoint
*
* @section LICENSE
*
* Copyright (©) 2015 EPFL (Ecole Polytechnique Fédérale de Lausanne) Laboratory
* (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
+/* -------------------------------------------------------------------------- */
+#include "aka_types.hh"
+#include "element.hh"
+/* -------------------------------------------------------------------------- */
#ifndef AKANTU_QUADRATURE_POINT_H
#define AKANTU_QUADRATURE_POINT_H
+
/* -------------------------------------------------------------------------- */
-#include "element.hh"
-#include "aka_types.hh"
-/* -------------------------------------------------------------------------- */
+
__BEGIN_AKANTU__
+
/* -------------------------------------------------------------------------- */
class IntegrationPoint;
extern const IntegrationPoint IntegrationPointNull;
/* -------------------------------------------------------------------------- */
class IntegrationPoint : public Element {
/* ------------------------------------------------------------------------ */
/* Typedefs */
/* ------------------------------------------------------------------------ */
public:
typedef Vector<Real> position_type;
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
public:
- IntegrationPoint(const Element & element, UInt num_point = 0, UInt nb_quad_per_element = 0) :
- Element(element), num_point(num_point),
- global_num(element.element*nb_quad_per_element + num_point),
- position((Real *)NULL, 0) { };
+ IntegrationPoint(const Element & element, UInt num_point = 0,
+ UInt nb_quad_per_element = 0)
+ : Element(element), num_point(num_point),
+ global_num(element.element * nb_quad_per_element + num_point),
+ position((Real *)NULL, 0){};
IntegrationPoint(ElementType type = _not_defined, UInt element = 0,
- UInt num_point = 0, GhostType ghost_type = _not_ghost) :
- Element(type, element, ghost_type), num_point(num_point), global_num(0),
- position((Real *)NULL, 0) { };
-
- IntegrationPoint(UInt element, UInt num_point,
- UInt global_num,
- const position_type & position,
- ElementType type,
- GhostType ghost_type = _not_ghost) :
- Element(type, element, ghost_type), num_point(num_point), global_num(global_num),
- position((Real *)NULL, 0) { this->position.shallowCopy(position); };
-
- IntegrationPoint(const IntegrationPoint & quad) :
- Element(quad), num_point(quad.num_point), global_num(quad.global_num), position((Real *) NULL, 0) {
+ UInt num_point = 0, GhostType ghost_type = _not_ghost)
+ : Element(type, element, ghost_type), num_point(num_point), global_num(0),
+ position((Real *)NULL, 0){};
+
+ IntegrationPoint(UInt element, UInt num_point, UInt global_num,
+ const position_type & position, ElementType type,
+ GhostType ghost_type = _not_ghost)
+ : Element(type, element, ghost_type), num_point(num_point),
+ global_num(global_num), position((Real *)NULL, 0) {
+ this->position.shallowCopy(position);
+ };
+
+ IntegrationPoint(const IntegrationPoint & quad)
+ : Element(quad), num_point(quad.num_point), global_num(quad.global_num),
+ position((Real *)NULL, 0) {
position.shallowCopy(quad.position);
};
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
inline bool operator==(const IntegrationPoint & quad) const {
return Element::operator==(quad) && this->num_point == quad.num_point;
}
inline bool operator!=(const IntegrationPoint & quad) const {
- return ((element != quad.element)
- || (type != quad.type)
- || (ghost_type != quad.ghost_type)
- || (kind != quad.kind)
- || (num_point != quad.num_point)
- || (global_num != quad.global_num));
+ return ((element != quad.element) || (type != quad.type) ||
+ (ghost_type != quad.ghost_type) || (kind != quad.kind) ||
+ (num_point != quad.num_point) || (global_num != quad.global_num));
}
- bool operator<(const IntegrationPoint& rhs) const {
- bool res = Element::operator<(rhs) || (Element::operator==(rhs) && this->num_point < rhs.num_point);
+ bool operator<(const IntegrationPoint & rhs) const {
+ bool res = Element::operator<(rhs) ||
+ (Element::operator==(rhs) && this->num_point < rhs.num_point);
return res;
}
inline IntegrationPoint & operator=(const IntegrationPoint & q) {
- if(this != &q) {
- element = q.element;
- type = q.type;
+ if (this != &q) {
+ element = q.element;
+ type = q.type;
ghost_type = q.ghost_type;
- num_point = q.num_point;
+ num_point = q.num_point;
global_num = q.global_num;
position.shallowCopy(q.position);
}
return *this;
}
-
+
/// get the position of the integration point
AKANTU_GET_MACRO(Position, position, const position_type &);
/// set the position of the integration point
void setPosition(const position_type & position) {
this->position.shallowCopy(position);
}
/// deep copy of the position of the integration point
void copyPosition(const position_type & position) {
this->position.deepCopy(position);
}
/// function to print the containt of the class
virtual void printself(std::ostream & stream, int indent = 0) const {
std::string space;
- for(Int i = 0; i < indent; i++, space += AKANTU_INDENT);
+ for (Int i = 0; i < indent; i++, space += AKANTU_INDENT)
+ ;
stream << space << "IntegrationPoint [";
Element::printself(stream, 0);
- stream << ", " << num_point << "(" << global_num << ")" << "]";
+ stream << ", " << num_point << "(" << global_num << ")"
+ << "]";
}
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
public:
/// number of quadrature point in the element
UInt num_point;
/// global number of the quadrature point
UInt global_num;
// TODO might be temporary: however this class should be tought maybe...
std::string material_id;
-private:
+private:
/// position of the quadrature point
position_type position;
};
-__END_AKANTU__
+/// standard output stream operator
+inline std::ostream & operator<<(std::ostream & stream,
+ const IntegrationPoint & _this) {
+ _this.printself(stream);
+ return stream;
+}
+__END_AKANTU__
#endif /* AKANTU_QUADRATURE_POINT_H */
diff --git a/src/model/boundary_condition_functor.hh b/src/model/boundary_condition_functor.hh
index 5354a89b9..92aee20bc 100644
--- a/src/model/boundary_condition_functor.hh
+++ b/src/model/boundary_condition_functor.hh
@@ -1,194 +1,197 @@
/**
* @file boundary_condition_functor.hh
*
* @author Dana Christen <dana.christen@gmail.com>
* @author David Simon Kammer <david.kammer@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Fri May 03 2013
* @date last modification: Thu Oct 15 2015
*
* @brief Definitions of the functors to apply boundary conditions
*
* @section LICENSE
*
* Copyright (©) 2014, 2015 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
+#include "aka_common.hh"
+#include "fe_engine.hh"
+#include "integration_point.hh"
+/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_BOUNDARY_CONDITION_FUNCTOR_HH__
#define __AKANTU_BOUNDARY_CONDITION_FUNCTOR_HH__
-#include "aka_common.hh"
-#include "fe_engine.hh"
+/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
namespace BC {
typedef ::akantu::SpacialDirection Axis;
struct Functor {
enum Type { _dirichlet, _neumann };
};
/* ------------------------------------------------------------------------ */
/* Dirichlet */
/* ------------------------------------------------------------------------ */
namespace Dirichlet {
/* ---------------------------------------------------------------------- */
class DirichletFunctor : public Functor {
protected:
DirichletFunctor() : axis(_x) {}
- DirichletFunctor(Axis ax) : axis(ax) {}
+ explicit DirichletFunctor(Axis ax) : axis(ax) {}
public:
void operator()(__attribute__((unused)) UInt node,
__attribute__((unused)) Vector<bool> & flags,
__attribute__((unused)) Vector<Real> & primal,
__attribute__((unused)) const Vector<Real> & coord) const {
AKANTU_DEBUG_TO_IMPLEMENT();
}
public:
static const Type type = _dirichlet;
protected:
Axis axis;
};
/* ---------------------------------------------------------------------- */
class FlagOnly : public DirichletFunctor {
public:
- FlagOnly(Axis ax = _x) : DirichletFunctor(ax) {}
+ explicit FlagOnly(Axis ax = _x) : DirichletFunctor(ax) {}
public:
inline void operator()(UInt node, Vector<bool> & flags,
Vector<Real> & primal,
const Vector<Real> & coord) const;
};
/* ---------------------------------------------------------------------- */
class FreeBoundary : public DirichletFunctor {
public:
- FreeBoundary(Axis ax = _x) : DirichletFunctor(ax) {}
+ explicit FreeBoundary(Axis ax = _x) : DirichletFunctor(ax) {}
public:
inline void operator()(UInt node, Vector<bool> & flags,
Vector<Real> & primal,
const Vector<Real> & coord) const;
};
/* ---------------------------------------------------------------------- */
class FixedValue : public DirichletFunctor {
public:
FixedValue(Real val, Axis ax = _x) : DirichletFunctor(ax), value(val) {}
public:
inline void operator()(UInt node, Vector<bool> & flags,
Vector<Real> & primal,
const Vector<Real> & coord) const;
protected:
Real value;
};
/* ---------------------------------------------------------------------- */
class IncrementValue : public DirichletFunctor {
public:
IncrementValue(Real val, Axis ax = _x) : DirichletFunctor(ax), value(val) {}
public:
inline void operator()(UInt node, Vector<bool> & flags,
Vector<Real> & primal,
const Vector<Real> & coord) const;
inline void setIncrement(Real val) { this->value = val; }
protected:
Real value;
};
} // end namespace Dirichlet
/* ------------------------------------------------------------------------ */
/* Neumann */
/* ------------------------------------------------------------------------ */
namespace Neumann {
/* ---------------------------------------------------------------------- */
class NeumannFunctor : public Functor {
protected:
NeumannFunctor() {}
public:
virtual void operator()(const IntegrationPoint & quad_point,
Vector<Real> & dual, const Vector<Real> & coord,
const Vector<Real> & normals) const = 0;
virtual ~NeumannFunctor() {}
public:
static const Type type = _neumann;
};
/* ---------------------------------------------------------------------- */
class FromHigherDim : public NeumannFunctor {
public:
- FromHigherDim(const Matrix<Real> & mat) : bc_data(mat) {}
+ explicit FromHigherDim(const Matrix<Real> & mat) : bc_data(mat) {}
virtual ~FromHigherDim() {}
public:
inline void operator()(const IntegrationPoint & quad_point,
Vector<Real> & dual, const Vector<Real> & coord,
const Vector<Real> & normals) const;
protected:
Matrix<Real> bc_data;
};
/* ---------------------------------------------------------------------- */
class FromSameDim : public NeumannFunctor {
public:
- FromSameDim(const Vector<Real> & vec) : bc_data(vec) {}
+ explicit FromSameDim(const Vector<Real> & vec) : bc_data(vec) {}
virtual ~FromSameDim() {}
public:
inline void operator()(const IntegrationPoint & quad_point,
Vector<Real> & dual, const Vector<Real> & coord,
const Vector<Real> & normals) const;
protected:
Vector<Real> bc_data;
};
/* ---------------------------------------------------------------------- */
class FreeBoundary : public NeumannFunctor {
public:
inline void operator()(const IntegrationPoint & quad_point,
Vector<Real> & dual, const Vector<Real> & coord,
const Vector<Real> & normals) const;
};
} // end namespace Neumann
} // end namespace BC
__END_AKANTU__
#include "boundary_condition_functor_inline_impl.cc"
#endif /* __AKANTU_BOUNDARY_CONDITION_FUNCTOR_HH__ */
diff --git a/src/model/dof_manager.cc b/src/model/dof_manager.cc
index 26770d970..9ffe16fbc 100644
--- a/src/model/dof_manager.cc
+++ b/src/model/dof_manager.cc
@@ -1,643 +1,646 @@
+
/**
* @file dof_manager.cc
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Wed Aug 12 09:52:30 2015
*
* @brief Implementation of the common parts of the DOFManagers
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "dof_manager.hh"
#include "element_group.hh"
#include "mesh.hh"
#include "mesh_utils.hh"
#include "node_group.hh"
#include "sparse_matrix.hh"
#include "static_communicator.hh"
+#include "non_linear_solver.hh"
+#include "time_step_solver.hh"
/* -------------------------------------------------------------------------- */
-__BEGIN_AKANTU__
+namespace akantu {
/* -------------------------------------------------------------------------- */
DOFManager::DOFManager(const ID & id, const MemoryID & memory_id)
: Memory(id, memory_id), mesh(NULL), local_system_size(0),
pure_local_system_size(0), system_size(0) {}
/* -------------------------------------------------------------------------- */
DOFManager::~DOFManager() {
NodesToElements::scalar_iterator nte_it = this->nodes_to_elements.begin();
NodesToElements::scalar_iterator nte_end = this->nodes_to_elements.end();
for (; nte_it != nte_end; ++nte_it)
delete *nte_it;
DOFStorage::iterator ds_it = dofs.begin();
DOFStorage::iterator ds_end = dofs.end();
for (; ds_it != ds_end; ++ds_it)
delete ds_it->second;
SparseMatricesMap::iterator sm_it = matrices.begin();
SparseMatricesMap::iterator sm_end = matrices.end();
for (; sm_it != sm_end; ++sm_it)
delete sm_it->second;
NonLinearSolversMap::iterator nls_it = non_linear_solvers.begin();
NonLinearSolversMap::iterator nls_end = non_linear_solvers.end();
for (; nls_it != nls_end; ++nls_it)
delete nls_it->second;
TimeStepSolversMap::iterator tss_it = time_step_solvers.begin();
TimeStepSolversMap::iterator tss_end = time_step_solvers.end();
for (; tss_it != tss_end; ++tss_it)
delete tss_it->second;
}
/* -------------------------------------------------------------------------- */
void DOFManager::getEquationsNumbers(const ID &, Array<UInt> &) {
AKANTU_DEBUG_TO_IMPLEMENT();
}
/* -------------------------------------------------------------------------- */
std::vector<ID> DOFManager::getDOFIDs() const {
std::vector<ID> keys;
for (const auto & dof_data : this->dofs)
keys.push_back(dof_data.first);
return keys;
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleElementalArrayLocalArray(
const Array<Real> & elementary_vect, Array<Real> & array_assembeled,
const ElementType & type, const GhostType & ghost_type, Real scale_factor,
const Array<UInt> & filter_elements) {
AKANTU_DEBUG_IN();
UInt nb_element;
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_degree_of_freedom =
elementary_vect.getNbComponent() / nb_nodes_per_element;
UInt * filter_it = NULL;
if (filter_elements != empty_filter) {
nb_element = filter_elements.getSize();
filter_it = filter_elements.storage();
} else {
nb_element = this->mesh->getNbElement(type, ghost_type);
}
AKANTU_DEBUG_ASSERT(elementary_vect.getSize() == nb_element,
"The vector elementary_vect("
<< elementary_vect.getID()
<< ") has not the good size.");
const Array<UInt> & connectivity =
this->mesh->getConnectivity(type, ghost_type);
// Array<UInt>::const_vector_iterator conn_begin =
// connectivity.begin(nb_nodes_per_element);
// Array<UInt>::const_vector_iterator conn_it = conn_begin;
Array<Real>::const_matrix_iterator elem_it =
elementary_vect.begin(nb_degree_of_freedom, nb_nodes_per_element);
for (UInt el = 0; el < nb_element; ++el, ++elem_it) {
UInt element = el;
if (filter_it != NULL) {
// conn_it = conn_begin + *filter_it;
element = *filter_it;
}
// const Vector<UInt> & conn = *conn_it;
const Matrix<Real> & elemental_val = *elem_it;
for (UInt n = 0; n < nb_nodes_per_element; ++n) {
UInt offset_node = connectivity(element, n) * nb_degree_of_freedom;
Vector<Real> assemble(array_assembeled.storage() + offset_node,
nb_degree_of_freedom);
Vector<Real> elem_val = elemental_val(n);
assemble.aXplusY(elem_val, scale_factor);
}
if (filter_it != NULL)
++filter_it;
// else
// ++conn_it;
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleElementalArrayToResidual(
const ID & dof_id, const Array<Real> & elementary_vect,
const ElementType & type, const GhostType & ghost_type, Real scale_factor,
const Array<UInt> & filter_elements) {
AKANTU_DEBUG_IN();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_degree_of_freedom =
elementary_vect.getNbComponent() / nb_nodes_per_element;
Array<Real> array_localy_assembeled(this->mesh->getNbNodes(),
nb_degree_of_freedom);
array_localy_assembeled.clear();
this->assembleElementalArrayLocalArray(
elementary_vect, array_localy_assembeled, type, ghost_type, scale_factor,
filter_elements);
this->assembleToResidual(dof_id, array_localy_assembeled, 1);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManager::assembleElementalArrayToLumpedMatrix(
const ID & dof_id, const Array<Real> & elementary_vect,
const ID & lumped_mtx, const ElementType & type,
const GhostType & ghost_type, Real scale_factor,
const Array<UInt> & filter_elements) {
AKANTU_DEBUG_IN();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_degree_of_freedom =
elementary_vect.getNbComponent() / nb_nodes_per_element;
Array<Real> array_localy_assembeled(this->mesh->getNbNodes(),
nb_degree_of_freedom);
array_localy_assembeled.clear();
this->assembleElementalArrayLocalArray(
elementary_vect, array_localy_assembeled, type, ghost_type, scale_factor,
filter_elements);
this->assembleToLumpedMatrix(dof_id, array_localy_assembeled, lumped_mtx, 1);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerMesh(Mesh & mesh) {
this->mesh = &mesh;
this->mesh->registerEventHandler(*this, 20);
UInt nb_nodes = this->mesh->getNbNodes();
this->nodes_to_elements.resize(nb_nodes);
for (UInt n = 0; n < nb_nodes; ++n) {
this->nodes_to_elements[n] = new std::set<Element>();
}
}
/* -------------------------------------------------------------------------- */
DOFManager::DOFData::DOFData(const ID & dof_id)
: support_type(_dst_generic), group_support("mesh"), dof(NULL),
blocked_dofs(NULL), increment(NULL), previous(NULL),
solution(0, 1, dof_id + ":solution"),
local_equation_number(0, 1, dof_id + ":local_equation_number") {}
/* -------------------------------------------------------------------------- */
DOFManager::DOFData::~DOFData() {}
/* -------------------------------------------------------------------------- */
DOFManager::DOFData & DOFManager::getNewDOFData(const ID & dof_id) {
DOFStorage::iterator it = this->dofs.find(dof_id);
if (it != this->dofs.end()) {
AKANTU_EXCEPTION("This dof array has already been registered");
}
DOFData * dofs_storage = new DOFData(dof_id);
this->dofs[dof_id] = dofs_storage;
return *dofs_storage;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFsInternal(const ID & dof_id,
Array<Real> & dofs_array) {
DOFData & dofs_storage = this->getDOFData(dof_id);
dofs_storage.dof = &dofs_array;
UInt nb_local_dofs = 0;
UInt nb_pure_local = 0;
const DOFSupportType &support_type = dofs_storage.support_type;
switch (support_type) {
case _dst_nodal: {
UInt nb_nodes = 0;
const ID & group = dofs_storage.group_support;
NodeGroup * node_group = NULL;
if (group == "mesh") {
nb_nodes = this->mesh->getNbNodes();
} else {
node_group = &this->mesh->getElementGroup(group).getNodeGroup();
nb_nodes = node_group->getSize();
}
nb_local_dofs = nb_nodes;
AKANTU_DEBUG_ASSERT(
dofs_array.getSize() == nb_local_dofs,
"The array of dof is too shot to be associated to nodes.");
for (UInt n = 0; n < nb_nodes; ++n) {
UInt node = n;
if (node_group)
node = node_group->getNodes()(n);
nb_pure_local += this->mesh->isLocalOrMasterNode(node) ? 1 : 0;
}
nb_pure_local *= dofs_array.getNbComponent();
nb_local_dofs *= dofs_array.getNbComponent();
break;
}
case _dst_generic: {
nb_local_dofs = nb_pure_local =
- dofs_array.getSize() * dofs_array.getNbComponent();
+ dofs_array.getSize() * dofs_array.getNbComponent();
break;
}
default: { AKANTU_EXCEPTION("This type of dofs is not handled yet."); }
}
this->pure_local_system_size += nb_pure_local;
this->local_system_size += nb_local_dofs;
StaticCommunicator & comm = StaticCommunicator::getStaticCommunicator();
comm.allReduce(nb_pure_local, _so_sum);
this->system_size += nb_pure_local;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFs(const ID & dof_id, Array<Real> & dofs_array,
const DOFSupportType & support_type) {
DOFData & dofs_storage = this->getNewDOFData(dof_id);
dofs_storage.support_type = support_type;
this->registerDOFsInternal(dof_id, dofs_array);
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFs(const ID & dof_id, Array<Real> & dofs_array,
const ID & support_group) {
DOFData & dofs_storage = this->getNewDOFData(dof_id);
dofs_storage.support_type = _dst_nodal;
dofs_storage.group_support = support_group;
this->registerDOFsInternal(dof_id, dofs_array);
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFsPrevious(const ID & dof_id, Array<Real> & array) {
DOFData & dof = this->getDOFData(dof_id);
if (dof.previous != NULL) {
AKANTU_EXCEPTION("The previous dofs array for "
<< dof_id << " has already been registered");
}
dof.previous = &array;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFsIncrement(const ID & dof_id, Array<Real> & array) {
DOFData & dof = this->getDOFData(dof_id);
if (dof.increment != NULL) {
AKANTU_EXCEPTION("The dofs increment array for "
<< dof_id << " has already been registered");
}
dof.increment = &array;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerDOFsDerivative(const ID & dof_id, UInt order,
Array<Real> & dofs_derivative) {
DOFData & dof = this->getDOFData(dof_id);
std::vector<Array<Real> *> & derivatives = dof.dof_derivatives;
if (derivatives.size() < order) {
derivatives.resize(order, NULL);
} else {
if (derivatives[order - 1] != NULL) {
AKANTU_EXCEPTION("The dof derivatives of order "
<< order << " already been registered for this dof ("
<< dof_id << ")");
}
}
derivatives[order - 1] = &dofs_derivative;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerBlockedDOFs(const ID & dof_id,
Array<bool> & blocked_dofs) {
DOFData & dof = this->getDOFData(dof_id);
if (dof.blocked_dofs != NULL) {
AKANTU_EXCEPTION("The blocked dofs array for "
<< dof_id << " has already been registered");
}
dof.blocked_dofs = &blocked_dofs;
}
/* -------------------------------------------------------------------------- */
void DOFManager::splitSolutionPerDOFs() {
DOFStorage::iterator it = this->dofs.begin();
DOFStorage::iterator end = this->dofs.end();
for (; it != end; ++it) {
DOFData & dof_data = *it->second;
dof_data.solution.resize(dof_data.dof->getSize() *
dof_data.dof->getNbComponent());
this->getSolutionPerDOFs(it->first, dof_data.solution);
}
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerSparseMatrix(const ID & matrix_id,
SparseMatrix & matrix) {
SparseMatricesMap::const_iterator it = this->matrices.find(matrix_id);
if (it != this->matrices.end()) {
AKANTU_EXCEPTION("The matrix " << matrix_id << " already exists in "
<< this->id);
}
this->matrices[matrix_id] = &matrix;
}
/* -------------------------------------------------------------------------- */
/// Get an instance of a new SparseMatrix
Array<Real> & DOFManager::getNewLumpedMatrix(const ID & id) {
ID matrix_id = this->id + ":lumped_mtx:" + id;
LumpedMatricesMap::const_iterator it = this->lumped_matrices.find(matrix_id);
if (it != this->lumped_matrices.end()) {
AKANTU_EXCEPTION("The lumped matrix " << matrix_id << " already exists in "
<< this->id);
}
Array<Real> & mtx = this->alloc<Real>(matrix_id, this->local_system_size, 1);
this->lumped_matrices[matrix_id] = &mtx;
return mtx;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerNonLinearSolver(const ID & non_linear_solver_id,
NonLinearSolver & non_linear_solver) {
NonLinearSolversMap::const_iterator it =
this->non_linear_solvers.find(non_linear_solver_id);
if (it != this->non_linear_solvers.end()) {
AKANTU_EXCEPTION("The non linear solver " << non_linear_solver_id
<< " already exists in "
<< this->id);
}
this->non_linear_solvers[non_linear_solver_id] = &non_linear_solver;
}
/* -------------------------------------------------------------------------- */
void DOFManager::registerTimeStepSolver(const ID & time_step_solver_id,
TimeStepSolver & time_step_solver) {
TimeStepSolversMap::const_iterator it =
this->time_step_solvers.find(time_step_solver_id);
if (it != this->time_step_solvers.end()) {
AKANTU_EXCEPTION("The non linear solver " << time_step_solver_id
<< " already exists in "
<< this->id);
}
this->time_step_solvers[time_step_solver_id] = &time_step_solver;
}
/* -------------------------------------------------------------------------- */
SparseMatrix & DOFManager::getMatrix(const ID & id) {
ID matrix_id = this->id + ":mtx:" + id;
SparseMatricesMap::const_iterator it = this->matrices.find(matrix_id);
if (it == this->matrices.end()) {
AKANTU_SILENT_EXCEPTION("The matrix " << matrix_id << " does not exists in "
<< this->id);
}
return *(it->second);
}
/* -------------------------------------------------------------------------- */
bool DOFManager::hasMatrix(const ID & id) const {
ID mtx_id = this->id + ":mtx:" + id;
SparseMatricesMap::const_iterator it = this->matrices.find(mtx_id);
return it != this->matrices.end();
}
/* -------------------------------------------------------------------------- */
Array<Real> & DOFManager::getLumpedMatrix(const ID & id) {
ID matrix_id = this->id + ":lumped_mtx:" + id;
LumpedMatricesMap::const_iterator it = this->lumped_matrices.find(matrix_id);
if (it == this->lumped_matrices.end()) {
AKANTU_SILENT_EXCEPTION("The lumped matrix "
<< matrix_id << " does not exists in " << this->id);
}
return *(it->second);
}
/* -------------------------------------------------------------------------- */
const Array<Real> & DOFManager::getLumpedMatrix(const ID & id) const {
ID matrix_id = this->id + ":lumped_mtx:" + id;
LumpedMatricesMap::const_iterator it = this->lumped_matrices.find(matrix_id);
if (it == this->lumped_matrices.end()) {
AKANTU_SILENT_EXCEPTION("The lumped matrix "
<< matrix_id << " does not exists in " << this->id);
}
return *(it->second);
}
/* -------------------------------------------------------------------------- */
bool DOFManager::hasLumpedMatrix(const ID & id) const {
ID mtx_id = this->id + ":lumped_mtx:" + id;
LumpedMatricesMap::const_iterator it = this->lumped_matrices.find(mtx_id);
return it != this->lumped_matrices.end();
}
/* -------------------------------------------------------------------------- */
NonLinearSolver & DOFManager::getNonLinearSolver(const ID & id) {
ID non_linear_solver_id = this->id + ":nls:" + id;
NonLinearSolversMap::const_iterator it =
this->non_linear_solvers.find(non_linear_solver_id);
if (it == this->non_linear_solvers.end()) {
AKANTU_EXCEPTION("The non linear solver " << non_linear_solver_id
<< " does not exists in "
<< this->id);
}
return *(it->second);
}
/* -------------------------------------------------------------------------- */
bool DOFManager::hasNonLinearSolver(const ID & id) const {
ID solver_id = this->id + ":nls:" + id;
NonLinearSolversMap::const_iterator it =
this->non_linear_solvers.find(solver_id);
return it != this->non_linear_solvers.end();
}
/* -------------------------------------------------------------------------- */
TimeStepSolver & DOFManager::getTimeStepSolver(const ID & id) {
ID time_step_solver_id = this->id + ":tss:" + id;
TimeStepSolversMap::const_iterator it =
this->time_step_solvers.find(time_step_solver_id);
if (it == this->time_step_solvers.end()) {
AKANTU_EXCEPTION("The non linear solver " << time_step_solver_id
<< " does not exists in "
<< this->id);
}
return *(it->second);
}
/* -------------------------------------------------------------------------- */
bool DOFManager::hasTimeStepSolver(const ID & solver_id) const {
ID time_step_solver_id = this->id + ":tss:" + solver_id;
TimeStepSolversMap::const_iterator it =
this->time_step_solvers.find(time_step_solver_id);
return it != this->time_step_solvers.end();
}
/* -------------------------------------------------------------------------- */
void DOFManager::fillNodesToElements() {
UInt spatial_dimension = this->mesh->getSpatialDimension();
Element e;
UInt nb_nodes = this->mesh->getNbNodes();
for (UInt n = 0; n < nb_nodes; ++n) {
this->nodes_to_elements[n]->clear();
}
for (ghost_type_t::iterator gt = ghost_type_t::begin();
gt != ghost_type_t::end(); ++gt) {
Mesh::type_iterator first =
this->mesh->firstType(spatial_dimension, *gt, _ek_not_defined);
Mesh::type_iterator last =
this->mesh->lastType(spatial_dimension, *gt, _ek_not_defined);
e.ghost_type = *gt;
for (; first != last; ++first) {
ElementType type = *first;
e.type = type;
e.kind = Mesh::getKind(type);
UInt nb_element = this->mesh->getNbElement(type, *gt);
Array<UInt>::const_iterator<Vector<UInt>> conn_it =
this->mesh->getConnectivity(type, *gt).begin(
Mesh::getNbNodesPerElement(type));
for (UInt el = 0; el < nb_element; ++el, ++conn_it) {
e.element = el;
const Vector<UInt> & conn = *conn_it;
for (UInt n = 0; n < conn.size(); ++n)
nodes_to_elements[conn(n)]->insert(e);
}
}
}
}
/* -------------------------------------------------------------------------- */
void DOFManager::savePreviousDOFs(const ID & dofs_id) {
this->getPreviousDOFs(dofs_id).copy(this->getDOFs(dofs_id));
}
/* -------------------------------------------------------------------------- */
/* Mesh Events */
/* -------------------------------------------------------------------------- */
void DOFManager::onNodesAdded(const Array<UInt> & nodes_list,
__attribute__((unused))
const NewNodesEvent & event) {
Array<UInt>::const_scalar_iterator it = nodes_list.begin();
Array<UInt>::const_scalar_iterator end = nodes_list.end();
UInt nb_nodes = this->mesh->getNbNodes();
this->nodes_to_elements.resize(nb_nodes);
for (; it != end; ++it) {
this->nodes_to_elements[*it] = new std::set<Element>();
}
}
/* -------------------------------------------------------------------------- */
void DOFManager::onNodesRemoved(const Array<UInt> & nodes_list,
const Array<UInt> & new_numbering,
__attribute__((unused))
const RemovedNodesEvent & event) {
Array<UInt>::const_scalar_iterator it = nodes_list.begin();
Array<UInt>::const_scalar_iterator end = nodes_list.end();
for (; it != end; ++it) {
delete this->nodes_to_elements[*it];
}
this->mesh->removeNodesFromArray(this->nodes_to_elements, new_numbering);
}
/* -------------------------------------------------------------------------- */
void DOFManager::onElementsAdded(const Array<Element> & elements_list,
__attribute__((unused))
const NewElementsEvent & event) {
Array<Element>::const_scalar_iterator it = elements_list.begin();
Array<Element>::const_scalar_iterator end = elements_list.end();
for (; it != end; ++it) {
const Element & elem = *it;
if (this->mesh->getSpatialDimension(elem.type) !=
this->mesh->getSpatialDimension())
continue;
const Array<UInt> & conn =
this->mesh->getConnectivity(elem.type, elem.ghost_type);
UInt nb_nodes_per_elem = this->mesh->getNbNodesPerElement(elem.type);
for (UInt n = 0; n < nb_nodes_per_elem; ++n) {
nodes_to_elements[conn(elem.element, n)]->insert(elem);
}
}
}
/* -------------------------------------------------------------------------- */
void DOFManager::onElementsRemoved(
__attribute__((unused)) const Array<Element> & elements_list,
__attribute__((unused)) const ElementTypeMapArray<UInt> & new_numbering,
__attribute__((unused)) const RemovedElementsEvent & event) {
this->fillNodesToElements();
}
/* -------------------------------------------------------------------------- */
void DOFManager::onElementsChanged(
__attribute__((unused)) const Array<Element> & old_elements_list,
__attribute__((unused)) const Array<Element> & new_elements_list,
__attribute__((unused)) const ElementTypeMapArray<UInt> & new_numbering,
__attribute__((unused)) const ChangedElementsEvent & event) {
this->fillNodesToElements();
}
/* -------------------------------------------------------------------------- */
-__END_AKANTU__
+} // akantu
diff --git a/src/model/dof_manager.hh b/src/model/dof_manager.hh
index a2a5ad576..c58a1a300 100644
--- a/src/model/dof_manager.hh
+++ b/src/model/dof_manager.hh
@@ -1,448 +1,454 @@
/**
* @file dof_manager.hh
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Wed Jul 22 11:43:43 2015
*
* @brief Class handling the different types of dofs
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "aka_memory.hh"
#include "mesh.hh"
-#include "non_linear_solver.hh"
-#include "time_step_solver.hh"
/* -------------------------------------------------------------------------- */
#include <map>
#include <set>
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_DOF_MANAGER_HH__
#define __AKANTU_DOF_MANAGER_HH__
-__BEGIN_AKANTU__
+namespace akantu {
+class TermsToAssemble;
+class NonLinearSolver;
+class TimeStepSolver;
+class SparseMatrix;
+}
+
+namespace akantu {
class DOFManager : protected Memory, protected MeshEventHandler {
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
public:
DOFManager(const ID & id = "dof_manager", const MemoryID & memory_id = 0);
virtual ~DOFManager();
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
public:
/// register a mesh for dof that have a support type on nodes
virtual void registerMesh(Mesh & mesh);
private:
/// common function to help registering dofs
void registerDOFsInternal(const ID & dof_id, Array<Real> & dofs_array);
public:
/// register an array of degree of freedom
virtual void registerDOFs(const ID & dof_id, Array<Real> & dofs_array,
const DOFSupportType & support_type);
/// the dof as an implied type of _dst_nodal and is defined only on a subset
/// of nodes
virtual void registerDOFs(const ID & dof_id, Array<Real> & dofs_array,
const ID & group_support);
/// register an array of previous values of the degree of freedom
virtual void registerDOFsPrevious(const ID & dof_id,
Array<Real> & dofs_array);
/// register an array of increment of degree of freedom
virtual void registerDOFsIncrement(const ID & dof_id,
Array<Real> & dofs_array);
/// register an array of derivatives for a particular dof array
virtual void registerDOFsDerivative(const ID & dof_id, UInt order,
Array<Real> & dofs_derivative);
/// register array representing the blocked degree of freedoms
virtual void registerBlockedDOFs(const ID & dof_id,
Array<bool> & blocked_dofs);
/// Assemble an array to the global residual array
virtual void assembleToResidual(const ID & dof_id,
const Array<Real> & array_to_assemble,
Real scale_factor = 1.) = 0;
/// Assemble an array to the global lumped matrix array
virtual void assembleToLumpedMatrix(const ID & dof_id,
const Array<Real> & array_to_assemble,
const ID & lumped_mtx,
Real scale_factor = 1.) = 0;
/**
* Assemble elementary values to a local array of the size nb_nodes *
* nb_dof_per_node. The dof number is implicitly considered as
* conn(el, n) * nb_nodes_per_element + d.
* With 0 < n < nb_nodes_per_element and 0 < d < nb_dof_per_node
**/
virtual void assembleElementalArrayLocalArray(
const Array<Real> & elementary_vect, Array<Real> & array_assembeled,
const ElementType & type, const GhostType & ghost_type,
Real scale_factor = 1.,
const Array<UInt> & filter_elements = empty_filter);
/**
* Assemble elementary values to the global residual array. The dof number is
* implicitly considered as conn(el, n) * nb_nodes_per_element + d.
* With 0 < n < nb_nodes_per_element and 0 < d < nb_dof_per_node
**/
virtual void assembleElementalArrayToResidual(
const ID & dof_id, const Array<Real> & elementary_vect,
const ElementType & type, const GhostType & ghost_type,
Real scale_factor = 1.,
const Array<UInt> & filter_elements = empty_filter);
/**
* Assemble elementary values to a global array corresponding to a lumped
* matrix
*/
virtual void assembleElementalArrayToLumpedMatrix(
const ID & dof_id, const Array<Real> & elementary_vect,
const ID & lumped_mtx, const ElementType & type,
const GhostType & ghost_type, Real scale_factor = 1.,
const Array<UInt> & filter_elements = empty_filter);
/**
* Assemble elementary values to the global residual array. The dof number is
* implicitly considered as conn(el, n) * nb_nodes_per_element + d. With 0 <
* n < nb_nodes_per_element and 0 < d < nb_dof_per_node
**/
virtual void assembleElementalMatricesToMatrix(
const ID & matrix_id, const ID & dof_id,
const Array<Real> & elementary_mat, const ElementType & type,
const GhostType & ghost_type = _not_ghost,
const MatrixType & elemental_matrix_type = _symmetric,
const Array<UInt> & filter_elements = empty_filter) = 0;
/// multiply a vector by a matrix and assemble the result to the residual
virtual void assembleMatMulVectToResidual(const ID & dof_id, const ID & A_id,
const Array<Real> & x,
Real scale_factor = 1) = 0;
/// multiply a vector by a lumped matrix and assemble the result to the
/// residual
virtual void assembleLumpedMatMulVectToResidual(const ID & dof_id,
const ID & A_id,
const Array<Real> & x,
Real scale_factor = 1) = 0;
- /// notation fully defined yet...
- // virtual void assemblePreassembledMatrix(const ID & matrix_id,
- // const ID & dof_id_m,
- // const ID & dof_id_n,
- // const Matrix<Real> & matrix) = 0;
+ /// assemble coupling terms between to dofs
+ virtual void assemblePreassembledMatrix(const ID & dof_id_m,
+ const ID & dof_id_n,
+ const ID & matrix_id,
+ const TermsToAssemble & terms) = 0;
/// sets the residual to 0
virtual void clearResidual() = 0;
/// sets the matrix to 0
virtual void clearMatrix(const ID & mtx) = 0;
/// sets the lumped matrix to 0
virtual void clearLumpedMatrix(const ID & mtx) = 0;
/// splits the solution storage from a global view to the per dof storages
void splitSolutionPerDOFs();
/// extract a lumped matrix part corresponding to a given dof
virtual void getLumpedMatrixPerDOFs(const ID & dof_id, const ID & lumped_mtx,
Array<Real> & lumped) = 0;
protected:
/// minimum functionality to implement per derived version of the DOFManager
/// to allow the splitSolutionPerDOFs function to work
virtual void getSolutionPerDOFs(const ID & dof_id,
Array<Real> & solution_array) = 0;
protected:
/* ------------------------------------------------------------------------ */
/// register a matrix
void registerSparseMatrix(const ID & matrix_id, SparseMatrix & matrix);
/// register a non linear solver instantiated by a derived class
void registerNonLinearSolver(const ID & non_linear_solver_id,
NonLinearSolver & non_linear_solver);
/// register a time step solver instantiated by a derived class
void registerTimeStepSolver(const ID & time_step_solver_id,
TimeStepSolver & time_step_solver);
/* ------------------------------------------------------------------------ */
/* Accessors */
/* ------------------------------------------------------------------------ */
public:
/// Get the equation numbers corresponding to a dof_id. This might be used to
/// access the matrix.
virtual void getEquationsNumbers(const ID & dof_id,
Array<UInt> & equation_numbers);
/// Global number of dofs
AKANTU_GET_MACRO(SystemSize, this->system_size, UInt);
/// Local number of dofs
AKANTU_GET_MACRO(LocalSystemSize, this->local_system_size, UInt);
/// Retrieve all the registered DOFs
std::vector<ID> getDOFIDs() const;
/* ------------------------------------------------------------------------ */
/* DOFs and derivatives accessors */
/* ------------------------------------------------------------------------ */
/// Get a reference to the registered dof array for a given id
inline Array<Real> & getDOFs(const ID & dofs_id);
/// Get the support type of a given dof
inline DOFSupportType getSupportType(const ID & dofs_id) const;
/// are the dofs registered
inline bool hasDOFs(const ID & dofs_id) const;
/// Get a reference to the registered dof derivatives array for a given id
inline Array<Real> & getDOFsDerivatives(const ID & dofs_id, UInt order);
/// Does the dof has derivatives
inline bool hasDOFsDerivatives(const ID & dofs_id, UInt order) const;
/// Get a reference to the blocked dofs array registered for the given id
inline const Array<bool> & getBlockedDOFs(const ID & dofs_id) const;
/// Get a reference to the registered dof increment array for a given id
inline Array<Real> & getDOFsIncrement(const ID & dofs_id);
/// Does the dof has a increment array
inline bool hasDOFsIncrement(const ID & dofs_id) const;
/// Does the dof has a previous array
inline Array<Real> & getPreviousDOFs(const ID & dofs_id);
/// Get a reference to the registered dof array for previous step values a
/// given id
inline bool hasPreviousDOFs(const ID & dofs_id) const;
/// saves the values from dofs to previous dofs
virtual void savePreviousDOFs(const ID & dofs_id);
/// Get a reference to the solution array registered for the given id
inline const Array<Real> & getSolution(const ID & dofs_id) const;
/* ------------------------------------------------------------------------ */
/* Matrices accessors */
/* ------------------------------------------------------------------------ */
/// Get an instance of a new SparseMatrix
virtual SparseMatrix & getNewMatrix(const ID & matrix_id,
const MatrixType & matrix_type) = 0;
/// Get an instance of a new SparseMatrix as a copy of the SparseMatrix
/// matrix_to_copy_id
virtual SparseMatrix & getNewMatrix(const ID & matrix_id,
const ID & matrix_to_copy_id) = 0;
/// Get the reference of an existing matrix
SparseMatrix & getMatrix(const ID & matrix_id);
/// check if the given matrix exists
bool hasMatrix(const ID & matrix_id) const;
/// Get an instance of a new lumped matrix
virtual Array<Real> & getNewLumpedMatrix(const ID & matrix_id);
/// Get the lumped version of a given matrix
const Array<Real> & getLumpedMatrix(const ID & matrix_id) const;
/// Get the lumped version of a given matrix
Array<Real> & getLumpedMatrix(const ID & matrix_id);
/// check if the given matrix exists
bool hasLumpedMatrix(const ID & matrix_id) const;
/* ------------------------------------------------------------------------ */
/* Non linear system solver */
/* ------------------------------------------------------------------------ */
/// Get instance of a non linear solver
virtual NonLinearSolver & getNewNonLinearSolver(
const ID & nls_solver_id,
const NonLinearSolverType & _non_linear_solver_type) = 0;
/// get instance of a non linear solver
virtual NonLinearSolver & getNonLinearSolver(const ID & nls_solver_id);
/// check if the given solver exists
bool hasNonLinearSolver(const ID & solver_id) const;
/* ------------------------------------------------------------------------ */
/* Time-Step Solver */
/* ------------------------------------------------------------------------ */
/// Get instance of a time step solver
virtual TimeStepSolver &
getNewTimeStepSolver(const ID & time_step_solver_id,
const TimeStepSolverType & type,
NonLinearSolver & non_linear_solver) = 0;
/// get instance of a time step solver
virtual TimeStepSolver & getTimeStepSolver(const ID & time_step_solver_id);
/// check if the given solver exists
bool hasTimeStepSolver(const ID & solver_id) const;
/* ------------------------------------------------------------------------ */
AKANTU_GET_MACRO(Mesh, *mesh, const Mesh &);
/* ------------------------------------------------------------------------ */
/* MeshEventHandler interface */
/* ------------------------------------------------------------------------ */
private:
/// fills the nodes_to_elements structure
void fillNodesToElements();
public:
/// function to implement to react on akantu::NewNodesEvent
virtual void onNodesAdded(const Array<UInt> & nodes_list,
const NewNodesEvent & event);
/// function to implement to react on akantu::RemovedNodesEvent
virtual void onNodesRemoved(const Array<UInt> & nodes_list,
const Array<UInt> & new_numbering,
const RemovedNodesEvent & event);
/// function to implement to react on akantu::NewElementsEvent
virtual void onElementsAdded(const Array<Element> & elements_list,
const NewElementsEvent & event);
/// function to implement to react on akantu::RemovedElementsEvent
virtual void
onElementsRemoved(const Array<Element> & elements_list,
const ElementTypeMapArray<UInt> & new_numbering,
const RemovedElementsEvent & event);
/// function to implement to react on akantu::ChangedElementsEvent
virtual void
onElementsChanged(const Array<Element> & old_elements_list,
const Array<Element> & new_elements_list,
const ElementTypeMapArray<UInt> & new_numbering,
const ChangedElementsEvent & event);
protected:
struct DOFData;
inline DOFData & getDOFData(const ID & dof_id);
inline const DOFData & getDOFData(const ID & dof_id) const;
template <class _DOFData>
inline _DOFData & getDOFDataTyped(const ID & dof_id);
template <class _DOFData>
inline const _DOFData & getDOFDataTyped(const ID & dof_id) const;
virtual DOFData & getNewDOFData(const ID & dof_id);
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
protected:
/// dof representations in the dof manager
struct DOFData {
- DOFData(const ID & dof_id);
+ DOFData() = delete;
+ explicit DOFData(const ID & dof_id);
virtual ~DOFData();
/// DOF support type (nodal, general) this is needed to determine how the
/// dof are shared among processors
DOFSupportType support_type;
ID group_support;
/// Degree of freedom array
Array<Real> * dof;
/// Blocked degree of freedoms array
Array<bool> * blocked_dofs;
/// Degree of freedoms increment
Array<Real> * increment;
/// Degree of freedoms at previous step
Array<Real> * previous;
/// Solution associated to the dof
Array<Real> solution;
/// local numbering equation numbers
Array<UInt> local_equation_number;
/* ---------------------------------------------------------------------- */
/* data for dynamic simulations */
/* ---------------------------------------------------------------------- */
/// Degree of freedom derivatives arrays
std::vector<Array<Real> *> dof_derivatives;
};
typedef Array<std::set<Element> *> NodesToElements;
/// This info is stored to simplify the dynamic changes
NodesToElements nodes_to_elements;
/// type to store dofs information
typedef std::map<ID, DOFData *> DOFStorage;
/// type to store all the matrices
typedef std::map<ID, SparseMatrix *> SparseMatricesMap;
/// type to store all the lumped matrices
typedef std::map<ID, Array<Real> *> LumpedMatricesMap;
/// type to store all the non linear solver
typedef std::map<ID, NonLinearSolver *> NonLinearSolversMap;
/// type to store all the time step solver
typedef std::map<ID, TimeStepSolver *> TimeStepSolversMap;
/// store a reference to the dof arrays
DOFStorage dofs;
/// list of sparse matrices that where created
SparseMatricesMap matrices;
/// list of lumped matrices
LumpedMatricesMap lumped_matrices;
/// non linear solvers storage
NonLinearSolversMap non_linear_solvers;
/// time step solvers storage
TimeStepSolversMap time_step_solvers;
/// reference to the underlying mesh
Mesh * mesh;
/// Total number of degrees of freedom (size with the ghosts)
UInt local_system_size;
/// Number of purely local dofs (size without the ghosts)
UInt pure_local_system_size;
/// Total number of degrees of freedom
UInt system_size;
};
-__END_AKANTU__
+} // akantu
#include "dof_manager_inline_impl.cc"
#endif /* __AKANTU_DOF_MANAGER_HH__ */
diff --git a/src/model/dof_manager_default.cc b/src/model/dof_manager_default.cc
index 0a0658957..02cebb37e 100644
--- a/src/model/dof_manager_default.cc
+++ b/src/model/dof_manager_default.cc
@@ -1,669 +1,688 @@
/**
* @file dof_manager_default.cc
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Tue Aug 11 16:21:01 2015
*
* @brief Implementation of the default DOFManager
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "dof_manager_default.hh"
#include "dof_synchronizer.hh"
#include "element_group.hh"
#include "non_linear_solver_default.hh"
#include "sparse_matrix_aij.hh"
#include "static_communicator.hh"
#include "time_step_solver_default.hh"
+#include "terms_to_assemble.hh"
/* -------------------------------------------------------------------------- */
#include <numeric>
/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
inline void DOFManagerDefault::addSymmetricElementalMatrixToSymmetric(
SparseMatrixAIJ & matrix, const Matrix<Real> & elementary_mat,
const Vector<UInt> & equation_numbers, UInt max_size) {
for (UInt i = 0; i < elementary_mat.rows(); ++i) {
UInt c_irn = equation_numbers(i);
if (c_irn < max_size) {
for (UInt j = i; j < elementary_mat.cols(); ++j) {
UInt c_jcn = equation_numbers(j);
if (c_jcn < max_size) {
matrix(c_irn, c_jcn) += elementary_mat(i, j);
}
}
}
}
}
/* -------------------------------------------------------------------------- */
inline void DOFManagerDefault::addUnsymmetricElementalMatrixToSymmetric(
SparseMatrixAIJ & matrix, const Matrix<Real> & elementary_mat,
const Vector<UInt> & equation_numbers, UInt max_size) {
for (UInt i = 0; i < elementary_mat.rows(); ++i) {
UInt c_irn = equation_numbers(i);
if (c_irn < max_size) {
for (UInt j = 0; j < elementary_mat.cols(); ++j) {
UInt c_jcn = equation_numbers(j);
if (c_jcn < max_size) {
if (c_jcn >= c_irn) {
matrix(c_irn, c_jcn) += elementary_mat(i, j);
}
}
}
}
}
}
/* -------------------------------------------------------------------------- */
inline void DOFManagerDefault::addElementalMatrixToUnsymmetric(
SparseMatrixAIJ & matrix, const Matrix<Real> & elementary_mat,
const Vector<UInt> & equation_numbers, UInt max_size) {
for (UInt i = 0; i < elementary_mat.rows(); ++i) {
UInt c_irn = equation_numbers(i);
if (c_irn < max_size) {
for (UInt j = 0; j < elementary_mat.cols(); ++j) {
UInt c_jcn = equation_numbers(j);
if (c_jcn < max_size) {
matrix(c_irn, c_jcn) += elementary_mat(i, j);
}
}
}
}
}
/* -------------------------------------------------------------------------- */
DOFManagerDefault::DOFManagerDefault(const ID & id, const MemoryID & memory_id)
: DOFManager(id, memory_id), residual(0, 1, std::string(id + ":residual")),
global_solution(0, 1, std::string(id + ":global_solution")),
global_blocked_dofs(0, 1, std::string(id + ":global_blocked_dofs")),
previous_global_blocked_dofs(
0, 1, std::string(id + ":previous_global_blocked_dofs")),
dofs_type(0, 1, std::string(id + ":dofs_type")),
data_cache(0, 1, std::string(id + ":data_cache_array")),
jacobian_release(0),
global_equation_number(0, 1, "global_equation_number"),
synchronizer(nullptr) {}
/* -------------------------------------------------------------------------- */
DOFManagerDefault::~DOFManagerDefault() { delete synchronizer; }
/* -------------------------------------------------------------------------- */
template <typename T>
void DOFManagerDefault::assembleToGlobalArray(
const ID & dof_id, const Array<T> & array_to_assemble,
Array<T> & global_array, T scale_factor) {
AKANTU_DEBUG_IN();
const Array<UInt> & equation_number = this->getLocalEquationNumbers(dof_id);
UInt nb_degree_of_freedoms =
array_to_assemble.getSize() * array_to_assemble.getNbComponent();
AKANTU_DEBUG_ASSERT(equation_number.getSize() == nb_degree_of_freedoms,
"The array to assemble does not have a correct size."
<< " (" << array_to_assemble.getID() << ")");
typename Array<T>::const_scalar_iterator arr_it =
array_to_assemble.begin_reinterpret(nb_degree_of_freedoms);
Array<UInt>::const_scalar_iterator equ_it = equation_number.begin();
for (UInt d = 0; d < nb_degree_of_freedoms; ++d, ++arr_it, ++equ_it) {
global_array(*equ_it) += scale_factor * (*arr_it);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
DOFManagerDefault::DOFDataDefault::DOFDataDefault(const ID & dof_id)
: DOFData(dof_id), associated_nodes(0, 1, dof_id + "associated_nodes") {}
/* -------------------------------------------------------------------------- */
DOFManager::DOFData & DOFManagerDefault::getNewDOFData(const ID & dof_id) {
DOFDataDefault * dofs_storage = new DOFDataDefault(dof_id);
this->dofs[dof_id] = dofs_storage;
return *dofs_storage;
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::registerMesh(Mesh & mesh) {
DOFManager::registerMesh(mesh);
delete synchronizer;
- synchronizer = new DOFSynchronizer(*this, this->id + ":dof_synchronizer",
- this->memory_id, mesh.getCommunicator());
+ if(mesh.isDistributed())
+ synchronizer = new DOFSynchronizer(*this, this->id + ":dof_synchronizer",
+ this->memory_id, mesh.getCommunicator());
+ else synchronizer = nullptr;
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::registerDOFsInternal(const ID & dof_id, UInt nb_dofs,
UInt nb_pure_local_dofs) {
// Count the number of pure local dofs per proc
- StaticCommunicator & comm = StaticCommunicator::getStaticCommunicator();
+ StaticCommunicator & comm = mesh->getCommunicator();
UInt prank = comm.whoAmI();
UInt psize = comm.getNbProc();
Array<UInt> nb_dofs_per_proc(psize);
nb_dofs_per_proc(prank) = nb_pure_local_dofs;
comm.allGather(nb_dofs_per_proc);
UInt first_global_dofs_id = std::accumulate(
nb_dofs_per_proc.begin(), nb_dofs_per_proc.begin() + prank, 0);
DOFDataDefault & dof_data = this->getDOFDataTyped<DOFDataDefault>(dof_id);
const DOFSupportType & support_type = dof_data.support_type;
const ID & group = dof_data.group_support;
dof_data.local_equation_number.resize(nb_dofs);
this->global_equation_number.resize(this->local_system_size);
- // set the equation numbers
+// set the equation numbers
UInt first_dof_id = this->local_system_size - nb_dofs;
const Array<UInt> * support_nodes = nullptr;
if (group != "mesh") {
support_nodes =
- &this->mesh->getElementGroup(group).getNodeGroup().getNodes();
+ &this->mesh->getElementGroup(group).getNodeGroup().getNodes();
}
if (support_type == _dst_nodal) {
dof_data.associated_nodes.resize(nb_dofs);
}
this->dofs_type.resize(local_system_size);
for (UInt d = 0; d < nb_dofs; ++d) {
UInt local_eq_num = first_dof_id + d;
dof_data.local_equation_number(d) = local_eq_num;
UInt global_eq_num = first_global_dofs_id + d;
this->global_equation_number(local_eq_num) = global_eq_num;
this->global_to_local_mapping[global_eq_num] = local_eq_num;
switch (support_type) {
case _dst_nodal: {
UInt node = d / dof_data.dof->getNbComponent();
if (support_nodes)
node = (*support_nodes)(node);
this->dofs_type(local_eq_num) = this->mesh->getNodeType(node);
dof_data.associated_nodes(d) = node;
break;
}
case _dst_generic: {
this->dofs_type(local_eq_num) = _nt_normal;
break;
}
default: { AKANTU_EXCEPTION("This type of dofs is not handled yet."); }
}
}
this->residual.resize(this->local_system_size);
this->global_solution.resize(this->local_system_size);
this->global_blocked_dofs.resize(this->local_system_size);
if (this->synchronizer)
this->synchronizer->registerDOFs(dof_id);
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::registerDOFs(const ID & dof_id,
Array<Real> & dofs_array,
const DOFSupportType & support_type) {
// stores the current numbers of dofs
UInt nb_dofs_old = this->local_system_size;
UInt nb_pure_local_dofs_old = this->pure_local_system_size;
// update or create the dof_data
DOFManager::registerDOFs(dof_id, dofs_array, support_type);
UInt nb_dofs = this->local_system_size - nb_dofs_old;
UInt nb_pure_local_dofs =
this->pure_local_system_size - nb_pure_local_dofs_old;
this->registerDOFsInternal(dof_id, nb_dofs, nb_pure_local_dofs);
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::registerDOFs(const ID & dof_id,
Array<Real> & dofs_array,
const ID & group_support) {
// stores the current numbers of dofs
UInt nb_dofs_old = this->local_system_size;
UInt nb_pure_local_dofs_old = this->pure_local_system_size;
// update or create the dof_data
DOFManager::registerDOFs(dof_id, dofs_array, group_support);
UInt nb_dofs = this->local_system_size - nb_dofs_old;
UInt nb_pure_local_dofs =
this->pure_local_system_size - nb_pure_local_dofs_old;
this->registerDOFsInternal(dof_id, nb_dofs, nb_pure_local_dofs);
}
/* -------------------------------------------------------------------------- */
SparseMatrix & DOFManagerDefault::getNewMatrix(const ID & id,
const MatrixType & matrix_type) {
ID matrix_id = this->id + ":mtx:" + id;
SparseMatrix * sm = new SparseMatrixAIJ(*this, matrix_type, matrix_id);
this->registerSparseMatrix(matrix_id, *sm);
return *sm;
}
/* -------------------------------------------------------------------------- */
SparseMatrix & DOFManagerDefault::getNewMatrix(const ID & id,
const ID & matrix_to_copy_id) {
ID matrix_id = this->id + ":mtx:" + id;
SparseMatrixAIJ & sm_to_copy = this->getMatrix(matrix_to_copy_id);
SparseMatrix * sm = new SparseMatrixAIJ(sm_to_copy, matrix_id);
this->registerSparseMatrix(matrix_id, *sm);
return *sm;
}
/* -------------------------------------------------------------------------- */
SparseMatrixAIJ & DOFManagerDefault::getMatrix(const ID & id) {
SparseMatrix & matrix = DOFManager::getMatrix(id);
return dynamic_cast<SparseMatrixAIJ &>(matrix);
}
/* -------------------------------------------------------------------------- */
NonLinearSolver &
DOFManagerDefault::getNewNonLinearSolver(const ID & id,
const NonLinearSolverType & type) {
ID non_linear_solver_id = this->id + ":nls:" + id;
NonLinearSolver * nls = NULL;
switch (type) {
#if defined(AKANTU_IMPLICIT)
case _nls_newton_raphson:
case _nls_newton_raphson_modified: {
nls = new NonLinearSolverNewtonRaphson(*this, type, non_linear_solver_id,
this->memory_id);
break;
}
case _nls_linear: {
nls = new NonLinearSolverLinear(*this, type, non_linear_solver_id,
this->memory_id);
break;
}
#endif
case _nls_lumped: {
nls = new NonLinearSolverLumped(*this, type, non_linear_solver_id,
this->memory_id);
break;
}
default:
AKANTU_EXCEPTION("The asked type of non linear solver is not supported by "
"this dof manager");
}
this->registerNonLinearSolver(non_linear_solver_id, *nls);
return *nls;
}
/* -------------------------------------------------------------------------- */
TimeStepSolver &
DOFManagerDefault::getNewTimeStepSolver(const ID & id,
const TimeStepSolverType & type,
NonLinearSolver & non_linear_solver) {
ID time_step_solver_id = this->id + ":tss:" + id;
TimeStepSolver * tss = new TimeStepSolverDefault(
*this, type, non_linear_solver, time_step_solver_id, this->memory_id);
this->registerTimeStepSolver(time_step_solver_id, *tss);
return *tss;
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::clearResidual() {
this->residual.resize(this->local_system_size);
this->residual.clear();
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::clearMatrix(const ID & mtx) {
this->getMatrix(mtx).clear();
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::clearLumpedMatrix(const ID & mtx) {
this->getLumpedMatrix(mtx).clear();
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::updateGlobalBlockedDofs() {
DOFStorage::iterator it = this->dofs.begin();
DOFStorage::iterator end = this->dofs.end();
this->previous_global_blocked_dofs.copy(this->global_blocked_dofs);
this->global_blocked_dofs.resize(this->local_system_size);
this->global_blocked_dofs.clear();
for (; it != end; ++it) {
DOFData & dof_data = *it->second;
this->assembleToGlobalArray(it->first, *dof_data.blocked_dofs,
this->global_blocked_dofs, true);
}
}
/* -------------------------------------------------------------------------- */
template <typename T>
void DOFManagerDefault::getArrayPerDOFs(const ID & dof_id,
const Array<T> & global_array,
Array<T> & local_array) const {
AKANTU_DEBUG_IN();
const Array<UInt> & equation_number = this->getLocalEquationNumbers(dof_id);
UInt nb_degree_of_freedoms = equation_number.getSize();
local_array.resize(nb_degree_of_freedoms / local_array.getNbComponent());
auto loc_it = local_array.begin_reinterpret(nb_degree_of_freedoms);
auto equ_it = equation_number.begin();
for (UInt d = 0; d < nb_degree_of_freedoms; ++d, ++loc_it, ++equ_it) {
(*loc_it) = global_array(*equ_it);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::getEquationsNumbers(const ID & dof_id,
Array<UInt> & equation_numbers) {
AKANTU_DEBUG_IN();
this->getArrayPerDOFs(dof_id, this->global_equation_number, equation_numbers);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::getSolutionPerDOFs(const ID & dof_id,
Array<Real> & solution_array) {
AKANTU_DEBUG_IN();
this->getArrayPerDOFs(dof_id, this->global_solution, solution_array);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::getLumpedMatrixPerDOFs(const ID & dof_id,
const ID & lumped_mtx,
Array<Real> & lumped) {
AKANTU_DEBUG_IN();
this->getArrayPerDOFs(dof_id, this->getLumpedMatrix(lumped_mtx), lumped);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::assembleToResidual(
const ID & dof_id, const Array<Real> & array_to_assemble,
Real scale_factor) {
AKANTU_DEBUG_IN();
this->assembleToGlobalArray(dof_id, array_to_assemble, this->residual,
scale_factor);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::assembleToLumpedMatrix(
const ID & dof_id, const Array<Real> & array_to_assemble,
const ID & lumped_mtx, Real scale_factor) {
AKANTU_DEBUG_IN();
Array<Real> & lumped = this->getLumpedMatrix(lumped_mtx);
this->assembleToGlobalArray(dof_id, array_to_assemble, lumped, scale_factor);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::assembleMatMulVectToResidual(const ID & dof_id,
const ID & A_id,
const Array<Real> & x,
Real scale_factor) {
SparseMatrixAIJ & A = this->getMatrix(A_id);
// Array<Real> data_cache(this->local_system_size, 1, 0.);
this->data_cache.resize(this->local_system_size);
this->data_cache.clear();
this->assembleToGlobalArray(dof_id, x, data_cache, 1.);
A.matVecMul(data_cache, this->residual, scale_factor, 1.);
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::assembleLumpedMatMulVectToResidual(
const ID & dof_id, const ID & A_id, const Array<Real> & x,
Real scale_factor) {
const Array<Real> & A = this->getLumpedMatrix(A_id);
// Array<Real> data_cache(this->local_system_size, 1, 0.);
this->data_cache.resize(this->local_system_size);
this->data_cache.clear();
this->assembleToGlobalArray(dof_id, x, data_cache, scale_factor);
Array<Real>::const_scalar_iterator A_it = A.begin();
Array<Real>::const_scalar_iterator A_end = A.end();
Array<Real>::const_scalar_iterator x_it = data_cache.begin();
Array<Real>::scalar_iterator r_it = this->residual.begin();
for (; A_it != A_end; ++A_it, ++x_it, ++r_it) {
*r_it += *A_it * *x_it;
}
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::assembleElementalMatricesToMatrix(
const ID & matrix_id, const ID & dof_id, const Array<Real> & elementary_mat,
const ElementType & type, const GhostType & ghost_type,
const MatrixType & elemental_matrix_type,
const Array<UInt> & filter_elements) {
AKANTU_DEBUG_IN();
this->addToProfile(matrix_id, dof_id, type, ghost_type);
DOFData & dof_data = this->getDOFData(dof_id);
const Array<UInt> & equation_number = this->getLocalEquationNumbers(dof_id);
SparseMatrixAIJ & A = this->getMatrix(matrix_id);
UInt nb_element;
if (ghost_type == _not_ghost) {
nb_element = this->mesh->getNbElement(type);
} else {
AKANTU_DEBUG_TO_IMPLEMENT();
}
UInt * filter_it = nullptr;
if (filter_elements != empty_filter) {
nb_element = filter_elements.getSize();
filter_it = filter_elements.storage();
} else {
if (dof_data.group_support != "mesh") {
const Array<UInt> & group_elements =
this->mesh->getElementGroup(dof_data.group_support).getElements(type, ghost_type);
nb_element = group_elements.getSize();
filter_it = group_elements.storage();
} else {
nb_element = this->mesh->getNbElement(type, ghost_type);
}
}
AKANTU_DEBUG_ASSERT(elementary_mat.getSize() == nb_element,
"The vector elementary_mat("
<< elementary_mat.getID()
<< ") has not the good size.");
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_degree_of_freedom = dof_data.dof->getNbComponent();
const Array<UInt> & connectivity =
this->mesh->getConnectivity(type, ghost_type);
auto conn_begin = connectivity.begin(nb_nodes_per_element);
auto conn_it = conn_begin;
UInt size_mat = nb_nodes_per_element * nb_degree_of_freedom;
Vector<UInt> element_eq_nb(nb_degree_of_freedom * nb_nodes_per_element);
Array<Real>::const_matrix_iterator el_mat_it =
elementary_mat.begin(size_mat, size_mat);
for (UInt e = 0; e < nb_element; ++e, ++el_mat_it) {
if (filter_it)
conn_it = conn_begin + *filter_it;
this->extractElementEquationNumber(equation_number, *conn_it,
nb_degree_of_freedom, element_eq_nb);
this->localToGlobalEquationNumber(element_eq_nb);
if (filter_it) ++filter_it;
else ++conn_it;
if (A.getMatrixType() == _symmetric)
if (elemental_matrix_type == _symmetric)
this->addSymmetricElementalMatrixToSymmetric(
A, *el_mat_it, element_eq_nb, A.getSize());
else
this->addUnsymmetricElementalMatrixToSymmetric(
A, *el_mat_it, element_eq_nb, A.getSize());
else
this->addElementalMatrixToUnsymmetric(A, *el_mat_it, element_eq_nb,
A.getSize());
}
AKANTU_DEBUG_OUT();
}
+/* -------------------------------------------------------------------------- */
+void DOFManagerDefault::assemblePreassembledMatrix(const ID & dof_id_m,
+ const ID & dof_id_n,
+ const ID & matrix_id,
+ const TermsToAssemble & terms) {
+ const Array<UInt> & equation_number_m = this->getLocalEquationNumbers(dof_id_m);
+ const Array<UInt> & equation_number_n = this->getLocalEquationNumbers(dof_id_n);
+ SparseMatrixAIJ & A = this->getMatrix(matrix_id);
+
+ for(const auto& term : terms) {
+ A.addToMatrix(equation_number_m(term.i()),
+ equation_number_n(term.j()),
+ term);
+ }
+}
+
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::addToProfile(const ID & matrix_id, const ID & dof_id,
const ElementType & type,
const GhostType & ghost_type) {
AKANTU_DEBUG_IN();
const DOFData & dof_data = this->getDOFData(dof_id);
if (dof_data.support_type != _dst_nodal)
return;
auto mat_dof = std::make_pair(matrix_id, dof_id);
auto type_pair = std::make_pair(type, ghost_type);
auto prof_it = this->matrix_profiled_dofs.find(mat_dof);
if (prof_it != this->matrix_profiled_dofs.end() &&
std::find(prof_it->second.begin(), prof_it->second.end(), type_pair) !=
prof_it->second.end())
return;
UInt nb_degree_of_freedom_per_node = dof_data.dof->getNbComponent();
const Array<UInt> & equation_number = this->getLocalEquationNumbers(dof_id);
SparseMatrixAIJ & A = this->getMatrix(matrix_id);
UInt size = A.getSize();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
const auto & connectivity = this->mesh->getConnectivity(type, ghost_type);
auto cbegin = connectivity.begin(nb_nodes_per_element);
auto cit = cbegin;
UInt nb_elements = connectivity.getSize();
UInt * ge_it = nullptr;
if (dof_data.group_support != "mesh") {
const Array<UInt> & group_elements =
this->mesh->getElementGroup(dof_data.group_support)
.getElements(type, ghost_type);
ge_it = group_elements.storage();
nb_elements = group_elements.getSize();
}
UInt size_mat = nb_nodes_per_element * nb_degree_of_freedom_per_node;
Vector<UInt> element_eq_nb(size_mat);
for (UInt e = 0; e < nb_elements; ++e) {
if (ge_it) cit = cbegin + *ge_it;
this->extractElementEquationNumber(
equation_number, *cit, nb_degree_of_freedom_per_node, element_eq_nb);
this->localToGlobalEquationNumber(element_eq_nb);
if (ge_it) ++ge_it;
else ++cit;
for (UInt i = 0; i < size_mat; ++i) {
UInt c_irn = element_eq_nb(i);
if (c_irn < size) {
for (UInt j = 0; j < size_mat; ++j) {
UInt c_jcn = element_eq_nb(j);
if (c_jcn < size) {
A.addToProfile(c_irn, c_jcn);
}
}
}
}
}
this->matrix_profiled_dofs[mat_dof].push_back(type_pair);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void DOFManagerDefault::applyBoundary() {
this->updateGlobalBlockedDofs();
SparseMatrixAIJ & J = this->getMatrix("J");
if (this->jacobian_release == J.getValueRelease()) {
Array<bool>::const_scalar_iterator it = global_blocked_dofs.begin();
Array<bool>::const_scalar_iterator end = global_blocked_dofs.end();
Array<bool>::const_scalar_iterator pit =
previous_global_blocked_dofs.begin();
for (; it != end && *it == *pit; ++it, ++pit)
;
if (it != end)
J.applyBoundary();
} else {
J.applyBoundary();
}
this->jacobian_release = J.getValueRelease();
}
/* -------------------------------------------------------------------------- */
__END_AKANTU__
diff --git a/src/model/dof_manager_default.hh b/src/model/dof_manager_default.hh
index c41696d0a..63969e34f 100644
--- a/src/model/dof_manager_default.hh
+++ b/src/model/dof_manager_default.hh
@@ -1,306 +1,312 @@
/**
* @file dof_manager_default.hh
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Tue Aug 11 14:06:18 2015
*
* @brief Default implementation of the dof manager
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "dof_manager.hh"
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_DOF_MANAGER_DEFAULT_HH__
#define __AKANTU_DOF_MANAGER_DEFAULT_HH__
namespace akantu {
class SparseMatrixAIJ;
class NonLinearSolverDefault;
class TimeStepSolverDefault;
class DOFSynchronizer;
}
namespace akantu {
class DOFManagerDefault : public DOFManager {
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
public:
DOFManagerDefault(const ID & id = "dof_manager_default",
const MemoryID & memory_id = 0);
virtual ~DOFManagerDefault();
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
public:
/// register a mesh for dof that have a support type on nodes
virtual void registerMesh(Mesh & mesh);
private:
void registerDOFsInternal(const ID & dof_id, UInt nb_dofs,
UInt nb_pure_local_dofs);
public:
/// register an array of degree of freedom
virtual void registerDOFs(const ID & dof_id, Array<Real> & dofs_array,
const DOFSupportType & support_type);
/// the dof as an implied type of _dst_nodal and is defined only on a subset
/// of nodes
virtual void registerDOFs(const ID & dof_id, Array<Real> & dofs_array,
const ID & group_support);
/// Assemble an array to the global residual array
virtual void assembleToResidual(const ID & dof_id,
const Array<Real> & array_to_assemble,
Real scale_factor = 1.);
/// Assemble an array to the global lumped matrix array
virtual void assembleToLumpedMatrix(const ID & dof_id,
const Array<Real> & array_to_assemble,
const ID & lumped_mtx,
Real scale_factor = 1.);
/**
* Assemble elementary values to the global matrix. The dof number is
* implicitly considered as conn(el, n) * nb_nodes_per_element + d.
* With 0 < n < nb_nodes_per_element and 0 < d < nb_dof_per_node
**/
virtual void assembleElementalMatricesToMatrix(
const ID & matrix_id, const ID & dof_id,
const Array<Real> & elementary_mat, const ElementType & type,
const GhostType & ghost_type, const MatrixType & elemental_matrix_type,
const Array<UInt> & filter_elements);
/// multiply a vector by a matrix and assemble the result to the residual
virtual void assembleMatMulVectToResidual(const ID & dof_id, const ID & A_id,
const Array<Real> & x,
Real scale_factor = 1);
/// multiply a vector by a lumped matrix and assemble the result to the
/// residual
virtual void assembleLumpedMatMulVectToResidual(const ID & dof_id,
const ID & A_id,
const Array<Real> & x,
Real scale_factor = 1);
+ /// assemble coupling terms between to dofs
+ virtual void assemblePreassembledMatrix(const ID & dof_id_m,
+ const ID & dof_id_n,
+ const ID & matrix_id,
+ const TermsToAssemble & terms);
+
protected:
/// Assemble an array to the global residual array
template <typename T>
void assembleToGlobalArray(const ID & dof_id,
const Array<T> & array_to_assemble,
Array<T> & global_array, T scale_factor);
public:
/// clear the residual
virtual void clearResidual();
/// sets the matrix to 0
virtual void clearMatrix(const ID & mtx);
/// sets the lumped matrix to 0
virtual void clearLumpedMatrix(const ID & mtx);
/// update the global dofs vector
virtual void updateGlobalBlockedDofs();
/// apply boundary conditions to jacobian matrix
virtual void applyBoundary();
virtual void getEquationsNumbers(const ID & dof_id,
Array<UInt> & equation_numbers);
protected:
/// Get local part of an array corresponding to a given dofdata
template <typename T>
void getArrayPerDOFs(const ID & dof_id, const Array<T> & global_array,
Array<T> & local_array) const;
/// Get the part of the solution corresponding to the dof_id
virtual void getSolutionPerDOFs(const ID & dof_id,
Array<Real> & solution_array);
/// fill a Vector with the equation numbers corresponding to the given
/// connectivity
inline void extractElementEquationNumber(
const Array<UInt> & equation_numbers, const Vector<UInt> & connectivity,
UInt nb_degree_of_freedom, Vector<UInt> & local_equation_number);
public:
/// extract a lumped matrix part corresponding to a given dof
virtual void getLumpedMatrixPerDOFs(const ID & dof_id, const ID & lumped_mtx,
Array<Real> & lumped);
private:
/// Add a symmetric matrices to a symmetric sparse matrix
void addSymmetricElementalMatrixToSymmetric(
SparseMatrixAIJ & matrix, const Matrix<Real> & element_mat,
const Vector<UInt> & equation_numbers, UInt max_size);
/// Add a unsymmetric matrices to a symmetric sparse matrix (i.e. cohesive
/// elements)
void addUnsymmetricElementalMatrixToSymmetric(
SparseMatrixAIJ & matrix, const Matrix<Real> & element_mat,
const Vector<UInt> & equation_numbers, UInt max_size);
/// Add a matrices to a unsymmetric sparse matrix
void addElementalMatrixToUnsymmetric(SparseMatrixAIJ & matrix,
const Matrix<Real> & element_mat,
const Vector<UInt> & equation_numbers,
UInt max_size);
void addToProfile(const ID & matrix_id, const ID & dof_id,
const ElementType & type, const GhostType & ghost_type);
/* ------------------------------------------------------------------------ */
/* Accessors */
/* ------------------------------------------------------------------------ */
public:
/// Get an instance of a new SparseMatrix
virtual SparseMatrix & getNewMatrix(const ID & matrix_id,
const MatrixType & matrix_type);
/// Get an instance of a new SparseMatrix as a copy of the SparseMatrix
/// matrix_to_copy_id
virtual SparseMatrix & getNewMatrix(const ID & matrix_id,
const ID & matrix_to_copy_id);
/// Get the reference of an existing matrix
SparseMatrixAIJ & getMatrix(const ID & matrix_id);
/* ------------------------------------------------------------------------ */
/* Non Linear Solver */
/* ------------------------------------------------------------------------ */
/// Get instance of a non linear solver
virtual NonLinearSolver &
getNewNonLinearSolver(const ID & nls_solver_id,
const NonLinearSolverType & _non_linear_solver_type);
/* ------------------------------------------------------------------------ */
/* Time-Step Solver */
/* ------------------------------------------------------------------------ */
/// Get instance of a time step solver
TimeStepSolver & getNewTimeStepSolver(const ID & id,
const TimeStepSolverType & type,
NonLinearSolver & non_linear_solver);
/* ------------------------------------------------------------------------ */
/// Get the solution array
AKANTU_GET_MACRO_NOT_CONST(GlobalSolution, global_solution, Array<Real> &);
/// Get the residual array
AKANTU_GET_MACRO_NOT_CONST(Residual, residual, Array<Real> &);
/// Get the blocked dofs array
AKANTU_GET_MACRO(GlobalBlockedDOFs, global_blocked_dofs, const Array<bool> &);
/// Get the blocked dofs array
AKANTU_GET_MACRO(PreviousGlobalBlockedDOFs, previous_global_blocked_dofs,
const Array<bool> &);
/// Get the location type of a given dof
inline bool isLocalOrMasterDOF(UInt dof_num);
/// get the equation numbers (in local numbering) corresponding to a dof ID
inline const Array<UInt> & getLocalEquationNumbers(const ID & dof_id) const;
/// return the local index of the global equation number
inline UInt globalToLocalEquationNumber(UInt global) const;
/// converts local equation numbers to global equation numbers;
template <class S> inline void localToGlobalEquationNumber(S & inout);
/// get the array of dof types (use only if you know what you do...)
inline Int getDOFType(UInt local_id) const;
/// get the array of dof types (use only if you know what you do...)
inline const Array<UInt> & getDOFsAssociatedNodes(const ID & dof_id) const;
protected:
virtual DOFData & getNewDOFData(const ID & dof_id);
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
protected:
struct DOFDataDefault : public DOFData {
DOFDataDefault(const ID & dof_id);
/// associated node for _dst_nodal dofs only
Array<UInt> associated_nodes;
};
typedef std::map<ID, SparseMatrixAIJ *> AIJMatrixMap;
typedef std::map<ID, NonLinearSolverDefault *> DefaultNonLinearSolversMap;
typedef std::map<ID, TimeStepSolverDefault *> DefaultTimeStepSolversMap;
typedef std::map<std::pair<ID, ID>,
std::vector<std::pair<ElementType, GhostType>>>
DOFToMatrixProfile;
/// contains the the dofs that where added to the profile of a given matrix.
DOFToMatrixProfile matrix_profiled_dofs;
/// rhs to the system of equation corresponding to the residual linked to the
/// different dofs
Array<Real> residual;
/// solution of the system of equation corresponding to the different dofs
Array<Real> global_solution;
/// blocked degree of freedom in the system equation corresponding to the
/// different dofs
Array<bool> global_blocked_dofs;
/// blocked degree of freedom in the system equation corresponding to the
/// different dofs
Array<bool> previous_global_blocked_dofs;
/// define the dofs type, local, shared, ghost
Array<Int> dofs_type;
/// Map of the different matrices stored in the dof manager
AIJMatrixMap aij_matrices;
/// Map of the different time step solvers stored with there real type
DefaultTimeStepSolversMap default_time_step_solver_map;
/// Memory cache, this is an array to keep the temporary memory needed for
/// some operations, it is meant to be resized or cleared when needed
Array<Real> data_cache;
/// Release at last apply boundary on jacobian
UInt jacobian_release;
/// equation number in global numbering
Array<UInt> global_equation_number;
typedef unordered_map<UInt, UInt>::type equation_numbers_map;
/// dual information of global_equation_number
equation_numbers_map global_to_local_mapping;
/// synchronizer to maintain coherency in dof fields
DOFSynchronizer * synchronizer;
};
} // akantu
#include "dof_manager_default_inline_impl.cc"
#endif /* __AKANTU_DOF_MANAGER_DEFAULT_HH__ */
diff --git a/src/model/dof_manager_inline_impl.cc b/src/model/dof_manager_inline_impl.cc
index c80ee58ad..7fa134ceb 100644
--- a/src/model/dof_manager_inline_impl.cc
+++ b/src/model/dof_manager_inline_impl.cc
@@ -1,142 +1,143 @@
/**
* @file dof_manager_inline_impl.cc
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Wed Aug 12 11:07:01 2015
*
* @brief
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "dof_manager.hh"
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_DOF_MANAGER_INLINE_IMPL_CC__
#define __AKANTU_DOF_MANAGER_INLINE_IMPL_CC__
-__BEGIN_AKANTU__
+namespace akantu {
/* -------------------------------------------------------------------------- */
inline bool DOFManager::hasDOFs(const ID & dof_id) const {
DOFStorage::const_iterator it = this->dofs.find(dof_id);
return it != this->dofs.end();
}
/* -------------------------------------------------------------------------- */
inline DOFManager::DOFData & DOFManager::getDOFData(const ID & dof_id) {
DOFStorage::iterator it = this->dofs.find(dof_id);
if (it == this->dofs.end()) {
AKANTU_EXCEPTION("The dof " << dof_id << " does not exists in "
<< this->id);
}
return *it->second;
}
/* -------------------------------------------------------------------------- */
const DOFManager::DOFData & DOFManager::getDOFData(const ID & dof_id) const {
DOFStorage::const_iterator it = this->dofs.find(dof_id);
if (it == this->dofs.end()) {
AKANTU_EXCEPTION("The dof " << dof_id << " does not exists in "
<< this->id);
}
return *it->second;
}
/* -------------------------------------------------------------------------- */
template <class _DOFData>
inline _DOFData & DOFManager::getDOFDataTyped(const ID & dof_id) {
return dynamic_cast<_DOFData &>(this->getDOFData(dof_id));
}
/* -------------------------------------------------------------------------- */
template <class _DOFData>
inline const _DOFData & DOFManager::getDOFDataTyped(const ID & dof_id) const {
return dynamic_cast<const _DOFData &>(this->getDOFData(dof_id));
}
/* -------------------------------------------------------------------------- */
inline Array<Real> & DOFManager::getDOFs(const ID & dofs_id) {
return *(this->getDOFData(dofs_id).dof);
}
/* -------------------------------------------------------------------------- */
inline DOFSupportType DOFManager::getSupportType(const ID & dofs_id) const {
return this->getDOFData(dofs_id).support_type;
}
/* -------------------------------------------------------------------------- */
inline Array<Real> & DOFManager::getPreviousDOFs(const ID & dofs_id) {
return *(this->getDOFData(dofs_id).previous);
}
/* -------------------------------------------------------------------------- */
inline bool DOFManager::hasPreviousDOFs(const ID & dofs_id) const {
return (this->getDOFData(dofs_id).previous != NULL);
}
/* -------------------------------------------------------------------------- */
inline Array<Real> & DOFManager::getDOFsIncrement(const ID & dofs_id) {
return *(this->getDOFData(dofs_id).increment);
}
/* -------------------------------------------------------------------------- */
inline bool DOFManager::hasDOFsIncrement(const ID & dofs_id) const {
return (this->getDOFData(dofs_id).increment != NULL);
}
/* -------------------------------------------------------------------------- */
inline Array<Real> & DOFManager::getDOFsDerivatives(const ID & dofs_id,
UInt order) {
std::vector<Array<Real> *> & derivatives =
this->getDOFData(dofs_id).dof_derivatives;
if ((order > derivatives.size()) || (derivatives[order - 1] == NULL))
AKANTU_EXCEPTION("No derivatives of order " << order << " present in "
<< this->id << " for dof "
<< dofs_id);
return *derivatives[order - 1];
}
/* -------------------------------------------------------------------------- */
inline bool DOFManager::hasDOFsDerivatives(const ID & dofs_id,
UInt order) const{
const std::vector<Array<Real> *> & derivatives =
this->getDOFData(dofs_id).dof_derivatives;
return ((order < derivatives.size()) && (derivatives[order - 1] != NULL));
}
/* -------------------------------------------------------------------------- */
inline const Array<Real> & DOFManager::getSolution(const ID & dofs_id) const {
return this->getDOFData(dofs_id).solution;
}
/* -------------------------------------------------------------------------- */
inline const Array<bool> &
DOFManager::getBlockedDOFs(const ID & dofs_id) const {
return *(this->getDOFData(dofs_id).blocked_dofs);
}
/* -------------------------------------------------------------------------- */
-__END_AKANTU__
+
+} // akantu
#endif /* __AKANTU_DOF_MANAGER_INLINE_IMPL_CC__ */
diff --git a/src/model/model_solver.cc b/src/model/model_solver.cc
index ca528ea4a..8ab03e3e0 100644
--- a/src/model/model_solver.cc
+++ b/src/model/model_solver.cc
@@ -1,671 +1,674 @@
/**
* @file model_solver.cc
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Wed Aug 12 13:31:56 2015
*
* @brief Implementation of ModelSolver
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "model_solver.hh"
#include "dof_manager.hh"
+#include "non_linear_solver.hh"
+#include "time_step_solver.hh"
+
#include "mesh.hh"
#if defined(AKANTU_USE_MPI)
#include "mpi_type_wrapper.hh"
#endif
#include "dof_manager_default.hh"
#if defined(AKANTU_USE_PETSC)
#include "dof_manager_petsc.hh"
#endif
/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
ModelSolver::ModelSolver(Mesh & mesh, const ID & id, UInt memory_id)
: Parsable(_st_model_solver, id), SolverCallback(), parent_id(id),
parent_memory_id(memory_id), mesh(mesh), dof_manager(NULL),
default_solver_id("") {}
/* -------------------------------------------------------------------------- */
ModelSolver::~ModelSolver() { delete this->dof_manager; }
/* -------------------------------------------------------------------------- */
void ModelSolver::initDOFManager() {
std::pair<Parser::const_section_iterator, Parser::const_section_iterator>
sub_sect = getStaticParser().getSubSections(_st_model_solver);
// default without external solver activated at compilation same as mumps that
// is the historical solver but with only the lumped solver
ID solver_type = "explicit";
#if defined(AKANTU_USE_MUMPS)
solver_type = "mumps";
#elif defined(AKANTU_USE_PETSC)
solver_type = "petsc";
#endif
const ParserSection * section = NULL;
Parser::const_section_iterator it;
for (it = sub_sect.first; it != sub_sect.second && section == NULL; ++it) {
if (it->getName() == this->parent_id) {
section = &(*it);
solver_type = section->getOption(solver_type);
}
}
if (section) {
this->initDOFManager(*section, solver_type);
} else {
this->initDOFManager(solver_type);
}
}
/* -------------------------------------------------------------------------- */
void ModelSolver::initDOFManager(const ID & solver_type) {
if (solver_type == "explicit") {
ID id = this->parent_id + ":dof_manager_default";
this->dof_manager = new DOFManagerDefault(id, this->parent_memory_id);
} else if (solver_type == "petsc") {
#if defined(AKANTU_USE_PETSC)
ID id = this->parent_id + ":dof_manager_petsc";
this->dof_manager = new DOFManagerPETSc(id, this->parent_memory_id);
#else
AKANTU_EXCEPTION(
"To use PETSc you have to activate it in the compilations options");
#endif
} else if (solver_type == "mumps") {
#if defined(AKANTU_USE_MUMPS)
ID id = this->parent_id + ":dof_manager_default";
this->dof_manager = new DOFManagerDefault(id, this->parent_memory_id);
#else
AKANTU_EXCEPTION(
"To use MUMPS you have to activate it in the compilations options");
#endif
} else {
AKANTU_EXCEPTION(
"To use the solver "
<< solver_type
<< " you will have to code it. This is an unknown solver type.");
}
this->dof_manager->registerMesh(mesh);
this->setDOFManager(*this->dof_manager);
}
/* -------------------------------------------------------------------------- */
template <typename T> static T getOptionToType(const std::string & opt_str) {
std::stringstream sstr(opt_str);
T opt;
sstr >> opt;
return opt;
}
/* -------------------------------------------------------------------------- */
void ModelSolver::initDOFManager(const ParserSection & section,
const ID & solver_type) {
this->initDOFManager(solver_type);
std::pair<Parser::const_section_iterator, Parser::const_section_iterator>
sub_sect = section.getSubSections(_st_time_step_solver);
Parser::const_section_iterator it;
for (it = sub_sect.first; it != sub_sect.second; ++it) {
ID solver_id = it->getName();
std::string str = it->getOption();
TimeStepSolverType tss_type =
it->getParameter("type", this->getDefaultSolverType());
ModelSolverOptions tss_options = this->getDefaultSolverOptions(tss_type);
std::pair<Parser::const_section_iterator, Parser::const_section_iterator>
sub_solvers_sect = it->getSubSections(_st_non_linear_solver);
Parser::const_section_iterator sub_it;
UInt nb_non_linear_solver_section =
it->getNbSubSections(_st_non_linear_solver);
NonLinearSolverType nls_type = tss_options.non_linear_solver_type;
if (nb_non_linear_solver_section == 1) {
const ParserSection & nls_section = *(sub_solvers_sect.first);
nls_type = getOptionToType<NonLinearSolverType>(nls_section.getName());
} else if (nb_non_linear_solver_section > 0) {
AKANTU_EXCEPTION("More than one non linear solver are provided for the "
"time step solver "
<< solver_id);
}
this->getNewSolver(solver_id, tss_type, nls_type);
if (nb_non_linear_solver_section == 1) {
const ParserSection & nls_section = *(sub_solvers_sect.first);
this->dof_manager->getNonLinearSolver(solver_id).parseSection(
nls_section);
}
std::pair<Parser::const_section_iterator, Parser::const_section_iterator>
sub_integrator_sect = it->getSubSections(_st_integration_scheme);
for (sub_it = sub_integrator_sect.first;
sub_it != sub_integrator_sect.second; ++sub_it) {
const ParserSection & is_section = *sub_it;
const ID & dof_id = is_section.getName();
IntegrationSchemeType it_type = is_section.getParameter(
"type", tss_options.integration_scheme_type[dof_id]);
IntegrationScheme::SolutionType s_type = is_section.getParameter(
"solution_type", tss_options.solution_type[dof_id]);
this->setIntegrationScheme(solver_id, dof_id, it_type, s_type);
}
std::map<ID, IntegrationSchemeType>::const_iterator it =
tss_options.integration_scheme_type.begin();
std::map<ID, IntegrationSchemeType>::const_iterator end =
tss_options.integration_scheme_type.end();
for (; it != end; ++it) {
if (!this->hasIntegrationScheme(solver_id, it->first)) {
this->setIntegrationScheme(solver_id, it->first, it->second,
tss_options.solution_type[it->first]);
}
}
}
if (section.hasParameter("default_solver")) {
ID default_solver = section.getParameter("default_solver");
this->setDefaultSolver(default_solver);
}
}
/* -------------------------------------------------------------------------- */
TimeStepSolver & ModelSolver::getSolver(const ID & solver_id) {
ID tmp_solver_id = solver_id;
if (tmp_solver_id == "")
tmp_solver_id = this->default_solver_id;
TimeStepSolver & tss = this->dof_manager->getTimeStepSolver(tmp_solver_id);
return tss;
}
/* -------------------------------------------------------------------------- */
const TimeStepSolver & ModelSolver::getSolver(const ID & solver_id) const {
ID tmp_solver_id = solver_id;
if (solver_id == "")
tmp_solver_id = this->default_solver_id;
const TimeStepSolver & tss =
this->dof_manager->getTimeStepSolver(tmp_solver_id);
return tss;
}
/* -------------------------------------------------------------------------- */
TimeStepSolver & ModelSolver::getTimeStepSolver(const ID & solver_id) {
return this->getSolver(solver_id);
}
/* -------------------------------------------------------------------------- */
const TimeStepSolver &
ModelSolver::getTimeStepSolver(const ID & solver_id) const {
return this->getSolver(solver_id);
}
/* -------------------------------------------------------------------------- */
NonLinearSolver & ModelSolver::getNonLinearSolver(const ID & solver_id) {
return this->getSolver(solver_id).getNonLinearSolver();
}
/* -------------------------------------------------------------------------- */
const NonLinearSolver &
ModelSolver::getNonLinearSolver(const ID & solver_id) const {
return this->getSolver(solver_id).getNonLinearSolver();
}
/* -------------------------------------------------------------------------- */
bool ModelSolver::hasSolver(const ID & solver_id) const {
ID tmp_solver_id = solver_id;
if (solver_id == "")
tmp_solver_id = this->default_solver_id;
return this->dof_manager->hasTimeStepSolver(tmp_solver_id);
}
/* -------------------------------------------------------------------------- */
void ModelSolver::setDefaultSolver(const ID & solver_id) {
AKANTU_DEBUG_ASSERT(
this->hasSolver(solver_id),
"Cannot set the default solver to a solver that does not exists");
this->default_solver_id = solver_id;
}
/* -------------------------------------------------------------------------- */
void ModelSolver::solveStep(const ID & solver_id) {
AKANTU_DEBUG_IN();
TimeStepSolver & tss = this->getSolver(solver_id);
// make one non linear solve
tss.solveStep(*this);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void ModelSolver::getNewSolver(const ID & solver_id,
TimeStepSolverType time_step_solver_type,
NonLinearSolverType non_linear_solver_type) {
if (this->default_solver_id == "") {
this->default_solver_id = solver_id;
}
if (non_linear_solver_type == _nls_auto) {
switch (time_step_solver_type) {
case _tsst_dynamic:
case _tsst_static:
non_linear_solver_type = _nls_newton_raphson;
break;
case _tsst_dynamic_lumped:
non_linear_solver_type = _nls_lumped;
break;
}
}
this->initSolver(time_step_solver_type, non_linear_solver_type);
NonLinearSolver & nls = this->dof_manager->getNewNonLinearSolver(
solver_id, non_linear_solver_type);
this->dof_manager->getNewTimeStepSolver(solver_id, time_step_solver_type,
nls);
}
/* -------------------------------------------------------------------------- */
Real ModelSolver::getTimeStep(const ID & solver_id) const {
const TimeStepSolver & tss = this->getSolver(solver_id);
return tss.getTimeStep();
}
/* -------------------------------------------------------------------------- */
void ModelSolver::setTimeStep(Real time_step, const ID & solver_id) {
TimeStepSolver & tss = this->getSolver(solver_id);
return tss.setTimeStep(time_step);
}
/* -------------------------------------------------------------------------- */
void ModelSolver::setIntegrationScheme(
const ID & solver_id, const ID & dof_id,
const IntegrationSchemeType & integration_scheme_type,
IntegrationScheme::SolutionType solution_type) {
TimeStepSolver & tss = this->dof_manager->getTimeStepSolver(solver_id);
tss.setIntegrationScheme(dof_id, integration_scheme_type, solution_type);
}
/* -------------------------------------------------------------------------- */
bool ModelSolver::hasDefaultSolver() const {
return (this->default_solver_id != "");
}
/* -------------------------------------------------------------------------- */
bool ModelSolver::hasIntegrationScheme(const ID & solver_id,
const ID & dof_id) const {
TimeStepSolver & tss = this->dof_manager->getTimeStepSolver(solver_id);
return tss.hasIntegrationScheme(dof_id);
}
/* -------------------------------------------------------------------------- */
void ModelSolver::predictor() {}
/* -------------------------------------------------------------------------- */
void ModelSolver::corrector() {}
/* -------------------------------------------------------------------------- */
TimeStepSolverType ModelSolver::getDefaultSolverType() const {
return _tsst_dynamic_lumped;
}
/* -------------------------------------------------------------------------- */
ModelSolverOptions
ModelSolver::getDefaultSolverOptions(__attribute__((unused))
const TimeStepSolverType & type) const {
ModelSolverOptions options;
options.non_linear_solver_type = _nls_auto;
return options;
}
/* -------------------------------------------------------------------------- */
// void ModelSolver::setIntegrationScheme(
// const ID & solver_id, const ID & dof_id,
// const IntegrationSchemeType & integration_scheme_type) {}
/* -------------------------------------------------------------------------- */
// /* --------------------------------------------------------------------------
// */
// template <NewmarkBeta::IntegrationSchemeCorrectorType type>
// void SolidMechanicsModel::solve(Array<Real> &increment, Real block_val,
// bool need_factorize, bool
// has_profile_changed) {
// if(has_profile_changed) {
// this->initJacobianMatrix();
// need_factorize = true;
// }
// updateResidualInternal(); //doesn't do anything for static
// if(need_factorize) {
// Real c = 0.,d = 0.,e = 0.;
// if(method == _static) {
// AKANTU_DEBUG_INFO("Solving K inc = r");
// e = 1.;
// } else {
// AKANTU_DEBUG_INFO("Solving (c M + d C + e K) inc = r");
// NewmarkBeta * nmb_int = dynamic_cast<NewmarkBeta *>(integrator);
// c = nmb_int->getAccelerationCoefficient<type>(time_step);
// d = nmb_int->getVelocityCoefficient<type>(time_step);
// e = nmb_int->getDisplacementCoefficient<type>(time_step);
// }
// jacobian_matrix->clear();
// // J = c M + d C + e K
// if(stiffness_matrix)
// jacobian_matrix->add(*stiffness_matrix, e);
// if(mass_matrix)
// jacobian_matrix->add(*mass_matrix, c);
// #if !defined(AKANTU_NDEBUG)
// if(mass_matrix && AKANTU_DEBUG_TEST(dblDump))
// mass_matrix->saveMatrix("M.mtx");
// #endif
// if(velocity_damping_matrix)
// jacobian_matrix->add(*velocity_damping_matrix, d);
// jacobian_matrix->applyBoundary(*blocked_dofs, block_val);
// #if !defined(AKANTU_NDEBUG)
// if(AKANTU_DEBUG_TEST(dblDump))
// jacobian_matrix->saveMatrix("J.mtx");
// #endif
// solver->factorize();
// }
// // if (rhs.getSize() != 0)
// // solver->setRHS(rhs);
// // else
// solver->setOperators();
// solver->setRHS(*residual);
// // solve @f[ J \delta w = r @f]
// solver->solve(increment);
// UInt nb_nodes = displacement-> getSize();
// UInt nb_degree_of_freedom = displacement->getNbComponent() * nb_nodes;
// bool * blocked_dofs_val = blocked_dofs->storage();
// Real * increment_val = increment.storage();
// for (UInt j = 0; j < nb_degree_of_freedom;
// ++j,++increment_val, ++blocked_dofs_val) {
// if ((*blocked_dofs_val))
// *increment_val = 0.0;
// }
// }
// /* --------------------------------------------------------------------------
// */
// template<SolveConvergenceMethod cmethod, SolveConvergenceCriteria criteria>
// bool SolidMechanicsModel::solveStatic(Real tolerance, UInt max_iteration,
// bool do_not_factorize) {
// AKANTU_DEBUG_INFO("Solving Ku = f");
// AKANTU_DEBUG_ASSERT(stiffness_matrix != NULL,
// "You should first initialize the implicit solver and
// assemble the stiffness matrix by calling
// initImplicit");
// AnalysisMethod analysis_method=method;
// Real error = 0.;
// method=_static;
// bool converged = this->template solveStep<cmethod, criteria>(tolerance,
// error, max_iteration, do_not_factorize);
// method=analysis_method;
// return converged;
// }
// /* --------------------------------------------------------------------------
// */
// template<SolveConvergenceMethod cmethod, SolveConvergenceCriteria criteria>
// bool SolidMechanicsModel::solveStep(Real tolerance,
// UInt max_iteration) {
// Real error = 0.;
// return this->template solveStep<cmethod,criteria>(tolerance,
// error,
// max_iteration);
// }
// /* --------------------------------------------------------------------------
// */
// template<SolveConvergenceMethod cmethod, SolveConvergenceCriteria criteria>
// bool SolidMechanicsModel::solveStep(Real tolerance, Real & error, UInt
// max_iteration,
// bool do_not_factorize) {
// EventManager::sendEvent(SolidMechanicsModelEvent::BeforeSolveStepEvent(method));
// this->implicitPred();
// this->updateResidual();
// AKANTU_DEBUG_ASSERT(stiffness_matrix != NULL,
// "You should first initialize the implicit solver and
// assemble the stiffness matrix");
// bool need_factorize = !do_not_factorize;
// if (method==_implicit_dynamic) {
// AKANTU_DEBUG_ASSERT(mass_matrix != NULL,
// "You should first initialize the implicit solver and
// assemble the mass matrix");
// }
// switch (cmethod) {
// case _scm_newton_raphson_tangent:
// case _scm_newton_raphson_tangent_not_computed:
// break;
// case _scm_newton_raphson_tangent_modified:
// this->assembleStiffnessMatrix();
// break;
// default:
// AKANTU_DEBUG_ERROR("The resolution method " << cmethod << " has not been
// implemented!");
// }
// this->n_iter = 0;
// bool converged = false;
// error = 0.;
// if(criteria == _scc_residual) {
// converged = this->testConvergence<criteria> (tolerance, error);
// if(converged) return converged;
// }
// do {
// if (cmethod == _scm_newton_raphson_tangent)
// this->assembleStiffnessMatrix();
// solve<NewmarkBeta::_displacement_corrector> (*increment, 1.,
// need_factorize);
// this->implicitCorr();
// if(criteria == _scc_residual) this->updateResidual();
// converged = this->testConvergence<criteria> (tolerance, error);
// if(criteria == _scc_increment && !converged) this->updateResidual();
// //this->dump();
// this->n_iter++;
// AKANTU_DEBUG_INFO("[" << criteria << "] Convergence iteration "
// << std::setw(std::log10(max_iteration)) << this->n_iter
// << ": error " << error << (converged ? " < " : " > ")
// << tolerance);
// switch (cmethod) {
// case _scm_newton_raphson_tangent:
// need_factorize = true;
// break;
// case _scm_newton_raphson_tangent_not_computed:
// case _scm_newton_raphson_tangent_modified:
// need_factorize = false;
// break;
// default:
// AKANTU_DEBUG_ERROR("The resolution method " << cmethod << " has not
// been implemented!");
// }
// } while (!converged && this->n_iter < max_iteration);
// // this makes sure that you have correct strains and stresses after the
// solveStep function (e.g., for dumping)
// if(criteria == _scc_increment) this->updateResidual();
// if (converged) {
// EventManager::sendEvent(SolidMechanicsModelEvent::AfterSolveStepEvent(method));
// } else if(this->n_iter == max_iteration) {
// AKANTU_DEBUG_WARNING("[" << criteria << "] Convergence not reached after
// "
// << std::setw(std::log10(max_iteration)) <<
// this->n_iter <<
// " iteration" << (this->n_iter == 1 ? "" : "s") <<
// "!" << std::endl);
// }
// return converged;
// }
// void SolidMechanicsModel::updateResidualInternal() {
// AKANTU_DEBUG_IN();
// AKANTU_DEBUG_INFO("Update the residual");
// // f = f_ext - f_int - Ma - Cv = r - Ma - Cv;
// if(method != _static) {
// // f -= Ma
// if(mass_matrix) {
// // if full mass_matrix
// Array<Real> * Ma = new Array<Real>(*acceleration, true, "Ma");
// *Ma *= *mass_matrix;
// /// \todo check unit conversion for implicit dynamics
// // *Ma /= f_m2a
// *residual -= *Ma;
// delete Ma;
// } else if (mass) {
// // else lumped mass
// UInt nb_nodes = acceleration->getSize();
// UInt nb_degree_of_freedom = acceleration->getNbComponent();
// Real * mass_val = mass->storage();
// Real * accel_val = acceleration->storage();
// Real * res_val = residual->storage();
// bool * blocked_dofs_val = blocked_dofs->storage();
// for (UInt n = 0; n < nb_nodes * nb_degree_of_freedom; ++n) {
// if(!(*blocked_dofs_val)) {
// *res_val -= *accel_val * *mass_val /f_m2a;
// }
// blocked_dofs_val++;
// res_val++;
// mass_val++;
// accel_val++;
// }
// } else {
// AKANTU_DEBUG_ERROR("No function called to assemble the mass matrix.");
// }
// // f -= Cv
// if(velocity_damping_matrix) {
// Array<Real> * Cv = new Array<Real>(*velocity);
// *Cv *= *velocity_damping_matrix;
// *residual -= *Cv;
// delete Cv;
// }
// }
// AKANTU_DEBUG_OUT();
// }
// /* --------------------------------------------------------------------------
// */
// void SolidMechanicsModel::solveLumped(Array<Real> & x,
// const Array<Real> & A,
// const Array<Real> & b,
// const Array<bool> & blocked_dofs,
// Real alpha) {
// Real * A_val = A.storage();
// Real * b_val = b.storage();
// Real * x_val = x.storage();
// bool * blocked_dofs_val = blocked_dofs.storage();
// UInt nb_degrees_of_freedom = x.getSize() * x.getNbComponent();
// for (UInt n = 0; n < nb_degrees_of_freedom; ++n) {
// if(!(*blocked_dofs_val)) {
// *x_val = alpha * (*b_val / *A_val);
// }
// x_val++;
// A_val++;
// b_val++;
// blocked_dofs_val++;
// }
// }
/* -------------------------------------------------------------------------- */
// void TimeStepSolverDefault::updateAcceleration() {
// AKANTU_DEBUG_IN();
// updateResidualInternal();
// if (method == _explicit_lumped_mass) {
// /* residual = residual_{n+1} - M * acceleration_n therefore
// solution = increment acceleration not acceleration */
// solveLumped(*increment_acceleration, *mass, *residual, *blocked_dofs,
// f_m2a);
// } else if (method == _explicit_consistent_mass) {
// solve<NewmarkBeta::_acceleration_corrector>(*increment_acceleration);
// }
// AKANTU_DEBUG_OUT();
// }
__END_AKANTU__
diff --git a/src/model/solid_mechanics/material.cc b/src/model/solid_mechanics/material.cc
index 581a039df..40713adec 100644
--- a/src/model/solid_mechanics/material.cc
+++ b/src/model/solid_mechanics/material.cc
@@ -1,1670 +1,1670 @@
+
+
/**
* @file material.cc
*
* @author Aurelia Isabel Cuba Ramos <aurelia.cubaramos@epfl.ch>
* @author Daniel Pino Muñoz <daniel.pinomunoz@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
* @author Marco Vocialta <marco.vocialta@epfl.ch>
*
* @date creation: Tue Jul 27 2010
* @date last modification: Tue Nov 24 2015
*
* @brief Implementation of the common part of the material class
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "material.hh"
#include "solid_mechanics_model.hh"
-#include "sparse_matrix.hh"
-#include "dof_synchronizer.hh"
/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
Material::Material(SolidMechanicsModel & model, const ID & id)
: Memory(id, model.getMemoryID()), Parsable(_st_material, id),
is_init(false), fem(&(model.getFEEngine())), finite_deformation(false),
name(""), model(&model),
spatial_dimension(this->model->getSpatialDimension()),
element_filter("element_filter", id, this->memory_id),
stress("stress", *this), eigengradu("eigen_grad_u", *this),
gradu("grad_u", *this), green_strain("green_strain", *this),
piola_kirchhoff_2("piola_kirchhoff_2", *this),
potential_energy("potential_energy", *this), is_non_local(false),
use_previous_stress(false), use_previous_gradu(false),
interpolation_inverse_coordinates("interpolation inverse coordinates",
*this),
interpolation_points_matrices("interpolation points matrices", *this) {
AKANTU_DEBUG_IN();
/// for each connectivity types allocate the element filer array of the
/// material
model.getMesh().initElementTypeMapArray(element_filter, 1, spatial_dimension,
false, _ek_regular);
this->initialize();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
Material::Material(SolidMechanicsModel & model, UInt dim, const Mesh & mesh,
FEEngine & fe_engine, const ID & id)
: Memory(id, model.getMemoryID()), Parsable(_st_material, id),
is_init(false), fem(&(model.getFEEngine())), finite_deformation(false),
name(""), model(&model), spatial_dimension(dim),
element_filter("element_filter", id, this->memory_id),
stress("stress", *this, dim, fe_engine, this->element_filter),
eigengradu("eigen_grad_u", *this, dim, fe_engine, this->element_filter),
gradu("gradu", *this, dim, fe_engine, this->element_filter),
green_strain("green_strain", *this, dim, fe_engine, this->element_filter),
piola_kirchhoff_2("poila_kirchhoff_2", *this, dim, fe_engine,
this->element_filter),
potential_energy("potential_energy", *this, dim, fe_engine,
this->element_filter),
is_non_local(false), use_previous_stress(false),
use_previous_gradu(false),
interpolation_inverse_coordinates("interpolation inverse_coordinates",
*this, dim, fe_engine,
this->element_filter),
interpolation_points_matrices("interpolation points matrices", *this, dim,
fe_engine, this->element_filter) {
AKANTU_DEBUG_IN();
mesh.initElementTypeMapArray(element_filter, 1, spatial_dimension, false,
_ek_regular);
this->initialize();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
Material::~Material() {
AKANTU_DEBUG_IN();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::initialize() {
registerParam("rho", rho, Real(0.), _pat_parsable | _pat_modifiable,
"Density");
registerParam("name", name, std::string(), _pat_parsable | _pat_readable);
registerParam("finite_deformation", finite_deformation, false,
_pat_parsable | _pat_readable, "Is finite deformation");
registerParam("inelastic_deformation", inelastic_deformation, false,
_pat_internal, "Is inelastic deformation");
/// allocate gradu stress for local elements
eigengradu.initialize(spatial_dimension * spatial_dimension);
gradu.initialize(spatial_dimension * spatial_dimension);
stress.initialize(spatial_dimension * spatial_dimension);
potential_energy.initialize(1);
this->model->registerEventHandler(*this);
}
/* -------------------------------------------------------------------------- */
void Material::initMaterial() {
AKANTU_DEBUG_IN();
if (finite_deformation) {
this->piola_kirchhoff_2.initialize(spatial_dimension * spatial_dimension);
if (use_previous_stress)
this->piola_kirchhoff_2.initializeHistory();
this->green_strain.initialize(spatial_dimension * spatial_dimension);
}
if (use_previous_stress)
this->stress.initializeHistory();
if (use_previous_gradu)
this->gradu.initializeHistory();
for (std::map<ID, InternalField<Real> *>::iterator it =
internal_vectors_real.begin();
it != internal_vectors_real.end(); ++it)
it->second->resize();
for (std::map<ID, InternalField<UInt> *>::iterator it =
internal_vectors_uint.begin();
it != internal_vectors_uint.end(); ++it)
it->second->resize();
for (std::map<ID, InternalField<bool> *>::iterator it =
internal_vectors_bool.begin();
it != internal_vectors_bool.end(); ++it)
it->second->resize();
is_init = true;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::savePreviousState() {
AKANTU_DEBUG_IN();
for (std::map<ID, InternalField<Real> *>::iterator it =
internal_vectors_real.begin();
it != internal_vectors_real.end(); ++it) {
if (it->second->hasHistory())
it->second->saveCurrentValues();
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
/**
* Compute the residual by assembling @f$\int_{e} \sigma_e \frac{\partial
* \varphi}{\partial X} dX @f$
*
* @param[in] displacements nodes displacements
* @param[in] ghost_type compute the residual for _ghost or _not_ghost element
*/
// void Material::updateResidual(GhostType ghost_type) {
// AKANTU_DEBUG_IN();
// computeAllStresses(ghost_type);
// assembleResidual(ghost_type);
// AKANTU_DEBUG_OUT();
// }
/* -------------------------------------------------------------------------- */
void Material::assembleInternalForces(GhostType ghost_type) {
AKANTU_DEBUG_IN();
UInt spatial_dimension = model->getSpatialDimension();
if (!finite_deformation) {
Array<Real> & internal_force = const_cast<Array<Real> &>(model->getInternalForce());
Mesh & mesh = fem->getMesh();
Mesh::type_iterator it =
element_filter.firstType(spatial_dimension, ghost_type);
Mesh::type_iterator last_type =
element_filter.lastType(spatial_dimension, ghost_type);
for (; it != last_type; ++it) {
Array<UInt> & elem_filter = element_filter(*it, ghost_type);
UInt nb_element = elem_filter.getSize();
if (nb_element) {
const Array<Real> & shapes_derivatives =
fem->getShapesDerivatives(*it, ghost_type);
UInt size_of_shapes_derivatives = shapes_derivatives.getNbComponent();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(*it);
UInt nb_quadrature_points =
fem->getNbIntegrationPoints(*it, ghost_type);
/// compute @f$\sigma \frac{\partial \varphi}{\partial X}@f$ by
/// @f$\mathbf{B}^t \mathbf{\sigma}_q@f$
Array<Real> * sigma_dphi_dx =
new Array<Real>(nb_element * nb_quadrature_points,
size_of_shapes_derivatives, "sigma_x_dphi_/_dX");
Array<Real> * shapesd_filtered =
new Array<Real>(0, size_of_shapes_derivatives, "filtered shapesd");
FEEngine::filterElementalData(mesh, shapes_derivatives,
*shapesd_filtered, *it, ghost_type,
elem_filter);
Array<Real> & stress_vect = this->stress(*it, ghost_type);
Array<Real>::matrix_iterator sigma =
stress_vect.begin(spatial_dimension, spatial_dimension);
Array<Real>::matrix_iterator B =
shapesd_filtered->begin(spatial_dimension, nb_nodes_per_element);
Array<Real>::matrix_iterator Bt_sigma_it =
sigma_dphi_dx->begin(spatial_dimension, nb_nodes_per_element);
for (UInt q = 0; q < nb_element * nb_quadrature_points;
++q, ++sigma, ++B, ++Bt_sigma_it)
Bt_sigma_it->mul<false, false>(*sigma, *B);
delete shapesd_filtered;
/**
* compute @f$\int \sigma * \frac{\partial \varphi}{\partial X}dX@f$ by
* @f$ \sum_q \mathbf{B}^t
* \mathbf{\sigma}_q \overline w_q J_q@f$
*/
Array<Real> * int_sigma_dphi_dx = new Array<Real>(
nb_element, nb_nodes_per_element * spatial_dimension,
"int_sigma_x_dphi_/_dX");
fem->integrate(*sigma_dphi_dx, *int_sigma_dphi_dx,
size_of_shapes_derivatives, *it, ghost_type,
elem_filter);
delete sigma_dphi_dx;
/// assemble
model->getDOFManager().assembleElementalArrayLocalArray(*int_sigma_dphi_dx, internal_force,
*it, ghost_type, 1, elem_filter);
delete int_sigma_dphi_dx;
}
}
} else {
switch (spatial_dimension) {
case 1:
this->assembleInternalForces<1>(ghost_type);
break;
case 2:
this->assembleInternalForces<2>(ghost_type);
break;
case 3:
this->assembleInternalForces<3>(ghost_type);
break;
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
/**
* Compute the stress from the gradu
*
* @param[in] current_position nodes postition + displacements
* @param[in] ghost_type compute the residual for _ghost or _not_ghost element
*/
void Material::computeAllStresses(GhostType ghost_type) {
AKANTU_DEBUG_IN();
UInt spatial_dimension = model->getSpatialDimension();
Mesh::type_iterator it =
fem->getMesh().firstType(spatial_dimension, ghost_type);
Mesh::type_iterator last_type =
fem->getMesh().lastType(spatial_dimension, ghost_type);
for (; it != last_type; ++it) {
Array<UInt> & elem_filter = element_filter(*it, ghost_type);
if (elem_filter.getSize() == 0)
continue;
Array<Real> & gradu_vect = gradu(*it, ghost_type);
/// compute @f$\nabla u@f$
fem->gradientOnIntegrationPoints(model->getDisplacement(), gradu_vect,
spatial_dimension, *it, ghost_type,
elem_filter);
gradu_vect -= eigengradu(*it, ghost_type);
/// compute @f$\mathbf{\sigma}_q@f$ from @f$\nabla u@f$
computeStress(*it, ghost_type);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::computeAllCauchyStresses(GhostType ghost_type) {
AKANTU_DEBUG_IN();
AKANTU_DEBUG_ASSERT(finite_deformation, "The Cauchy stress can only be "
"computed if you are working in "
"finite deformation.");
// resizeInternalArray(stress);
Mesh::type_iterator it =
fem->getMesh().firstType(spatial_dimension, ghost_type);
Mesh::type_iterator last_type =
fem->getMesh().lastType(spatial_dimension, ghost_type);
for (; it != last_type; ++it)
switch (spatial_dimension) {
case 1:
this->computeCauchyStress<1>(*it, ghost_type);
break;
case 2:
this->computeCauchyStress<2>(*it, ghost_type);
break;
case 3:
this->computeCauchyStress<3>(*it, ghost_type);
break;
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
void Material::computeCauchyStress(ElementType el_type, GhostType ghost_type) {
AKANTU_DEBUG_IN();
Array<Real>::matrix_iterator gradu_it =
this->gradu(el_type, ghost_type).begin(dim, dim);
Array<Real>::matrix_iterator gradu_end =
this->gradu(el_type, ghost_type).end(dim, dim);
Array<Real>::matrix_iterator piola_it =
this->piola_kirchhoff_2(el_type, ghost_type).begin(dim, dim);
Array<Real>::matrix_iterator stress_it =
this->stress(el_type, ghost_type).begin(dim, dim);
Matrix<Real> F_tensor(dim, dim);
for (; gradu_it != gradu_end; ++gradu_it, ++piola_it, ++stress_it) {
Matrix<Real> & grad_u = *gradu_it;
Matrix<Real> & piola = *piola_it;
Matrix<Real> & sigma = *stress_it;
gradUToF<dim>(grad_u, F_tensor);
this->computeCauchyStressOnQuad<dim>(F_tensor, piola, sigma);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::setToSteadyState(GhostType ghost_type) {
AKANTU_DEBUG_IN();
const Array<Real> & displacement = model->getDisplacement();
// resizeInternalArray(gradu);
UInt spatial_dimension = model->getSpatialDimension();
Mesh::type_iterator it =
fem->getMesh().firstType(spatial_dimension, ghost_type);
Mesh::type_iterator last_type =
fem->getMesh().lastType(spatial_dimension, ghost_type);
for (; it != last_type; ++it) {
Array<UInt> & elem_filter = element_filter(*it, ghost_type);
Array<Real> & gradu_vect = gradu(*it, ghost_type);
/// compute @f$\nabla u@f$
fem->gradientOnIntegrationPoints(displacement, gradu_vect,
spatial_dimension, *it, ghost_type,
elem_filter);
setToSteadyState(*it, ghost_type);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
/**
* Compute the stiffness matrix by assembling @f$\int_{\omega} B^t \times D
* \times B d\omega @f$
*
* @param[in] current_position nodes postition + displacements
* @param[in] ghost_type compute the residual for _ghost or _not_ghost element
*/
void Material::assembleStiffnessMatrix(GhostType ghost_type) {
AKANTU_DEBUG_IN();
UInt spatial_dimension = model->getSpatialDimension();
Mesh::type_iterator it =
element_filter.firstType(spatial_dimension, ghost_type);
Mesh::type_iterator last_type =
element_filter.lastType(spatial_dimension, ghost_type);
for (; it != last_type; ++it) {
if (finite_deformation) {
switch (spatial_dimension) {
case 1: {
assembleStiffnessMatrixNL<1>(*it, ghost_type);
assembleStiffnessMatrixL2<1>(*it, ghost_type);
break;
}
case 2: {
assembleStiffnessMatrixNL<2>(*it, ghost_type);
assembleStiffnessMatrixL2<2>(*it, ghost_type);
break;
}
case 3: {
assembleStiffnessMatrixNL<3>(*it, ghost_type);
assembleStiffnessMatrixL2<3>(*it, ghost_type);
break;
}
}
} else {
switch (spatial_dimension) {
case 1: {
assembleStiffnessMatrix<1>(*it, ghost_type);
break;
}
case 2: {
assembleStiffnessMatrix<2>(*it, ghost_type);
break;
}
case 3: {
assembleStiffnessMatrix<3>(*it, ghost_type);
break;
}
}
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
void Material::assembleStiffnessMatrix(const ElementType & type,
GhostType ghost_type) {
AKANTU_DEBUG_IN();
Array<UInt> & elem_filter = element_filter(type, ghost_type);
if (elem_filter.getSize()) {
const Array<Real> & shapes_derivatives = fem->getShapesDerivatives(type,
ghost_type);
Array<Real> & gradu_vect = gradu(type, ghost_type);
UInt nb_element = elem_filter.getSize();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_quadrature_points = fem->getNbIntegrationPoints(type, ghost_type);
gradu_vect.resize(nb_quadrature_points * nb_element);
fem->gradientOnIntegrationPoints(model->getDisplacement(), gradu_vect, dim,
type, ghost_type, elem_filter);
UInt tangent_size = getTangentStiffnessVoigtSize(dim);
Array<Real> * tangent_stiffness_matrix = new Array<Real>(
nb_element * nb_quadrature_points, tangent_size * tangent_size,
"tangent_stiffness_matrix");
tangent_stiffness_matrix->clear();
computeTangentModuli(type, *tangent_stiffness_matrix, ghost_type);
Array<Real> * shapesd_filtered =
new Array<Real>(nb_element, dim * nb_nodes_per_element, "filtered shapesd");
FEEngine::filterElementalData(fem->getMesh(), shapes_derivatives,
*shapesd_filtered, type, ghost_type,
elem_filter);
/// compute @f$\mathbf{B}^t * \mathbf{D} * \mathbf{B}@f$
UInt bt_d_b_size = dim * nb_nodes_per_element;
Array<Real> * bt_d_b =
new Array<Real>(nb_element * nb_quadrature_points,
bt_d_b_size * bt_d_b_size, "B^t*D*B");
Matrix<Real> B(tangent_size, dim * nb_nodes_per_element);
Matrix<Real> Bt_D(dim * nb_nodes_per_element, tangent_size);
Array<Real>::matrix_iterator shapes_derivatives_filtered_it =
shapesd_filtered->begin(dim, nb_nodes_per_element);
Array<Real>::matrix_iterator Bt_D_B_it =
bt_d_b->begin(dim * nb_nodes_per_element, dim * nb_nodes_per_element);
Array<Real>::matrix_iterator D_it =
tangent_stiffness_matrix->begin(tangent_size, tangent_size);
Array<Real>::matrix_iterator D_end =
tangent_stiffness_matrix->end(tangent_size, tangent_size);
for (; D_it != D_end;
++D_it, ++Bt_D_B_it, ++shapes_derivatives_filtered_it) {
Matrix<Real> & D = *D_it;
Matrix<Real> & Bt_D_B = *Bt_D_B_it;
VoigtHelper<dim>::transferBMatrixToSymVoigtBMatrix(
*shapes_derivatives_filtered_it, B, nb_nodes_per_element);
Bt_D.mul<true, false>(B, D);
Bt_D_B.mul<false, false>(Bt_D, B);
}
delete tangent_stiffness_matrix;
delete shapesd_filtered;
/// compute @f$ k_e = \int_e \mathbf{B}^t * \mathbf{D} * \mathbf{B}@f$
Array<Real> * K_e =
new Array<Real>(nb_element, bt_d_b_size * bt_d_b_size, "K_e");
fem->integrate(*bt_d_b, *K_e, bt_d_b_size * bt_d_b_size, type, ghost_type,
elem_filter);
delete bt_d_b;
model->getDOFManager().assembleElementalMatricesToMatrix("K", "displacement", *K_e,
type, ghost_type, _symmetric,
elem_filter);
delete K_e;
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
void Material::assembleStiffnessMatrixNL(const ElementType & type,
GhostType ghost_type) {
AKANTU_DEBUG_IN();
const Array<Real> & shapes_derivatives = fem->getShapesDerivatives(type, ghost_type);
Array<UInt> & elem_filter = element_filter(type, ghost_type);
// Array<Real> & gradu_vect = delta_gradu(type, ghost_type);
UInt nb_element = elem_filter.getSize();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_quadrature_points = fem->getNbIntegrationPoints(type, ghost_type);
// gradu_vect.resize(nb_quadrature_points * nb_element);
// fem->gradientOnIntegrationPoints(model->getIncrement(), gradu_vect,
// dim, type, ghost_type, &elem_filter);
Array<Real> * shapes_derivatives_filtered = new Array<Real>(
nb_element * nb_quadrature_points, dim * nb_nodes_per_element,
"shapes derivatives filtered");
Array<Real>::const_matrix_iterator shapes_derivatives_it =
shapes_derivatives.begin(spatial_dimension, nb_nodes_per_element);
Array<Real>::matrix_iterator shapes_derivatives_filtered_it =
shapes_derivatives_filtered->begin(spatial_dimension,
nb_nodes_per_element);
UInt * elem_filter_val = elem_filter.storage();
for (UInt e = 0; e < nb_element; ++e, ++elem_filter_val)
for (UInt q = 0; q < nb_quadrature_points;
++q, ++shapes_derivatives_filtered_it)
*shapes_derivatives_filtered_it =
shapes_derivatives_it[*elem_filter_val * nb_quadrature_points + q];
/// compute @f$\mathbf{B}^t * \mathbf{D} * \mathbf{B}@f$
UInt bt_s_b_size = dim * nb_nodes_per_element;
Array<Real> * bt_s_b = new Array<Real>(nb_element * nb_quadrature_points,
bt_s_b_size * bt_s_b_size, "B^t*D*B");
UInt piola_matrix_size = getCauchyStressMatrixSize(dim);
Matrix<Real> B(piola_matrix_size, bt_s_b_size);
Matrix<Real> Bt_S(bt_s_b_size, piola_matrix_size);
Matrix<Real> S(piola_matrix_size, piola_matrix_size);
shapes_derivatives_filtered_it = shapes_derivatives_filtered->begin(
spatial_dimension, nb_nodes_per_element);
Array<Real>::matrix_iterator Bt_S_B_it =
bt_s_b->begin(bt_s_b_size, bt_s_b_size);
Array<Real>::matrix_iterator Bt_S_B_end =
bt_s_b->end(bt_s_b_size, bt_s_b_size);
Array<Real>::matrix_iterator piola_it =
piola_kirchhoff_2(type, ghost_type).begin(dim, dim);
for (; Bt_S_B_it != Bt_S_B_end;
++Bt_S_B_it, ++shapes_derivatives_filtered_it, ++piola_it) {
Matrix<Real> & Bt_S_B = *Bt_S_B_it;
Matrix<Real> & Piola_kirchhoff_matrix = *piola_it;
setCauchyStressMatrix<dim>(Piola_kirchhoff_matrix, S);
VoigtHelper<dim>::transferBMatrixToBNL(*shapes_derivatives_filtered_it, B,
nb_nodes_per_element);
Bt_S.mul<true, false>(B, S);
Bt_S_B.mul<false, false>(Bt_S, B);
}
delete shapes_derivatives_filtered;
/// compute @f$ k_e = \int_e \mathbf{B}^t * \mathbf{D} * \mathbf{B}@f$
Array<Real> * K_e = new Array<Real > (nb_element,
bt_s_b_size * bt_s_b_size,
"K_e");
fem->integrate(*bt_s_b, *K_e,
bt_s_b_size * bt_s_b_size,
type, ghost_type,
elem_filter);
delete bt_s_b;
model->getDOFManager().assembleElementalMatricesToMatrix("K", "displacement", *K_e,
type, ghost_type, _symmetric,
elem_filter);
delete K_e;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
void Material::assembleStiffnessMatrixL2(const ElementType & type,
GhostType ghost_type) {
AKANTU_DEBUG_IN();
const Array<Real> & shapes_derivatives = fem->getShapesDerivatives(type, ghost_type);
Array<UInt> & elem_filter = element_filter(type, ghost_type);
Array<Real> & gradu_vect = gradu(type, ghost_type);
UInt nb_element = elem_filter.getSize();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_quadrature_points = fem->getNbIntegrationPoints(type, ghost_type);
gradu_vect.resize(nb_quadrature_points * nb_element);
fem->gradientOnIntegrationPoints(model->getDisplacement(), gradu_vect, dim,
type, ghost_type, elem_filter);
UInt tangent_size = getTangentStiffnessVoigtSize(dim);
Array<Real> * tangent_stiffness_matrix =
new Array<Real>(nb_element * nb_quadrature_points,
tangent_size * tangent_size, "tangent_stiffness_matrix");
tangent_stiffness_matrix->clear();
computeTangentModuli(type, *tangent_stiffness_matrix, ghost_type);
Array<Real> * shapes_derivatives_filtered = new Array<Real>(
nb_element * nb_quadrature_points, dim * nb_nodes_per_element,
"shapes derivatives filtered");
Array<Real>::const_matrix_iterator shapes_derivatives_it =
shapes_derivatives.begin(spatial_dimension, nb_nodes_per_element);
Array<Real>::matrix_iterator shapes_derivatives_filtered_it =
shapes_derivatives_filtered->begin(spatial_dimension,
nb_nodes_per_element);
UInt * elem_filter_val = elem_filter.storage();
for (UInt e = 0; e < nb_element; ++e, ++elem_filter_val)
for (UInt q = 0; q < nb_quadrature_points;
++q, ++shapes_derivatives_filtered_it)
*shapes_derivatives_filtered_it =
shapes_derivatives_it[*elem_filter_val * nb_quadrature_points + q];
/// compute @f$\mathbf{B}^t * \mathbf{D} * \mathbf{B}@f$
UInt bt_d_b_size = dim * nb_nodes_per_element;
Array<Real> * bt_d_b = new Array<Real>(nb_element * nb_quadrature_points,
bt_d_b_size * bt_d_b_size, "B^t*D*B");
Matrix<Real> B(tangent_size, dim * nb_nodes_per_element);
Matrix<Real> B2(tangent_size, dim * nb_nodes_per_element);
Matrix<Real> Bt_D(dim * nb_nodes_per_element, tangent_size);
shapes_derivatives_filtered_it = shapes_derivatives_filtered->begin(
spatial_dimension, nb_nodes_per_element);
Array<Real>::matrix_iterator Bt_D_B_it =
bt_d_b->begin(dim * nb_nodes_per_element, dim * nb_nodes_per_element);
Array<Real>::matrix_iterator grad_u_it = gradu_vect.begin(dim, dim);
Array<Real>::matrix_iterator D_it =
tangent_stiffness_matrix->begin(tangent_size, tangent_size);
Array<Real>::matrix_iterator D_end =
tangent_stiffness_matrix->end(tangent_size, tangent_size);
for (; D_it != D_end;
++D_it, ++Bt_D_B_it, ++shapes_derivatives_filtered_it, ++grad_u_it) {
Matrix<Real> & grad_u = *grad_u_it;
Matrix<Real> & D = *D_it;
Matrix<Real> & Bt_D_B = *Bt_D_B_it;
// transferBMatrixToBL1<dim > (*shapes_derivatives_filtered_it, B,
// nb_nodes_per_element);
VoigtHelper<dim>::transferBMatrixToSymVoigtBMatrix(
*shapes_derivatives_filtered_it, B, nb_nodes_per_element);
VoigtHelper<dim>::transferBMatrixToBL2(*shapes_derivatives_filtered_it,
grad_u, B2, nb_nodes_per_element);
B += B2;
Bt_D.mul<true, false>(B, D);
Bt_D_B.mul<false, false>(Bt_D, B);
}
delete tangent_stiffness_matrix;
delete shapes_derivatives_filtered;
/// compute @f$ k_e = \int_e \mathbf{B}^t * \mathbf{D} * \mathbf{B}@f$
Array<Real> * K_e =
new Array<Real>(nb_element, bt_d_b_size * bt_d_b_size, "K_e");
fem->integrate(*bt_d_b, *K_e, bt_d_b_size * bt_d_b_size, type, ghost_type,
elem_filter);
delete bt_d_b;
model->getDOFManager().assembleElementalMatricesToMatrix("K", "displacement", *K_e,
type, ghost_type, _symmetric,
elem_filter);
delete K_e;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim> void Material::assembleInternalForces(GhostType ghost_type) {
AKANTU_DEBUG_IN();
Array<Real> & internal_force = model->getInternalForce();
Mesh & mesh = fem->getMesh();
Mesh::type_iterator it = element_filter.firstType(dim, ghost_type);
Mesh::type_iterator last_type = element_filter.lastType(dim, ghost_type);
for (; it != last_type; ++it) {
const Array<Real> & shapes_derivatives =
fem->getShapesDerivatives(*it, ghost_type);
Array<UInt> & elem_filter = element_filter(*it, ghost_type);
if (elem_filter.getSize() == 0)
continue;
UInt size_of_shapes_derivatives = shapes_derivatives.getNbComponent();
UInt nb_element = elem_filter.getSize();
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(*it);
UInt nb_quadrature_points = fem->getNbIntegrationPoints(*it, ghost_type);
Array<Real> * shapesd_filtered =
new Array<Real>(nb_element, size_of_shapes_derivatives, "filtered shapesd");
FEEngine::filterElementalData(mesh, shapes_derivatives, *shapesd_filtered,
*it, ghost_type, elem_filter);
Array<Real>::matrix_iterator shapes_derivatives_filtered_it =
shapesd_filtered->begin(dim, nb_nodes_per_element);
// Set stress vectors
UInt stress_size = getTangentStiffnessVoigtSize(dim);
// Set matrices B and BNL*
UInt bt_s_size = dim * nb_nodes_per_element;
Array<Real> * bt_s =
new Array<Real>(nb_element * nb_quadrature_points, bt_s_size, "B^t*S");
Array<Real>::matrix_iterator grad_u_it =
this->gradu(*it, ghost_type).begin(dim, dim);
Array<Real>::matrix_iterator grad_u_end =
this->gradu(*it, ghost_type).end(dim, dim);
Array<Real>::matrix_iterator stress_it =
this->piola_kirchhoff_2(*it, ghost_type).begin(dim, dim);
shapes_derivatives_filtered_it =
shapesd_filtered->begin(dim, nb_nodes_per_element);
Array<Real>::matrix_iterator bt_s_it = bt_s->begin(bt_s_size, 1);
Matrix<Real> S_vect(stress_size, 1);
Matrix<Real> B_tensor(stress_size, bt_s_size);
Matrix<Real> B2_tensor(stress_size, bt_s_size);
for (; grad_u_it != grad_u_end; ++grad_u_it, ++stress_it,
++shapes_derivatives_filtered_it,
++bt_s_it) {
Matrix<Real> & grad_u = *grad_u_it;
Matrix<Real> & r_it = *bt_s_it;
Matrix<Real> & S_it = *stress_it;
setCauchyStressArray<dim>(S_it, S_vect);
VoigtHelper<dim>::transferBMatrixToSymVoigtBMatrix(
*shapes_derivatives_filtered_it, B_tensor, nb_nodes_per_element);
VoigtHelper<dim>::transferBMatrixToBL2(*shapes_derivatives_filtered_it,
grad_u, B2_tensor,
nb_nodes_per_element);
B_tensor += B2_tensor;
r_it.mul<true, false>(B_tensor, S_vect);
}
delete shapesd_filtered;
/// compute @f$ k_e = \int_e \mathbf{B}^t * \mathbf{D} * \mathbf{B}@f$
Array<Real> * r_e = new Array<Real>(nb_element, bt_s_size, "r_e");
fem->integrate(*bt_s, *r_e, bt_s_size, *it, ghost_type, elem_filter);
delete bt_s;
model->getDOFManager().assembleElementalArrayLocalArray(*r_e, internal_force,
*it, ghost_type, 1, elem_filter);
delete r_e;
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::computeAllStressesFromTangentModuli(GhostType ghost_type) {
AKANTU_DEBUG_IN();
UInt spatial_dimension = model->getSpatialDimension();
Mesh::type_iterator it =
element_filter.firstType(spatial_dimension, ghost_type);
Mesh::type_iterator last_type =
element_filter.lastType(spatial_dimension, ghost_type);
for (; it != last_type; ++it) {
switch (spatial_dimension) {
case 1: {
computeAllStressesFromTangentModuli<1>(*it, ghost_type);
break;
}
case 2: {
computeAllStressesFromTangentModuli<2>(*it, ghost_type);
break;
}
case 3: {
computeAllStressesFromTangentModuli<3>(*it, ghost_type);
break;
}
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
void Material::computeAllStressesFromTangentModuli(const ElementType & type,
GhostType ghost_type) {
AKANTU_DEBUG_IN();
const Array<Real> & shapes_derivatives =
fem->getShapesDerivatives(type, ghost_type);
Array<UInt> & elem_filter = element_filter(type, ghost_type);
Array<Real> & gradu_vect = gradu(type, ghost_type);
UInt nb_element = elem_filter.getSize();
if (nb_element) {
UInt nb_nodes_per_element = Mesh::getNbNodesPerElement(type);
UInt nb_quadrature_points = fem->getNbIntegrationPoints(type, ghost_type);
gradu_vect.resize(nb_quadrature_points * nb_element);
Array<Real> & disp = model->getDisplacement();
fem->gradientOnIntegrationPoints(disp, gradu_vect, dim, type, ghost_type,
elem_filter);
UInt tangent_moduli_size = getTangentStiffnessVoigtSize(dim);
Array<Real> * tangent_moduli_tensors = new Array<Real>(
nb_element * nb_quadrature_points,
tangent_moduli_size * tangent_moduli_size, "tangent_moduli_tensors");
tangent_moduli_tensors->clear();
computeTangentModuli(type, *tangent_moduli_tensors, ghost_type);
Array<Real> * shapesd_filtered =
new Array<Real>(nb_element, dim * nb_nodes_per_element, "filtered shapesd");
FEEngine::filterElementalData(fem->getMesh(), shapes_derivatives,
*shapesd_filtered, type, ghost_type,
elem_filter);
Array<Real> filtered_u(nb_element,
nb_nodes_per_element * spatial_dimension);
FEEngine::extractNodalToElementField(fem->getMesh(), disp, filtered_u, type,
ghost_type, elem_filter);
/// compute @f$\mathbf{D} \mathbf{B} \mathbf{u}@f$
Array<Real>::matrix_iterator shapes_derivatives_filtered_it =
shapesd_filtered->begin(dim, nb_nodes_per_element);
Array<Real>::matrix_iterator D_it =
tangent_moduli_tensors->begin(tangent_moduli_size, tangent_moduli_size);
Array<Real>::matrix_iterator sigma_it =
stress(type, ghost_type).begin(spatial_dimension, spatial_dimension);
Array<Real>::vector_iterator u_it =
filtered_u.begin(spatial_dimension * nb_nodes_per_element);
Matrix<Real> B(tangent_moduli_size,
spatial_dimension * nb_nodes_per_element);
Vector<Real> Bu(tangent_moduli_size);
Vector<Real> DBu(tangent_moduli_size);
for (UInt e = 0; e < nb_element; ++e, ++u_it) {
for (UInt q = 0; q < nb_quadrature_points;
++q, ++D_it, ++shapes_derivatives_filtered_it, ++sigma_it) {
Vector<Real> & u = *u_it;
Matrix<Real> & sigma = *sigma_it;
Matrix<Real> & D = *D_it;
VoigtHelper<dim>::transferBMatrixToSymVoigtBMatrix(
*shapes_derivatives_filtered_it, B, nb_nodes_per_element);
Bu.mul<false>(B, u);
DBu.mul<false>(D, Bu);
// Voigt notation to full symmetric tensor
for (UInt i = 0; i < dim; ++i)
sigma(i, i) = DBu(i);
if (dim == 2) {
sigma(0, 1) = sigma(1, 0) = DBu(2);
} else if (dim == 3) {
sigma(1, 2) = sigma(2, 1) = DBu(3);
sigma(0, 2) = sigma(2, 0) = DBu(4);
sigma(0, 1) = sigma(1, 0) = DBu(5);
}
}
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::computePotentialEnergyByElements() {
AKANTU_DEBUG_IN();
Mesh::type_iterator it = element_filter.firstType(spatial_dimension);
Mesh::type_iterator last_type = element_filter.lastType(spatial_dimension);
for (; it != last_type; ++it) {
computePotentialEnergy(*it);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::computePotentialEnergy(__attribute__((unused))
ElementType el_type,
__attribute__((unused))
GhostType ghost_type) {
AKANTU_DEBUG_IN();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
Real Material::getPotentialEnergy() {
AKANTU_DEBUG_IN();
Real epot = 0.;
computePotentialEnergyByElements();
/// integrate the potential energy for each type of elements
Mesh::type_iterator it = element_filter.firstType(spatial_dimension);
Mesh::type_iterator last_type = element_filter.lastType(spatial_dimension);
for (; it != last_type; ++it) {
epot += fem->integrate(potential_energy(*it, _not_ghost), *it, _not_ghost,
element_filter(*it, _not_ghost));
}
AKANTU_DEBUG_OUT();
return epot;
}
/* -------------------------------------------------------------------------- */
Real Material::getPotentialEnergy(ElementType & type, UInt index) {
AKANTU_DEBUG_IN();
Real epot = 0.;
Vector<Real> epot_on_quad_points(fem->getNbIntegrationPoints(type));
computePotentialEnergyByElement(type, index, epot_on_quad_points);
epot = fem->integrate(epot_on_quad_points, type, element_filter(type)(index));
AKANTU_DEBUG_OUT();
return epot;
}
/* -------------------------------------------------------------------------- */
Real Material::getEnergy(std::string type) {
AKANTU_DEBUG_IN();
if (type == "potential")
return getPotentialEnergy();
AKANTU_DEBUG_OUT();
return 0.;
}
/* -------------------------------------------------------------------------- */
Real Material::getEnergy(std::string energy_id, ElementType type, UInt index) {
AKANTU_DEBUG_IN();
if (energy_id == "potential")
return getPotentialEnergy(type, index);
AKANTU_DEBUG_OUT();
return 0.;
}
/* -------------------------------------------------------------------------- */
void Material::initElementalFieldInterpolation(
const ElementTypeMapArray<Real> & interpolation_points_coordinates) {
AKANTU_DEBUG_IN();
this->fem->initElementalFieldInterpolationFromIntegrationPoints(
interpolation_points_coordinates, this->interpolation_points_matrices,
this->interpolation_inverse_coordinates, &(this->element_filter));
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::interpolateStress(ElementTypeMapArray<Real> & result,
const GhostType ghost_type) {
this->fem->interpolateElementalFieldFromIntegrationPoints(
this->stress, this->interpolation_points_matrices,
this->interpolation_inverse_coordinates, result, ghost_type,
&(this->element_filter));
}
/* -------------------------------------------------------------------------- */
void Material::interpolateStressOnFacets(
ElementTypeMapArray<Real> & result,
ElementTypeMapArray<Real> & by_elem_result, const GhostType ghost_type) {
interpolateStress(by_elem_result, ghost_type);
UInt stress_size = this->stress.getNbComponent();
const Mesh & mesh = this->model->getMesh();
const Mesh & mesh_facets = mesh.getMeshFacets();
Mesh::type_iterator it =
this->element_filter.firstType(spatial_dimension, ghost_type);
Mesh::type_iterator last =
this->element_filter.lastType(spatial_dimension, ghost_type);
for (; it != last; ++it) {
ElementType type = *it;
Array<UInt> & elem_fil = element_filter(type, ghost_type);
Array<Real> & by_elem_res = by_elem_result(type, ghost_type);
UInt nb_element = elem_fil.getSize();
UInt nb_element_full =
this->model->getMesh().getNbElement(type, ghost_type);
UInt nb_interpolation_points_per_elem =
by_elem_res.getSize() / nb_element_full;
const Array<Element> & facet_to_element =
mesh_facets.getSubelementToElement(type, ghost_type);
ElementType type_facet = Mesh::getFacetType(type);
UInt nb_facet_per_elem = facet_to_element.getNbComponent();
UInt nb_quad_per_facet =
nb_interpolation_points_per_elem / nb_facet_per_elem;
Element element_for_comparison(type, 0, ghost_type);
const Array<std::vector<Element> > * element_to_facet = NULL;
GhostType current_ghost_type = _casper;
Array<Real> * result_vec = NULL;
Array<Real>::const_matrix_iterator result_it =
by_elem_res.begin_reinterpret(
stress_size, nb_interpolation_points_per_elem, nb_element_full);
for (UInt el = 0; el < nb_element; ++el) {
UInt global_el = elem_fil(el);
element_for_comparison.element = global_el;
for (UInt f = 0; f < nb_facet_per_elem; ++f) {
Element facet_elem = facet_to_element(global_el, f);
UInt global_facet = facet_elem.element;
if (facet_elem.ghost_type != current_ghost_type) {
current_ghost_type = facet_elem.ghost_type;
element_to_facet = &mesh_facets.getElementToSubelement(
type_facet, current_ghost_type);
result_vec = &result(type_facet, current_ghost_type);
}
bool is_second_element =
(*element_to_facet)(global_facet)[0] != element_for_comparison;
for (UInt q = 0; q < nb_quad_per_facet; ++q) {
Vector<Real> result_local(result_vec->storage() +
(global_facet * nb_quad_per_facet + q) *
result_vec->getNbComponent() +
is_second_element * stress_size,
stress_size);
const Matrix<Real> & result_tmp(result_it[global_el]);
result_local = result_tmp(f * nb_quad_per_facet + q);
}
}
}
}
}
/* -------------------------------------------------------------------------- */
template <typename T>
const Array<T> & Material::getArray(__attribute__((unused)) const ID & vect_id,
__attribute__((unused)) const ElementType & type,
__attribute__((unused)) const GhostType & ghost_type) const {
AKANTU_DEBUG_TO_IMPLEMENT();
return NULL;
}
/* -------------------------------------------------------------------------- */
template <typename T>
Array<T> & Material::getArray(__attribute__((unused)) const ID & vect_id,
__attribute__((unused)) const ElementType & type,
__attribute__((unused)) const GhostType & ghost_type) {
AKANTU_DEBUG_TO_IMPLEMENT();
return NULL;
}
/* -------------------------------------------------------------------------- */
template <>
const Array<Real> & Material::getArray(const ID & vect_id,
const ElementType & type,
const GhostType & ghost_type) const {
std::stringstream sstr;
std::string ghost_id = "";
if (ghost_type == _ghost)
ghost_id = ":ghost";
sstr << getID() << ":" << vect_id << ":" << type << ghost_id;
ID fvect_id = sstr.str();
try {
return Memory::getArray<Real>(fvect_id);
} catch (debug::Exception & e) {
AKANTU_SILENT_EXCEPTION("The material " << name << "(" << getID()
<< ") does not contain a vector "
<< vect_id << "(" << fvect_id
<< ") [" << e << "]");
}
}
/* -------------------------------------------------------------------------- */
template <>
Array<Real> & Material::getArray(const ID & vect_id, const ElementType & type,
const GhostType & ghost_type) {
std::stringstream sstr;
std::string ghost_id = "";
if (ghost_type == _ghost)
ghost_id = ":ghost";
sstr << getID() << ":" << vect_id << ":" << type << ghost_id;
ID fvect_id = sstr.str();
try {
return Memory::getArray<Real>(fvect_id);
} catch (debug::Exception & e) {
AKANTU_SILENT_EXCEPTION("The material " << name << "(" << getID()
<< ") does not contain a vector "
<< vect_id << "(" << fvect_id
<< ") [" << e << "]");
}
}
/* -------------------------------------------------------------------------- */
template <>
const Array<UInt> & Material::getArray(const ID & vect_id,
const ElementType & type,
const GhostType & ghost_type) const {
std::stringstream sstr;
std::string ghost_id = "";
if (ghost_type == _ghost)
ghost_id = ":ghost";
sstr << getID() << ":" << vect_id << ":" << type << ghost_id;
ID fvect_id = sstr.str();
try {
return Memory::getArray<UInt>(fvect_id);
} catch (debug::Exception & e) {
AKANTU_SILENT_EXCEPTION("The material " << name << "(" << getID()
<< ") does not contain a vector "
<< vect_id << "(" << fvect_id
<< ") [" << e << "]");
}
}
/* -------------------------------------------------------------------------- */
template <>
Array<UInt> & Material::getArray(const ID & vect_id, const ElementType & type,
const GhostType & ghost_type) {
std::stringstream sstr;
std::string ghost_id = "";
if (ghost_type == _ghost)
ghost_id = ":ghost";
sstr << getID() << ":" << vect_id << ":" << type << ghost_id;
ID fvect_id = sstr.str();
try {
return Memory::getArray<UInt>(fvect_id);
} catch (debug::Exception & e) {
AKANTU_SILENT_EXCEPTION("The material " << name << "(" << getID()
<< ") does not contain a vector "
<< vect_id << "(" << fvect_id
<< ") [" << e << "]");
}
}
/* -------------------------------------------------------------------------- */
template <typename T>
const InternalField<T> & Material::getInternal(__attribute__((unused))
const ID & int_id) const {
AKANTU_DEBUG_TO_IMPLEMENT();
return NULL;
}
/* -------------------------------------------------------------------------- */
template <typename T>
InternalField<T> & Material::getInternal(__attribute__((unused))
const ID & int_id) {
AKANTU_DEBUG_TO_IMPLEMENT();
return NULL;
}
/* -------------------------------------------------------------------------- */
template <>
const InternalField<Real> & Material::getInternal(const ID & int_id) const {
std::map<ID, InternalField<Real> *>::const_iterator it =
internal_vectors_real.find(getID() + ":" + int_id);
if (it == internal_vectors_real.end()) {
AKANTU_SILENT_EXCEPTION("The material " << name << "(" << getID()
<< ") does not contain an internal "
<< int_id << " ("
<< (getID() + ":" + int_id) << ")");
}
return *it->second;
}
/* -------------------------------------------------------------------------- */
template <> InternalField<Real> & Material::getInternal(const ID & int_id) {
std::map<ID, InternalField<Real> *>::iterator it =
internal_vectors_real.find(getID() + ":" + int_id);
if (it == internal_vectors_real.end()) {
AKANTU_SILENT_EXCEPTION("The material " << name << "(" << getID()
<< ") does not contain an internal "
<< int_id << " ("
<< (getID() + ":" + int_id) << ")");
}
return *it->second;
}
/* -------------------------------------------------------------------------- */
template <>
const InternalField<UInt> & Material::getInternal(const ID & int_id) const {
std::map<ID, InternalField<UInt> *>::const_iterator it =
internal_vectors_uint.find(getID() + ":" + int_id);
if (it == internal_vectors_uint.end()) {
AKANTU_SILENT_EXCEPTION("The material " << name << "(" << getID()
<< ") does not contain an internal "
<< int_id << " ("
<< (getID() + ":" + int_id) << ")");
}
return *it->second;
}
/* -------------------------------------------------------------------------- */
template <> InternalField<UInt> & Material::getInternal(const ID & int_id) {
std::map<ID, InternalField<UInt> *>::iterator it =
internal_vectors_uint.find(getID() + ":" + int_id);
if (it == internal_vectors_uint.end()) {
AKANTU_SILENT_EXCEPTION("The material " << name << "(" << getID()
<< ") does not contain an internal "
<< int_id << " ("
<< (getID() + ":" + int_id) << ")");
}
return *it->second;
}
/* -------------------------------------------------------------------------- */
void Material::addElements(const Array<Element> & elements_to_add) {
AKANTU_DEBUG_IN();
UInt mat_id = model->getInternalIndexFromID(getID());
Array<Element>::const_iterator<Element> el_begin = elements_to_add.begin();
Array<Element>::const_iterator<Element> el_end = elements_to_add.end();
for (; el_begin != el_end; ++el_begin) {
const Element & element = *el_begin;
Array<UInt> & mat_indexes =
model->getMaterialByElement(element.type, element.ghost_type);
Array<UInt> & mat_loc_num =
model->getMaterialLocalNumbering(element.type, element.ghost_type);
UInt index =
this->addElement(element.type, element.element, element.ghost_type);
mat_indexes(element.element) = mat_id;
mat_loc_num(element.element) = index;
}
this->resizeInternals();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::removeElements(const Array<Element> & elements_to_remove) {
AKANTU_DEBUG_IN();
Array<Element>::const_iterator<Element> el_begin = elements_to_remove.begin();
Array<Element>::const_iterator<Element> el_end = elements_to_remove.end();
if (el_begin == el_end)
return;
ElementTypeMapArray<UInt> material_local_new_numbering("remove mat filter elem", getID(), getMemoryID());
Element element;
for (ghost_type_t::iterator gt = ghost_type_t::begin();
gt != ghost_type_t::end(); ++gt) {
GhostType ghost_type = *gt;
element.ghost_type = ghost_type;
ElementTypeMapArray<UInt>::type_iterator it =
element_filter.firstType(_all_dimensions, ghost_type, _ek_not_defined);
ElementTypeMapArray<UInt>::type_iterator end =
element_filter.lastType(_all_dimensions, ghost_type, _ek_not_defined);
for (; it != end; ++it) {
ElementType type = *it;
element.type = type;
Array<UInt> & elem_filter = this->element_filter(type, ghost_type);
Array<UInt> & mat_loc_num =
this->model->getMaterialLocalNumbering(type, ghost_type);
if (!material_local_new_numbering.exists(type, ghost_type))
material_local_new_numbering.alloc(elem_filter.getSize(), 1, type,
ghost_type);
Array<UInt> & mat_renumbering =
material_local_new_numbering(type, ghost_type);
UInt nb_element = elem_filter.getSize();
element.kind = (*el_begin).kind;
Array<UInt> elem_filter_tmp;
UInt new_id = 0;
for (UInt el = 0; el < nb_element; ++el) {
element.element = elem_filter(el);
if (std::find(el_begin, el_end, element) == el_end) {
elem_filter_tmp.push_back(element.element);
mat_renumbering(el) = new_id;
mat_loc_num(element.element) = new_id;
++new_id;
} else {
mat_renumbering(el) = UInt(-1);
}
}
elem_filter.resize(elem_filter_tmp.getSize());
elem_filter.copy(elem_filter_tmp);
}
}
for (std::map<ID, InternalField<Real> *>::iterator it =
internal_vectors_real.begin();
it != internal_vectors_real.end(); ++it)
it->second->removeIntegrationPoints(material_local_new_numbering);
for (std::map<ID, InternalField<UInt> *>::iterator it =
internal_vectors_uint.begin();
it != internal_vectors_uint.end(); ++it)
it->second->removeIntegrationPoints(material_local_new_numbering);
for (std::map<ID, InternalField<bool> *>::iterator it =
internal_vectors_bool.begin();
it != internal_vectors_bool.end(); ++it)
it->second->removeIntegrationPoints(material_local_new_numbering);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::resizeInternals() {
AKANTU_DEBUG_IN();
for (std::map<ID, InternalField<Real> *>::iterator it =
internal_vectors_real.begin();
it != internal_vectors_real.end(); ++it)
it->second->resize();
for (std::map<ID, InternalField<UInt> *>::iterator it =
internal_vectors_uint.begin();
it != internal_vectors_uint.end(); ++it)
it->second->resize();
for (std::map<ID, InternalField<bool> *>::iterator it =
internal_vectors_bool.begin();
it != internal_vectors_bool.end(); ++it)
it->second->resize();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Material::onElementsAdded(__attribute__((unused))
const Array<Element> & element_list,
__attribute__((unused))
const NewElementsEvent & event) {
this->resizeInternals();
}
/* -------------------------------------------------------------------------- */
void Material::onElementsRemoved(
const Array<Element> & element_list,
const ElementTypeMapArray<UInt> & new_numbering,
__attribute__((unused)) const RemovedElementsEvent & event) {
UInt my_num = model->getInternalIndexFromID(getID());
ElementTypeMapArray<UInt> material_local_new_numbering("remove mat filter elem", getID(), getMemoryID());
Array<Element>::const_iterator<Element> el_begin = element_list.begin();
Array<Element>::const_iterator<Element> el_end = element_list.end();
for (ghost_type_t::iterator g = ghost_type_t::begin();
g != ghost_type_t::end(); ++g) {
GhostType gt = *g;
ElementTypeMapArray<UInt>::type_iterator it =
new_numbering.firstType(_all_dimensions, gt, _ek_not_defined);
ElementTypeMapArray<UInt>::type_iterator end =
new_numbering.lastType(_all_dimensions, gt, _ek_not_defined);
for (; it != end; ++it) {
ElementType type = *it;
if (element_filter.exists(type, gt) &&
element_filter(type, gt).getSize()) {
Array<UInt> & elem_filter = element_filter(type, gt);
Array<UInt> & mat_indexes = this->model->getMaterialByElement(*it, gt);
Array<UInt> & mat_loc_num =
this->model->getMaterialLocalNumbering(*it, gt);
UInt nb_element = this->model->getMesh().getNbElement(type, gt);
// all materials will resize of the same size...
mat_indexes.resize(nb_element);
mat_loc_num.resize(nb_element);
if (!material_local_new_numbering.exists(type, gt))
material_local_new_numbering.alloc(elem_filter.getSize(), 1, type,
gt);
Array<UInt> & mat_renumbering = material_local_new_numbering(type, gt);
const Array<UInt> & renumbering = new_numbering(type, gt);
Array<UInt> elem_filter_tmp;
UInt ni = 0;
Element el;
el.type = type;
el.ghost_type = gt;
el.kind = Mesh::getKind(type);
for (UInt i = 0; i < elem_filter.getSize(); ++i) {
el.element = elem_filter(i);
if (std::find(el_begin, el_end, el) == el_end) {
UInt new_el = renumbering(el.element);
AKANTU_DEBUG_ASSERT(
new_el != UInt(-1),
"A not removed element as been badly renumbered");
elem_filter_tmp.push_back(new_el);
mat_renumbering(i) = ni;
mat_indexes(new_el) = my_num;
mat_loc_num(new_el) = ni;
++ni;
} else {
mat_renumbering(i) = UInt(-1);
}
}
elem_filter.resize(elem_filter_tmp.getSize());
elem_filter.copy(elem_filter_tmp);
}
}
}
for (std::map<ID, InternalField<Real> *>::iterator it =
internal_vectors_real.begin();
it != internal_vectors_real.end(); ++it)
it->second->removeIntegrationPoints(material_local_new_numbering);
for (std::map<ID, InternalField<UInt> *>::iterator it =
internal_vectors_uint.begin();
it != internal_vectors_uint.end(); ++it)
it->second->removeIntegrationPoints(material_local_new_numbering);
for (std::map<ID, InternalField<bool> *>::iterator it =
internal_vectors_bool.begin();
it != internal_vectors_bool.end(); ++it)
it->second->removeIntegrationPoints(material_local_new_numbering);
}
/* -------------------------------------------------------------------------- */
void Material::onBeginningSolveStep(__attribute__((unused))
const AnalysisMethod & method) {
this->savePreviousState();
}
/* -------------------------------------------------------------------------- */
void Material::onEndSolveStep(__attribute__((unused))
const AnalysisMethod & method) {
ElementTypeMapArray<UInt>::type_iterator it = this->element_filter.firstType(
_all_dimensions, _not_ghost, _ek_not_defined);
ElementTypeMapArray<UInt>::type_iterator end =
element_filter.lastType(_all_dimensions, _not_ghost, _ek_not_defined);
for (; it != end; ++it) {
this->updateEnergies(*it, _not_ghost);
}
}
/* -------------------------------------------------------------------------- */
void Material::onDamageIteration() { this->savePreviousState(); }
/* -------------------------------------------------------------------------- */
void Material::onDamageUpdate() {
ElementTypeMapArray<UInt>::type_iterator it = this->element_filter.firstType(
_all_dimensions, _not_ghost, _ek_not_defined);
ElementTypeMapArray<UInt>::type_iterator end =
element_filter.lastType(_all_dimensions, _not_ghost, _ek_not_defined);
for (; it != end; ++it) {
this->updateEnergiesAfterDamage(*it, _not_ghost);
}
}
/* -------------------------------------------------------------------------- */
void Material::onDump() {
if (this->isFiniteDeformation())
this->computeAllCauchyStresses(_not_ghost);
}
/* -------------------------------------------------------------------------- */
void Material::printself(std::ostream & stream, int indent) const {
std::string space;
for (Int i = 0; i < indent; i++, space += AKANTU_INDENT)
;
std::string type = getID().substr(getID().find_last_of(":") + 1);
stream << space << "Material " << type << " [" << std::endl;
Parsable::printself(stream, indent);
stream << space << "]" << std::endl;
}
/* -------------------------------------------------------------------------- */
/// extrapolate internal values
void Material::extrapolateInternal(const ID & id, const Element & element,
__attribute__((unused))
const Matrix<Real> & point,
Matrix<Real> & extrapolated) {
if (this->isInternal<Real>(id, element.kind)) {
UInt nb_element =
this->element_filter(element.type, element.ghost_type).getSize();
const ID name = this->getID() + ":" + id;
UInt nb_quads =
this->internal_vectors_real[name]->getFEEngine().getNbIntegrationPoints(
element.type, element.ghost_type);
const Array<Real> & internal =
this->getArray<Real>(id, element.type, element.ghost_type);
UInt nb_component = internal.getNbComponent();
Array<Real>::const_matrix_iterator internal_it =
internal.begin_reinterpret(nb_component, nb_quads, nb_element);
Element local_element = this->convertToLocalElement(element);
/// instead of really extrapolating, here the value of the first GP
/// is copied into the result vector. This works only for linear
/// elements
/// @todo extrapolate!!!!
AKANTU_DEBUG_WARNING("This is a fix, values are not truly extrapolated");
const Matrix<Real> & values = internal_it[local_element.element];
UInt index = 0;
Vector<Real> tmp(nb_component);
for (UInt j = 0; j < values.cols(); ++j) {
tmp = values(j);
if (tmp.norm() > 0) {
index = j;
break;
}
}
for (UInt i = 0; i < extrapolated.size(); ++i) {
extrapolated(i) = values(index);
}
} else {
Matrix<Real> default_values(extrapolated.rows(), extrapolated.cols(), 0.);
extrapolated = default_values;
}
}
/* -------------------------------------------------------------------------- */
void Material::applyEigenGradU(const Matrix<Real> & prescribed_eigen_grad_u,
const GhostType ghost_type) {
ElementTypeMapArray<UInt>::type_iterator it = this->element_filter.firstType(
_all_dimensions, _not_ghost, _ek_not_defined);
ElementTypeMapArray<UInt>::type_iterator end =
element_filter.lastType(_all_dimensions, _not_ghost, _ek_not_defined);
for (; it != end; ++it) {
ElementType type = *it;
if (!element_filter(type, ghost_type).getSize())
continue;
Array<Real>::matrix_iterator eigen_it =
this->eigengradu(type, ghost_type)
.begin(spatial_dimension, spatial_dimension);
Array<Real>::matrix_iterator eigen_end =
this->eigengradu(type, ghost_type)
.end(spatial_dimension, spatial_dimension);
for (; eigen_it != eigen_end; ++eigen_it) {
Matrix<Real> & current_eigengradu = *eigen_it;
current_eigengradu = prescribed_eigen_grad_u;
}
}
}
__END_AKANTU__
diff --git a/src/model/solid_mechanics/material.hh b/src/model/solid_mechanics/material.hh
index c64c887ae..dd3307b59 100644
--- a/src/model/solid_mechanics/material.hh
+++ b/src/model/solid_mechanics/material.hh
@@ -1,659 +1,664 @@
/**
* @file material.hh
*
* @author Daniel Pino Muñoz <daniel.pinomunoz@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
* @author Marco Vocialta <marco.vocialta@epfl.ch>
*
* @date creation: Fri Jun 18 2010
* @date last modification: Wed Nov 25 2015
*
* @brief Mother class for all materials
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "aka_common.hh"
#include "aka_memory.hh"
#include "aka_voigthelper.hh"
#include "parser.hh"
#include "parsable.hh"
#include "data_accessor.hh"
#include "integration_point.hh"
/* -------------------------------------------------------------------------- */
#include "internal_field.hh"
#include "random_internal_field.hh"
/* -------------------------------------------------------------------------- */
#include "mesh_events.hh"
#include "solid_mechanics_model_event_handler.hh"
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_MATERIAL_HH__
#define __AKANTU_MATERIAL_HH__
/* -------------------------------------------------------------------------- */
namespace akantu {
class Model;
class SolidMechanicsModel;
}
__BEGIN_AKANTU__
/**
* Interface of all materials
* Prerequisites for a new material
* - inherit from this class
* - implement the following methods:
* \code
* virtual Real getStableTimeStep(Real h, const Element & element =
* ElementNull);
*
* virtual void computeStress(ElementType el_type,
* GhostType ghost_type = _not_ghost);
*
* virtual void computeTangentStiffness(const ElementType & el_type,
* Array<Real> & tangent_matrix,
* GhostType ghost_type = _not_ghost);
* \endcode
*
*/
class Material : public Memory,
public DataAccessor<Element>,
public Parsable,
public MeshEventHandler,
protected SolidMechanicsModelEventHandler {
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
public:
#if __cplusplus > 199711L
Material(const Material & mat) = delete;
Material & operator=(const Material & mat) = delete;
#endif
/// Initialize material with defaults
Material(SolidMechanicsModel & model, const ID & id = "");
/// Initialize material with custom mesh & fe_engine
Material(SolidMechanicsModel & model, UInt dim, const Mesh & mesh,
FEEngine & fe_engine, const ID & id = "");
/// Destructor
virtual ~Material();
protected:
void initialize();
/* ------------------------------------------------------------------------ */
/* Function that materials can/should reimplement */
/* ------------------------------------------------------------------------ */
protected:
/// constitutive law
virtual void computeStress(__attribute__((unused)) ElementType el_type,
__attribute__((unused))
GhostType ghost_type = _not_ghost) {
AKANTU_DEBUG_TO_IMPLEMENT();
}
/// compute the tangent stiffness matrix
virtual void computeTangentModuli(__attribute__((unused))
const ElementType & el_type,
__attribute__((unused))
Array<Real> & tangent_matrix,
__attribute__((unused))
GhostType ghost_type = _not_ghost) {
AKANTU_DEBUG_TO_IMPLEMENT();
}
/// compute the potential energy
virtual void computePotentialEnergy(ElementType el_type,
GhostType ghost_type = _not_ghost);
/// compute the potential energy for an element
virtual void
computePotentialEnergyByElement(__attribute__((unused)) ElementType type,
__attribute__((unused)) UInt index,
__attribute__((unused))
Vector<Real> & epot_on_quad_points) {
AKANTU_DEBUG_TO_IMPLEMENT();
}
virtual void updateEnergies(__attribute__((unused)) ElementType el_type,
__attribute__((unused))
GhostType ghost_type = _not_ghost) {}
virtual void updateEnergiesAfterDamage(__attribute__((unused))
ElementType el_type,
__attribute__((unused))
GhostType ghost_type = _not_ghost) {}
/// set the material to steady state (to be implemented for materials that
/// need it)
virtual void setToSteadyState(__attribute__((unused)) ElementType el_type,
__attribute__((unused))
GhostType ghost_type = _not_ghost) {}
/// function called to update the internal parameters when the modifiable
/// parameters are modified
virtual void updateInternalParameters() {}
public:
/// extrapolate internal values
virtual void extrapolateInternal(const ID & id, const Element & element,
const Matrix<Real> & points,
Matrix<Real> & extrapolated);
/// compute the p-wave speed in the material
virtual Real getPushWaveSpeed(__attribute__((unused))
const Element & element) const {
AKANTU_DEBUG_TO_IMPLEMENT();
}
/// compute the s-wave speed in the material
virtual Real getShearWaveSpeed(__attribute__((unused))
const Element & element) const {
AKANTU_DEBUG_TO_IMPLEMENT();
}
/// get a material celerity to compute the stable time step (default: is the
/// push wave speed)
virtual Real getCelerity(const Element & element) const {
return getPushWaveSpeed(element);
}
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
public:
template <typename T>
void registerInternal(__attribute__((unused)) InternalField<T> & vect) {
AKANTU_DEBUG_TO_IMPLEMENT();
}
template <typename T>
void unregisterInternal(__attribute__((unused)) InternalField<T> & vect) {
AKANTU_DEBUG_TO_IMPLEMENT();
}
/// initialize the material computed parameter
virtual void initMaterial();
/// compute the residual for this material
// virtual void updateResidual(GhostType ghost_type = _not_ghost);
/// assemble the residual for this material
virtual void assembleInternalForces(GhostType ghost_type);
/// save the stress in the previous_stress if needed
virtual void savePreviousState();
/// compute the stresses for this material
virtual void computeAllStresses(GhostType ghost_type = _not_ghost);
virtual void
computeAllStressesFromTangentModuli(GhostType ghost_type = _not_ghost);
virtual void computeAllCauchyStresses(GhostType ghost_type = _not_ghost);
/// set material to steady state
void setToSteadyState(GhostType ghost_type = _not_ghost);
/// compute the stiffness matrix
virtual void assembleStiffnessMatrix(GhostType ghost_type);
/// add an element to the local mesh filter
inline UInt addElement(const ElementType & type, UInt element,
const GhostType & ghost_type);
/// add many elements at once
void addElements(const Array<Element> & elements_to_add);
/// remove many element at once
void removeElements(const Array<Element> & elements_to_remove);
/// function to print the contain of the class
virtual void printself(std::ostream & stream, int indent = 0) const;
/**
* interpolate stress on given positions for each element by means
* of a geometrical interpolation on quadrature points
*/
void interpolateStress(ElementTypeMapArray<Real> & result,
const GhostType ghost_type = _not_ghost);
/**
* interpolate stress on given positions for each element by means
* of a geometrical interpolation on quadrature points and store the
* results per facet
*/
void interpolateStressOnFacets(ElementTypeMapArray<Real> & result,
ElementTypeMapArray<Real> & by_elem_result,
const GhostType ghost_type = _not_ghost);
/**
* function to initialize the elemental field interpolation
* function by inverting the quadrature points' coordinates
*/
void initElementalFieldInterpolation(
const ElementTypeMapArray<Real> & interpolation_points_coordinates);
/* ------------------------------------------------------------------------ */
/* Common part */
/* ------------------------------------------------------------------------ */
protected:
/* ------------------------------------------------------------------------ */
inline UInt getTangentStiffnessVoigtSize(UInt spatial_dimension) const;
/// compute the potential energy by element
void computePotentialEnergyByElements();
/// resize the intenals arrays
virtual void resizeInternals();
/* ------------------------------------------------------------------------ */
/* Finite deformation functions */
/* This functions area implementing what is described in the paper of Bathe */
/* et al, in IJNME, Finite Element Formulations For Large Deformation */
/* Dynamic Analysis, Vol 9, 353-386, 1975 */
/* ------------------------------------------------------------------------ */
protected:
/// assemble the residual
template <UInt dim> void assembleInternalForces(GhostType ghost_type);
/// Computation of Cauchy stress tensor in the case of finite deformation from
/// the 2nd Piola-Kirchhoff for a given element type
template <UInt dim>
void computeCauchyStress(__attribute__((unused)) ElementType el_type,
__attribute__((unused))
GhostType ghost_type = _not_ghost);
/// Computation the Cauchy stress the 2nd Piola-Kirchhoff and the deformation
/// gradient
template <UInt dim>
inline void computeCauchyStressOnQuad(const Matrix<Real> & F,
const Matrix<Real> & S,
Matrix<Real> & cauchy,
const Real & C33 = 1.0) const;
template <UInt dim>
void computeAllStressesFromTangentModuli(const ElementType & type,
GhostType ghost_type);
template <UInt dim>
void assembleStiffnessMatrix(const ElementType & type, GhostType ghost_type);
/// assembling in finite deformation
template <UInt dim>
void assembleStiffnessMatrixNL(const ElementType & type,
GhostType ghost_type);
template <UInt dim>
void assembleStiffnessMatrixL2(const ElementType & type,
GhostType ghost_type);
/// Size of the Stress matrix for the case of finite deformation see: Bathe et
/// al, IJNME, Vol 9, 353-386, 1975
inline UInt getCauchyStressMatrixSize(UInt spatial_dimension) const;
/// Sets the stress matrix according to Bathe et al, IJNME, Vol 9, 353-386,
/// 1975
template <UInt dim>
inline void setCauchyStressMatrix(const Matrix<Real> & S_t,
Matrix<Real> & sigma);
/// write the stress tensor in the Voigt notation.
template <UInt dim>
inline void setCauchyStressArray(const Matrix<Real> & S_t,
Matrix<Real> & sigma_voight);
/* ------------------------------------------------------------------------ */
/* Conversion functions */
/* ------------------------------------------------------------------------ */
public:
template <UInt dim>
static inline void gradUToF(const Matrix<Real> & grad_u, Matrix<Real> & F);
static inline void rightCauchy(const Matrix<Real> & F, Matrix<Real> & C);
static inline void leftCauchy(const Matrix<Real> & F, Matrix<Real> & B);
template <UInt dim>
static inline void gradUToEpsilon(const Matrix<Real> & grad_u,
Matrix<Real> & epsilon);
template <UInt dim>
static inline void gradUToGreenStrain(const Matrix<Real> & grad_u,
Matrix<Real> & epsilon);
static inline Real stressToVonMises(const Matrix<Real> & stress);
protected:
/// converts global element to local element
inline Element convertToLocalElement(const Element & global_element) const;
/// converts local element to global element
inline Element convertToGlobalElement(const Element & local_element) const;
/// converts global quadrature point to local quadrature point
inline IntegrationPoint
convertToLocalPoint(const IntegrationPoint & global_point) const;
/// converts local quadrature point to global quadrature point
inline IntegrationPoint
convertToGlobalPoint(const IntegrationPoint & local_point) const;
/* ------------------------------------------------------------------------ */
/* DataAccessor inherited members */
/* ------------------------------------------------------------------------ */
public:
virtual inline UInt getNbData(const Array<Element> & elements,
const SynchronizationTag & tag) const;
virtual inline void packData(CommunicationBuffer & buffer,
const Array<Element> & elements,
const SynchronizationTag & tag) const;
virtual inline void unpackData(CommunicationBuffer & buffer,
const Array<Element> & elements,
const SynchronizationTag & tag);
template <typename T>
inline void packElementDataHelper(const ElementTypeMapArray<T> & data_to_pack,
CommunicationBuffer & buffer,
const Array<Element> & elements,
const ID & fem_id = ID()) const;
template <typename T>
inline void unpackElementDataHelper(ElementTypeMapArray<T> & data_to_unpack,
CommunicationBuffer & buffer,
const Array<Element> & elements,
const ID & fem_id = ID());
/* ------------------------------------------------------------------------ */
/* MeshEventHandler inherited members */
/* ------------------------------------------------------------------------ */
public:
/* ------------------------------------------------------------------------ */
virtual void onNodesAdded(__attribute__((unused))
const Array<UInt> & nodes_list,
__attribute__((unused))
const NewNodesEvent & event){};
virtual void
onNodesRemoved(__attribute__((unused)) const Array<UInt> & nodes_list,
__attribute__((unused)) const Array<UInt> & new_numbering,
__attribute__((unused)) const RemovedNodesEvent & event){};
virtual void onElementsAdded(const Array<Element> & element_list,
const NewElementsEvent & event);
virtual void
onElementsRemoved(const Array<Element> & element_list,
const ElementTypeMapArray<UInt> & new_numbering,
const RemovedElementsEvent & event);
virtual void onElementsChanged(
__attribute__((unused)) const Array<Element> & old_elements_list,
__attribute__((unused)) const Array<Element> & new_elements_list,
__attribute__((unused)) const ElementTypeMapArray<UInt> & new_numbering,
__attribute__((unused)) const ChangedElementsEvent & event){};
/* ------------------------------------------------------------------------ */
/* SolidMechanicsModelEventHandler inherited members */
/* ------------------------------------------------------------------------ */
public:
virtual void onBeginningSolveStep(const AnalysisMethod & method);
virtual void onEndSolveStep(const AnalysisMethod & method);
virtual void onDamageIteration();
virtual void onDamageUpdate();
virtual void onDump();
/* ------------------------------------------------------------------------ */
/* Accessors */
/* ------------------------------------------------------------------------ */
public:
AKANTU_GET_MACRO(Name, name, const std::string &);
AKANTU_GET_MACRO(Model, *model, const SolidMechanicsModel &)
AKANTU_GET_MACRO(ID, Memory::getID(), const ID &);
AKANTU_GET_MACRO(Rho, rho, Real);
AKANTU_SET_MACRO(Rho, rho, Real);
AKANTU_GET_MACRO(SpatialDimension, spatial_dimension, UInt);
/// return the potential energy for the subset of elements contained by the
/// material
Real getPotentialEnergy();
/// return the potential energy for the provided element
Real getPotentialEnergy(ElementType & type, UInt index);
/// return the energy (identified by id) for the subset of elements contained
/// by the material
virtual Real getEnergy(std::string energy_id);
/// return the energy (identified by id) for the provided element
virtual Real getEnergy(std::string energy_id, ElementType type, UInt index);
AKANTU_GET_MACRO_BY_ELEMENT_TYPE_CONST(ElementFilter, element_filter, UInt);
AKANTU_GET_MACRO_BY_ELEMENT_TYPE_CONST(GradU, gradu, Real);
AKANTU_GET_MACRO_BY_ELEMENT_TYPE_CONST(Stress, stress, Real);
AKANTU_GET_MACRO_BY_ELEMENT_TYPE_CONST(PotentialEnergy, potential_energy,
Real);
AKANTU_GET_MACRO(GradU, gradu, const ElementTypeMapArray<Real> &);
AKANTU_GET_MACRO(Stress, stress, const ElementTypeMapArray<Real> &);
AKANTU_GET_MACRO(ElementFilter, element_filter,
const ElementTypeMapArray<UInt> &);
AKANTU_GET_MACRO(FEEngine, *fem, FEEngine &);
bool isNonLocal() const { return is_non_local; }
template <typename T>
const Array<T> & getArray(const ID & id, const ElementType & type,
const GhostType & ghost_type = _not_ghost) const;
template <typename T>
Array<T> & getArray(const ID & id, const ElementType & type,
const GhostType & ghost_type = _not_ghost);
template <typename T>
const InternalField<T> & getInternal(const ID & id) const;
template <typename T> InternalField<T> & getInternal(const ID & id);
template <typename T>
inline bool isInternal(const ID & id, const ElementKind & element_kind) const;
template <typename T>
ElementTypeMap<UInt>
getInternalDataPerElem(const ID & id, const ElementKind & element_kind) const;
bool isFiniteDeformation() const { return finite_deformation; }
bool isInelasticDeformation() const { return inelastic_deformation; }
template <typename T> inline void setParam(const ID & param, T value);
inline const Parameter & getParam(const ID & param) const;
template <typename T>
void flattenInternal(const std::string & field_id,
ElementTypeMapArray<T> & internal_flat,
const GhostType ghost_type = _not_ghost,
ElementKind element_kind = _ek_not_defined) const;
/// apply a constant eigengrad_u everywhere in the material
virtual void applyEigenGradU(const Matrix<Real> & prescribed_eigen_grad_u,
const GhostType = _not_ghost);
+ /// specify if the matrix need to be recomputed for this material
+ virtual bool hasStiffnessMatrixChanged() {
+ return true;
+ }
+
protected:
bool isInit() const { return is_init; }
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
protected:
/// boolean to know if the material has been initialized
bool is_init;
std::map<ID, InternalField<Real> *> internal_vectors_real;
std::map<ID, InternalField<UInt> *> internal_vectors_uint;
std::map<ID, InternalField<bool> *> internal_vectors_bool;
protected:
/// Link to the fem object in the model
FEEngine * fem;
/// Finite deformation
bool finite_deformation;
/// Finite deformation
bool inelastic_deformation;
/// material name
std::string name;
/// The model to witch the material belong
SolidMechanicsModel * model;
/// density : rho
Real rho;
/// spatial dimension
UInt spatial_dimension;
/// list of element handled by the material
ElementTypeMapArray<UInt> element_filter;
/// stresses arrays ordered by element types
InternalField<Real> stress;
/// eigengrad_u arrays ordered by element types
InternalField<Real> eigengradu;
/// grad_u arrays ordered by element types
InternalField<Real> gradu;
/// Green Lagrange strain (Finite deformation)
InternalField<Real> green_strain;
/// Second Piola-Kirchhoff stress tensor arrays ordered by element types
/// (Finite deformation)
InternalField<Real> piola_kirchhoff_2;
/// potential energy by element
InternalField<Real> potential_energy;
/// tell if using in non local mode or not
bool is_non_local;
/// tell if the material need the previous stress state
bool use_previous_stress;
/// tell if the material need the previous strain state
bool use_previous_gradu;
/// elemental field interpolation coordinates
InternalField<Real> interpolation_inverse_coordinates;
/// elemental field interpolation points
InternalField<Real> interpolation_points_matrices;
/// vector that contains the names of all the internals that need to
/// be transferred when material interfaces move
std::vector<ID> internals_to_transfer;
};
/// standard output stream operator
inline std::ostream & operator<<(std::ostream & stream,
const Material & _this) {
_this.printself(stream);
return stream;
}
__END_AKANTU__
#include "material_inline_impl.cc"
#include "internal_field_tmpl.hh"
#include "random_internal_field_tmpl.hh"
/* -------------------------------------------------------------------------- */
/* Auto loop */
/* -------------------------------------------------------------------------- */
/// This can be used to automatically write the loop on quadrature points in
/// functions such as computeStress. This macro in addition to write the loop
/// provides two tensors (matrices) sigma and grad_u
#define MATERIAL_STRESS_QUADRATURE_POINT_LOOP_BEGIN(el_type, ghost_type) \
Array<Real>::matrix_iterator gradu_it = \
this->gradu(el_type, ghost_type) \
.begin(this->spatial_dimension, this->spatial_dimension); \
Array<Real>::matrix_iterator gradu_end = \
this->gradu(el_type, ghost_type) \
.end(this->spatial_dimension, this->spatial_dimension); \
\
this->stress(el_type, ghost_type) \
.resize(this->gradu(el_type, ghost_type).getSize()); \
\
Array<Real>::iterator<Matrix<Real> > stress_it = \
this->stress(el_type, ghost_type) \
.begin(this->spatial_dimension, this->spatial_dimension); \
\
if (this->isFiniteDeformation()) { \
this->piola_kirchhoff_2(el_type, ghost_type) \
.resize(this->gradu(el_type, ghost_type).getSize()); \
stress_it = this->piola_kirchhoff_2(el_type, ghost_type) \
.begin(this->spatial_dimension, this->spatial_dimension); \
} \
\
for (; gradu_it != gradu_end; ++gradu_it, ++stress_it) { \
Matrix<Real> & __attribute__((unused)) grad_u = *gradu_it; \
Matrix<Real> & __attribute__((unused)) sigma = *stress_it
#define MATERIAL_STRESS_QUADRATURE_POINT_LOOP_END }
/// This can be used to automatically write the loop on quadrature points in
/// functions such as computeTangentModuli. This macro in addition to write the
/// loop provides two tensors (matrices) sigma_tensor, grad_u, and a matrix
/// where the elemental tangent moduli should be stored in Voigt Notation
#define MATERIAL_TANGENT_QUADRATURE_POINT_LOOP_BEGIN(tangent_mat) \
Array<Real>::matrix_iterator gradu_it = \
this->gradu(el_type, ghost_type) \
.begin(this->spatial_dimension, this->spatial_dimension); \
Array<Real>::matrix_iterator gradu_end = \
this->gradu(el_type, ghost_type) \
.end(this->spatial_dimension, this->spatial_dimension); \
Array<Real>::matrix_iterator sigma_it = \
this->stress(el_type, ghost_type) \
.begin(this->spatial_dimension, this->spatial_dimension); \
\
tangent_mat.resize(this->gradu(el_type, ghost_type).getSize()); \
\
UInt tangent_size = \
this->getTangentStiffnessVoigtSize(this->spatial_dimension); \
Array<Real>::matrix_iterator tangent_it = \
tangent_mat.begin(tangent_size, tangent_size); \
\
for (; gradu_it != gradu_end; ++gradu_it, ++sigma_it, ++tangent_it) { \
Matrix<Real> & __attribute__((unused)) grad_u = *gradu_it; \
Matrix<Real> & __attribute__((unused)) sigma_tensor = *sigma_it; \
Matrix<Real> & tangent = *tangent_it
#define MATERIAL_TANGENT_QUADRATURE_POINT_LOOP_END }
/* -------------------------------------------------------------------------- */
#define INSTANTIATE_MATERIAL(mat_name) \
template class mat_name<1>; \
template class mat_name<2>; \
template class mat_name<3>
#endif /* __AKANTU_MATERIAL_HH__ */
// LocalWords: ElementNull
diff --git a/src/model/solid_mechanics/materials/material_damage/material_damage.hh b/src/model/solid_mechanics/materials/material_damage/material_damage.hh
index d7e0d76de..aace57a4c 100644
--- a/src/model/solid_mechanics/materials/material_damage/material_damage.hh
+++ b/src/model/solid_mechanics/materials/material_damage/material_damage.hh
@@ -1,113 +1,113 @@
/**
* @file material_damage.hh
*
* @author Marion Estelle Chambart <marion.chambart@epfl.ch>
* @author Aurelia Isabel Cuba Ramos <aurelia.cubaramos@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Fri Jun 18 2010
* @date last modification: Sat Jul 11 2015
*
* @brief Material isotropic elastic
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "aka_common.hh"
#include "material_elastic.hh"
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_MATERIAL_DAMAGE_HH__
#define __AKANTU_MATERIAL_DAMAGE_HH__
__BEGIN_AKANTU__
-template<UInt spatial_dimension, template<UInt> class Parent = MaterialElastic>
+template <UInt spatial_dimension,
+ template <UInt> class Parent = MaterialElastic>
class MaterialDamage : public Parent<spatial_dimension> {
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
public:
-
MaterialDamage(SolidMechanicsModel & model, const ID & id = "");
- virtual ~MaterialDamage() {};
+ virtual ~MaterialDamage(){};
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
public:
-
virtual void initMaterial();
/// compute the tangent stiffness matrix for an element type
virtual void computeTangentModuli(const ElementType & el_type,
- Array<Real> & tangent_matrix,
- GhostType ghost_type = _not_ghost);
+ Array<Real> & tangent_matrix,
+ GhostType ghost_type = _not_ghost);
+ virtual bool hasStiffnessMatrixChanged() { return true; }
protected:
- /// update the dissipated energy, must be called after the stress have been computed
+ /// update the dissipated energy, must be called after the stress have been
+ /// computed
virtual void updateEnergies(ElementType el_type, GhostType ghost_type);
/// compute the tangent stiffness matrix for a given quadrature point
inline void computeTangentModuliOnQuad(Matrix<Real> & tangent, Real & dam);
/* ------------------------------------------------------------------------ */
/* DataAccessor inherited members */
/* ------------------------------------------------------------------------ */
public:
-
/* ------------------------------------------------------------------------ */
/* Accessors */
/* ------------------------------------------------------------------------ */
public:
/// give the dissipated energy for the time step
Real getDissipatedEnergy() const;
virtual Real getEnergy(std::string type);
virtual Real getEnergy(std::string energy_id, ElementType type, UInt index) {
return Parent<spatial_dimension>::getEnergy(energy_id, type, index);
};
AKANTU_GET_MACRO_NOT_CONST(Damage, damage, ElementTypeMapArray<Real> &);
AKANTU_GET_MACRO(Damage, damage, const ElementTypeMapArray<Real> &);
AKANTU_GET_MACRO_BY_ELEMENT_TYPE_CONST(Damage, damage, Real)
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
protected:
/// damage internal variable
InternalField<Real> damage;
/// dissipated energy
InternalField<Real> dissipated_energy;
- /// contain the current value of @f$ \int_0^{\epsilon}\sigma(\omega)d\omega @f$ the dissipated energy
+ /// contain the current value of @f$ \int_0^{\epsilon}\sigma(\omega)d\omega
+ /// @f$ the dissipated energy
InternalField<Real> int_sigma;
-
};
__END_AKANTU__
#include "material_damage_tmpl.hh"
#endif /* __AKANTU_MATERIAL_DAMAGE_HH__ */
diff --git a/src/model/solid_mechanics/materials/material_elastic.cc b/src/model/solid_mechanics/materials/material_elastic.cc
index a9207c40d..2f2474e5f 100644
--- a/src/model/solid_mechanics/materials/material_elastic.cc
+++ b/src/model/solid_mechanics/materials/material_elastic.cc
@@ -1,253 +1,259 @@
/**
* @file material_elastic.cc
*
* @author Lucas Frerot <lucas.frerot@epfl.ch>
* @author Daniel Pino Muñoz <daniel.pinomunoz@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
* @author Marco Vocialta <marco.vocialta@epfl.ch>
*
* @date creation: Fri Jun 18 2010
* @date last modification: Thu Oct 15 2015
*
* @brief Specialization of the material class for the elastic material
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "material_elastic.hh"
#include "solid_mechanics_model.hh"
/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
template <UInt dim>
MaterialElastic<dim>::MaterialElastic(SolidMechanicsModel & model,
const ID & id)
- : Material(model, id), Parent(model, id) {
+ : Material(model, id), Parent(model, id), was_stiffness_assembled(false) {
AKANTU_DEBUG_IN();
this->initialize();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
MaterialElastic<dim>::MaterialElastic(SolidMechanicsModel & model,
__attribute__((unused)) UInt a_dim,
const Mesh & mesh, FEEngine & fe_engine,
const ID & id)
: Material(model, dim, mesh, fe_engine, id),
- Parent(model, dim, mesh, fe_engine, id) {
+ Parent(model, dim, mesh, fe_engine, id), was_stiffness_assembled(false) {
AKANTU_DEBUG_IN();
this->initialize();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim> void MaterialElastic<dim>::initialize() {
this->registerParam("lambda", lambda, _pat_readable,
"First Lamé coefficient");
this->registerParam("mu", mu, _pat_readable, "Second Lamé coefficient");
this->registerParam("kapa", kpa, _pat_readable, "Bulk coefficient");
}
/* -------------------------------------------------------------------------- */
template <UInt dim> void MaterialElastic<dim>::initMaterial() {
AKANTU_DEBUG_IN();
Parent::initMaterial();
if (dim == 1)
this->nu = 0.;
this->updateInternalParameters();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim> void MaterialElastic<dim>::updateInternalParameters() {
MaterialThermal<dim>::updateInternalParameters();
this->lambda = this->nu * this->E / ((1 + this->nu) * (1 - 2 * this->nu));
this->mu = this->E / (2 * (1 + this->nu));
this->kpa = this->lambda + 2. / 3. * this->mu;
+
+ this->was_stiffness_assembled = false;
}
/* -------------------------------------------------------------------------- */
template <> void MaterialElastic<2>::updateInternalParameters() {
MaterialThermal<2>::updateInternalParameters();
this->lambda = this->nu * this->E / ((1 + this->nu) * (1 - 2 * this->nu));
this->mu = this->E / (2 * (1 + this->nu));
if (this->plane_stress)
this->lambda = this->nu * this->E / ((1 + this->nu) * (1 - this->nu));
this->kpa = this->lambda + 2. / 3. * this->mu;
+
+ this->was_stiffness_assembled = false;
}
/* -------------------------------------------------------------------------- */
template <UInt spatial_dimension>
void MaterialElastic<spatial_dimension>::computeStress(ElementType el_type,
GhostType ghost_type) {
AKANTU_DEBUG_IN();
Parent::computeStress(el_type, ghost_type);
Array<Real>::const_scalar_iterator sigma_th_it =
this->sigma_th(el_type, ghost_type).begin();
if (!this->finite_deformation) {
MATERIAL_STRESS_QUADRATURE_POINT_LOOP_BEGIN(el_type, ghost_type);
const Real & sigma_th = *sigma_th_it;
this->computeStressOnQuad(grad_u, sigma, sigma_th);
++sigma_th_it;
MATERIAL_STRESS_QUADRATURE_POINT_LOOP_END;
} else {
/// finite gradus
Matrix<Real> E(spatial_dimension, spatial_dimension);
MATERIAL_STRESS_QUADRATURE_POINT_LOOP_BEGIN(el_type, ghost_type);
/// compute E
this->template gradUToGreenStrain<spatial_dimension>(grad_u, E);
const Real & sigma_th = *sigma_th_it;
/// compute second Piola-Kirchhoff stress tensor
this->computeStressOnQuad(E, sigma, sigma_th);
++sigma_th_it;
MATERIAL_STRESS_QUADRATURE_POINT_LOOP_END;
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt spatial_dimension>
void MaterialElastic<spatial_dimension>::computeTangentModuli(
__attribute__((unused)) const ElementType & el_type,
Array<Real> & tangent_matrix,
__attribute__((unused)) GhostType ghost_type) {
AKANTU_DEBUG_IN();
MATERIAL_TANGENT_QUADRATURE_POINT_LOOP_BEGIN(tangent_matrix);
this->computeTangentModuliOnQuad(tangent);
MATERIAL_TANGENT_QUADRATURE_POINT_LOOP_END;
+ this->was_stiffness_assembled = true;
+
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt spatial_dimension>
Real MaterialElastic<spatial_dimension>::getPushWaveSpeed(
__attribute__((unused)) const Element & element) const {
return sqrt((lambda + 2 * mu) / this->rho);
}
/* -------------------------------------------------------------------------- */
template <UInt spatial_dimension>
Real MaterialElastic<spatial_dimension>::getShearWaveSpeed(
__attribute__((unused)) const Element & element) const {
return sqrt(mu / this->rho);
}
/* -------------------------------------------------------------------------- */
template <UInt spatial_dimension>
void MaterialElastic<spatial_dimension>::computePotentialEnergy(
ElementType el_type, GhostType ghost_type) {
AKANTU_DEBUG_IN();
MaterialThermal<spatial_dimension>::computePotentialEnergy(el_type,
ghost_type);
if (ghost_type != _not_ghost)
return;
Array<Real>::scalar_iterator epot =
this->potential_energy(el_type, ghost_type).begin();
if (!this->finite_deformation) {
MATERIAL_STRESS_QUADRATURE_POINT_LOOP_BEGIN(el_type, ghost_type);
this->computePotentialEnergyOnQuad(grad_u, sigma, *epot);
++epot;
MATERIAL_STRESS_QUADRATURE_POINT_LOOP_END;
} else {
Matrix<Real> E(spatial_dimension, spatial_dimension);
MATERIAL_STRESS_QUADRATURE_POINT_LOOP_BEGIN(el_type, ghost_type);
this->template gradUToGreenStrain<spatial_dimension>(grad_u, E);
this->computePotentialEnergyOnQuad(E, sigma, *epot);
++epot;
MATERIAL_STRESS_QUADRATURE_POINT_LOOP_END;
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt spatial_dimension>
void MaterialElastic<spatial_dimension>::computePotentialEnergyByElement(
ElementType type, UInt index, Vector<Real> & epot_on_quad_points) {
Array<Real>::matrix_iterator gradu_it =
this->gradu(type).begin(spatial_dimension, spatial_dimension);
Array<Real>::matrix_iterator gradu_end =
this->gradu(type).begin(spatial_dimension, spatial_dimension);
Array<Real>::matrix_iterator stress_it =
this->stress(type).begin(spatial_dimension, spatial_dimension);
if (this->finite_deformation)
stress_it = this->piola_kirchhoff_2(type)
.begin(spatial_dimension, spatial_dimension);
UInt nb_quadrature_points =
this->model->getFEEngine().getNbIntegrationPoints(type);
gradu_it += index * nb_quadrature_points;
gradu_end += (index + 1) * nb_quadrature_points;
stress_it += index * nb_quadrature_points;
Real * epot_quad = epot_on_quad_points.storage();
Matrix<Real> grad_u(spatial_dimension, spatial_dimension);
for (; gradu_it != gradu_end; ++gradu_it, ++stress_it, ++epot_quad) {
if (this->finite_deformation)
this->template gradUToGreenStrain<spatial_dimension>(*gradu_it, grad_u);
else
grad_u.copy(*gradu_it);
this->computePotentialEnergyOnQuad(grad_u, *stress_it, *epot_quad);
}
}
/* -------------------------------------------------------------------------- */
INSTANTIATE_MATERIAL(MaterialElastic);
__END_AKANTU__
diff --git a/src/model/solid_mechanics/materials/material_elastic.hh b/src/model/solid_mechanics/materials/material_elastic.hh
index 15214a1d3..fd011833f 100644
--- a/src/model/solid_mechanics/materials/material_elastic.hh
+++ b/src/model/solid_mechanics/materials/material_elastic.hh
@@ -1,153 +1,158 @@
/**
* @file material_elastic.hh
*
* @author Lucas Frerot <lucas.frerot@epfl.ch>
* @author Daniel Pino Muñoz <daniel.pinomunoz@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Fri Jun 18 2010
* @date last modification: Sun Nov 15 2015
*
* @brief Material isotropic elastic
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "aka_common.hh"
#include "material_thermal.hh"
#include "plane_stress_toolbox.hh"
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_MATERIAL_ELASTIC_HH__
#define __AKANTU_MATERIAL_ELASTIC_HH__
-__BEGIN_AKANTU__
+namespace akantu {
/**
* Material elastic isotropic
*
* parameters in the material files :
* - E : Young's modulus (default: 0)
* - nu : Poisson's ratio (default: 1/2)
* - Plane_Stress : if 0: plane strain, else: plane stress (default: 0)
*/
-template<UInt spatial_dimension>
-class MaterialElastic : public PlaneStressToolbox< spatial_dimension,
- MaterialThermal<spatial_dimension> > {
+template <UInt spatial_dimension>
+class MaterialElastic
+ : public PlaneStressToolbox<spatial_dimension,
+ MaterialThermal<spatial_dimension>> {
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
private:
- typedef PlaneStressToolbox< spatial_dimension,
- MaterialThermal<spatial_dimension> > Parent;
-public:
+ typedef PlaneStressToolbox<spatial_dimension,
+ MaterialThermal<spatial_dimension>>
+ Parent;
+public:
MaterialElastic(SolidMechanicsModel & model, const ID & id = "");
- MaterialElastic(SolidMechanicsModel & model,
- UInt dim,
- const Mesh & mesh,
- FEEngine & fe_engine,
- const ID & id = "");
+ MaterialElastic(SolidMechanicsModel & model, UInt dim, const Mesh & mesh,
+ FEEngine & fe_engine, const ID & id = "");
virtual ~MaterialElastic() {}
protected:
void initialize();
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
public:
-
virtual void initMaterial();
/// constitutive law for all element of a type
- virtual void computeStress(ElementType el_type, GhostType ghost_type = _not_ghost);
+ virtual void computeStress(ElementType el_type,
+ GhostType ghost_type = _not_ghost);
/// compute the tangent stiffness matrix for an element type
virtual void computeTangentModuli(const ElementType & el_type,
- Array<Real> & tangent_matrix,
- GhostType ghost_type = _not_ghost);
+ Array<Real> & tangent_matrix,
+ GhostType ghost_type = _not_ghost);
/// compute the elastic potential energy
virtual void computePotentialEnergy(ElementType el_type,
- GhostType ghost_type = _not_ghost);
+ GhostType ghost_type = _not_ghost);
- virtual void computePotentialEnergyByElement(ElementType type, UInt index,
- Vector<Real> & epot_on_quad_points);
+ virtual void
+ computePotentialEnergyByElement(ElementType type, UInt index,
+ Vector<Real> & epot_on_quad_points);
/// compute the p-wave speed in the material
virtual Real getPushWaveSpeed(const Element & element) const;
/// compute the s-wave speed in the material
virtual Real getShearWaveSpeed(const Element & element) const;
protected:
/// constitutive law for a given quadrature point
inline void computeStressOnQuad(const Matrix<Real> & grad_u,
- Matrix<Real> & sigma,
- const Real sigma_th = 0) const;
+ Matrix<Real> & sigma,
+ const Real sigma_th = 0) const;
/// compute the tangent stiffness matrix for an element
inline void computeTangentModuliOnQuad(Matrix<Real> & tangent) const;
/// recompute the lame coefficient if E or nu changes
virtual void updateInternalParameters();
static inline void computePotentialEnergyOnQuad(const Matrix<Real> & grad_u,
- const Matrix<Real> & sigma,
- Real & epot);
+ const Matrix<Real> & sigma,
+ Real & epot);
+
+ virtual bool hasStiffnessMatrixChanged() {
+ return (! was_stiffness_assembled);
+ }
/* ------------------------------------------------------------------------ */
/* Accessors */
/* ------------------------------------------------------------------------ */
public:
/// get first Lame constant
AKANTU_GET_MACRO(Lambda, lambda, Real);
/// get second Lame constant
AKANTU_GET_MACRO(Mu, mu, Real);
/// get bulk modulus
AKANTU_GET_MACRO(Kappa, kpa, Real);
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
protected:
-
/// First Lamé coefficient
Real lambda;
/// Second Lamé coefficient (shear modulus)
Real mu;
/// Bulk modulus
Real kpa;
+ /// defines if the stiffness was computed
+ bool was_stiffness_assembled;
};
-__END_AKANTU__
+} // akantu
#include "material_elastic_inline_impl.cc"
#endif /* __AKANTU_MATERIAL_ELASTIC_HH__ */
diff --git a/src/model/solid_mechanics/materials/material_elastic_linear_anisotropic.cc b/src/model/solid_mechanics/materials/material_elastic_linear_anisotropic.cc
index 920508245..617bb1e6b 100644
--- a/src/model/solid_mechanics/materials/material_elastic_linear_anisotropic.cc
+++ b/src/model/solid_mechanics/materials/material_elastic_linear_anisotropic.cc
@@ -1,309 +1,313 @@
/**
* @file material_elastic_linear_anisotropic.cc
*
* @author Till Junge <till.junge@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Wed Sep 25 2013
* @date last modification: Thu Oct 15 2015
*
* @brief Anisotropic elastic material
*
* @section LICENSE
*
* Copyright (©) 2014, 2015 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
#include "material_elastic_linear_anisotropic.hh"
#include "solid_mechanics_model.hh"
#include <algorithm>
#include <sstream>
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
template <UInt dim>
MaterialElasticLinearAnisotropic<dim>::MaterialElasticLinearAnisotropic(
SolidMechanicsModel & model, const ID & id, bool symmetric)
: Material(model, id), rot_mat(dim, dim), Cprime(dim * dim, dim * dim),
C(voigt_h::size, voigt_h::size), eigC(voigt_h::size),
- symmetric(symmetric), alpha(0) {
+ symmetric(symmetric), alpha(0), was_stiffness_assembled(false) {
AKANTU_DEBUG_IN();
this->dir_vecs.push_back(new Vector<Real>(dim));
(*this->dir_vecs.back())[0] = 1.;
this->registerParam("n1", *(this->dir_vecs.back()), _pat_parsmod,
"Direction of main material axis");
this->dir_vecs.push_back(new Vector<Real>(dim));
(*this->dir_vecs.back())[1] = 1.;
this->registerParam("n2", *(this->dir_vecs.back()), _pat_parsmod,
"Direction of secondary material axis");
if (dim > 2) {
this->dir_vecs.push_back(new Vector<Real>(dim));
(*this->dir_vecs.back())[2] = 1.;
this->registerParam("n3", *(this->dir_vecs.back()), _pat_parsmod,
"Direction of tertiary material axis");
}
for (UInt i = 0; i < voigt_h::size; ++i) {
UInt start = 0;
if (this->symmetric) {
start = i;
}
for (UInt j = start; j < voigt_h::size; ++j) {
std::stringstream param("C");
param << "C" << i + 1 << j + 1;
this->registerParam(param.str(), this->Cprime(i, j), Real(0.),
_pat_parsmod, "Coefficient " + param.str());
}
}
this->registerParam("alpha", this->alpha, _pat_parsmod,
"Proportion of viscous stress");
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
MaterialElasticLinearAnisotropic<dim>::~MaterialElasticLinearAnisotropic() {
for (UInt i = 0; i < dim; ++i) {
delete this->dir_vecs[i];
}
}
/* -------------------------------------------------------------------------- */
template <UInt dim> void MaterialElasticLinearAnisotropic<dim>::initMaterial() {
AKANTU_DEBUG_IN();
Material::initMaterial();
updateInternalParameters();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
void MaterialElasticLinearAnisotropic<dim>::updateInternalParameters() {
Material::updateInternalParameters();
if (this->symmetric) {
for (UInt i = 0; i < voigt_h::size; ++i) {
for (UInt j = i + 1; j < voigt_h::size; ++j) {
this->Cprime(j, i) = this->Cprime(i, j);
}
}
}
this->rotateCprime();
this->C.eig(this->eigC);
+
+ this->was_stiffness_assembled = false;
}
/* -------------------------------------------------------------------------- */
template <UInt Dim> void MaterialElasticLinearAnisotropic<Dim>::rotateCprime() {
// start by filling the empty parts fo Cprime
UInt diff = Dim * Dim - voigt_h::size;
for (UInt i = voigt_h::size; i < Dim * Dim; ++i) {
for (UInt j = 0; j < Dim * Dim; ++j) {
this->Cprime(i, j) = this->Cprime(i - diff, j);
}
}
for (UInt i = 0; i < Dim * Dim; ++i) {
for (UInt j = voigt_h::size; j < Dim * Dim; ++j) {
this->Cprime(i, j) = this->Cprime(i, j - diff);
}
}
// construction of rotator tensor
// normalise rotation matrix
for (UInt j = 0; j < Dim; ++j) {
Vector<Real> rot_vec = this->rot_mat(j);
rot_vec = *this->dir_vecs[j];
rot_vec.normalize();
}
// make sure the vectors form a right-handed base
Vector<Real> test_axis(3);
Vector<Real> v1(3), v2(3), v3(3);
if (Dim == 2) {
for (UInt i = 0; i < Dim; ++i) {
v1[i] = this->rot_mat(0, i);
v2[i] = this->rot_mat(1, i);
v3[i] = 0.;
}
v3[2] = 1.;
v1[2] = 0.;
v2[2] = 0.;
} else if (Dim == 3) {
v1 = this->rot_mat(0);
v2 = this->rot_mat(1);
v3 = this->rot_mat(2);
}
test_axis.crossProduct(v1, v2);
test_axis -= v3;
if (test_axis.norm() > 8 * std::numeric_limits<Real>::epsilon()) {
AKANTU_DEBUG_ERROR("The axis vectors do not form a right-handed coordinate "
<< "system. I. e., ||n1 x n2 - n3|| should be zero, but "
<< "it is " << test_axis.norm() << ".");
}
// create the rotator and the reverse rotator
Matrix<Real> rotator(Dim * Dim, Dim * Dim);
Matrix<Real> revrotor(Dim * Dim, Dim * Dim);
for (UInt i = 0; i < Dim; ++i) {
for (UInt j = 0; j < Dim; ++j) {
for (UInt k = 0; k < Dim; ++k) {
for (UInt l = 0; l < Dim; ++l) {
UInt I = voigt_h::mat[i][j];
UInt J = voigt_h::mat[k][l];
rotator(I, J) = this->rot_mat(k, i) * this->rot_mat(l, j);
revrotor(I, J) = this->rot_mat(i, k) * this->rot_mat(j, l);
}
}
}
}
// create the full rotated matrix
Matrix<Real> Cfull(Dim * Dim, Dim * Dim);
Cfull = rotator * Cprime * revrotor;
for (UInt i = 0; i < voigt_h::size; ++i) {
for (UInt j = 0; j < voigt_h::size; ++j) {
this->C(i, j) = Cfull(i, j);
}
}
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
void MaterialElasticLinearAnisotropic<dim>::computeStress(
ElementType el_type, GhostType ghost_type) {
// Wikipedia convention:
// 2*eps_ij (i!=j) = voigt_eps_I
// http://en.wikipedia.org/wiki/Voigt_notation
AKANTU_DEBUG_IN();
Array<Real>::iterator<Matrix<Real>> gradu_it =
this->gradu(el_type, ghost_type).begin(dim, dim);
Array<Real>::iterator<Matrix<Real>> gradu_end =
this->gradu(el_type, ghost_type).end(dim, dim);
UInt nb_quad_pts = gradu_end - gradu_it;
// create array for strains and stresses of all dof of all gauss points
// for efficient computation of stress
Matrix<Real> voigt_strains(voigt_h::size, nb_quad_pts);
Matrix<Real> voigt_stresses(voigt_h::size, nb_quad_pts);
// copy strains
Matrix<Real> strain(dim, dim);
for (UInt q = 0; gradu_it != gradu_end; ++gradu_it, ++q) {
Matrix<Real> & grad_u = *gradu_it;
for (UInt I = 0; I < voigt_h::size; ++I) {
Real voigt_factor = voigt_h::factors[I];
UInt i = voigt_h::vec[I][0];
UInt j = voigt_h::vec[I][1];
voigt_strains(I, q) = voigt_factor * (grad_u(i, j) + grad_u(j, i)) / 2.;
}
}
// compute the strain rate proportional part if needed
// bool viscous = this->alpha == 0.; // only works if default value
bool viscous = false;
if (viscous) {
Array<Real> strain_rate(0, dim * dim, "strain_rate");
Array<Real> & velocity = this->model->getVelocity();
const Array<UInt> & elem_filter = this->element_filter(el_type, ghost_type);
this->model->getFEEngine().gradientOnIntegrationPoints(
velocity, strain_rate, dim, el_type, ghost_type, elem_filter);
Array<Real>::matrix_iterator gradu_dot_it = strain_rate.begin(dim, dim);
Array<Real>::matrix_iterator gradu_dot_end = strain_rate.end(dim, dim);
Matrix<Real> strain_dot(dim, dim);
for (UInt q = 0; gradu_dot_it != gradu_dot_end; ++gradu_dot_it, ++q) {
Matrix<Real> & grad_u_dot = *gradu_dot_it;
for (UInt I = 0; I < voigt_h::size; ++I) {
Real voigt_factor = voigt_h::factors[I];
UInt i = voigt_h::vec[I][0];
UInt j = voigt_h::vec[I][1];
voigt_strains(I, q) = this->alpha * voigt_factor *
(grad_u_dot(i, j) + grad_u_dot(j, i)) / 2.;
}
}
}
// compute stresses
voigt_stresses = this->C * voigt_strains;
// copy stresses back
Array<Real>::iterator<Matrix<Real>> stress_it =
this->stress(el_type, ghost_type).begin(dim, dim);
Array<Real>::iterator<Matrix<Real>> stress_end =
this->stress(el_type, ghost_type).end(dim, dim);
for (UInt q = 0; stress_it != stress_end; ++stress_it, ++q) {
Matrix<Real> & stress = *stress_it;
for (UInt I = 0; I < voigt_h::size; ++I) {
UInt i = voigt_h::vec[I][0];
UInt j = voigt_h::vec[I][1];
stress(i, j) = stress(j, i) = voigt_stresses(I, q);
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
void MaterialElasticLinearAnisotropic<dim>::computeTangentModuli(
const ElementType & el_type, Array<Real> & tangent_matrix,
GhostType ghost_type) {
AKANTU_DEBUG_IN();
MATERIAL_TANGENT_QUADRATURE_POINT_LOOP_BEGIN(tangent_matrix);
tangent.copy(this->C);
MATERIAL_TANGENT_QUADRATURE_POINT_LOOP_END;
+ this->was_stiffness_assembled = true;
+
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <UInt dim>
Real MaterialElasticLinearAnisotropic<dim>::getCelerity(
__attribute__((unused)) const Element & element) const {
return std::sqrt(this->eigC(0) / rho);
}
/* -------------------------------------------------------------------------- */
INSTANTIATE_MATERIAL(MaterialElasticLinearAnisotropic);
__END_AKANTU__
diff --git a/src/model/solid_mechanics/materials/material_elastic_linear_anisotropic.hh b/src/model/solid_mechanics/materials/material_elastic_linear_anisotropic.hh
index 92eefd8f8..2b1b854ac 100644
--- a/src/model/solid_mechanics/materials/material_elastic_linear_anisotropic.hh
+++ b/src/model/solid_mechanics/materials/material_elastic_linear_anisotropic.hh
@@ -1,120 +1,128 @@
/**
* @file material_elastic_linear_anisotropic.hh
*
* @author Till Junge <till.junge@epfl.ch>
*
* @date creation: Fri Jun 18 2010
* @date last modification: Tue Aug 18 2015
*
* @brief Orthotropic elastic material
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
#include "aka_common.hh"
#include "material.hh"
#include "material_elastic.hh"
#include <vector>
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_MATERIAL_ELASTIC_LINEAR_ANISOTROPIC_HH__
#define __AKANTU_MATERIAL_ELASTIC_LINEAR_ANISOTROPIC_HH__
__BEGIN_AKANTU__
/**
* General linear anisotropic elastic material
* The only constraint on the elastic tensor is that it can be represented
* as a symmetric 6x6 matrix (3D) or 3x3 (2D).
*
* parameters in the material files :
* - rho : density (default: 0)
* - C_ij : entry on the stiffness
*/
template <UInt Dim>
class MaterialElasticLinearAnisotropic : public virtual Material {
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
public:
MaterialElasticLinearAnisotropic(SolidMechanicsModel & model,
const ID & id = "", bool symmetric = true);
~MaterialElasticLinearAnisotropic();
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
public:
virtual void initMaterial();
/// constitutive law for all element of a type
virtual void computeStress(ElementType el_type,
GhostType ghost_type = _not_ghost);
/// compute the tangent stiffness matrix for an element type
void computeTangentModuli(const ElementType & el_type,
Array<Real> & tangent_matrix,
GhostType ghost_type = _not_ghost);
virtual void updateInternalParameters();
+ virtual bool hasStiffnessMatrixChanged() {
+ return (! was_stiffness_assembled);
+ }
+
protected:
// compute C from Cprime
void rotateCprime();
/* ------------------------------------------------------------------------ */
/* Accessors */
/* ------------------------------------------------------------------------ */
public:
/// compute max wave celerity
virtual Real getCelerity(const Element & element) const;
AKANTU_GET_MACRO(VoigtStiffness, C, Matrix<Real>);
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
protected:
typedef VoigtHelper<Dim> voigt_h;
/// direction matrix and vectors
std::vector<Vector<Real> *> dir_vecs;
Matrix<Real> rot_mat;
/// Elastic stiffness tensor in material frame and full vectorised notation
Matrix<Real> Cprime;
/// Elastic stiffness tensor in voigt notation
Matrix<Real> C;
/// eigenvalues of stiffness tensor
Vector<Real> eigC;
+
bool symmetric;
/// viscous proportion
Real alpha;
+
+ /// defines if the stiffness was computed
+ bool was_stiffness_assembled;
};
__END_AKANTU__
#endif /* __AKANTU_MATERIAL_ELASTIC_LINEAR_ANISOTROPIC_HH__ */
diff --git a/src/model/solid_mechanics/solid_mechanics_model.cc b/src/model/solid_mechanics/solid_mechanics_model.cc
index e979c96cd..53258a5c2 100644
--- a/src/model/solid_mechanics/solid_mechanics_model.cc
+++ b/src/model/solid_mechanics/solid_mechanics_model.cc
@@ -1,1564 +1,1554 @@
/**
* @file solid_mechanics_model.cc
*
* @author Ramin Aghababaei <ramin.aghababaei@epfl.ch>
* @author Guillaume Anciaux <guillaume.anciaux@epfl.ch>
* @author Aurelia Isabel Cuba Ramos <aurelia.cubaramos@epfl.ch>
* @author David Simon Kammer <david.kammer@epfl.ch>
* @author Daniel Pino Muñoz <daniel.pinomunoz@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
* @author Clement Roux <clement.roux@epfl.ch>
* @author Marco Vocialta <marco.vocialta@epfl.ch>
*
* @date creation: Tue Jul 27 2010
* @date last modification: Tue Jan 19 2016
*
* @brief Implementation of the SolidMechanicsModel class
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "solid_mechanics_model.hh"
#include "aka_common.hh"
#include "aka_math.hh"
#include "element_group.hh"
#include "group_manager_inline_impl.cc"
#include "static_communicator.hh"
#include "element_synchronizer.hh"
#include "synchronizer_registry.hh"
#include "sparse_matrix.hh"
#include "dumpable_inline_impl.hh"
#ifdef AKANTU_USE_IOHELPER
#include "dumper_element_partition.hh"
#include "dumper_elemental_field.hh"
#include "dumper_field.hh"
#include "dumper_homogenizing_field.hh"
#include "dumper_internal_material_field.hh"
#include "dumper_iohelper.hh"
#include "dumper_material_padders.hh"
#include "dumper_paraview.hh"
#endif
#ifdef AKANTU_DAMAGE_NON_LOCAL
#include "non_local_manager.hh"
#endif
/* -------------------------------------------------------------------------- */
#include <cmath>
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
const SolidMechanicsModelOptions
default_solid_mechanics_model_options(_explicit_lumped_mass, false);
/* -------------------------------------------------------------------------- */
/**
* A solid mechanics model need a mesh and a dimension to be created. the model
* by it self can not do a lot, the good init functions should be called in
* order to configure the model depending on what we want to do.
*
* @param mesh mesh representing the model we want to simulate
* @param dim spatial dimension of the problem, if dim = 0 (default value) the
* dimension of the problem is assumed to be the on of the mesh
* @param id an id to identify the model
*/
SolidMechanicsModel::SolidMechanicsModel(Mesh & mesh, UInt dim, const ID & id,
const MemoryID & memory_id)
: Model(mesh, dim, id, memory_id), BoundaryCondition<SolidMechanicsModel>(),
f_m2a(1.0), displacement(NULL), previous_displacement(NULL),
displacement_increment(NULL), mass(NULL), velocity(NULL),
acceleration(NULL), external_force(NULL), internal_force(NULL),
blocked_dofs(NULL), current_position(NULL), mass_matrix(NULL),
velocity_damping_matrix(NULL), stiffness_matrix(NULL),
jacobian_matrix(NULL), material_index("material index", id, memory_id),
material_local_numbering("material local numbering", id, memory_id),
material_selector(new DefaultMaterialSelector(material_index)),
is_default_material_selector(true), increment_flag(false),
synch_parallel(NULL), are_materials_instantiated(false),
non_local_manager(NULL) { //, pbc_synch(NULL) {
AKANTU_DEBUG_IN();
this->registerFEEngineObject<MyFEEngineType>("SolidMechanicsFEEngine", mesh,
spatial_dimension);
this->mesh.registerEventHandler(*this);
#if defined(AKANTU_USE_IOHELPER)
this->mesh.registerDumper<DumperParaview>("paraview_all", id, true);
this->mesh.addDumpMesh(mesh, spatial_dimension, _not_ghost, _ek_regular);
#endif
this->initDOFManager();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
SolidMechanicsModel::~SolidMechanicsModel() {
AKANTU_DEBUG_IN();
std::vector<Material *>::iterator mat_it;
for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
delete *mat_it;
}
materials.clear();
delete synch_parallel;
if (is_default_material_selector) {
delete material_selector;
material_selector = NULL;
}
flatten_internal_map::iterator fl_it = this->registered_internals.begin();
flatten_internal_map::iterator fl_end = this->registered_internals.end();
for (; fl_it != fl_end; ++fl_it) {
delete fl_it->second;
}
#ifdef AKANTU_DAMAGE_NON_LOCAL
delete non_local_manager;
non_local_manager = NULL;
#endif
// delete pbc_synch;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::setTimeStep(Real time_step, const ID & solver_id) {
Model::setTimeStep(time_step, solver_id);
#if defined(AKANTU_USE_IOHELPER)
this->mesh.getDumper().setTimeStep(time_step);
#endif
}
/* -------------------------------------------------------------------------- */
/* Initialization */
/* -------------------------------------------------------------------------- */
/**
* This function groups many of the initialization in on function. For most of
* basics case the function should be enough. The functions initialize the
* model, the internal vectors, set them to 0, and depending on the parameters
* it also initialize the explicit or implicit solver.
*
* @param material_file the file containing the materials to use
* @param method the analysis method wanted. See the akantu::AnalysisMethod for
* the different possibilities
*/
void SolidMechanicsModel::initFull(const ModelOptions & options) {
Model::initFull(options);
const SolidMechanicsModelOptions & smm_options =
dynamic_cast<const SolidMechanicsModelOptions &>(options);
this->method = smm_options.analysis_method;
// initialize the vectors
this->initArrays();
if (!this->hasDefaultSolver())
this->initNewSolver(this->method);
// initialize pbc
if (this->pbc_pair.size() != 0)
this->initPBC();
#ifdef AKANTU_DAMAGE_NON_LOCAL
/// create the non-local manager object for non-local damage computations
std::stringstream nl_manager_name;
nl_manager_name << "NLManager" << this->id;
this->non_local_manager =
new NonLocalManager(*this, nl_manager_name.str(), this->memory_id);
#endif
// initialize the materials
if (this->parser->getLastParsedFile() != "") {
this->instantiateMaterials();
}
if (!smm_options.no_init_materials) {
this->initMaterials();
}
if (increment_flag)
this->initBC(*this, *displacement, *displacement_increment,
*external_force);
else
this->initBC(*this, *displacement, *external_force);
}
/* -------------------------------------------------------------------------- */
TimeStepSolverType SolidMechanicsModel::getDefaultSolverType() const {
return _tsst_dynamic_lumped;
}
/* -------------------------------------------------------------------------- */
ModelSolverOptions SolidMechanicsModel::getDefaultSolverOptions(
const TimeStepSolverType & type) const {
ModelSolverOptions options;
switch (type) {
case _tsst_dynamic_lumped: {
options.non_linear_solver_type = _nls_lumped;
options.integration_scheme_type["displacement"] = _ist_central_difference;
options.solution_type["displacement"] = IntegrationScheme::_acceleration;
break;
}
case _tsst_static: {
options.non_linear_solver_type = _nls_newton_raphson;
options.integration_scheme_type["displacement"] = _ist_pseudo_time;
options.solution_type["displacement"] = IntegrationScheme::_not_defined;
break;
}
case _tsst_dynamic: {
if (this->method == _explicit_consistent_mass) {
options.non_linear_solver_type = _nls_newton_raphson;
options.integration_scheme_type["displacement"] = _ist_central_difference;
options.solution_type["displacement"] = IntegrationScheme::_acceleration;
} else {
options.non_linear_solver_type = _nls_newton_raphson;
options.integration_scheme_type["displacement"] = _ist_trapezoidal_rule_2;
options.solution_type["displacement"] = IntegrationScheme::_displacement;
}
break;
}
}
return options;
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::initNewSolver(const AnalysisMethod & method) {
ID solver_name;
TimeStepSolverType tss_type;
this->method = method;
switch (this->method) {
case _explicit_lumped_mass: {
solver_name = "explicit_lumped";
tss_type = _tsst_dynamic_lumped;
break;
}
case _explicit_consistent_mass: {
solver_name = "explicit";
tss_type = _tsst_dynamic;
break;
}
case _static: {
solver_name = "static";
tss_type = _tsst_static;
break;
}
case _implicit_dynamic: {
solver_name = "implicit";
tss_type = _tsst_dynamic;
break;
}
}
if (!this->hasSolver(solver_name)) {
ModelSolverOptions options = this->getDefaultSolverOptions(tss_type);
this->getNewSolver(solver_name, tss_type, options.non_linear_solver_type);
this->setIntegrationScheme(solver_name, "displacement",
options.integration_scheme_type["displacement"],
options.solution_type["displacement"]);
this->setDefaultSolver(solver_name);
}
}
/* -------------------------------------------------------------------------- */
template <typename T>
void SolidMechanicsModel::allocNodalField(Array<T> *& array,
__attribute__((unused)) UInt nb_component,
const ID & name) {
if (array == NULL) {
UInt nb_nodes = mesh.getNbNodes();
std::stringstream sstr_disp;
sstr_disp << id << ":" << name;
array = &(alloc<T>(sstr_disp.str(), nb_nodes, spatial_dimension, T()));
}
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::initSolver(
TimeStepSolverType time_step_solver_type,
__attribute__((unused)) NonLinearSolverType non_linear_solver_type) {
DOFManager & dof_manager = this->getDOFManager();
/* ------------------------------------------------------------------------ */
// for alloc type of solvers
this->allocNodalField(this->displacement, spatial_dimension, "displacement");
this->allocNodalField(this->internal_force, spatial_dimension,
"internal_force");
this->allocNodalField(this->external_force, spatial_dimension,
"external_force");
this->allocNodalField(this->blocked_dofs, spatial_dimension, "blocked_dofs");
this->allocNodalField(this->current_position, spatial_dimension,
"current_position");
/* ------------------------------------------------------------------------ */
if (!dof_manager.hasDOFs("displacement")) {
dof_manager.registerDOFs("displacement", *this->displacement, _dst_nodal);
dof_manager.registerBlockedDOFs("displacement", *this->blocked_dofs);
}
/* ------------------------------------------------------------------------ */
// for dynamic
if (time_step_solver_type == _tsst_dynamic ||
time_step_solver_type == _tsst_dynamic_lumped) {
this->allocNodalField(this->velocity, spatial_dimension, "velocity");
this->allocNodalField(this->acceleration, spatial_dimension,
"acceleration");
if (!dof_manager.hasDOFsDerivatives("displacement", 1)) {
dof_manager.registerDOFsDerivative("displacement", 1, *this->velocity);
dof_manager.registerDOFsDerivative("displacement", 2,
*this->acceleration);
}
}
if (time_step_solver_type == _tsst_dynamic ||
time_step_solver_type == _tsst_static) {
if (!dof_manager.hasMatrix("K")) {
dof_manager.getNewMatrix("K", _symmetric);
}
if (!dof_manager.hasMatrix("J")) {
dof_manager.getNewMatrix("J", "K");
}
}
}
/* -------------------------------------------------------------------------- */
// void SolidMechanicsModel::initParallel(MeshPartition & partition,
// DataAccessor<Element> * data_accessor) {
// AKANTU_DEBUG_IN();
// if (data_accessor == NULL)
// data_accessor = this;
// synch_parallel = &createParallelSynch(partition, *data_accessor);
// synch_registry->registerSynchronizer(*synch_parallel, _gst_material_id);
// synch_registry->registerSynchronizer(*synch_parallel, _gst_smm_mass);
// synch_registry->registerSynchronizer(*synch_parallel, _gst_smm_stress);
// synch_registry->registerSynchronizer(*synch_parallel, _gst_smm_boundary);
// synch_registry->registerSynchronizer(*synch_parallel, _gst_for_dump);
// AKANTU_DEBUG_OUT();
// }
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::initFEEngineBoundary() {
FEEngine & fem_boundary = getFEEngineBoundary();
fem_boundary.initShapeFunctions(_not_ghost);
fem_boundary.initShapeFunctions(_ghost);
fem_boundary.computeNormalsOnIntegrationPoints(_not_ghost);
fem_boundary.computeNormalsOnIntegrationPoints(_ghost);
}
-/* -------------------------------------------------------------------------- */
-// void SolidMechanicsModel::initExplicit(AnalysisMethod analysis_method) {
-// AKANTU_DEBUG_IN();
-
-// // in case of switch from implicit to explicit
-// if (!this->isExplicit())
-// method = analysis_method;
-
-// // if (integrator) delete integrator;
-// // integrator = new CentralDifference();
-
-// UInt nb_nodes = acceleration->getSize();
-// UInt nb_degree_of_freedom = acceleration->getNbComponent();
-
-// std::stringstream sstr;
-// sstr << id << ":increment_acceleration";
-// increment_acceleration =
-// &(alloc<Real>(sstr.str(), nb_nodes, nb_degree_of_freedom, Real()));
-
-// AKANTU_DEBUG_OUT();
-// }
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::initArraysPreviousDisplacment() {
AKANTU_DEBUG_IN();
this->setIncrementFlagOn();
if (not this->previous_displacement) {
this->allocNodalField(this->previous_displacement, spatial_dimension,
"previous_displacement");
this->getDOFManager().registerDOFsPrevious("displacement",
*this->previous_displacement);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
/**
* Allocate all the needed vectors. By default their are not necessarily set to
* 0
*/
void SolidMechanicsModel::initArrays() {
AKANTU_DEBUG_IN();
for (UInt g = _not_ghost; g <= _ghost; ++g) {
GhostType gt = (GhostType)g;
Mesh::type_iterator it =
mesh.firstType(spatial_dimension, gt, _ek_not_defined);
Mesh::type_iterator end =
mesh.lastType(spatial_dimension, gt, _ek_not_defined);
for (; it != end; ++it) {
UInt nb_element = mesh.getNbElement(*it, gt);
this->material_index.alloc(nb_element, 1, *it, gt);
this->material_local_numbering.alloc(nb_element, 1, *it, gt);
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
/**
* Initialize the model,basically it pre-compute the shapes, shapes derivatives
* and jacobian
*
*/
void SolidMechanicsModel::initModel() {
/// \todo add the current position as a parameter to initShapeFunctions for
/// large deformation
getFEEngine().initShapeFunctions(_not_ghost);
getFEEngine().initShapeFunctions(_ghost);
}
/* -------------------------------------------------------------------------- */
// void SolidMechanicsModel::initPBC() {
// Model::initPBC();
// registerPBCSynchronizer();
// // as long as there are ones on the diagonal of the matrix, we can put
// // boudandary true for slaves
// std::map<UInt, UInt>::iterator it = pbc_pair.begin();
// std::map<UInt, UInt>::iterator end = pbc_pair.end();
// UInt dim = mesh.getSpatialDimension();
// while (it != end) {
// for (UInt i = 0; i < dim; ++i)
// (*blocked_dofs)((*it).first, i) = true;
// ++it;
// }
// }
// /* -------------------------------------------------------------------------- */
// void SolidMechanicsModel::registerPBCSynchronizer() {
// pbc_synch = new PBCSynchronizer(pbc_pair);
// synch_registry->registerSynchronizer(*pbc_synch, _gst_smm_uv);
// synch_registry->registerSynchronizer(*pbc_synch, _gst_smm_mass);
// synch_registry->registerSynchronizer(*pbc_synch, _gst_smm_res);
// synch_registry->registerSynchronizer(*pbc_synch, _gst_for_dump);
// // changeLocalEquationNumberForPBC(pbc_pair, mesh.getSpatialDimension());
// }
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::assembleResidual() {
AKANTU_DEBUG_IN();
this->assembleInternalForces();
this->getDOFManager().assembleToResidual("displacement",
*this->external_force, 1);
this->getDOFManager().assembleToResidual("displacement",
*this->internal_force, -1);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::assembleJacobian() {
this->assembleStiffnessMatrix();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::predictor() {}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::corrector() {}
/* -------------------------------------------------------------------------- */
/**
* This function computes the internal forces as F_{int} = \int_{\Omega} N
* \sigma d\Omega@f$
*/
void SolidMechanicsModel::assembleInternalForces() {
AKANTU_DEBUG_IN();
AKANTU_DEBUG_INFO("Assemble the internal forces");
this->internal_force->clear();
AKANTU_DEBUG_INFO("Compute local stresses");
std::vector<Material *>::iterator mat_it;
for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
Material & mat = **mat_it;
mat.computeAllStresses(_not_ghost);
}
#ifdef AKANTU_DAMAGE_NON_LOCAL
/* ------------------------------------------------------------------------ */
/* Computation of the non local part */
this->non_local_manager->computeAllNonLocalStresses();
#endif
/* ------------------------------------------------------------------------ */
/* assembling the forces internal */
// communicate the stress
AKANTU_DEBUG_INFO("Send data for residual assembly");
this->asynchronousSynchronize(_gst_smm_stress);
AKANTU_DEBUG_INFO("Assemble residual for local elements");
for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
Material & mat = **mat_it;
mat.assembleInternalForces(_not_ghost);
}
AKANTU_DEBUG_INFO("Wait distant stresses");
// finalize communications
this->waitEndSynchronize(_gst_smm_stress);
AKANTU_DEBUG_INFO("Assemble residual for ghost elements");
for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
Material & mat = **mat_it;
mat.assembleInternalForces(_ghost);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::assembleStiffnessMatrix() {
AKANTU_DEBUG_IN();
AKANTU_DEBUG_INFO("Assemble the new stiffness matrix.");
- this->getDOFManager().getMatrix("K").clear();
+ // Check if materials need to recompute the matrix
+ bool need_to_reassemble = false;
- // call compute stiffness matrix on each local elements
std::vector<Material *>::iterator mat_it;
for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
- (*mat_it)->assembleStiffnessMatrix(_not_ghost);
+ need_to_reassemble |= (*mat_it)->hasStiffnessMatrixChanged();
+ }
+
+
+ if(need_to_reassemble) {
+ this->getDOFManager().getMatrix("K").clear();
+
+ // call compute stiffness matrix on each local elements
+ std::vector<Material *>::iterator mat_it;
+ for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
+ (*mat_it)->assembleStiffnessMatrix(_not_ghost);
+ }
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::updateCurrentPosition() {
AKANTU_DEBUG_IN();
this->current_position->copy(this->mesh.getNodes());
Array<Real>::vector_iterator cpos_it =
this->current_position->begin(spatial_dimension);
Array<Real>::vector_iterator cpos_end =
this->current_position->end(spatial_dimension);
Array<Real>::const_vector_iterator disp_it =
this->displacement->begin(spatial_dimension);
for (; cpos_it != cpos_end; ++cpos_it, ++disp_it) {
*cpos_it += *disp_it;
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
// void SolidMechanicsModel::initializeUpdateResidualData() {
// AKANTU_DEBUG_IN();
// UInt nb_nodes = mesh.getNbNodes();
// internal_force->resize(nb_nodes);
// /// copy the forces in residual for boundary conditions
// this->getDOFManager().assembleToResidual("displacement",
// *this->external_force);
// // start synchronization
// this->asynchronousSynchronize(_gst_smm_uv);
// this->waitEndSynchronize(_gst_smm_uv);
// this->updateCurrentPosition();
// AKANTU_DEBUG_OUT();
// }
/* -------------------------------------------------------------------------- */
/* Explicit scheme */
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
// void SolidMechanicsModel::computeStresses() {
// if (isExplicit()) {
// // start synchronization
// this->asynchronousSynchronize(_gst_smm_uv);
// this->waitEndSynchronize(_gst_smm_uv);
// // compute stresses on all local elements for each materials
// std::vector<Material *>::iterator mat_it;
// for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
// Material & mat = **mat_it;
// mat.computeAllStresses(_not_ghost);
// }
// #ifdef AKANTU_DAMAGE_NON_LOCAL
// /* Computation of the non local part */
// this->non_local_manager->computeAllNonLocalStresses();
// #endif
// } else {
// std::vector<Material *>::iterator mat_it;
// for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
// Material & mat = **mat_it;
// mat.computeAllStressesFromTangentModuli(_not_ghost);
// }
// }
// }
/* -------------------------------------------------------------------------- */
/* Implicit scheme */
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
// /**
// * Initialize the solver and create the sparse matrices needed.
// *
// */
// void SolidMechanicsModel::initSolver(__attribute__((unused))
// SolverOptions & options) {
// UInt nb_global_nodes = mesh.getNbGlobalNodes();
// jacobian_matrix = &(this->getDOFManager().getNewMatrix("jacobian",
// _symmetric));
// // jacobian_matrix->buildProfile(mesh, *dof_synchronizer,
// spatial_dimension);
// if (!isExplicit()) {
// delete stiffness_matrix;
// std::stringstream sstr_sti;
// sstr_sti << id << ":stiffness_matrix";
// stiffness_matrix = &(this->getDOFManager().getNewMatrix("stiffness",
// _symmetric));
// }
// if (solver) solver->initialize(options);
// }
// /* --------------------------------------------------------------------------
// */
// void SolidMechanicsModel::initJacobianMatrix() {
// // @todo make it more flexible: this is an ugly patch to treat the case of
// non
// // fix profile of the K matrix
// delete jacobian_matrix;
// jacobian_matrix = &(this->getDOFManager().getNewMatrix("jacobian",
// "stiffness"));
// std::stringstream sstr_solv; sstr_solv << id << ":solver";
// delete solver;
// solver = new SolverMumps(*jacobian_matrix, sstr_solv.str());
// if(solver)
// solver->initialize(_solver_no_options);
// }
/* -------------------------------------------------------------------------- */
/**
* Initialize the implicit solver, either for dynamic or static cases,
*
* @param dynamic
*/
// void SolidMechanicsModel::initImplicit(bool dynamic) {
// AKANTU_DEBUG_IN();
// method = dynamic ? _implicit_dynamic : _static;
// if (!increment)
// setIncrementFlagOn();
// initSolver();
// // if(method == _implicit_dynamic) {
// // if(integrator) delete integrator;
// // integrator = new TrapezoidalRule2();
// // }
// AKANTU_DEBUG_OUT();
// }
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
// SparseMatrix & SolidMechanicsModel::initVelocityDampingMatrix() {
// return this->getDOFManager().getNewMatrix("velocity_damping", "jacobian");
// }
// /* --------------------------------------------------------------------------
// */
// void SolidMechanicsModel::implicitPred() {
// AKANTU_DEBUG_IN();
// if(previous_displacement) previous_displacement->copy(*displacement);
// if(method == _implicit_dynamic)
// integrator->integrationSchemePred(time_step,
// *displacement,
// *velocity,
// *acceleration,
// *blocked_dofs);
// AKANTU_DEBUG_OUT();
// }
// /* --------------------------------------------------------------------------
// */
// void SolidMechanicsModel::implicitCorr() {
// AKANTU_DEBUG_IN();
// if(method == _implicit_dynamic) {
// integrator->integrationSchemeCorrDispl(time_step,
// *displacement,
// *velocity,
// *acceleration,
// *blocked_dofs,
// *increment);
// } else {
// UInt nb_nodes = displacement->getSize();
// UInt nb_degree_of_freedom = displacement->getNbComponent() * nb_nodes;
// Real * incr_val = increment->storage();
// Real * disp_val = displacement->storage();
// bool * boun_val = blocked_dofs->storage();
// for (UInt j = 0; j < nb_degree_of_freedom; ++j, ++disp_val, ++incr_val,
// ++boun_val){
// *incr_val *= (1. - *boun_val);
// *disp_val += *incr_val;
// }
// }
// AKANTU_DEBUG_OUT();
// }
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::updateIncrement() {
AKANTU_DEBUG_IN();
Array<Real>::vector_iterator incr_it =
this->displacement_increment->begin(spatial_dimension);
Array<Real>::vector_iterator incr_end =
this->displacement_increment->end(spatial_dimension);
Array<Real>::const_vector_iterator disp_it =
this->displacement->begin(spatial_dimension);
Array<Real>::const_vector_iterator prev_disp_it =
this->previous_displacement->begin(spatial_dimension);
for (; incr_it != incr_end; ++incr_it) {
*incr_it = *disp_it;
*incr_it -= *prev_disp_it;
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::updatePreviousDisplacement() {
AKANTU_DEBUG_IN();
AKANTU_DEBUG_ASSERT(
previous_displacement,
"The previous displacement has to be initialized."
<< " Are you working with Finite or Ineslactic deformations?");
previous_displacement->copy(*displacement);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::updateDataForNonLocalCriterion(
ElementTypeMapReal & criterion) {
const ID field_name = criterion.getName();
for (UInt m = 0; m < this->getNbMaterials(); ++m) {
const Material & material = this->getMaterial(m);
if (material.isInternal<Real>(field_name, _ek_regular))
for (UInt g = _not_ghost; g <= _ghost; ++g) {
GhostType ghost_type = (GhostType)g;
material.flattenInternal(field_name, criterion, ghost_type,
_ek_regular);
}
}
}
/* -------------------------------------------------------------------------- */
/* Information */
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::synchronizeBoundaries() {
AKANTU_DEBUG_IN();
this->synchronize(_gst_smm_boundary);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::synchronizeResidual() {
AKANTU_DEBUG_IN();
this->synchronize(_gst_smm_res);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::setIncrementFlagOn() {
AKANTU_DEBUG_IN();
if (!displacement_increment) {
this->allocNodalField(displacement_increment, spatial_dimension,
"displacement_increment");
this->getDOFManager().registerDOFsIncrement("displacement",
*this->displacement_increment);
}
increment_flag = true;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
Real SolidMechanicsModel::getStableTimeStep() {
AKANTU_DEBUG_IN();
Real min_dt = getStableTimeStep(_not_ghost);
/// reduction min over all processors
StaticCommunicator::getStaticCommunicator().allReduce(min_dt, _so_min);
AKANTU_DEBUG_OUT();
return min_dt;
}
/* -------------------------------------------------------------------------- */
Real SolidMechanicsModel::getStableTimeStep(const GhostType & ghost_type) {
AKANTU_DEBUG_IN();
Material ** mat_val = &(materials.at(0));
Real min_dt = std::numeric_limits<Real>::max();
this->updateCurrentPosition();
Element elem;
elem.ghost_type = ghost_type;
elem.kind = _ek_regular;
Mesh::type_iterator it =
mesh.firstType(spatial_dimension, ghost_type, _ek_regular);
Mesh::type_iterator end =
mesh.lastType(spatial_dimension, ghost_type, _ek_regular);
for (; it != end; ++it) {
elem.type = *it;
UInt nb_nodes_per_element = mesh.getNbNodesPerElement(*it);
UInt nb_element = mesh.getNbElement(*it);
Array<UInt>::const_scalar_iterator mat_indexes =
material_index(*it, ghost_type).begin();
Array<UInt>::const_scalar_iterator mat_loc_num =
material_local_numbering(*it, ghost_type).begin();
Array<Real> X(0, nb_nodes_per_element * spatial_dimension);
FEEngine::extractNodalToElementField(mesh, *current_position, X, *it,
_not_ghost);
Array<Real>::matrix_iterator X_el =
X.begin(spatial_dimension, nb_nodes_per_element);
for (UInt el = 0; el < nb_element;
++el, ++X_el, ++mat_indexes, ++mat_loc_num) {
elem.element = *mat_loc_num;
Real el_h = getFEEngine().getElementInradius(*X_el, *it);
Real el_c = mat_val[*mat_indexes]->getCelerity(elem);
Real el_dt = el_h / el_c;
min_dt = std::min(min_dt, el_dt);
}
}
AKANTU_DEBUG_OUT();
return min_dt;
}
/* -------------------------------------------------------------------------- */
Real SolidMechanicsModel::getKineticEnergy() {
AKANTU_DEBUG_IN();
Real ekin = 0.;
UInt nb_nodes = mesh.getNbNodes();
if (this->getDOFManager().hasLumpedMatrix("M")) {
const Array<Real> & M = this->getDOFManager().getLumpedMatrix("M");
Array<Real>::const_vector_iterator m_it = M.begin(spatial_dimension);
Array<Real>::const_vector_iterator m_end = M.end(spatial_dimension);
Array<Real>::const_vector_iterator v_it =
this->velocity->begin(spatial_dimension);
for (UInt n = 0; m_it != m_end; ++n, ++m_it, ++v_it) {
Real mv2 = 0;
bool is_local_node = mesh.isLocalOrMasterNode(n);
bool is_not_pbc_slave_node = !isPBCSlaveNode(n);
bool count_node = is_local_node && is_not_pbc_slave_node;
if (count_node) {
for (UInt i = 0; i < spatial_dimension; ++i) {
Real v = (*v_it)(i);
mv2 += v * v * (*m_it)(i);
}
}
ekin += mv2;
}
} else if (this->getDOFManager().hasMatrix("M")) {
Array<Real> Mv(nb_nodes, spatial_dimension);
this->getDOFManager().getMatrix("M").matVecMul(*this->velocity, Mv);
Array<Real>::const_vector_iterator mv_it = Mv.begin(spatial_dimension);
Array<Real>::const_vector_iterator mv_end = Mv.end(spatial_dimension);
Array<Real>::const_vector_iterator v_it =
this->velocity->begin(spatial_dimension);
for (; mv_it != mv_end; ++mv_it, ++v_it) {
ekin += v_it->dot(*mv_it);
}
} else {
AKANTU_DEBUG_ERROR("No function called to assemble the mass matrix.");
}
StaticCommunicator::getStaticCommunicator().allReduce(ekin, _so_sum);
AKANTU_DEBUG_OUT();
return ekin * .5;
}
/* -------------------------------------------------------------------------- */
Real SolidMechanicsModel::getKineticEnergy(const ElementType & type,
UInt index) {
AKANTU_DEBUG_IN();
UInt nb_quadrature_points = getFEEngine().getNbIntegrationPoints(type);
Array<Real> vel_on_quad(nb_quadrature_points, spatial_dimension);
Array<UInt> filter_element(1, 1, index);
getFEEngine().interpolateOnIntegrationPoints(*velocity, vel_on_quad,
spatial_dimension, type,
_not_ghost, filter_element);
Array<Real>::vector_iterator vit = vel_on_quad.begin(spatial_dimension);
Array<Real>::vector_iterator vend = vel_on_quad.end(spatial_dimension);
Vector<Real> rho_v2(nb_quadrature_points);
Real rho = materials[material_index(type)(index)]->getRho();
for (UInt q = 0; vit != vend; ++vit, ++q) {
rho_v2(q) = rho * vit->dot(*vit);
}
AKANTU_DEBUG_OUT();
return .5 * getFEEngine().integrate(rho_v2, type, index);
}
/* -------------------------------------------------------------------------- */
Real SolidMechanicsModel::getExternalWork() {
AKANTU_DEBUG_IN();
Real * incr_or_velo = NULL;
if (this->method == _static) {
incr_or_velo = this->displacement_increment->storage();
} else {
incr_or_velo = this->velocity->storage();
}
Real * forc = external_force->storage();
Real * resi = internal_force->storage();
bool * boun = blocked_dofs->storage();
Real work = 0.;
UInt nb_nodes = this->mesh.getNbNodes();
for (UInt n = 0; n < nb_nodes; ++n) {
bool is_local_node = this->mesh.isLocalOrMasterNode(n);
bool is_not_pbc_slave_node = !this->isPBCSlaveNode(n);
bool count_node = is_local_node && is_not_pbc_slave_node;
for (UInt i = 0; i < this->spatial_dimension; ++i) {
if (count_node) {
if (*boun)
work -= *resi * *incr_or_velo;
else
work += *forc * *incr_or_velo;
}
++incr_or_velo;
++forc;
++resi;
++boun;
}
}
StaticCommunicator::getStaticCommunicator().allReduce(work, _so_sum);
if (this->method != _static)
work *= this->getTimeStep();
AKANTU_DEBUG_OUT();
return work;
}
/* -------------------------------------------------------------------------- */
Real SolidMechanicsModel::getEnergy(const std::string & energy_id) {
AKANTU_DEBUG_IN();
if (energy_id == "kinetic") {
return getKineticEnergy();
} else if (energy_id == "external work") {
return getExternalWork();
}
Real energy = 0.;
std::vector<Material *>::iterator mat_it;
for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
energy += (*mat_it)->getEnergy(energy_id);
}
/// reduction sum over all processors
StaticCommunicator::getStaticCommunicator().allReduce(energy, _so_sum);
AKANTU_DEBUG_OUT();
return energy;
}
/* -------------------------------------------------------------------------- */
Real SolidMechanicsModel::getEnergy(const std::string & energy_id,
const ElementType & type, UInt index) {
AKANTU_DEBUG_IN();
if (energy_id == "kinetic") {
return getKineticEnergy(type, index);
}
std::vector<Material *>::iterator mat_it;
UInt mat_index = this->material_index(type, _not_ghost)(index);
UInt mat_loc_num = this->material_local_numbering(type, _not_ghost)(index);
Real energy =
this->materials[mat_index]->getEnergy(energy_id, type, mat_loc_num);
AKANTU_DEBUG_OUT();
return energy;
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::onElementsAdded(const Array<Element> & element_list,
const NewElementsEvent & event) {
AKANTU_DEBUG_IN();
this->getFEEngine().initShapeFunctions(_not_ghost);
this->getFEEngine().initShapeFunctions(_ghost);
for (UInt g = _not_ghost; g <= _ghost; ++g) {
GhostType gt = (GhostType)g;
Mesh::type_iterator it =
this->mesh.firstType(spatial_dimension, gt, _ek_not_defined);
Mesh::type_iterator end =
this->mesh.lastType(spatial_dimension, gt, _ek_not_defined);
for (; it != end; ++it) {
UInt nb_element = this->mesh.getNbElement(*it, gt);
if (!material_index.exists(*it, gt)) {
this->material_index.alloc(nb_element, 1, *it, gt);
this->material_local_numbering.alloc(nb_element, 1, *it, gt);
} else {
this->material_index(*it, gt).resize(nb_element);
this->material_local_numbering(*it, gt).resize(nb_element);
}
}
}
Array<Element>::const_iterator<Element> it = element_list.begin();
Array<Element>::const_iterator<Element> end = element_list.end();
ElementTypeMapArray<UInt> filter("new_element_filter", this->getID(),
this->getMemoryID());
for (UInt el = 0; it != end; ++it, ++el) {
const Element & elem = *it;
if (!filter.exists(elem.type, elem.ghost_type))
filter.alloc(0, 1, elem.type, elem.ghost_type);
filter(elem.type, elem.ghost_type).push_back(elem.element);
}
this->assignMaterialToElements(&filter);
std::vector<Material *>::iterator mat_it;
for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
(*mat_it)->onElementsAdded(element_list, event);
}
// if (method == _explicit_lumped_mass)
// this->assembleMassLumped();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::onElementsRemoved(
__attribute__((unused)) const Array<Element> & element_list,
const ElementTypeMapArray<UInt> & new_numbering,
const RemovedElementsEvent & event) {
this->getFEEngine().initShapeFunctions(_not_ghost);
this->getFEEngine().initShapeFunctions(_ghost);
std::vector<Material *>::iterator mat_it;
for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
(*mat_it)->onElementsRemoved(element_list, new_numbering, event);
}
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::onNodesAdded(const Array<UInt> & nodes_list,
__attribute__((unused))
const NewNodesEvent & event) {
AKANTU_DEBUG_IN();
UInt nb_nodes = mesh.getNbNodes();
if (displacement)
displacement->resize(nb_nodes, 0.);
if (mass)
mass->resize(nb_nodes, 0.);
if (velocity)
velocity->resize(nb_nodes, 0.);
if (acceleration)
acceleration->resize(nb_nodes, 0.);
if (external_force)
external_force->resize(nb_nodes, 0.);
if (internal_force)
internal_force->resize(nb_nodes, 0.);
if (blocked_dofs)
blocked_dofs->resize(nb_nodes, 0.);
if (previous_displacement)
previous_displacement->resize(nb_nodes, 0.);
if (displacement_increment)
displacement_increment->resize(nb_nodes, 0.);
std::vector<Material *>::iterator mat_it;
for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
(*mat_it)->onNodesAdded(nodes_list, event);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::onNodesRemoved(__attribute__((unused))
const Array<UInt> & element_list,
const Array<UInt> & new_numbering,
__attribute__((unused))
const RemovedNodesEvent & event) {
if (displacement)
mesh.removeNodesFromArray(*displacement, new_numbering);
if (mass)
mesh.removeNodesFromArray(*mass, new_numbering);
if (velocity)
mesh.removeNodesFromArray(*velocity, new_numbering);
if (acceleration)
mesh.removeNodesFromArray(*acceleration, new_numbering);
if (internal_force)
mesh.removeNodesFromArray(*internal_force, new_numbering);
if (external_force)
mesh.removeNodesFromArray(*external_force, new_numbering);
if (blocked_dofs)
mesh.removeNodesFromArray(*blocked_dofs, new_numbering);
// if (increment_acceleration)
// mesh.removeNodesFromArray(*increment_acceleration, new_numbering);
if (displacement_increment)
mesh.removeNodesFromArray(*displacement_increment, new_numbering);
if (previous_displacement)
mesh.removeNodesFromArray(*previous_displacement, new_numbering);
// if (method != _explicit_lumped_mass) {
// this->initSolver();
// }
}
/* -------------------------------------------------------------------------- */
bool SolidMechanicsModel::isInternal(const std::string & field_name,
const ElementKind & element_kind) {
bool is_internal = false;
/// check if at least one material contains field_id as an internal
for (UInt m = 0; m < materials.size() && !is_internal; ++m) {
is_internal |= materials[m]->isInternal<Real>(field_name, element_kind);
}
return is_internal;
}
/* -------------------------------------------------------------------------- */
ElementTypeMap<UInt>
SolidMechanicsModel::getInternalDataPerElem(const std::string & field_name,
const ElementKind & element_kind) {
if (!(this->isInternal(field_name, element_kind)))
AKANTU_EXCEPTION("unknown internal " << field_name);
for (UInt m = 0; m < materials.size(); ++m) {
if (materials[m]->isInternal<Real>(field_name, element_kind))
return materials[m]->getInternalDataPerElem<Real>(field_name,
element_kind);
}
return ElementTypeMap<UInt>();
}
/* -------------------------------------------------------------------------- */
ElementTypeMapArray<Real> &
SolidMechanicsModel::flattenInternal(const std::string & field_name,
const ElementKind & kind,
const GhostType ghost_type) {
std::pair<std::string, ElementKind> key(field_name, kind);
if (this->registered_internals.count(key) == 0) {
this->registered_internals[key] =
new ElementTypeMapArray<Real>(field_name, this->id, this->memory_id);
}
ElementTypeMapArray<Real> * internal_flat = this->registered_internals[key];
typedef Mesh::type_iterator iterator;
iterator tit = this->mesh.firstType(spatial_dimension, ghost_type, kind);
iterator end = this->mesh.lastType(spatial_dimension, ghost_type, kind);
for (; tit != end; ++tit) {
ElementType type = *tit;
if (internal_flat->exists(type, ghost_type)) {
(*internal_flat)(type, ghost_type).clear();
(*internal_flat)(type, ghost_type).resize(0);
}
}
for (UInt m = 0; m < materials.size(); ++m) {
if (materials[m]->isInternal<Real>(field_name, kind))
materials[m]->flattenInternal(field_name, *internal_flat, ghost_type,
kind);
}
return *internal_flat;
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::flattenAllRegisteredInternals(
const ElementKind & kind) {
typedef std::map<std::pair<std::string, ElementKind>,
ElementTypeMapArray<Real> *>::iterator iterator;
iterator it = this->registered_internals.begin();
iterator end = this->registered_internals.end();
while (it != end) {
if (kind == it->first.second)
this->flattenInternal(it->first.first, kind);
++it;
}
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModel::onDump() {
this->flattenAllRegisteredInternals(_ek_regular);
}
/* -------------------------------------------------------------------------- */
#ifdef AKANTU_USE_IOHELPER
dumper::Field * SolidMechanicsModel::createElementalField(
const std::string & field_name, const std::string & group_name,
bool padding_flag, const UInt & spatial_dimension,
const ElementKind & kind) {
dumper::Field * field = NULL;
if (field_name == "partitions")
field = mesh.createElementalField<UInt, dumper::ElementPartitionField>(
mesh.getConnectivities(), group_name, spatial_dimension, kind);
else if (field_name == "material_index")
field = mesh.createElementalField<UInt, Vector, dumper::ElementalField>(
material_index, group_name, spatial_dimension, kind);
else {
// this copy of field_name is used to compute derivated data such as
// strain and von mises stress that are based on grad_u and stress
std::string field_name_copy(field_name);
if (field_name == "strain" || field_name == "Green strain" ||
field_name == "principal strain" ||
field_name == "principal Green strain")
field_name_copy = "grad_u";
else if (field_name == "Von Mises stress")
field_name_copy = "stress";
bool is_internal = this->isInternal(field_name_copy, kind);
if (is_internal) {
ElementTypeMap<UInt> nb_data_per_elem =
this->getInternalDataPerElem(field_name_copy, kind);
ElementTypeMapArray<Real> & internal_flat =
this->flattenInternal(field_name_copy, kind);
field = mesh.createElementalField<Real, dumper::InternalMaterialField>(
internal_flat, group_name, spatial_dimension, kind, nb_data_per_elem);
if (field_name == "strain") {
dumper::ComputeStrain<false> * foo =
new dumper::ComputeStrain<false>(*this);
field = dumper::FieldComputeProxy::createFieldCompute(field, *foo);
} else if (field_name == "Von Mises stress") {
dumper::ComputeVonMisesStress * foo =
new dumper::ComputeVonMisesStress(*this);
field = dumper::FieldComputeProxy::createFieldCompute(field, *foo);
} else if (field_name == "Green strain") {
dumper::ComputeStrain<true> * foo =
new dumper::ComputeStrain<true>(*this);
field = dumper::FieldComputeProxy::createFieldCompute(field, *foo);
} else if (field_name == "principal strain") {
dumper::ComputePrincipalStrain<false> * foo =
new dumper::ComputePrincipalStrain<false>(*this);
field = dumper::FieldComputeProxy::createFieldCompute(field, *foo);
} else if (field_name == "principal Green strain") {
dumper::ComputePrincipalStrain<true> * foo =
new dumper::ComputePrincipalStrain<true>(*this);
field = dumper::FieldComputeProxy::createFieldCompute(field, *foo);
}
// treat the paddings
if (padding_flag) {
if (field_name == "stress") {
if (spatial_dimension == 2) {
dumper::StressPadder<2> * foo = new dumper::StressPadder<2>(*this);
field = dumper::FieldComputeProxy::createFieldCompute(field, *foo);
}
} else if (field_name == "strain" || field_name == "Green strain") {
if (spatial_dimension == 2) {
dumper::StrainPadder<2> * foo = new dumper::StrainPadder<2>(*this);
field = dumper::FieldComputeProxy::createFieldCompute(field, *foo);
}
}
}
// homogenize the field
dumper::ComputeFunctorInterface * foo =
dumper::HomogenizerProxy::createHomogenizer(*field);
field = dumper::FieldComputeProxy::createFieldCompute(field, *foo);
}
}
return field;
}
/* --------------------------------------------------------------------------
*/
dumper::Field *
SolidMechanicsModel::createNodalFieldReal(const std::string & field_name,
const std::string & group_name,
bool padding_flag) {
std::map<std::string, Array<Real> *> real_nodal_fields;
real_nodal_fields["displacement"] = this->displacement;
real_nodal_fields["mass"] = this->mass;
real_nodal_fields["velocity"] = this->velocity;
real_nodal_fields["acceleration"] = this->acceleration;
real_nodal_fields["force"] = this->external_force;
real_nodal_fields["internal_force"] = this->internal_force;
real_nodal_fields["increment"] = this->displacement_increment;
dumper::Field * field = NULL;
if (padding_flag)
field = this->mesh.createNodalField(real_nodal_fields[field_name],
group_name, 3);
else
field =
this->mesh.createNodalField(real_nodal_fields[field_name], group_name);
return field;
}
/* --------------------------------------------------------------------------
*/
dumper::Field *
SolidMechanicsModel::createNodalFieldBool(const std::string & field_name,
const std::string & group_name,
__attribute__((unused)) bool padding_flag) {
std::map<std::string, Array<bool> *> uint_nodal_fields;
uint_nodal_fields["blocked_dofs"] = blocked_dofs;
dumper::Field * field = NULL;
field = mesh.createNodalField(uint_nodal_fields[field_name], group_name);
return field;
}
/* -------------------------------------------------------------------------- */
#else
/* --------------------------------------------------------------------------
*/
dumper::Field * SolidMechanicsModel::createElementalField(
__attribute__((unused)) const std::string & field_name,
__attribute__((unused)) const std::string & group_name,
__attribute__((unused)) bool padding_flag,
__attribute__((unused)) const UInt & spatial_dimension,
__attribute__((unused)) const ElementKind & kind) {
return NULL;
}
/* --------------------------------------------------------------------------
*/
dumper::Field * SolidMechanicsModel::createNodalFieldReal(
__attribute__((unused)) const std::string & field_name,
__attribute__((unused)) const std::string & group_name,
__attribute__((unused)) bool padding_flag) {
return NULL;
}
/* --------------------------------------------------------------------------
*/
dumper::Field * SolidMechanicsModel::createNodalFieldBool(
__attribute__((unused)) const std::string & field_name,
__attribute__((unused)) const std::string & group_name,
__attribute__((unused)) bool padding_flag) {
return NULL;
}
#endif
/* --------------------------------------------------------------------------
*/
void SolidMechanicsModel::dump(const std::string & dumper_name) {
this->onDump();
EventManager::sendEvent(SolidMechanicsModelEvent::BeforeDumpEvent());
mesh.dump(dumper_name);
}
/* --------------------------------------------------------------------------
*/
void SolidMechanicsModel::dump(const std::string & dumper_name, UInt step) {
this->onDump();
EventManager::sendEvent(SolidMechanicsModelEvent::BeforeDumpEvent());
mesh.dump(dumper_name, step);
}
/* -------------------------------------------------------------------------
*/
void SolidMechanicsModel::dump(const std::string & dumper_name, Real time,
UInt step) {
this->onDump();
EventManager::sendEvent(SolidMechanicsModelEvent::BeforeDumpEvent());
mesh.dump(dumper_name, time, step);
}
/* --------------------------------------------------------------------------
*/
void SolidMechanicsModel::dump() {
this->onDump();
EventManager::sendEvent(SolidMechanicsModelEvent::BeforeDumpEvent());
mesh.dump();
}
/* --------------------------------------------------------------------------
*/
void SolidMechanicsModel::dump(UInt step) {
this->onDump();
EventManager::sendEvent(SolidMechanicsModelEvent::BeforeDumpEvent());
mesh.dump(step);
}
/* --------------------------------------------------------------------------
*/
void SolidMechanicsModel::dump(Real time, UInt step) {
this->onDump();
EventManager::sendEvent(SolidMechanicsModelEvent::BeforeDumpEvent());
mesh.dump(time, step);
}
/* --------------------------------------------------------------------------
*/
void SolidMechanicsModel::printself(std::ostream & stream, int indent) const {
std::string space;
for (Int i = 0; i < indent; i++, space += AKANTU_INDENT)
;
stream << space << "Solid Mechanics Model [" << std::endl;
stream << space << " + id : " << id << std::endl;
stream << space << " + spatial dimension : " << spatial_dimension
<< std::endl;
stream << space << " + fem [" << std::endl;
getFEEngine().printself(stream, indent + 2);
stream << space << AKANTU_INDENT << "]" << std::endl;
stream << space << " + nodals information [" << std::endl;
displacement->printself(stream, indent + 2);
mass->printself(stream, indent + 2);
velocity->printself(stream, indent + 2);
acceleration->printself(stream, indent + 2);
external_force->printself(stream, indent + 2);
internal_force->printself(stream, indent + 2);
blocked_dofs->printself(stream, indent + 2);
stream << space << AKANTU_INDENT << "]" << std::endl;
stream << space << " + material information [" << std::endl;
material_index.printself(stream, indent + 2);
stream << space << AKANTU_INDENT << "]" << std::endl;
stream << space << " + materials [" << std::endl;
std::vector<Material *>::const_iterator mat_it;
for (mat_it = materials.begin(); mat_it != materials.end(); ++mat_it) {
const Material & mat = *(*mat_it);
mat.printself(stream, indent + 1);
}
stream << space << AKANTU_INDENT << "]" << std::endl;
stream << space << "]" << std::endl;
}
/* --------------------------------------------------------------------------
*/
__END_AKANTU__
diff --git a/src/model/time_step_solvers/time_step_solver_default.cc b/src/model/time_step_solvers/time_step_solver_default.cc
index ec8fbe41d..1eb2d5994 100644
--- a/src/model/time_step_solvers/time_step_solver_default.cc
+++ b/src/model/time_step_solvers/time_step_solver_default.cc
@@ -1,287 +1,289 @@
/**
* @file time_step_solver_default.cc
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Wed Sep 16 10:20:55 2015
*
* @brief Default implementation of the time step solver
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "time_step_solver_default.hh"
-#include "mesh.hh"
#include "dof_manager_default.hh"
-#include "sparse_matrix_aij.hh"
-
-#include "pseudo_time.hh"
#include "integration_scheme_1st_order.hh"
#include "integration_scheme_2nd_order.hh"
+#include "mesh.hh"
+#include "non_linear_solver.hh"
+#include "pseudo_time.hh"
+#include "sparse_matrix_aij.hh"
/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
TimeStepSolverDefault::TimeStepSolverDefault(
DOFManagerDefault & dof_manager, const TimeStepSolverType & type,
NonLinearSolver & non_linear_solver, const ID & id, UInt memory_id)
: TimeStepSolver(dof_manager, type, non_linear_solver, id, memory_id),
dof_manager(dof_manager), is_mass_lumped(false) {
switch (type) {
case _tsst_dynamic:
break;
case _tsst_dynamic_lumped:
this->is_mass_lumped = true;
break;
case _tsst_static:
/// initialize a static time solver for allback dofs
break;
}
}
/* -------------------------------------------------------------------------- */
void TimeStepSolverDefault::setIntegrationScheme(
const ID & dof_id, const IntegrationSchemeType & type,
IntegrationScheme::SolutionType solution_type) {
if (this->integration_schemes.find(dof_id) !=
this->integration_schemes.end()) {
AKANTU_EXCEPTION("Their DOFs "
<< dof_id
<< " have already an integration scheme associated");
}
IntegrationScheme * integration_scheme = NULL;
if (this->is_mass_lumped) {
switch (type) {
case _ist_forward_euler: {
integration_scheme = new ForwardEuler(dof_manager, dof_id);
break;
}
case _ist_central_difference: {
integration_scheme = new CentralDifference(dof_manager, dof_id);
break;
}
default:
AKANTU_EXCEPTION(
"This integration scheme cannot be used in lumped dynamic");
}
} else {
switch (type) {
case _ist_pseudo_time: {
integration_scheme = new PseudoTime(dof_manager, dof_id);
break;
}
case _ist_forward_euler: {
integration_scheme = new ForwardEuler(dof_manager, dof_id);
break;
}
case _ist_trapezoidal_rule_1: {
integration_scheme = new TrapezoidalRule1(dof_manager, dof_id);
break;
}
case _ist_backward_euler: {
integration_scheme = new BackwardEuler(dof_manager, dof_id);
break;
}
case _ist_central_difference: {
integration_scheme = new CentralDifference(dof_manager, dof_id);
break;
}
case _ist_fox_goodwin: {
integration_scheme = new FoxGoodwin(dof_manager, dof_id);
break;
}
case _ist_trapezoidal_rule_2: {
integration_scheme = new TrapezoidalRule2(dof_manager, dof_id);
break;
}
case _ist_linear_acceleration: {
integration_scheme = new LinearAceleration(dof_manager, dof_id);
break;
}
case _ist_generalized_trapezoidal: {
integration_scheme = new GeneralizedTrapezoidal(dof_manager, dof_id);
break;
}
case _ist_newmark_beta:
integration_scheme = new NewmarkBeta(dof_manager, dof_id);
break;
}
}
+ AKANTU_DEBUG_ASSERT(integration_scheme != nullptr,
+ "No integration scheme was found for the provided types");
this->integration_schemes[dof_id] = integration_scheme;
this->solution_types[dof_id] = solution_type;
this->integration_schemes_owner.insert(dof_id);
}
/* -------------------------------------------------------------------------- */
bool TimeStepSolverDefault::hasIntegrationScheme(const ID & dof_id) const {
return this->integration_schemes.find(dof_id) !=
this->integration_schemes.end();
}
/* -------------------------------------------------------------------------- */
TimeStepSolverDefault::~TimeStepSolverDefault() {
DOFsIntegrationSchemesOwner::iterator it =
this->integration_schemes_owner.begin();
DOFsIntegrationSchemesOwner::iterator end =
this->integration_schemes_owner.end();
for (; it != end; ++it) {
delete this->integration_schemes[*it];
}
this->integration_schemes.clear();
}
/* -------------------------------------------------------------------------- */
void TimeStepSolverDefault::solveStep(SolverCallback & solver_callback) {
this->solver_callback = &solver_callback;
this->non_linear_solver.solve(*this);
this->solver_callback = NULL;
}
/* -------------------------------------------------------------------------- */
void TimeStepSolverDefault::predictor() {
AKANTU_DEBUG_IN();
TimeStepSolver::predictor();
DOFsIntegrationSchemes::iterator integration_scheme_it =
this->integration_schemes.begin();
DOFsIntegrationSchemes::iterator integration_scheme_end =
this->integration_schemes.end();
for (; integration_scheme_it != integration_scheme_end;
++integration_scheme_it) {
ID dof_id = integration_scheme_it->first;
Array<Real> * previous = NULL;
UInt dof_array_comp = this->dof_manager.getDOFs(dof_id).getNbComponent();
if (this->dof_manager.hasPreviousDOFs(dof_id)) {
this->dof_manager.savePreviousDOFs(dof_id);
} else {
if (this->dof_manager.hasDOFsIncrement(dof_id)) {
previous = new Array<Real>(this->dof_manager.getDOFs(dof_id));
}
}
/// integrator predictor
integration_scheme_it->second->predictor(this->time_step);
/// computing the increment of dof if needed
if (this->dof_manager.hasDOFsIncrement(dof_id)) {
Array<Real> & increment = this->dof_manager.getDOFsIncrement(dof_id);
Array<Real>::vector_iterator incr_it = increment.begin(dof_array_comp);
Array<Real>::vector_iterator incr_end = increment.end(dof_array_comp);
Array<Real>::const_vector_iterator dof_it =
this->dof_manager.getDOFs(dof_id).begin(dof_array_comp);
Array<Real>::const_vector_iterator prev_dof_it;
if (this->dof_manager.hasPreviousDOFs(dof_id)) {
prev_dof_it =
this->dof_manager.getPreviousDOFs(dof_id).begin(dof_array_comp);
} else {
prev_dof_it = previous->begin(dof_array_comp);
}
for (; incr_it != incr_end; ++incr_it) {
*incr_it = *dof_it;
*incr_it -= *prev_dof_it;
}
delete previous;
}
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void TimeStepSolverDefault::corrector() {
AKANTU_DEBUG_IN();
TimeStepSolver::corrector();
DOFsIntegrationSchemes::iterator integration_scheme_it =
this->integration_schemes.begin();
DOFsIntegrationSchemes::iterator integration_scheme_end =
this->integration_schemes.end();
for (; integration_scheme_it != integration_scheme_end;
++integration_scheme_it) {
IntegrationScheme::SolutionType solution_type =
this->solution_types[integration_scheme_it->first];
integration_scheme_it->second->corrector(solution_type, this->time_step);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void TimeStepSolverDefault::assembleJacobian() {
AKANTU_DEBUG_IN();
TimeStepSolver::assembleJacobian();
DOFsIntegrationSchemes::iterator integration_scheme_it =
this->integration_schemes.begin();
DOFsIntegrationSchemes::iterator integration_scheme_end =
this->integration_schemes.end();
for (; integration_scheme_it != integration_scheme_end;
++integration_scheme_it) {
IntegrationScheme::SolutionType solution_type =
this->solution_types[integration_scheme_it->first];
integration_scheme_it->second->assembleJacobian(solution_type,
this->time_step);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void TimeStepSolverDefault::assembleResidual() {
AKANTU_DEBUG_IN();
TimeStepSolver::assembleResidual();
DOFsIntegrationSchemes::iterator integration_scheme_it =
this->integration_schemes.begin();
DOFsIntegrationSchemes::iterator integration_scheme_end =
this->integration_schemes.end();
for (; integration_scheme_it != integration_scheme_end;
++integration_scheme_it) {
integration_scheme_it->second->assembleResidual(this->is_mass_lumped);
}
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
__END_AKANTU__
diff --git a/src/solver/solver_mumps.cc b/src/solver/solver_mumps.cc
index be406ad07..af26878e9 100644
--- a/src/solver/solver_mumps.cc
+++ b/src/solver/solver_mumps.cc
@@ -1,406 +1,406 @@
/**
* @file sparse_solver_mumps.cc
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Mon Dec 13 2010
* @date last modification: Tue Jan 19 2016
*
* @brief implem of SparseSolverMumps class
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
* @section DESCRIPTION
*
* @subsection Ctrl_param Control parameters
*
* ICNTL(1),
* ICNTL(2),
* ICNTL(3) : output streams for error, diagnostics, and global messages
*
* ICNTL(4) : verbose level : 0 no message - 4 all messages
*
* ICNTL(5) : type of matrix, 0 assembled, 1 elementary
*
* ICNTL(6) : control the permutation and scaling(default 7) see mumps doc for
* more information
*
* ICNTL(7) : determine the pivot order (default 7) see mumps doc for more
* information
*
* ICNTL(8) : describe the scaling method used
*
* ICNTL(9) : 1 solve A x = b, 0 solve At x = b
*
* ICNTL(10) : number of iterative refinement when NRHS = 1
*
* ICNTL(11) : > 0 return statistics
*
* ICNTL(12) : only used for SYM = 2, ordering strategy
*
* ICNTL(13) :
*
* ICNTL(14) : percentage of increase of the estimated working space
*
* ICNTL(15-17) : not used
*
* ICNTL(18) : only used if ICNTL(5) = 0, 0 matrix centralized, 1 structure on
* host and mumps give the mapping, 2 structure on host and distributed matrix
* for facto, 3 distributed matrix
*
* ICNTL(19) : > 0, Shur complement returned
*
* ICNTL(20) : 0 rhs dense, 1 rhs sparse
*
* ICNTL(21) : 0 solution in rhs, 1 solution distributed in ISOL_loc and SOL_loc
* allocated by user
*
* ICNTL(22) : 0 in-core, 1 out-of-core
*
* ICNTL(23) : maximum memory allocatable by mumps pre proc
*
* ICNTL(24) : controls the detection of "null pivot rows"
*
* ICNTL(25) :
*
* ICNTL(26) :
*
* ICNTL(27) :
*
* ICNTL(28) : 0 automatic choice, 1 sequential analysis, 2 parallel analysis
*
* ICNTL(29) : 0 automatic choice, 1 PT-Scotch, 2 ParMetis
*/
/* -------------------------------------------------------------------------- */
#include "aka_common.hh"
#include "dof_manager_default.hh"
#include "sparse_matrix_aij.hh"
#if defined(AKANTU_USE_MPI)
#include "static_communicator_mpi.hh"
#include "mpi_type_wrapper.hh"
#endif
#include "solver_mumps.hh"
#include "dof_synchronizer.hh"
/* -------------------------------------------------------------------------- */
// static std::ostream & operator <<(std::ostream & stream, const DMUMPS_STRUC_C
// & _this) {
// stream << "DMUMPS Data [" << std::endl;
// stream << " + job : " << _this.job << std::endl;
// stream << " + par : " << _this.par << std::endl;
// stream << " + sym : " << _this.sym << std::endl;
// stream << " + comm_fortran : " << _this.comm_fortran << std::endl;
// stream << " + nz : " << _this.nz << std::endl;
// stream << " + irn : " << _this.irn << std::endl;
// stream << " + jcn : " << _this.jcn << std::endl;
// stream << " + nz_loc : " << _this.nz_loc << std::endl;
// stream << " + irn_loc : " << _this.irn_loc << std::endl;
// stream << " + jcn_loc : " << _this.jcn_loc << std::endl;
// stream << "]";
// return stream;
// }
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
SparseSolverMumps::SparseSolverMumps(DOFManagerDefault & dof_manager,
const ID & matrix_id, const ID & id,
const MemoryID & memory_id)
: SparseSolver(dof_manager, matrix_id, id, memory_id),
dof_manager(dof_manager), matrix(dof_manager.getMatrix(matrix_id)),
rhs(dof_manager.getResidual()), solution(dof_manager.getGlobalSolution()),
master_rhs_solution(0, 1) {
AKANTU_DEBUG_IN();
StaticCommunicator & communicator =
- StaticCommunicator::getStaticCommunicator();
+ StaticCommunicator::getStaticCommunicator();
this->prank = communicator.whoAmI();
#ifdef AKANTU_USE_MPI
this->parallel_method = _fully_distributed;
#else // AKANTU_USE_MPI
this->parallel_method = _not_parallel;
#endif // AKANTU_USE_MPI
this->mumps_data.par = 1; // The host is part of computations
switch (this->parallel_method) {
case _not_parallel:
break;
case _master_slave_distributed:
this->mumps_data.par = 0; // The host is not part of the computations
case _fully_distributed:
#ifdef AKANTU_USE_MPI
const StaticCommunicatorMPI & mpi_st_comm =
dynamic_cast<const StaticCommunicatorMPI &>(
communicator.getRealStaticCommunicator());
this->mumps_data.comm_fortran =
MPI_Comm_c2f(mpi_st_comm.getMPITypeWrapper().getMPICommunicator());
#else
AKANTU_DEBUG_ERROR(
"You cannot use parallel method to solve without activating MPI");
#endif
break;
}
this->mumps_data.sym = 2 * (this->matrix.getMatrixType() == _symmetric);
this->prank = communicator.whoAmI();
this->mumps_data.job = _smj_initialize; // initialize
dmumps_c(&this->mumps_data);
/* ------------------------------------------------------------------------ */
this->setOutputLevel();
if (AKANTU_DEBUG_TEST(dblDump)) {
strcpy(this->mumps_data.write_problem, "mumps_matrix.mtx");
}
this->last_profile_release = this->matrix.getProfileRelease() - 1;
this->last_value_release = this->matrix.getValueRelease() - 1;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
SparseSolverMumps::~SparseSolverMumps() {
AKANTU_DEBUG_IN();
this->mumps_data.job = _smj_destroy; // destroy
dmumps_c(&this->mumps_data);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SparseSolverMumps::setOutputLevel() {
// Output setup
icntl(1) = 0; // error output
icntl(2) = 0; // dignostics output
icntl(3) = 0; // informations
icntl(4) = 0;
#if !defined(AKANTU_NDEBUG)
DebugLevel dbg_lvl = debug::debugger.getDebugLevel();
icntl(1) = (dbg_lvl >= dblWarning) ? 6 : 0;
icntl(3) = (dbg_lvl >= dblInfo) ? 6 : 0;
icntl(2) = (dbg_lvl >= dblTrace) ? 6 : 0;
if (dbg_lvl >= dblDump) {
icntl(4) = 4;
} else if (dbg_lvl >= dblTrace) {
icntl(4) = 3;
} else if (dbg_lvl >= dblInfo) {
icntl(4) = 2;
} else if (dbg_lvl >= dblWarning) {
icntl(4) = 1;
}
#endif
}
/* -------------------------------------------------------------------------- */
void SparseSolverMumps::initMumpsData() {
// Default Scaling
icntl(8) = 77;
// Assembled matrix
icntl(5) = 0;
/// Default centralized dense second member
icntl(20) = 0;
icntl(21) = 0;
// automatic choice for analysis
icntl(28) = 0;
UInt size = this->matrix.getSize();
if (prank == 0) {
this->master_rhs_solution.resize(size);
}
this->mumps_data.nz_alloc = 0;
this->mumps_data.n = size;
switch (this->parallel_method) {
case _fully_distributed:
icntl(18) = 3; // fully distributed
this->mumps_data.nz_loc = matrix.getNbNonZero();
this->mumps_data.irn_loc = matrix.getIRN().storage();
this->mumps_data.jcn_loc = matrix.getJCN().storage();
break;
case _not_parallel:
case _master_slave_distributed:
icntl(18) = 0; // centralized
if (prank == 0) {
this->mumps_data.nz = matrix.getNbNonZero();
this->mumps_data.irn = matrix.getIRN().storage();
this->mumps_data.jcn = matrix.getJCN().storage();
} else {
this->mumps_data.nz = 0;
this->mumps_data.irn = NULL;
this->mumps_data.jcn = NULL;
}
break;
default:
AKANTU_DEBUG_ERROR("This case should not happen!!");
}
}
/* -------------------------------------------------------------------------- */
void SparseSolverMumps::initialize() {
AKANTU_DEBUG_IN();
this->analysis();
// icntl(14) = 80;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SparseSolverMumps::analysis() {
AKANTU_DEBUG_IN();
initMumpsData();
this->mumps_data.job = _smj_analyze; // analyze
dmumps_c(&this->mumps_data);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SparseSolverMumps::factorize() {
AKANTU_DEBUG_IN();
this->mumps_data.rhs = this->rhs.storage();
if (parallel_method == _fully_distributed)
this->mumps_data.a_loc = this->matrix.getA().storage();
else {
if (prank == 0)
this->mumps_data.a = this->matrix.getA().storage();
}
this->mumps_data.job = _smj_factorize; // factorize
dmumps_c(&this->mumps_data);
this->printError();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SparseSolverMumps::solve() {
AKANTU_DEBUG_IN();
this->setOutputLevel();
this->dof_manager.applyBoundary();
this->master_rhs_solution.copy(this->dof_manager.getResidual());
// if (prank == 0) {
// matrix.getDOFSynchronizer().gather(this->rhs, 0, this->master_rhs_solution);
// } else {
// this->matrix.getDOFSynchronizer().gather(this->rhs, 0);
// }
if (this->last_profile_release != this->matrix.getProfileRelease()) {
this->analysis();
this->last_profile_release = this->matrix.getProfileRelease();
}
if (this->last_value_release != this->matrix.getValueRelease()) {
this->factorize();
this->last_value_release = this->matrix.getValueRelease();
}
if (prank == 0) {
this->mumps_data.rhs = this->master_rhs_solution.storage();
}
this->mumps_data.job = _smj_solve; // solve
dmumps_c(&this->mumps_data);
this->printError();
this->dof_manager.getGlobalSolution().copy(this->master_rhs_solution);
// if (prank == 0) {
// matrix.getDOFSynchronizer().scatter(this->solution, 0, this->master_rhs_solution);
// } else {
// this->matrix.getDOFSynchronizer().gather(this->solution, 0);
// }
this->dof_manager.splitSolutionPerDOFs();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SparseSolverMumps::printError() {
Vector<Int> _info_v(2);
_info_v[0] = info(1); // to get errors
_info_v[1] = -info(1); // to get warnings
StaticCommunicator::getStaticCommunicator().allReduce(_info_v, _so_min);
_info_v[1] = -_info_v[1];
if (_info_v[0] < 0) { // < 0 is an error
switch (_info_v[0]) {
case -10:
AKANTU_DEBUG_ERROR("The matrix is singular");
break;
case -9: {
icntl(14) += 10;
if (icntl(14) != 90) {
// std::cout << "Dynamic memory increase of 10%" << std::endl;
AKANTU_DEBUG_WARNING("MUMPS dynamic memory is insufficient it will be "
"increased allowed to use 10% more");
// change releases to force a recompute
this->last_value_release--;
this->last_profile_release--;
this->solve();
} else {
AKANTU_DEBUG_ERROR("The MUMPS workarray is too small INFO(2)="
<< info(2) << "No further increase possible");
break;
}
}
default:
AKANTU_DEBUG_ERROR("Error in mumps during solve process, check mumps "
"user guide INFO(1) = "
<< _info_v[1]);
}
} else if (_info_v[1] > 0) {
AKANTU_DEBUG_WARNING("Warning in mumps during solve process, check mumps "
"user guide INFO(1) = "
<< _info_v[1]);
}
}
__END_AKANTU__
diff --git a/src/solver/sparse_matrix.hh b/src/solver/sparse_matrix.hh
index 5be2fa910..5391595ef 100644
--- a/src/solver/sparse_matrix.hh
+++ b/src/solver/sparse_matrix.hh
@@ -1,160 +1,162 @@
+
/**
* @file sparse_matrix.hh
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Mon Dec 13 2010
* @date last modification: Fri Oct 16 2015
*
* @brief sparse matrix storage class (distributed assembled matrix)
* This is a COO format (Coordinate List)
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "aka_common.hh"
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_SPARSE_MATRIX_HH__
#define __AKANTU_SPARSE_MATRIX_HH__
/* -------------------------------------------------------------------------- */
namespace akantu {
- class DOFManager;
+class DOFManager;
+class TermsToAssemble;
}
-__BEGIN_AKANTU__
+namespace akantu {
class SparseMatrix {
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
public:
SparseMatrix(DOFManager & dof_manager, const MatrixType & matrix_type,
const ID & id = "sparse_matrix");
SparseMatrix(const SparseMatrix & matrix, const ID & id = "sparse_matrix");
virtual ~SparseMatrix();
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
public:
/// remove the existing profile
virtual void clearProfile();
/// set the matrix to 0
virtual void clear() = 0;
/// add a non-zero element to the profile
virtual inline UInt addToProfile(UInt i, UInt j) = 0;
/// assemble a local matrix in the sparse one
virtual void addToMatrix(UInt i, UInt j, Real value) = 0;
/// save the profil in a file using the MatrixMarket file format
virtual void saveProfile(__attribute__((unused)) const std::string &) const {
AKANTU_DEBUG_TO_IMPLEMENT();
}
/// save the matrix in a file using the MatrixMarket file format
virtual void saveMatrix(__attribute__((unused)) const std::string &) const {
AKANTU_DEBUG_TO_IMPLEMENT();
};
/// multiply the matrix by a coefficient
virtual void mul(Real alpha) = 0;
/// add matrices
virtual void add(const SparseMatrix & matrix, Real alpha = 1.);
/// Equivalent of *gemv in blas
virtual void matVecMul(const Array<Real> & x, Array<Real> & y,
Real alpha = 1., Real beta = 0.) const = 0;
/// modify the matrix to "remove" the blocked dof
virtual void applyBoundary(Real block_val = 1.) = 0;
/// operator *=
SparseMatrix & operator*=(Real alpha) { this->mul(alpha); return *this; }
protected:
/// This is the revert of add B += \alpha * *this;
virtual void addMeTo(SparseMatrix & B, Real alpha) const = 0;
/* ------------------------------------------------------------------------ */
/* Accessors */
/* ------------------------------------------------------------------------ */
public:
/// return the values at potition i, j
virtual inline Real operator()(__attribute__((unused)) UInt i,
__attribute__((unused)) UInt j) const {
AKANTU_DEBUG_TO_IMPLEMENT();
}
/// return the values at potition i, j
virtual inline Real & operator()(__attribute__((unused)) UInt i,
__attribute__((unused)) UInt j) {
AKANTU_DEBUG_TO_IMPLEMENT();
}
AKANTU_GET_MACRO(NbNonZero, nb_non_zero, UInt);
AKANTU_GET_MACRO(Size, size, UInt);
AKANTU_GET_MACRO(MatrixType, matrix_type, const MatrixType &);
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
protected:
ID id;
/// Underlying dof manager
DOFManager & _dof_manager;
/// sparce matrix type
MatrixType matrix_type;
/// Size of the matrix
UInt size;
/// number of processors
UInt nb_proc;
/// number of non zero element
UInt nb_non_zero;
/// matrix definition release
UInt matrix_release;
};
Array<Real> & operator*=(Array<Real> & vect, const SparseMatrix & mat);
-__END_AKANTU__
+} // akantu
/* -------------------------------------------------------------------------- */
/* inline functions */
/* -------------------------------------------------------------------------- */
#include "sparse_matrix_inline_impl.cc"
#endif /* __AKANTU_SPARSE_MATRIX_HH__ */
diff --git a/src/solver/sparse_matrix_aij.cc b/src/solver/sparse_matrix_aij.cc
index dc9ae8f5b..c8e0e4e95 100644
--- a/src/solver/sparse_matrix_aij.cc
+++ b/src/solver/sparse_matrix_aij.cc
@@ -1,226 +1,227 @@
/**
* @file sparse_matrix_aij.cc
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Tue Aug 18 16:31:23 2015
*
* @brief Implementation of the AIJ sparse matrix
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "sparse_matrix_aij.hh"
#include "dof_manager_default.hh"
+#include "terms_to_assemble.hh"
/* -------------------------------------------------------------------------- */
#include <fstream>
/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
SparseMatrixAIJ::SparseMatrixAIJ(DOFManagerDefault & dof_manager,
const MatrixType & matrix_type, const ID & id)
: SparseMatrix(dof_manager, matrix_type, id), dof_manager(dof_manager),
irn(0, 1, id + ":irn"), jcn(0, 1, id + ":jcn"), a(0, 1, id + ":a"),
profile_release(0), value_release(0) {}
/* -------------------------------------------------------------------------- */
SparseMatrixAIJ::SparseMatrixAIJ(const SparseMatrixAIJ & matrix, const ID & id)
: SparseMatrix(matrix, id), dof_manager(matrix.dof_manager),
irn(matrix.irn, true, id + ":irn"), jcn(matrix.jcn, true, id + ":jcn"),
a(matrix.a, true, id + ":a"), profile_release(0), value_release(0) {}
/* -------------------------------------------------------------------------- */
SparseMatrixAIJ::~SparseMatrixAIJ() {}
/* -------------------------------------------------------------------------- */
void SparseMatrixAIJ::applyBoundary(Real block_val) {
AKANTU_DEBUG_IN();
const Array<bool> & blocked_dofs = this->dof_manager.getGlobalBlockedDOFs();
Array<Int>::const_scalar_iterator irn_val = irn.begin();
Array<Int>::const_scalar_iterator jcn_val = jcn.begin();
Array<Real>::scalar_iterator a_val = a.begin();
for (UInt i = 0; i < nb_non_zero; ++i) {
UInt ni = this->dof_manager.globalToLocalEquationNumber(*irn_val - 1);
UInt nj = this->dof_manager.globalToLocalEquationNumber(*jcn_val - 1);
if (blocked_dofs(ni) || blocked_dofs(nj)) {
if (*irn_val != *jcn_val) {
*a_val = 0;
} else {
if (this->dof_manager.isLocalOrMasterDOF(ni)) {
*a_val = block_val;
} else {
*a_val = 0;
}
}
}
++irn_val;
++jcn_val;
++a_val;
}
this->value_release++;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SparseMatrixAIJ::saveProfile(const std::string & filename) const {
AKANTU_DEBUG_IN();
std::ofstream outfile;
outfile.open(filename.c_str());
outfile << "%%MatrixMarket matrix coordinate pattern";
if (this->matrix_type == _symmetric)
outfile << " symmetric";
else
outfile << " general";
outfile << std::endl;
UInt m = this->size;
outfile << m << " " << m << " " << this->nb_non_zero << std::endl;
for (UInt i = 0; i < this->nb_non_zero; ++i) {
outfile << this->irn.storage()[i] << " " << this->jcn.storage()[i] << " 1"
<< std::endl;
}
outfile.close();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SparseMatrixAIJ::saveMatrix(const std::string & filename) const {
AKANTU_DEBUG_IN();
std::ofstream outfile;
outfile.precision(std::numeric_limits<Real>::digits10);
outfile.open(filename.c_str());
outfile << "%%MatrixMarket matrix coordinate real";
if (this->matrix_type == _symmetric)
outfile << " symmetric";
else
outfile << " general";
outfile << std::endl;
outfile << this->size << " " << this->size << " " << this->nb_non_zero
<< std::endl;
for (UInt i = 0; i < this->nb_non_zero; ++i) {
outfile << this->irn(i) << " " << this->jcn(i) << " " << this->a(i)
<< std::endl;
}
outfile.close();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SparseMatrixAIJ::matVecMul(const Array<Real> & x, Array<Real> & y,
Real alpha, Real beta) const {
AKANTU_DEBUG_IN();
y *= beta;
Array<Int>::const_scalar_iterator i_it = this->irn.storage();
Array<Int>::const_scalar_iterator j_it = this->jcn.storage();
Array<Real>::const_scalar_iterator a_it = this->a.storage();
Array<Real>::const_scalar_iterator x_it = x.storage();
Array<Real>::scalar_iterator y_it = y.storage();
for (UInt k = 0; k < this->nb_non_zero; ++k, ++i_it, ++j_it, ++a_it) {
Int i = *i_it - 1;
Int j = *j_it - 1;
const Real & A = *a_it;
y_it[i] += alpha * A * x_it[j];
if ((this->matrix_type == _symmetric) && (i != j))
y_it[j] += alpha * A * x_it[i];
}
// if (dof_synchronizer)
// dof_synchronizer->reduceSynchronize<AddOperation>(vect);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SparseMatrixAIJ::copyContent(const SparseMatrix & matrix) {
AKANTU_DEBUG_IN();
const SparseMatrixAIJ & mat = dynamic_cast<const SparseMatrixAIJ &>(matrix);
AKANTU_DEBUG_ASSERT(nb_non_zero == mat.getNbNonZero(),
"The to matrix don't have the same profiles");
memcpy(a.storage(), mat.getA().storage(), nb_non_zero * sizeof(Real));
this->value_release++;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template<class MatrixType>
void SparseMatrixAIJ::addMeToTemplated(MatrixType & B, Real alpha) const {
Array<Int>::const_scalar_iterator i_it = this->irn.begin();
Array<Int>::const_scalar_iterator j_it = this->jcn.begin();
Array<Real>::const_scalar_iterator a_it = this->a.begin();
for (UInt n = 0; n < this->nb_non_zero; ++n, ++a_it, ++i_it, ++j_it) {
const Int & i = *i_it;
const Int & j = *j_it;
const Real & A_ij = *a_it;
B.addToMatrix(i - 1, j - 1, alpha * A_ij);
}
}
/* -------------------------------------------------------------------------- */
void SparseMatrixAIJ::addMeTo(SparseMatrix & B, Real alpha) const {
if(SparseMatrixAIJ * B_aij = dynamic_cast<SparseMatrixAIJ *>(&B)) {
this->addMeToTemplated<SparseMatrixAIJ>(*B_aij, alpha);
} else {
// this->addMeToTemplated<SparseMatrix>(*this, alpha);
}
}
/* -------------------------------------------------------------------------- */
void SparseMatrixAIJ::mul(Real alpha) {
this->a *= alpha;
this->value_release++;
}
/* -------------------------------------------------------------------------- */
void SparseMatrixAIJ::clear() {
a.set(0.);
this->value_release++;
}
__END_AKANTU__
diff --git a/src/solver/sparse_matrix_aij.hh b/src/solver/sparse_matrix_aij.hh
index 79c07d4bf..dcf3f1b0e 100644
--- a/src/solver/sparse_matrix_aij.hh
+++ b/src/solver/sparse_matrix_aij.hh
@@ -1,178 +1,179 @@
/**
* @file sparse_matrix_aij.hh
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Mon Aug 17 21:22:57 2015
*
* @brief AIJ implementation of the SparseMatrix (this the format used by Mumps)
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
-#include "aka_common.hh"
#include "aka_array.hh"
+#include "aka_common.hh"
#include "sparse_matrix.hh"
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_SPARSE_MATRIX_AIJ_HH__
#define __AKANTU_SPARSE_MATRIX_AIJ_HH__
namespace akantu {
- class DOFManagerDefault;
+class DOFManagerDefault;
+class TermsToAssemble;
}
__BEGIN_AKANTU__
class SparseMatrixAIJ : public SparseMatrix {
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
public:
SparseMatrixAIJ(DOFManagerDefault & dof_manager,
const MatrixType & matrix_type,
const ID & id = "sparse_matrix_aij");
SparseMatrixAIJ(const SparseMatrixAIJ & matrix,
const ID & id = "sparse_matrix_aij");
virtual ~SparseMatrixAIJ();
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
public:
/// remove the existing profile
inline void clearProfile();
/// add a non-zero element
virtual UInt addToProfile(UInt i, UInt j);
/// set the matrix to 0
virtual void clear();
/// assemble a local matrix in the sparse one
inline void addToMatrix(UInt i, UInt j, Real value);
/// set the size of the matrix
void resize(UInt size) { this->size = size; }
/// modify the matrix to "remove" the blocked dof
virtual void applyBoundary(Real block_val = 1.);
/// save the profil in a file using the MatrixMarket file format
virtual void saveProfile(const std::string & filename) const;
/// save the matrix in a file using the MatrixMarket file format
virtual void saveMatrix(const std::string & filename) const;
/// copy assuming the profile are the same
virtual void copyContent(const SparseMatrix & matrix);
/// multiply the matrix by a scalar
void mul(Real alpha);
/// add matrix *this += B
- //virtual void add(const SparseMatrix & matrix, Real alpha);
+ // virtual void add(const SparseMatrix & matrix, Real alpha);
/// Equivalent of *gemv in blas
virtual void matVecMul(const Array<Real> & x, Array<Real> & y,
Real alpha = 1., Real beta = 0.) const;
/* ------------------------------------------------------------------------ */
/// accessor to A_{ij} - if (i, j) not present it returns 0
inline Real operator()(UInt i, UInt j) const;
/// accessor to A_{ij} - if (i, j) not present it fails, (i, j) should be
/// first added to the profile
inline Real & operator()(UInt i, UInt j);
protected:
/// This is the revert of add B += \alpha * *this;
virtual void addMeTo(SparseMatrix & B, Real alpha) const;
private:
/// This is just to inline the addToMatrix function
- template<class MatrixType>
+ template <class MatrixType>
void addMeToTemplated(MatrixType & B, Real alpha) const;
/* ------------------------------------------------------------------------ */
/* Accessors */
/* ------------------------------------------------------------------------ */
public:
AKANTU_GET_MACRO(IRN, irn, const Array<Int> &);
AKANTU_GET_MACRO(JCN, jcn, const Array<Int> &);
AKANTU_GET_MACRO(A, a, const Array<Real> &);
/// The release changes at each call of a function that changes the profile,
/// it in increasing but could overflow so it should be checked as
/// (my_release != release) and not as (my_release < release)
AKANTU_GET_MACRO(ProfileRelease, profile_release, UInt);
AKANTU_GET_MACRO(ValueRelease, value_release, UInt);
protected:
typedef std::pair<UInt, UInt> KeyCOO;
typedef unordered_map<KeyCOO, UInt>::type coordinate_list_map;
/// get the pair corresponding to (i, j)
inline KeyCOO key(UInt i, UInt j) const {
if (this->matrix_type == _symmetric && (i > j))
return std::make_pair(j, i);
return std::make_pair(i, j);
}
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
private:
DOFManagerDefault & dof_manager;
/// row indexes
Array<Int> irn;
/// column indexes
Array<Int> jcn;
/// values : A[k] = Matrix[irn[k]][jcn[k]]
Array<Real> a;
/// Profile release
UInt profile_release;
/// Value release
UInt value_release;
/*
* map for (i, j) -> k correspondence
*/
coordinate_list_map irn_jcn_k;
};
__END_AKANTU__
/* -------------------------------------------------------------------------- */
/* inline functions */
/* -------------------------------------------------------------------------- */
#include "sparse_matrix_aij_inline_impl.cc"
#endif /* __AKANTU_SPARSE_MATRIX_AIJ_HH__ */
diff --git a/src/solver/terms_to_assemble.hh b/src/solver/terms_to_assemble.hh
new file mode 100644
index 000000000..2c6662781
--- /dev/null
+++ b/src/solver/terms_to_assemble.hh
@@ -0,0 +1,90 @@
+/**
+ * @file terms_to_assemble.hh
+ *
+ * @author Nicolas Richart
+ *
+ * @date creation Tue Dec 20 2016
+ *
+ * @brief List of terms to assemble to a matrix
+ *
+ * @section LICENSE
+ *
+ * Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
+ * Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
+ *
+ * Akantu is free software: you can redistribute it and/or modify it under the
+ * terms of the GNU Lesser General Public License as published by the Free
+ * Software Foundation, either version 3 of the License, or (at your option) any
+ * later version.
+ *
+ * Akantu 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 Lesser General Public License for more
+ * details.
+ *
+ * You should have received a copy of the GNU Lesser General Public License
+ * along with Akantu. If not, see <http://www.gnu.org/licenses/>.
+ *
+ */
+
+/* -------------------------------------------------------------------------- */
+#include "aka_common.hh"
+/* -------------------------------------------------------------------------- */
+#include <vector>
+/* -------------------------------------------------------------------------- */
+
+#ifndef __AKANTU_TERMS_TO_ASSEMBLE_HH__
+#define __AKANTU_TERMS_TO_ASSEMBLE_HH__
+
+namespace akantu {
+
+class TermsToAssemble {
+ /* ------------------------------------------------------------------------ */
+ /* Constructors/Destructors */
+ /* ------------------------------------------------------------------------ */
+public:
+ TermsToAssemble() {}
+ virtual ~TermsToAssemble() {}
+
+ class TermToAssemble {
+ public:
+ TermToAssemble(UInt i, UInt j) : _i(i), _j(j) {}
+ inline void operator+=(Real val) { this->val = val; }
+ inline operator Real() const { return val; }
+ inline UInt i() const { return _i; }
+ inline UInt j() const { return _j; }
+ private:
+ UInt _i, _j;
+ Real val;
+ };
+
+ /* ------------------------------------------------------------------------ */
+ /* Methods */
+ /* ------------------------------------------------------------------------ */
+public:
+ inline TermToAssemble & operator()(UInt i, UInt j) {
+ terms.emplace_back(i, j);
+ return terms.back();
+ }
+
+ /* ------------------------------------------------------------------------ */
+ /* Accessors */
+ /* ------------------------------------------------------------------------ */
+private:
+ typedef std::vector<TermToAssemble> TermsContainer;
+public:
+ typedef TermsContainer::const_iterator const_terms_iterator;
+
+ const_terms_iterator begin() const { return terms.begin(); }
+ const_terms_iterator end() const { return terms.end(); }
+
+ /* ------------------------------------------------------------------------ */
+ /* Class Members */
+ /* ------------------------------------------------------------------------ */
+private:
+ TermsContainer terms;
+};
+
+} // akantu
+
+#endif /* __AKANTU_TERMS_TO_ASSEMBLE_HH__ */
diff --git a/src/synchronizer/grid_synchronizer.cc b/src/synchronizer/grid_synchronizer.cc
index 965d1bef5..f06230e23 100644
--- a/src/synchronizer/grid_synchronizer.cc
+++ b/src/synchronizer/grid_synchronizer.cc
@@ -1,601 +1,602 @@
/**
* @file grid_synchronizer.cc
*
* @author Aurelia Isabel Cuba Ramos <aurelia.cubaramos@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Mon Oct 03 2011
* @date last modification: Fri Jan 22 2016
*
* @brief implementation of the grid synchronizer
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "grid_synchronizer.hh"
#include "aka_grid_dynamic.hh"
#include "mesh.hh"
#include "fe_engine.hh"
+#include "integration_point.hh"
#include "static_communicator.hh"
#include "mesh_io.hh"
#include <iostream>
/* -------------------------------------------------------------------------- */
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
GridSynchronizer::GridSynchronizer(Mesh & mesh, const ID & id,
MemoryID memory_id,
const bool register_to_event_manager)
: ElementSynchronizer(mesh, id, memory_id, register_to_event_manager) {
AKANTU_DEBUG_IN();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
template <class E>
GridSynchronizer * GridSynchronizer::createGridSynchronizer(
Mesh & mesh, const SpatialGrid<E> & grid, SynchronizerID id,
SynchronizerRegistry * synchronizer_registry,
const std::set<SynchronizationTag> & tags_to_register, MemoryID memory_id,
const bool register_to_event_manager) {
AKANTU_DEBUG_IN();
StaticCommunicator & comm = StaticCommunicator::getStaticCommunicator();
UInt nb_proc = comm.getNbProc();
UInt my_rank = comm.whoAmI();
GridSynchronizer & communicator =
*(new GridSynchronizer(mesh, id, memory_id, register_to_event_manager));
if (nb_proc == 1)
return &communicator;
UInt spatial_dimension = mesh.getSpatialDimension();
Vector<Real> bounding_boxes(2 * spatial_dimension * nb_proc);
Vector<Real> my_bounding_box(bounding_boxes.storage() +
2 * spatial_dimension * my_rank,
2 * spatial_dimension);
// mesh.getLocalLowerBounds(my_bounding_box);
// mesh.getLocalUpperBounds(my_bounding_box + spatial_dimension);
const Vector<Real> & lower = grid.getLowerBounds();
const Vector<Real> & upper = grid.getUpperBounds();
const Vector<Real> & spacing = grid.getSpacing();
for (UInt i = 0; i < spatial_dimension; ++i) {
my_bounding_box[i] = lower(i) - spacing(i);
my_bounding_box[spatial_dimension + i] = upper(i) + spacing(i);
}
AKANTU_DEBUG_INFO(
"Exchange of bounding box to detect the overlapping regions.");
comm.allGather(bounding_boxes);
bool * intersects_proc = new bool[nb_proc];
std::fill_n(intersects_proc, nb_proc, true);
Int * first_cells = new Int[3 * nb_proc];
Int * last_cells = new Int[3 * nb_proc];
std::fill_n(first_cells, 3 * nb_proc, 0);
std::fill_n(first_cells, 3 * nb_proc, 0);
ElementTypeMapArray<UInt> ** element_per_proc =
new ElementTypeMapArray<UInt> * [nb_proc];
for (UInt p = 0; p < nb_proc; ++p)
element_per_proc[p] = NULL;
// check the overlapping between my box and the one from other processors
for (UInt p = 0; p < nb_proc; ++p) {
if (p == my_rank)
continue;
Real * proc_bounding_box = bounding_boxes.storage() + 2 * spatial_dimension * p;
bool intersects = false;
Int * first_cell_p = first_cells + p * spatial_dimension;
Int * last_cell_p = last_cells + p * spatial_dimension;
for (UInt s = 0; s < spatial_dimension; ++s) {
// check overlapping of grid
intersects = Math::intersects(
my_bounding_box[s], my_bounding_box[spatial_dimension + s],
proc_bounding_box[s], proc_bounding_box[spatial_dimension + s]);
intersects_proc[p] &= intersects;
if (intersects) {
AKANTU_DEBUG_INFO("I intersects with processor "
<< p << " in direction " << s);
// is point 1 of proc p in the dimension s in the range ?
bool point1 =
Math::is_in_range(proc_bounding_box[s], my_bounding_box[s],
my_bounding_box[s + spatial_dimension]);
// is point 2 of proc p in the dimension s in the range ?
bool point2 = Math::is_in_range(
proc_bounding_box[s + spatial_dimension], my_bounding_box[s],
my_bounding_box[s + spatial_dimension]);
Real start = 0.;
Real end = 0.;
if (point1 && !point2) {
/* |-----------| my_bounding_box(i)
* |-----------| proc_bounding_box(i)
* 1 2
*/
start = proc_bounding_box[s];
end = my_bounding_box[s + spatial_dimension];
AKANTU_DEBUG_INFO("Intersection scheme 1 in direction "
<< s << " with processor " << p << " [" << start
<< ", " << end << "]");
} else if (point1 && point2) {
/* |-----------------| my_bounding_box(i)
* |-----------| proc_bounding_box(i)
* 1 2
*/
start = proc_bounding_box[s];
end = proc_bounding_box[s + spatial_dimension];
AKANTU_DEBUG_INFO("Intersection scheme 2 in direction "
<< s << " with processor " << p << " [" << start
<< ", " << end << "]");
} else if (!point1 && point2) {
/* |-----------| my_bounding_box(i)
* |-----------| proc_bounding_box(i)
* 1 2
*/
start = my_bounding_box[s];
end = proc_bounding_box[s + spatial_dimension];
AKANTU_DEBUG_INFO("Intersection scheme 3 in direction "
<< s << " with processor " << p << " [" << start
<< ", " << end << "]");
} else {
/* |-----------| my_bounding_box(i)
* |-----------------| proc_bounding_box(i)
* 1 2
*/
start = my_bounding_box[s];
end = my_bounding_box[s + spatial_dimension];
AKANTU_DEBUG_INFO("Intersection scheme 4 in direction "
<< s << " with processor " << p << " [" << start
<< ", " << end << "]");
}
first_cell_p[s] = grid.getCellID(start, s);
last_cell_p[s] = grid.getCellID(end, s);
}
}
// create the list of cells in the overlapping
typedef typename SpatialGrid<E>::CellID CellID;
std::vector<CellID> * cell_ids = new std::vector<CellID>;
if (intersects_proc[p]) {
AKANTU_DEBUG_INFO("I intersects with processor " << p);
CellID cell_id(spatial_dimension);
// for (UInt i = 0; i < spatial_dimension; ++i) {
// if(first_cell_p[i] != 0) --first_cell_p[i];
// if(last_cell_p[i] != 0) ++last_cell_p[i];
// }
for (Int fd = first_cell_p[0]; fd <= last_cell_p[0]; ++fd) {
cell_id.setID(0, fd);
if (spatial_dimension == 1) {
cell_ids->push_back(cell_id);
} else {
for (Int sd = first_cell_p[1]; sd <= last_cell_p[1]; ++sd) {
cell_id.setID(1, sd);
if (spatial_dimension == 2) {
cell_ids->push_back(cell_id);
} else {
for (Int ld = first_cell_p[2]; ld <= last_cell_p[2]; ++ld) {
cell_id.setID(2, ld);
cell_ids->push_back(cell_id);
}
}
}
}
}
// get the list of elements in the cells of the overlapping
typename std::vector<CellID>::iterator cur_cell_id = cell_ids->begin();
typename std::vector<CellID>::iterator last_cell_id = cell_ids->end();
std::set<Element> * to_send = new std::set<Element>();
for (; cur_cell_id != last_cell_id; ++cur_cell_id) {
typename SpatialGrid<E>::Cell::const_iterator cur_elem =
grid.beginCell(*cur_cell_id);
typename SpatialGrid<E>::Cell::const_iterator last_elem =
grid.endCell(*cur_cell_id);
for (; cur_elem != last_elem; ++cur_elem) {
to_send->insert(*cur_elem);
}
}
AKANTU_DEBUG_INFO("I have prepared " << to_send->size()
<< " elements to send to processor "
<< p);
auto & scheme = communicator.getCommunications().createSendScheme(p);
std::stringstream sstr; sstr << "element_per_proc_" << p;
element_per_proc[p] = new ElementTypeMapArray<UInt>(sstr.str(), id, memory_id);
ElementTypeMapArray<UInt> & elempproc = *(element_per_proc[p]);
typename std::set<Element>::iterator elem = to_send->begin();
typename std::set<Element>::iterator last_elem = to_send->end();
for (; elem != last_elem; ++elem) {
ElementType type = elem->type;
UInt nb_nodes_per_element = mesh.getNbNodesPerElement(type);
// /!\ this part must be slow due to the access in the
// ElementTypeMapArray<UInt>
if (!elempproc.exists(type, _not_ghost))
elempproc.alloc(0, nb_nodes_per_element, type, _not_ghost);
Vector<UInt> global_connect(nb_nodes_per_element);
UInt * local_connect = mesh.getConnectivity(type).storage() +
elem->element * nb_nodes_per_element;
for (UInt i = 0; i < nb_nodes_per_element; ++i) {
global_connect(i) = mesh.getNodeGlobalId(local_connect[i]);
AKANTU_DEBUG_ASSERT(
global_connect(i) < mesh.getNbGlobalNodes(),
"This global node send in the connectivity does not seem correct "
<< global_connect(i) << " corresponding to "
<< local_connect[i] << " from element " << elem->element);
}
elempproc(type).push_back(global_connect);
scheme.push_back(*elem);
}
delete to_send;
}
delete cell_ids;
}
delete[] first_cells;
delete[] last_cells;
AKANTU_DEBUG_INFO("I have finished to compute intersection,"
<< " no it's time to communicate with my neighbors");
/**
* Sending loop, sends the connectivity asynchronously to all concerned proc
*/
std::vector<CommunicationRequest> isend_requests;
UInt * space = new UInt[2*nb_proc*_max_element_type];
UInt offset = 0;
for (UInt p = 0; p < nb_proc; ++p) {
if (p == my_rank)
continue;
if (intersects_proc[p]) {
ElementTypeMapArray<UInt> & elempproc = *(element_per_proc[p]);
ElementTypeMapArray<UInt>::type_iterator it_type =
elempproc.firstType(_all_dimensions, _not_ghost);
ElementTypeMapArray<UInt>::type_iterator last_type =
elempproc.lastType(_all_dimensions, _not_ghost);
UInt count = 0;
for (; it_type != last_type; ++it_type) {
Array<UInt> & conn = elempproc(*it_type, _not_ghost);
Vector<UInt> info(space + offset, 2);
offset += 2;
info[0] = (UInt)*it_type;
info[1] = conn.getSize() * conn.getNbComponent();
AKANTU_DEBUG_INFO("I have " << conn.getSize() << " elements of type "
<< *it_type << " to send to processor " << p
<< " (communication tag : "
<< Tag::genTag(my_rank, count, DATA_TAG)
<< ")");
isend_requests.push_back(
comm.asyncSend(info, p, Tag::genTag(my_rank, count, SIZE_TAG)));
if (info[1] != 0)
isend_requests.push_back(
comm.asyncSend<UInt>(conn, p,
Tag::genTag(my_rank, count, DATA_TAG)));
++count;
}
Vector<UInt> info(space + offset, 2);
offset += 2;
info[0] = (UInt)_not_defined;
info[1] = 0;
isend_requests.push_back(
comm.asyncSend(info, p, Tag::genTag(my_rank, count, SIZE_TAG)));
}
}
/**
* Receives the connectivity and store them in the ghosts elements
*/
Array<UInt> & global_nodes_ids =
const_cast<Array<UInt> &>(mesh.getGlobalNodesIds());
Array<NodeType> & nodes_type =
const_cast<Array<NodeType> &>(const_cast<const Mesh &>(mesh).getNodesType());
std::vector<CommunicationRequest> isend_nodes_requests;
Vector<UInt> nb_nodes_to_recv(nb_proc);
UInt nb_total_nodes_to_recv = 0;
UInt nb_current_nodes = global_nodes_ids.getSize();
NewNodesEvent new_nodes;
NewElementsEvent new_elements;
Array<UInt> * ask_nodes_per_proc = new Array<UInt>[nb_proc];
for (UInt p = 0; p < nb_proc; ++p) {
nb_nodes_to_recv(p) = 0;
if (p == my_rank)
continue;
auto & scheme = communicator.getCommunications().createRecvScheme(p);
Array<UInt> & ask_nodes = ask_nodes_per_proc[p];
UInt count = 0;
if (intersects_proc[p]) {
ElementType type = _not_defined;
do {
Vector<UInt> info(2);
comm.receive(info, p, Tag::genTag(p, count, SIZE_TAG));
type = (ElementType)info[0];
if (type != _not_defined) {
UInt nb_nodes_per_element = mesh.getNbNodesPerElement(type);
;
UInt nb_element = info[1] / nb_nodes_per_element;
Array<UInt> tmp_conn(nb_element, nb_nodes_per_element);
tmp_conn.clear();
if (info[1] != 0)
comm.receive<UInt>(tmp_conn, p,
Tag::genTag(p, count, DATA_TAG));
AKANTU_DEBUG_INFO("I will receive "
<< nb_element << " elements of type "
<< ElementType(info[0]) << " from processor " << p
<< " (communication tag : "
<< Tag::genTag(p, count, DATA_TAG) << ")");
Array<UInt> & ghost_connectivity =
const_cast<Array<UInt> &>(mesh.getConnectivity(type, _ghost));
UInt nb_ghost_element = ghost_connectivity.getSize();
Element element(type, 0, _ghost);
Vector<UInt> conn(nb_nodes_per_element);
for (UInt el = 0; el < nb_element; ++el) {
UInt nb_node_to_ask_for_elem = 0;
for (UInt n = 0; n < nb_nodes_per_element; ++n) {
UInt gn = tmp_conn(el, n);
UInt ln = global_nodes_ids.find(gn);
AKANTU_DEBUG_ASSERT(gn < mesh.getNbGlobalNodes(),
"This global node seems not correct "
<< gn << " from element " << el
<< " node " << n);
if (ln == UInt(-1)) {
global_nodes_ids.push_back(gn);
nodes_type.push_back(_nt_pure_gost); // pure ghost node
ln = nb_current_nodes;
new_nodes.getList().push_back(ln);
++nb_current_nodes;
ask_nodes.push_back(gn);
++nb_node_to_ask_for_elem;
}
conn[n] = ln;
}
// all the nodes are already known locally, the element should
// already exists
UInt c = UInt(-1);
if (nb_node_to_ask_for_elem == 0) {
c = ghost_connectivity.find(conn);
element.element = c;
}
if (c == UInt(-1)) {
element.element = nb_ghost_element;
++nb_ghost_element;
ghost_connectivity.push_back(conn);
new_elements.getList().push_back(element);
}
scheme.push_back(element);
}
}
count++;
} while (type != _not_defined);
AKANTU_DEBUG_INFO("I have "
<< ask_nodes.getSize()
<< " missing nodes for elements coming from processor "
<< p << " (communication tag : "
<< Tag::genTag(my_rank, 0, ASK_NODES_TAG) << ")");
ask_nodes.push_back(UInt(-1));
isend_nodes_requests.push_back(
comm.asyncSend(ask_nodes, p,
Tag::genTag(my_rank, 0, ASK_NODES_TAG)));
nb_nodes_to_recv(p) = ask_nodes.getSize() - 1;
nb_total_nodes_to_recv += nb_nodes_to_recv(p);
}
}
comm.waitAll(isend_requests);
comm.freeCommunicationRequest(isend_requests);
delete [] space;
for (UInt p = 0; p < nb_proc; ++p) {
if (element_per_proc[p])
delete element_per_proc[p];
}
delete[] element_per_proc;
/**
* Sends requested nodes to proc
*/
Array<Real> & nodes = const_cast<Array<Real> &>(mesh.getNodes());
UInt nb_nodes = nodes.getSize();
std::vector<CommunicationRequest> isend_coordinates_requests;
Array<Real> * nodes_to_send_per_proc = new Array<Real>[nb_proc];
for (UInt p = 0; p < nb_proc; ++p) {
if (p == my_rank || !intersects_proc[p])
continue;
Array<UInt> asked_nodes;
CommunicationStatus status;
AKANTU_DEBUG_INFO("Waiting list of nodes to send to processor "
<< p << "(communication tag : "
<< Tag::genTag(p, 0, ASK_NODES_TAG) << ")");
comm.probe<UInt>(p, Tag::genTag(p, 0, ASK_NODES_TAG), status);
UInt nb_nodes_to_send = status.getSize();
asked_nodes.resize(nb_nodes_to_send);
AKANTU_DEBUG_INFO("I have " << nb_nodes_to_send - 1
<< " nodes to send to processor " << p
<< " (communication tag : "
<< Tag::genTag(p, 0, ASK_NODES_TAG) << ")");
AKANTU_DEBUG_INFO("Getting list of nodes to send to processor "
<< p << " (communication tag : "
<< Tag::genTag(p, 0, ASK_NODES_TAG) << ")");
comm.receive(asked_nodes, p,
Tag::genTag(p, 0, ASK_NODES_TAG));
nb_nodes_to_send--;
asked_nodes.resize(nb_nodes_to_send);
Array<Real> & nodes_to_send = nodes_to_send_per_proc[p];
nodes_to_send.extendComponentsInterlaced(spatial_dimension, 1);
for (UInt n = 0; n < nb_nodes_to_send; ++n) {
UInt ln = global_nodes_ids.find(asked_nodes(n));
AKANTU_DEBUG_ASSERT(ln != UInt(-1), "The node ["
<< asked_nodes(n)
<< "] requested by proc " << p
<< " was not found locally!");
nodes_to_send.push_back(nodes.storage() + ln * spatial_dimension);
}
if (nb_nodes_to_send != 0) {
AKANTU_DEBUG_INFO("Sending the "
<< nb_nodes_to_send << " nodes to processor " << p
<< " (communication tag : "
<< Tag::genTag(p, 0, SEND_NODES_TAG) << ")");
isend_coordinates_requests.push_back(comm.asyncSend(
nodes_to_send, p,
Tag::genTag(my_rank, 0, SEND_NODES_TAG)));
}
#if not defined(AKANTU_NDEBUG)
else {
AKANTU_DEBUG_INFO("No nodes to send to processor " << p);
}
#endif
}
comm.waitAll(isend_nodes_requests);
comm.freeCommunicationRequest(isend_nodes_requests);
delete[] ask_nodes_per_proc;
nodes.resize(nb_total_nodes_to_recv + nb_nodes);
for (UInt p = 0; p < nb_proc; ++p) {
if ((p != my_rank) && (nb_nodes_to_recv(p) > 0)) {
AKANTU_DEBUG_INFO("Receiving the "
<< nb_nodes_to_recv(p) << " nodes from processor " << p
<< " (communication tag : "
<< Tag::genTag(p, 0, SEND_NODES_TAG) << ")");
Vector<Real> nodes_to_recv(nodes.storage() + nb_nodes * spatial_dimension,
nb_nodes_to_recv(p) * spatial_dimension);
comm.receive(nodes_to_recv, p,
Tag::genTag(p, 0, SEND_NODES_TAG));
nb_nodes += nb_nodes_to_recv(p);
}
#if not defined(AKANTU_NDEBUG)
else {
if (p != my_rank) {
AKANTU_DEBUG_INFO("No nodes to receive from processor " << p);
}
}
#endif
}
comm.waitAll(isend_coordinates_requests);
comm.freeCommunicationRequest(isend_coordinates_requests);
delete[] nodes_to_send_per_proc;
// Register the tags if any
if (synchronizer_registry) {
std::set<SynchronizationTag>::const_iterator it = tags_to_register.begin();
std::set<SynchronizationTag>::const_iterator end = tags_to_register.end();
for (; it != end; ++it) {
synchronizer_registry->registerSynchronizer(communicator, *it);
}
}
mesh.sendEvent(new_nodes);
mesh.sendEvent(new_elements);
delete[] intersects_proc;
AKANTU_DEBUG_OUT();
return &communicator;
}
/* -------------------------------------------------------------------------- */
template GridSynchronizer *
GridSynchronizer::createGridSynchronizer<IntegrationPoint>(
Mesh & mesh, const SpatialGrid<IntegrationPoint> & grid, SynchronizerID id,
SynchronizerRegistry * synchronizer_registry,
const std::set<SynchronizationTag> & tags_to_register, MemoryID memory_id,
const bool register_to_event_manager);
template GridSynchronizer * GridSynchronizer::createGridSynchronizer<Element>(
Mesh & mesh, const SpatialGrid<Element> & grid, SynchronizerID id,
SynchronizerRegistry * synchronizer_registry,
const std::set<SynchronizationTag> & tags_to_register, MemoryID memory_id,
const bool register_to_event_manager);
__END_AKANTU__
diff --git a/test/test_model/test_model_solver/test_dof_manager_default.cc b/test/test_model/test_model_solver/test_dof_manager_default.cc
index 9006e9688..b9b678c7e 100644
--- a/test/test_model/test_model_solver/test_dof_manager_default.cc
+++ b/test/test_model/test_model_solver/test_dof_manager_default.cc
@@ -1,123 +1,125 @@
/**
* @file test_dof_manager_default.cc
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Wed Feb 24 12:28:44 2016
*
* @brief Test default dof manager
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "dof_manager_default.hh"
+#include "solver_callback.hh"
+#include "time_step_solver.hh"
#include "sparse_matrix_aij.hh"
using namespace akantu;
/**
* =\o-----o-----o-> F
* | |
* |---- L ----|
*/
class MySolverCallback : public SolverCallback {
public:
MySolverCallback(Real F, DOFManagerDefault & dof_manager, UInt nb_dofs = 3)
: dof_manager(dof_manager),
K(dynamic_cast<SparseMatrixAIJ &>(
dof_manager.getNewMatrix("K", _symmetric))),
dispacement(nb_dofs, 1, "disp"), blocked(nb_dofs, 1),
forces(nb_dofs, 1), nb_dofs(nb_dofs) {
dof_manager.registerDOFs("disp", dispacement, _dst_generic);
dof_manager.registerBlockedDOFs("disp", blocked);
dispacement.set(0.);
forces.set(0.);
blocked.set(false);
forces(nb_dofs - 1, _x) = F;
blocked(0, _x) = true;
for (UInt i = 0; i < nb_dofs; ++i)
K.addToProfile(i, i);
for (UInt i = 0; i < nb_dofs - 1; ++i)
K.addToProfile(i, i + 1);
}
void assembleJacobian() {
for (UInt i = 1; i < nb_dofs - 1; ++i)
K(i, i) = 2;
for (UInt i = 0; i < nb_dofs - 1; ++i)
K(i, i + 1) = -1;
K(0, 0) = K(nb_dofs - 1, nb_dofs - 1) = 1;
// K *= 1 / L_{el}
K *= nb_dofs - 1;
}
void assembleResidual() { dof_manager.assembleToResidual("disp", forces); }
void predictor() {}
void corrector() {}
DOFManagerDefault & dof_manager;
SparseMatrixAIJ & K;
Array<Real> dispacement;
Array<bool> blocked;
Array<Real> forces;
UInt nb_dofs;
};
int main(int argc, char * argv[]) {
initialize(argc, argv);
DOFManagerDefault dof_manager("test_dof_manager");
MySolverCallback callback(10., dof_manager, 11);
dof_manager.getNewMatrix("J", "K");
NonLinearSolver & nls =
dof_manager.getNewNonLinearSolver("my_nls", _nls_linear);
TimeStepSolver & tss =
dof_manager.getNewTimeStepSolver("my_tss", _tsst_static, nls);
tss.setIntegrationScheme("disp", _ist_pseudo_time);
tss.solveStep(callback);
dof_manager.getMatrix("K").saveMatrix("K_dof_manager_default.mtx");
Array<Real>::const_scalar_iterator disp_it = callback.dispacement.begin();
Array<Real>::const_scalar_iterator force_it = callback.forces.begin();
Array<bool>::const_scalar_iterator blocked_it = callback.blocked.begin();
std::cout << std::setw(8) << "disp"
<< " " << std::setw(8) << "force"
<< " " << std::setw(8) << "blocked" << std::endl;
for (; disp_it != callback.dispacement.end();
++disp_it, ++force_it, ++blocked_it) {
std::cout << std::setw(8) << *disp_it << " " << std::setw(8) << *force_it
<< " " << std::setw(8) << std::boolalpha << *blocked_it << std::endl;
}
finalize();
return EXIT_SUCCESS;
}
diff --git a/test/test_model/test_model_solver/test_model_solver_dynamic.cc b/test/test_model/test_model_solver/test_model_solver_dynamic.cc
index c22986b0a..4587a5292 100644
--- a/test/test_model/test_model_solver/test_model_solver_dynamic.cc
+++ b/test/test_model/test_model_solver/test_model_solver_dynamic.cc
@@ -1,451 +1,453 @@
/**
* @file test_dof_manager_default.cc
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date Wed Feb 24 12:28:44 2016
*
* @brief Test default dof manager
*
* @section LICENSE
*
* Copyright (©) 2010-2011 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "dof_manager.hh"
#include "mesh.hh"
#include "mesh_accessor.hh"
#include "model_solver.hh"
#include "sparse_matrix.hh"
/* -------------------------------------------------------------------------- */
#include <fstream>
/* -------------------------------------------------------------------------- */
#ifndef EXPLICIT
#define EXPLICIT true
#endif
using namespace akantu;
class MyModel;
static void genMesh(Mesh & mesh, UInt nb_nodes);
/**
* =\o-----o-----o-> F
* | |
* |---- L ----|
*/
class MyModel : public ModelSolver {
public:
MyModel(Real F, Mesh & mesh, bool lumped)
: ModelSolver(mesh, "model_solver", 0),
displacement(mesh.getNbNodes(), 1, "disp"),
velocity(mesh.getNbNodes(), 1, "velo"),
acceleration(mesh.getNbNodes(), 1, "accel"),
blocked(mesh.getNbNodes(), 1, "blocked"),
forces(mesh.getNbNodes(), 1, "force_ext"),
internal_forces(mesh.getNbNodes(), 1, "force_int"), mesh(mesh),
nb_dofs(mesh.getNbNodes()), E(1.), A(1.), rho(1.), lumped(lumped) {
this->initDOFManager();
this->getDOFManager().registerDOFs("disp", displacement, _dst_nodal);
this->getDOFManager().registerDOFsDerivative("disp", 1, velocity);
this->getDOFManager().registerDOFsDerivative("disp", 2, acceleration);
this->getDOFManager().registerBlockedDOFs("disp", blocked);
this->getDOFManager().getNewMatrix("K", _symmetric);
this->getDOFManager().getNewMatrix("M", "K");
this->getDOFManager().getNewMatrix("J", "K");
this->getDOFManager().getNewLumpedMatrix("M");
if (lumped) {
this->assembleLumpedMass();
} else {
this->assembleMass();
this->assembleStiffness();
}
this->assembleJacobian();
displacement.set(0.);
velocity.set(0.);
acceleration.set(0.);
forces.set(0.);
blocked.set(false);
forces(nb_dofs - 1, _x) = F;
// displacement(nb_dofs - 1, _x) = .1;
blocked(0, _x) = true;
}
void assembleLumpedMass() {
Array<Real> & M = this->getDOFManager().getLumpedMatrix("M");
M.clear();
Array<Real> m_all_el(this->nb_dofs - 1, 2);
Array<Real>::vector_iterator m_it = m_all_el.begin(2);
Array<UInt>::const_vector_iterator cit =
this->mesh.getConnectivity(_segment_2).begin(2);
Array<UInt>::const_vector_iterator cend =
this->mesh.getConnectivity(_segment_2).end(2);
for (; cit != cend; ++cit, ++m_it) {
const Vector<UInt> & conn = *cit;
UInt n1 = conn(0);
UInt n2 = conn(1);
Real p1 = this->mesh.getNodes()(n1, _x);
Real p2 = this->mesh.getNodes()(n2, _x);
Real L = std::abs(p2 - p1);
Real M_n = rho * A * L / 2;
(*m_it)(0) = (*m_it)(1) = M_n;
}
this->getDOFManager().assembleElementalArrayLocalArray(
m_all_el, M, _segment_2, _not_ghost);
}
void assembleMass() {
SparseMatrix & M = this->getDOFManager().getMatrix("M");
M.clear();
Array<Real> m_all_el(this->nb_dofs - 1, 4);
Array<Real>::matrix_iterator m_it = m_all_el.begin(2, 2);
Array<UInt>::const_vector_iterator cit =
this->mesh.getConnectivity(_segment_2).begin(2);
Array<UInt>::const_vector_iterator cend =
this->mesh.getConnectivity(_segment_2).end(2);
Matrix<Real> m(2, 2);
m(0, 0) = m(1, 1) = 2;
m(0, 1) = m(1, 0) = 1;
// under integrated
// m(0, 0) = m(1, 1) = 3./2.;
// m(0, 1) = m(1, 0) = 3./2.;
// lumping the mass matrix
// m(0, 0) += m(0, 1);
// m(1, 1) += m(1, 0);
// m(0, 1) = m(1, 0) = 0;
for (; cit != cend; ++cit, ++m_it) {
const Vector<UInt> & conn = *cit;
UInt n1 = conn(0);
UInt n2 = conn(1);
Real p1 = this->mesh.getNodes()(n1, _x);
Real p2 = this->mesh.getNodes()(n2, _x);
Real L = std::abs(p2 - p1);
Matrix<Real> & m_el = *m_it;
m_el = m;
m_el *= rho * A * L / 6.;
}
this->getDOFManager().assembleElementalMatricesToMatrix(
"M", "disp", m_all_el, _segment_2);
}
void assembleJacobian() {}
void assembleStiffness() {
SparseMatrix & K = this->getDOFManager().getMatrix("K");
K.clear();
Matrix<Real> k(2, 2);
k(0, 0) = k(1, 1) = 1;
k(0, 1) = k(1, 0) = -1;
Array<Real> k_all_el(this->nb_dofs - 1, 4);
Array<Real>::matrix_iterator k_it = k_all_el.begin(2, 2);
Array<UInt>::const_vector_iterator cit =
this->mesh.getConnectivity(_segment_2).begin(2);
Array<UInt>::const_vector_iterator cend =
this->mesh.getConnectivity(_segment_2).end(2);
for (; cit != cend; ++cit, ++k_it) {
const Vector<UInt> & conn = *cit;
UInt n1 = conn(0);
UInt n2 = conn(1);
Real p1 = this->mesh.getNodes()(n1, _x);
Real p2 = this->mesh.getNodes()(n2, _x);
Real L = std::abs(p2 - p1);
Matrix<Real> & k_el = *k_it;
k_el = k;
k_el *= E * A / L;
}
this->getDOFManager().assembleElementalMatricesToMatrix(
"K", "disp", k_all_el, _segment_2);
}
void assembleResidual() {
this->getDOFManager().assembleToResidual("disp", forces);
Array<Real> forces_internal_el(this->nb_dofs - 1, 2);
Array<Real>::vector_iterator f_it = forces_internal_el.begin(2);
Array<UInt>::const_vector_iterator cit =
this->mesh.getConnectivity(_segment_2).begin(2);
Array<UInt>::const_vector_iterator cend =
this->mesh.getConnectivity(_segment_2).end(2);
for (; cit != cend; ++cit, ++f_it) {
const Vector<UInt> & conn = *cit;
UInt n1 = conn(0);
UInt n2 = conn(1);
Real p1 = this->mesh.getNodes()(n1, _x);
Real p2 = this->mesh.getNodes()(n2, _x);
Real L = std::abs(p2 - p1);
Real u1 = this->displacement(n1, _x);
Real u2 = this->displacement(n2, _x);
Real f_n = E * A / L * (u2 - u1);
Vector<Real> & f = *f_it;
f(0) = -f_n;
f(1) = f_n;
}
internal_forces.clear();
this->getDOFManager().assembleElementalArrayLocalArray(
forces_internal_el, internal_forces, _segment_2, _not_ghost);
this->getDOFManager().assembleToResidual("disp", internal_forces, -1.);
}
Real getPotentialEnergy() {
Real res = 0;
if (!lumped) {
res = this->mulVectMatVect(this->displacement,
this->getDOFManager().getMatrix("K"),
this->displacement);
} else {
Array<UInt>::const_vector_iterator cit =
this->mesh.getConnectivity(_segment_2).begin(2);
Array<UInt>::const_vector_iterator cend =
this->mesh.getConnectivity(_segment_2).end(2);
for (; cit != cend; ++cit) {
const Vector<UInt> & conn = *cit;
UInt n1 = conn(0);
UInt n2 = conn(1);
Real p1 = this->mesh.getNodes()(n1, _x);
Real p2 = this->mesh.getNodes()(n2, _x);
Real L = std::abs(p2 - p1);
Real u1 = this->displacement(n1, _x);
Real u2 = this->displacement(n2, _x);
Real strain = (u2 - u1) / L;
res += strain * E * strain * A * L;
}
}
return res / 2.;
}
Real getKineticEnergy() {
Real res = 0;
if (!lumped) {
res = this->mulVectMatVect(
this->velocity, this->getDOFManager().getMatrix("M"), this->velocity);
} else {
Array<Real> & m = this->getDOFManager().getLumpedMatrix("M");
Array<Real>::const_scalar_iterator it = velocity.begin();
Array<Real>::const_scalar_iterator end = velocity.end();
Array<Real>::const_scalar_iterator m_it = m.begin();
for (; it != end; ++it, ++m_it) {
res += *m_it * *it * *it;
}
}
return res / 2.;
}
Real mulVectMatVect(const Array<Real> & x, const SparseMatrix & A,
const Array<Real> & y) {
- Array<Real> Ay(this->nb_dofs);
+ Array<Real> Ay(this->nb_dofs, 1, 0.);
A.matVecMul(y, Ay);
Real res = 0.;
Array<Real>::const_scalar_iterator it = Ay.begin();
Array<Real>::const_scalar_iterator end = Ay.end();
Array<Real>::const_scalar_iterator x_it = x.begin();
for (; it != end; ++it, ++x_it) {
res += *x_it * *it;
}
return res;
}
void predictor() {}
void corrector() {}
Array<Real> displacement;
Array<Real> velocity;
Array<Real> acceleration;
Array<bool> blocked;
Array<Real> forces;
Array<Real> internal_forces;
private:
Mesh & mesh;
UInt nb_dofs;
Real E, A, rho;
bool lumped;
};
/* -------------------------------------------------------------------------- */
int main(int argc, char * argv[]) {
initialize(argc, argv);
UInt nb_nodes = 201;
UInt max_steps = 2000;
Real time_step = 0.001;
Mesh mesh(1);
Real F = -9.81;
bool _explicit = EXPLICIT;
genMesh(mesh, nb_nodes);
+ mesh.distribute();
+
MyModel model(F, mesh, _explicit);
if (!_explicit) {
model.getNewSolver("dynamic", _tsst_dynamic, _nls_newton_raphson);
model.setIntegrationScheme("dynamic", "disp", _ist_trapezoidal_rule_2,
IntegrationScheme::_displacement);
} else {
model.getNewSolver("dynamic", _tsst_dynamic_lumped, _nls_lumped);
model.setIntegrationScheme("dynamic", "disp", _ist_central_difference,
IntegrationScheme::_acceleration);
}
model.setTimeStep(time_step);
const Array<Real> & disp = model.displacement;
const Array<Real> & velo = model.velocity;
const Array<Real> & reac = model.internal_forces;
// #if EXPLICIT == true
// std::ofstream output("output_dynamic_explicit.csv");
// #else
// std::ofstream output("output_dynamic_implicit.csv");
// #endif
std::cout << std::setw(8) << "time"
<< "," << std::setw(8) << "disp"
<< "," << std::setw(8) << "velo"
<< "," << std::setw(8) << "reac"
<< "," << std::setw(8) << "wext"
<< "," << std::setw(8) << "epot"
<< "," << std::setw(8) << "ekin"
<< "," << std::setw(8) << "total"
<< std::endl;
Real wext = 0;
model.assembleResidual();
Real epot = model.getPotentialEnergy();
Real ekin = model.getKineticEnergy();
Real einit = ekin + epot;
std::cout << std::setw(8) << 0.
<< "," << std::setw(8) << disp(nb_nodes - 1, _x)
<< "," << std::setw(8) << velo(nb_nodes - 1, _x)
<< "," << std::setw(8) << (-reac(0, _x))
<< "," << std::setw(8) << wext
<< "," << std::setw(8) << epot
<< "," << std::setw(8) << ekin
<< "," << std::setw(8) << (ekin + epot - wext - einit)
<< std::endl;
#if EXPLICIT == false
// NonLinearSolver & solver =
// model.getDOFManager().getNonLinearSolver("dynamic");
#endif
for (UInt i = 1; i < max_steps + 1; ++i) {
model.solveStep();
// #if EXPLICIT == false
// UInt nb_iter = solver.get("nb_iterations");
// Real error = solver.get("error");
// bool converged = solver.get("converged");
// std::cout << error << " " << nb_iter << " -> " << converged << std::endl;
// #endif
wext += F * velo(nb_nodes - 1, 0) * time_step;
epot = model.getPotentialEnergy();
ekin = model.getKineticEnergy();
Real etot = ekin + epot - wext - einit;
std::cout << std::setw(8) << time_step * i
<< "," << std::setw(8) << disp(nb_nodes - 1, _x)
<< "," << std::setw(8) << velo(nb_nodes - 1, _x)
<< "," << std::setw(8) << (-reac(0, _x))
<< "," << std::setw(8) << wext
<< "," << std::setw(8) << epot
<< "," << std::setw(8) << ekin
<< "," << std::setw(8) << (etot)
<< std::endl;
// if (std::abs(etot) > 1e-7) {
// AKANTU_DEBUG_ERROR("The total energy of the system is not conserved!");
// }
}
// output.close();
finalize();
return EXIT_SUCCESS;
}
/* -------------------------------------------------------------------------- */
void genMesh(Mesh & mesh, UInt nb_nodes) {
MeshAccessor mesh_accessor(mesh);
Array<Real> & nodes = mesh_accessor.getNodes();
Array<UInt> & conn = mesh_accessor.getConnectivity(_segment_2);
nodes.resize(nb_nodes);
for (UInt n = 0; n < nb_nodes; ++n) {
nodes(n, _x) = n * (1. / (nb_nodes - 1));
}
conn.resize(nb_nodes - 1);
for (UInt n = 0; n < nb_nodes - 1; ++n) {
conn(n, 0) = n;
conn(n, 1) = n + 1;
}
}
diff --git a/test/test_model/test_model_solver/test_model_solver_dynamic_explicit.verified b/test/test_model/test_model_solver/test_model_solver_dynamic_explicit.verified
index 414d83773..79604763a 100644
--- a/test/test_model/test_model_solver/test_model_solver_dynamic_explicit.verified
+++ b/test/test_model/test_model_solver/test_model_solver_dynamic_explicit.verified
@@ -1,2001 +1,2002 @@
- time, disp, velo, reac, wext, epot, ekin
- 0.001, 0, 1.962, -0, 0.0192472, 0, 0.0048118
- 0.002, 0.003924, 5.72904, -0, 0.0754491, 0.00153978, 0.0410428
- 0.003, 0.0114581, 9.04404, -0, 0.164171, 0.012774, 0.102604
- 0.004, 0.0220121, 11.6659, -0, 0.278614, 0.0452231, 0.172681
- 0.005, 0.0347899, 13.4355, -0, 0.410416, 0.106783, 0.235979
- 0.006, 0.0488831, 14.2928, -0, 0.550628, 0.196298, 0.284868
- 0.007, 0.0633755, 14.2811, -0, 0.690726, 0.302603, 0.321327
- 0.008, 0.0774452, 13.5374, -0, 0.823528, 0.408548, 0.354051
- 0.009, 0.0904504, 12.272, -0, 0.943916, 0.497889, 0.392622
- 0.01, 0.101989, 10.7378, -0, 1.04925, 0.561539, 0.442033
- 0.011, 0.111926, 9.19645, -0, 1.13947, 0.600169, 0.500411
- 0.012, 0.120382, 7.88413, -0, 1.21681, 0.622205, 0.560823
- 0.013, 0.127694, 6.98202, -0, 1.28531, 0.638742, 0.615775
- 0.014, 0.134346, 6.59599, -0, 1.35001, 0.658295, 0.661618
- 0.015, 0.140886, 6.74725, -0, 1.4162, 0.684108, 0.700376
- 0.016, 0.147841, 7.37528, -0, 1.48856, 0.715003, 0.738129
- 0.017, 0.155637, 8.35188, -0, 1.57049, 0.748646, 0.781148
- 0.018, 0.164544, 9.50425, -0, 1.66372, 0.784851, 0.832177
- 0.019, 0.174645, 10.6431, -0, 1.76813, 0.826726, 0.889014
- 0.02, 0.185831, 11.5916, -0, 1.88185, 0.878992, 0.94611
- 0.021, 0.197828, 12.2118, -0, 2.00164, 0.944612, 0.998052
- 0.022, 0.210254, 12.4226, -0, 2.12351, 1.02193, 1.04279
- 0.023, 0.222674, 12.2103, -0, 2.24329, 1.10422, 1.08269
- 0.024, 0.234675, 11.6269, -0, 2.35735, 1.18204, 1.12292
- 0.025, 0.245927, 10.7795, -0, 2.4631, 1.24722, 1.16823
- 0.026, 0.256234, 9.81192, -0, 2.55935, 1.29628, 1.2201
- 0.027, 0.265551, 8.88061, -0, 2.64647, 1.33144, 1.27601
- 0.028, 0.273995, 8.13048, -0, 2.72623, 1.3589, 1.33111
- 0.029, 0.281812, 7.67281, -0, 2.8015, 1.38543, 1.38119
- 0.03, 0.28934, 7.5693, -0, 2.87576, 1.4154, 1.42525
- 0.031, 0.296951, 7.82422, -0, 2.95251, 1.44968, 1.46595
- 0.032, 0.304989, 8.38568, -0, 3.03478, 1.48685, 1.50789
- 0.033, 0.313722, 9.15552, -0, 3.12459, 1.52568, 1.55476
- 0.034, 0.3233, 10.006, -0, 3.22275, 1.56703, 1.60718
- 0.035, 0.333734, 10.8007, -0, 3.32871, 1.6139, 1.66238
- 0.036, 0.344901, 11.4158, -0, 3.4407, 1.66964, 1.71597
- 0.037, 0.356566, 11.7594, -0, 3.55606, 1.73533, 1.76469
- 0.038, 0.36842, 11.7846, -0, 3.67166, 1.80821, 1.8083
- 0.039, 0.380135, 11.4961, -0, 3.78444, 1.88203, 1.84968
- 0.04, 0.391412, 10.9474, -0, 3.89183, 1.94957, 1.89297
- 0.041, 0.40203, 10.232, -0, 3.99221, 2.00563, 1.94106
- 0.042, 0.411876, 9.46688, -0, 4.08508, 2.04923, 1.99385
- 0.043, 0.420964, 8.77433, -0, 4.17116, 2.08358, 2.04838
- 0.044, 0.429425, 8.26213, -0, 4.25221, 2.11408, 2.10072
- 0.045, 0.437488, 8.00715, -0, 4.33076, 2.14557, 2.14835
- 0.046, 0.445439, 8.04396, -0, 4.40967, 2.18045, 2.19167
- 0.047, 0.453576, 8.3603, -0, 4.49168, 2.2185, 2.2337
- 0.048, 0.46216, 8.9001, -0, 4.57899, 2.25839, 2.27816
- 0.049, 0.471376, 9.57318, -0, 4.67291, 2.29969, 2.32723
- 0.05, 0.481306, 10.2702, -0, 4.77366, 2.34389, 2.38024
- 0.051, 0.491916, 10.8803, -0, 4.88039, 2.39385, 2.43412
- 0.052, 0.503067, 11.3084, -0, 4.99133, 2.45187, 2.48536
- 0.053, 0.514533, 11.4904, -0, 5.10405, 2.51768, 2.5321
- 0.054, 0.526047, 11.402, -0, 5.2159, 2.58767, 2.57527
- 0.055, 0.537337, 11.0624, -0, 5.32442, 2.65598, 2.61795
- 0.056, 0.548172, 10.5299, -0, 5.42772, 2.71686, 2.66346
- 0.057, 0.558397, 9.89248, -0, 5.52477, 2.76721, 2.71334
- 0.058, 0.567957, 9.25311, -0, 5.61554, 2.80769, 2.76644
- 0.059, 0.576903, 8.71322, -0, 5.70102, 2.84201, 2.81966
- 0.06, 0.585384, 8.35677, -0, 5.783, 2.87488, 2.8699
- 0.061, 0.593617, 8.23723, -0, 5.8638, 2.90973, 2.91591
- 0.062, 0.601858, 8.36965, -0, 5.94591, 2.94765, 2.95905
- 0.063, 0.610356, 8.72892, -0, 6.03154, 2.98787, 3.00239
- 0.064, 0.619316, 9.25438, -0, 6.12233, 3.02937, 3.04885
- 0.065, 0.628865, 9.85999, -0, 6.21905, 3.0724, 3.09939
- 0.066, 0.639036, 10.4484, -0, 6.32155, 3.11889, 3.15247
- 0.067, 0.649762, 10.9263, -0, 6.42874, 3.17138, 3.20502
- 0.068, 0.660888, 11.2197, -0, 6.5388, 3.23115, 3.25435
- 0.069, 0.672201, 11.2845, -0, 6.6495, 3.29683, 3.29977
- 0.07, 0.683457, 11.1139, -0, 6.75853, 3.36425, 3.34298
- 0.071, 0.694429, 10.7383, -0, 6.86387, 3.42802, 3.387
- 0.072, 0.704934, 10.2203, -0, 6.96413, 3.48378, 3.43434
- 0.073, 0.714869, 9.64421, -0, 7.05874, 3.53004, 3.48541
- 0.074, 0.724222, 9.10238, -0, 7.14804, 3.56864, 3.53836
- 0.075, 0.733074, 8.68045, -0, 7.23319, 3.60346, 3.59022
- 0.076, 0.741583, 8.44385, -0, 7.31603, 3.63843, 3.63872
- 0.077, 0.749962, 8.42775, -0, 7.3987, 3.67581, 3.68367
- 0.078, 0.758439, 8.63182, -0, 7.48338, 3.71579, 3.72704
- 0.079, 0.767225, 9.02077, -0, 7.57188, 3.7574, 3.77177
- 0.08, 0.77648, 9.53041, -0, 7.66537, 3.80006, 3.81989
- 0.081, 0.786286, 10.0782, -0, 7.76424, 3.84463, 3.87137
- 0.082, 0.796637, 10.5765, -0, 7.86799, 3.89324, 3.92411
- 0.083, 0.807439, 10.9468, -0, 7.97538, 3.94793, 3.97527
- 0.084, 0.81853, 11.1317, -0, 8.08458, 4.00901, 4.02302
- 0.085, 0.829703, 11.1039, -0, 8.19351, 4.07416, 4.06761
- 0.086, 0.840738, 10.8705, -0, 8.30015, 4.13897, 4.11125
- 0.087, 0.851444, 10.471, -0, 8.40287, 4.19867, 4.15668
- 0.088, 0.86168, 9.97079, -0, 8.50069, 4.25022, 4.20552
- 0.089, 0.871385, 9.45068, -0, 8.5934, 4.2935, 4.25729
- 0.09, 0.880581, 8.99361, -0, 8.68162, 4.33109, 4.30973
- 0.091, 0.889372, 8.67161, -0, 8.76669, 4.36678, 4.36019
- 0.092, 0.897925, 8.53443, -0, 8.85042, 4.40366, 4.40725
- 0.093, 0.906441, 8.60187, -0, 8.9348, 4.44301, 4.45161
- 0.094, 0.915128, 8.86099, -0, 9.02173, 4.48443, 4.49558
- 0.095, 0.924163, 9.2685, -0, 9.11265, 4.52701, 4.54171
- 0.096, 0.933665, 9.75797, -0, 9.20838, 4.57069, 4.59119
- 0.097, 0.943679, 10.2506, -0, 9.30893, 4.61681, 4.64315
- 0.098, 0.954167, 10.668, -0, 9.41359, 4.66746, 4.69522
- 0.099, 0.965015, 10.9445, -0, 9.52095, 4.72405, 4.74498
- 0.1, 0.976056, 11.0375, -0, 9.62923, 4.78596, 4.79145
- 0.101, 0.98709, 10.934, -0, 9.73649, 4.85015, 4.83567
- 0.102, 0.997924, 10.6524, -0, 9.84099, 4.9122, 4.88005
- 0.103, 1.0084, 10.2395, -0, 9.94144, 4.96816, 4.92687
- 0.104, 1.0184, 9.76205, -0, 10.0372, 5.01622, 4.9769
- 0.105, 1.02792, 9.29686, -0, 10.1284, 5.05737, 5.02894
- 0.106, 1.037, 8.91787, -0, 10.2159, 5.09464, 5.08057
- 0.107, 1.04575, 8.68459, -0, 10.3011, 5.13145, 5.12965
- 0.108, 1.05437, 8.63281, -0, 10.3858, 5.17004, 5.17562
- 0.109, 1.06302, 8.76909, -0, 10.4718, 5.21092, 5.21981
- 0.11, 1.0719, 9.07, -0, 10.5608, 5.25336, 5.26465
- 0.111, 1.08116, 9.48609, -0, 10.6538, 5.29671, 5.31214
- 0.112, 1.09088, 9.95006, -0, 10.7514, 5.34142, 5.36263
- 0.113, 1.10106, 10.3876, -0, 10.8534, 5.38915, 5.41465
- 0.114, 1.11165, 10.7292, -0, 10.9586, 5.44177, 5.4658
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+ 1.991,-19.4829,-6.33273,-19.6025, 191.157, 190.583,0.545989,-0.0276743
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+ 1.995,-19.5053,-4.90052,-19.2808, 191.37, 190.939,0.410241,-0.0206108
+ 1.996, -19.51,-4.58789,-19.2874, 191.415, 191.013,0.382777,-0.0191723
+ 1.997,-19.5145,-4.30379,-19.3343, 191.457, 191.082,0.357644,-0.0178678
+ 1.998,-19.5186,-4.04184,-19.4156, 191.497, 191.146,0.334499,-0.0166396
+ 1.999,-19.5226,-3.78978,-19.5215, 191.534, 191.206,0.313129,-0.0154069
+ 2,-19.5262,-3.53137,-19.6392, 191.569, 191.261,0.293581,-0.0140795
diff --git a/test/test_model/test_model_solver/test_model_solver_dynamic_implicit.verified b/test/test_model/test_model_solver/test_model_solver_dynamic_implicit.verified
index 5f3cf45e8..daa6188c9 100644
--- a/test/test_model/test_model_solver/test_model_solver_dynamic_implicit.verified
+++ b/test/test_model/test_model_solver/test_model_solver_dynamic_implicit.verified
@@ -1,2001 +1,2002 @@
- time, disp, velo, reac, wext, epot, ekin
- 0.001, 0.00160554, 3.21108, -4.63166e-124, 0.0315007, 0.000421884, 0.00745328
- 0.002, 0.00768365, 8.94514, 3.6274e-122, 0.119252, 0.00923947, 0.0582619
- 0.003, 0.0185743, 12.8361, -1.34272e-120, 0.245175, 0.0500032, 0.124335
- 0.004, 0.0321491, 14.3135, 3.11136e-119, 0.38559, 0.133399, 0.174109
- 0.005, 0.0460795, 13.5474, -5.0335e-118, 0.51849, 0.234717, 0.209449
- 0.006, 0.0585263, 11.346, 5.99258e-117, 0.629795, 0.314663, 0.251605
- 0.007, 0.0686193, 8.84008, -5.37549e-116, 0.716516, 0.357329, 0.307951
- 0.008, 0.0765765, 7.07424, 3.63579e-115, 0.785914, 0.378845, 0.364495
- 0.009, 0.0834428, 6.65839, -1.79972e-114, 0.851233, 0.40172, 0.408979
- 0.01, 0.0905724, 7.60083, 5.86967e-114, 0.925797, 0.432547, 0.448093
- 0.011, 0.0990598, 9.37405, -7.11294e-114, 1.01776, 0.468325, 0.495577
- 0.012, 0.109333, 11.1731, -4.0046e-113, 1.12737, 0.51311, 0.551576
- 0.013, 0.121048, 12.2569, 2.41002e-112, 1.24761, 0.575866, 0.603745
- 0.014, 0.133295, 12.2362, -3.99743e-112, 1.36764, 0.653347, 0.646402
- 0.015, 0.145014, 11.2016, -1.24726e-111, 1.47753, 0.726379, 0.688333
- 0.016, 0.155441, 9.65182, 7.09978e-111, 1.57222, 0.778231, 0.738766
- 0.017, 0.164398, 8.26361, -4.7108e-111, 1.65328, 0.811156, 0.793717
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+ 1.908,-18.7311,-12.2154,-19.6233, 183.812, 179.259, 4.48481,-0.0677918
+ 1.909, -18.743,-11.5894,-19.6415, 183.925, 179.432, 4.42912,-0.0647213
+ 1.91,-18.7543,-11.0887,-19.6508, 184.034, 179.601, 4.37104,-0.0622653
+ 1.911,-18.7652,-10.7894,-19.6473, 184.14, 179.767, 4.31206,-0.0607974
+ 1.912, -18.776,-10.6816,-19.6326, 184.245, 179.932, 4.25257,-0.0602683
+ 1.913,-18.7867,-10.6711,-19.6127, 184.349, 180.097, 4.19275,-0.0602171
+ 1.914,-18.7973, -10.615,-19.5959, 184.454, 180.26, 4.13344,-0.0599417
+ 1.915,-18.8078,-10.3759, -19.589, 184.555, 180.421, 4.07557,-0.0587689
+ 1.916,-18.8179,-9.87759, -19.595, 184.652, 180.576, 4.01952,-0.0563247
+ 1.917,-18.8274,-9.13853,-19.6113, 184.742, 180.724, 3.96565,-0.0526997
+ 1.918,-18.8361, -8.2704,-19.6311, 184.823, 180.86, 3.915,-0.0484415
+ 1.919, -18.844,-7.44078,-19.6464, 184.896, 180.983, 3.86835,-0.0443722
+ 1.92,-18.8511,-6.81322,-19.6507, 184.963, 181.097, 3.82497,-0.041294
+ 1.921,-18.8578,-6.48711,-19.6423, 185.027, 181.204, 3.7833,-0.0396944
+ 1.922,-18.8642,-6.46048,-19.6247, 185.09, 181.307, 3.7431,-0.0395638
+ 1.923,-18.8708,-6.63061,-19.6053, 185.155, 181.409, 3.70568,-0.0403983
+ 1.924,-18.8775,-6.83303,-19.5919, 185.222, 181.509, 3.67145,-0.0413912
+ 1.925,-18.8844,-6.90468,-19.5902, 185.29, 181.61, 3.63811,-0.0417426
+ 1.926,-18.8912,-6.74729,-19.6008, 185.356, 181.712, 3.60268,-0.0409706
+ 1.927,-18.8978,-6.36662,-19.6193, 185.418, 181.814, 3.56485,-0.0391034
+ 1.928,-18.9039,-5.87209,-19.6381, 185.476, 181.913, 3.52673,-0.0366778
+ 1.929,-18.9095,-5.43659,-19.6494, 185.529, 182.006, 3.48903,-0.0345417
+ 1.93,-18.9149,-5.23127,-19.6485, 185.581, 182.098, 3.44896,-0.0335346
+ 1.931,-18.9202,-5.36038,-19.6359, 185.633, 182.196, 3.40328,-0.0341678
+ 1.932,-18.9258,-5.82098,-19.6167, 185.69, 182.301, 3.35249,-0.0364271
+ 1.933,-18.9319,-6.50325,-19.5989, 185.754, 182.414, 3.30008,-0.0397736
+ 1.934,-18.9388,-7.23126,-19.5899, 185.825, 182.534, 3.24763,-0.0433445
+ 1.935,-18.9463,-7.82873,-19.5933, 185.902, 182.663, 3.19261,-0.0462751
+ 1.936,-18.9543,-8.18465,-19.6078, 185.982, 182.802, 3.13214,-0.0480209
+ 1.937,-18.9626,-8.29364,-19.6272, 186.064, 182.947, 3.06766,-0.0485555
+ 1.938,-18.9708,-8.25577,-19.6437, 186.144, 183.092, 3.00375,-0.0483697
+ 1.939,-18.9791,-8.23625,-19.6503, 186.225, 183.234, 2.94258,-0.048274
+ 1.94,-18.9874,-8.40062,-19.6444, 186.308, 183.377, 2.88174,-0.0490802
+ 1.941, -18.996,-8.85045,-19.6284, 186.395, 183.525, 2.81846,-0.0512866
+ 1.942,-19.0053,-9.58397, -19.609, 186.489, 183.679, 2.75444,-0.0548845
+ 1.943,-19.0153,-10.4964,-19.5941, 186.592, 183.838, 2.69435,-0.05936
+ 1.944,-19.0263,-11.4192, -19.59, 186.704, 183.999, 2.6402,-0.0638861
+ 1.945,-19.0381,-12.1825,-19.5983, 186.823, 184.166, 2.58919,-0.0676302
+ 1.946,-19.0505,-12.6774,-19.6155, 186.947, 184.339, 2.53819,-0.0700576
+ 1.947,-19.0633,-12.8934,-19.6346, 187.074, 184.514, 2.48838,-0.0711172
+ 1.948,-19.0762,-12.9185,-19.6476, 187.201, 184.686, 2.44374,-0.0712407
+ 1.949,-19.0891,-12.9025,-19.6492, 187.327, 184.85, 2.40558,-0.0711618
+ 1.95, -19.102,-12.9973,-19.6387, 187.455, 185.012, 2.37066,-0.071627
+ 1.951,-19.1152,-13.2997,-19.6205, 187.585, 185.177, 2.3354,-0.0731102
+ 1.952,-19.1287,-13.8152,-19.6021, 187.721, 185.345, 2.30029,-0.0756389
+ 1.953,-19.1429,-14.4582,-19.5912, 187.863, 185.515, 2.26843,-0.0787929
+ 1.954,-19.1576,-15.0857,-19.5922, 188.011, 185.688, 2.24056,-0.0818705
+ 1.955, -19.173,-15.5512,-19.6047, 188.163, 185.865, 2.21345,-0.0841538
+ 1.956,-19.1886,-15.7586,-19.6235, 188.318, 186.049, 2.18359,-0.0851709
+ 1.957,-19.2043,-15.6944,-19.6408, 188.472, 186.236, 2.15104,-0.0848564
+ 1.958,-19.2199,-15.4295,-19.6495, 188.623, 186.421, 2.1183,-0.0835569
+ 1.959,-19.2352,-15.0885, -19.646, 188.771, 186.603, 2.08611,-0.0818841
+ 1.96,-19.2501,-14.8021,-19.6317, 188.916, 186.784, 2.05186,-0.0804792
+ 1.961,-19.2648,-14.6592,-19.6126, 189.06, 186.968, 2.01268,-0.0797784
+ 1.962,-19.2795, -14.677,-19.5966, 189.204, 187.156, 1.9686,-0.0798656
+ 1.963,-19.2943,-14.7986,-19.5903, 189.349, 187.347, 1.92185,-0.0804621
+ 1.964,-19.3091, -14.918,-19.5963, 189.496, 187.541, 1.87351,-0.0810479
+ 1.965, -19.324,-14.9213,-19.6121, 189.642, 187.739, 1.82206,-0.0810639
+ 1.966,-19.3389,-14.7278,-19.6311, 189.786, 187.941, 1.76553,-0.0801151
+ 1.967,-19.3534,-14.3177,-19.6455, 189.927, 188.145, 1.70405,-0.0781032
+ 1.968,-19.3674, -13.735,-19.6493, 190.062, 188.347, 1.63964,-0.0752451
+ 1.969,-19.3808,-13.0692, -19.641, 190.19, 188.544, 1.57377,-0.0719795
+ 1.97,-19.3936,-12.4216, -19.624, 190.312, 188.737, 1.50604,-0.0688031
+ 1.971,-19.4057,-11.8703,-19.6053, 190.428, 188.927, 1.43528,-0.0660991
+ 1.972,-19.4174,-11.4462,-19.5928, 190.54, 189.115, 1.36158,-0.0640187
+ 1.973,-19.4286,-11.1266,-19.5915, 190.65, 189.301, 1.28656,-0.062451
+ 1.974,-19.4396, -10.848,-19.6021, 190.756, 189.483, 1.21187,-0.0610845
+ 1.975,-19.4503, -10.531, -19.62, 190.859, 189.662, 1.13794,-0.0595295
+ 1.976,-19.4606,-10.1082,-19.6379, 190.958, 189.837, 1.06418,-0.0574558
+ 1.977,-19.4705,-9.54609,-19.6483, 191.052, 190.007, 0.99037,-0.0546987
+ 1.978,-19.4797,-8.85368,-19.6471, 191.139, 190.17,0.917461,-0.0513024
+ 1.979,-19.4881,-8.07724,-19.6346, 191.218, 190.324,0.847025,-0.047494
+ 1.98,-19.4958,-7.28395,-19.6161, 191.29, 190.466,0.780005,-0.043603
+ 1.981,-19.5027,-6.54063,-19.5992, 191.354, 190.598,0.716147,-0.039957
+ 1.982,-19.5089,-5.89421, -19.591, 191.412, 190.72,0.654755,-0.0367863
+ 1.983,-19.5146,-5.35954,-19.5948, 191.464, 190.834,0.595971,-0.0341637
+ 1.984,-19.5197,-4.91703, -19.609, 191.512, 190.939, 0.54107,-0.0319932
+ 1.985,-19.5244,-4.52016,-19.6278, 191.557, 191.035,0.491317,-0.0300465
+ 1.986,-19.5287,-4.11017,-19.6433, 191.597, 191.122,0.446663,-0.0280355
+ 1.987,-19.5326, -3.6339,-19.6491, 191.633, 191.201, 0.40594,-0.0256994
+ 1.988, -19.536,-3.05991,-19.6429, 191.663, 191.271,0.368479,-0.022884
+ 1.989,-19.5387,-2.38873,-19.6272, 191.686, 191.331,0.335183,-0.0195919
+ 1.99,-19.5407,-1.65413,-19.6086, 191.702, 191.379,0.307551,-0.0159887
+ 1.991, -19.542,-0.914541,-19.5947, 191.711, 191.413,0.285756,-0.012361
+ 1.992,-19.5426,-0.236329,-19.5913, 191.714, 191.436,0.268274,-0.00903436
+ 1.993,-19.5425,0.326715,-19.5999, 191.711, 191.45,0.253729,-0.00627263
+ 1.994, -19.542,0.751643,-19.6167, 191.703, 191.456,0.242665,-0.00418836
+ 1.995,-19.5411, 1.0561,-19.6349, 191.693, 191.453,0.236809,-0.00269499
+ 1.996,-19.5399, 1.29529,-19.6469, 191.68, 191.442,0.236639,-0.00152176
+ 1.997,-19.5385, 1.54572,-19.6477, 191.665, 191.424,0.240436,-0.000293403
+ 1.998,-19.5368, 1.87993,-19.6371, 191.646, 191.402,0.246255,0.0013459
+ 1.999,-19.5347, 2.34027,-19.6194, 191.623, 191.373,0.254326,0.00360385
+ 2, -19.532, 2.92114, -19.602, 191.595, 191.335,0.266626,0.00645304
diff --git a/test/test_model/test_solid_mechanics_model/test_solid_mechanics_model_material_eigenstrain.cc b/test/test_model/test_solid_mechanics_model/test_solid_mechanics_model_material_eigenstrain.cc
index 350c03e7f..f08d6222b 100644
--- a/test/test_model/test_solid_mechanics_model/test_solid_mechanics_model_material_eigenstrain.cc
+++ b/test/test_model/test_solid_mechanics_model/test_solid_mechanics_model_material_eigenstrain.cc
@@ -1,217 +1,219 @@
/**
* @file test_solid_mechanics_model_material_eigenstrain.cc
*
* @author Aurelia Isabel Cuba Ramos <aurelia.cubaramos@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Sat Apr 16 2011
* @date last modification: Wed Aug 12 2015
*
* @brief test the internal field prestrain
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014, 2015 EPFL (Ecole Polytechnique Fédérale de
* Lausanne) Laboratory (LSMS - Laboratoire de Simulation en Mécanique des
* Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "solid_mechanics_model.hh"
+#include "non_linear_solver.hh"
+
using namespace akantu;
Real alpha [3][4] = { { 0.01, 0.02, 0.03, 0.04 },
{ 0.05, 0.06, 0.07, 0.08 },
{ 0.09, 0.10, 0.11, 0.12 } };
/* -------------------------------------------------------------------------- */
template<ElementType type, bool is_plane_strain>
static Matrix<Real> prescribed_strain() {
UInt spatial_dimension = ElementClass<type>::getSpatialDimension();
Matrix<Real> strain(spatial_dimension, spatial_dimension);
for (UInt i = 0; i < spatial_dimension; ++i) {
for (UInt j = 0; j < spatial_dimension; ++j) {
strain(i, j) = alpha[i][j + 1];
}
}
return strain;
}
template<ElementType type, bool is_plane_strain>
static Matrix<Real> prescribed_stress(Matrix<Real> prescribed_eigengradu) {
UInt spatial_dimension = ElementClass<type>::getSpatialDimension();
Matrix<Real> stress(spatial_dimension, spatial_dimension);
//plane strain in 2d
Matrix<Real> strain(spatial_dimension, spatial_dimension);
Matrix<Real> pstrain;
pstrain = prescribed_strain<type, is_plane_strain>();
Real nu = 0.3;
Real E = 2.1e11;
Real trace = 0;
/// symetric part of the strain tensor
for (UInt i = 0; i < spatial_dimension; ++i)
for (UInt j = 0; j < spatial_dimension; ++j)
strain(i,j) = 0.5 * (pstrain(i, j) + pstrain(j, i));
// elastic strain is equal to elastic strain minus the eigenstrain
strain -= prescribed_eigengradu;
for (UInt i = 0; i < spatial_dimension; ++i) trace += strain(i,i);
Real lambda = nu * E / ((1 + nu) * (1 - 2*nu));
Real mu = E / (2 * (1 + nu));
if(!is_plane_strain) {
std::cout << "toto" << std::endl;
lambda = nu * E / (1 - nu*nu);
}
if(spatial_dimension == 1) {
stress(0, 0) = E * strain(0, 0);
} else {
for (UInt i = 0; i < spatial_dimension; ++i)
for (UInt j = 0; j < spatial_dimension; ++j) {
stress(i, j) = (i == j)*lambda*trace + 2*mu*strain(i, j);
}
}
return stress;
}
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
int main(int argc, char *argv[])
{
initialize("material_elastic_plane_strain.dat", argc, argv);
UInt dim = 3;
const ElementType element_type = _tetrahedron_4;
const bool plane_strain = true;
Matrix<Real> prescribed_eigengradu(dim, dim);
prescribed_eigengradu.clear();
for (UInt i = 0; i < dim; ++i) {
for (UInt j = 0; j < dim; ++j)
prescribed_eigengradu(i,j) += 0.1;
}
/// load mesh
Mesh my_mesh(dim);
std::stringstream filename; filename << "cube_3d_tet_4.msh";
my_mesh.read(filename.str());
/// declaration of model
SolidMechanicsModel my_model(my_mesh);
/// model initialization
my_model.getNewSolver("static", _tsst_static, _nls_newton_raphson_modified);
my_model.getNonLinearSolver("static").set("threshold", 2e-4);
my_model.getNonLinearSolver("static").set("max_iterations", 2U);
my_model.getNonLinearSolver("static").set("convergence_type", _scc_residual);
// model.setDefaultIntegrationScheme("static");
my_model.initFull();
const Array<Real> & coordinates = my_mesh.getNodes();
Array<Real> & displacement = my_model.getDisplacement();
Array<bool> & boundary = my_model.getBlockedDOFs();
MeshUtils::buildFacets(my_mesh);
my_mesh.createBoundaryGroupFromGeometry();
// Loop over (Sub)Boundar(ies)
for(GroupManager::const_element_group_iterator it(my_mesh.element_group_begin());
it != my_mesh.element_group_end(); ++it) {
for(ElementGroup::const_node_iterator nodes_it(it->second->node_begin());
nodes_it!= it->second->node_end(); ++nodes_it) {
UInt n(*nodes_it);
std::cout << "Node " << *nodes_it << std::endl;
for (UInt i = 0; i < dim; ++i) {
displacement(n, i) = alpha[i][0];
for (UInt j = 0; j < dim; ++j) {
displacement(n, i) += alpha[i][j + 1] * coordinates(n, j);
}
boundary(n, i) = true;
}
}
}
/* ------------------------------------------------------------------------ */
/* Apply eigenstrain in each element */
/* ------------------------------------------------------------------------ */
Array<Real> & eigengradu_vect = const_cast<Array<Real> &>(my_model.getMaterial(0).getInternal<Real>("eigen_grad_u")(element_type));
Array<Real>::iterator< Matrix<Real> > eigengradu_it = eigengradu_vect.begin(dim, dim);
Array<Real>::iterator< Matrix<Real> > eigengradu_end = eigengradu_vect.end(dim, dim);
for (; eigengradu_it != eigengradu_end; ++eigengradu_it) {
for (UInt i = 0; i < dim; ++i)
for (UInt j = 0; j < dim; ++j)
(*eigengradu_it)(i,j) += prescribed_eigengradu(i,j);
}
/* ------------------------------------------------------------------------ */
/* Static solve */
/* ------------------------------------------------------------------------ */
my_model.solveStep();
/* ------------------------------------------------------------------------ */
/* Checks */
/* ------------------------------------------------------------------------ */
Array<Real> & stress_vect = const_cast<Array<Real> &>(my_model.getMaterial(0).getStress(element_type));
Array<Real>::iterator< Matrix<Real> > stress_it = stress_vect.begin(dim, dim);
Array<Real>::iterator< Matrix<Real> > stress_end = stress_vect.end(dim, dim);
Matrix<Real> presc_stress;
presc_stress = prescribed_stress<element_type, plane_strain>(prescribed_eigengradu);
Real stress_tolerance = 1e-13;
for (; stress_it != stress_end; ++stress_it) {
Matrix<Real> & stress = *stress_it;
Matrix<Real> diff(dim, dim);
diff = stress;
diff -= presc_stress;
Real stress_error = diff.norm<L_inf>() / stress.norm<L_inf>();
if(stress_error > stress_tolerance) {
std::cerr << "stress error: " << stress_error << " > " << stress_tolerance << std::endl;
std::cerr << "stress: " << stress << std::endl
<< "prescribed stress: " << presc_stress << std::endl;
return EXIT_FAILURE;
} else {
std::cerr << "stress error: " << stress_error << " < " << stress_tolerance << std::endl;
}
}
finalize();
return EXIT_SUCCESS;
}
diff --git a/test/test_model/test_solid_mechanics_model/test_solid_mechanics_model_reassign_material.cc b/test/test_model/test_solid_mechanics_model/test_solid_mechanics_model_reassign_material.cc
index 92656fb56..8a0b26cae 100644
--- a/test/test_model/test_solid_mechanics_model/test_solid_mechanics_model_reassign_material.cc
+++ b/test/test_model/test_solid_mechanics_model/test_solid_mechanics_model_reassign_material.cc
@@ -1,222 +1,222 @@
/**
* @file test_solid_mechanics_model_reassign_material.cc
*
* @author Aurelia Isabel Cuba Ramos <aurelia.cubaramos@epfl.ch>
*
* @date creation: Mon Feb 10 2014
* @date last modification: Wed Feb 25 2015
*
* @brief test the function reassign material
*
* @section LICENSE
*
* Copyright (©) 2014, 2015 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* Akantu 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 Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "aka_grid_dynamic.hh"
#include "material.hh"
#include "solid_mechanics_model.hh"
#include "static_communicator.hh"
using namespace akantu;
class StraightInterfaceMaterialSelector : public MaterialSelector {
public:
StraightInterfaceMaterialSelector(SolidMechanicsModel & model,
const std::string & mat_1_material,
const std::string & mat_2_material,
bool & horizontal, Real & pos_interface)
: model(model), mat_1_material(mat_1_material),
mat_2_material(mat_2_material), horizontal(horizontal),
pos_interface(pos_interface) {
Mesh & mesh = model.getMesh();
UInt spatial_dimension = mesh.getSpatialDimension();
/// store barycenters of all elements
mesh.initElementTypeMapArray(barycenters, spatial_dimension,
spatial_dimension);
for (ghost_type_t::iterator gt = ghost_type_t::begin();
gt != ghost_type_t::end(); ++gt) {
GhostType ghost_type = *gt;
Element e;
e.ghost_type = ghost_type;
Mesh::type_iterator it = mesh.firstType(spatial_dimension, ghost_type);
Mesh::type_iterator last_type =
mesh.lastType(spatial_dimension, ghost_type);
for (; it != last_type; ++it) {
UInt nb_element = mesh.getNbElement(*it, ghost_type);
e.type = *it;
Array<Real> & barycenter = barycenters(*it, ghost_type);
barycenter.resize(nb_element);
Array<Real>::iterator<Vector<Real>> bary_it =
barycenter.begin(spatial_dimension);
for (UInt elem = 0; elem < nb_element; ++elem) {
e.element = elem;
mesh.getBarycenter(e, *bary_it);
++bary_it;
}
}
}
}
UInt operator()(const Element & elem) {
UInt spatial_dimension = model.getSpatialDimension();
const Vector<Real> & bary = barycenters(elem.type, elem.ghost_type)
.begin(spatial_dimension)[elem.element];
/// check for a given element on which side of the material interface plane
/// the bary center lies and assign corresponding material
if (bary(!horizontal) < pos_interface) {
return model.getMaterialIndex(mat_1_material);
;
}
return model.getMaterialIndex(mat_2_material);
;
}
bool isConditonVerified() {
/// check if material has been (re)-assigned correctly
Mesh & mesh = model.getMesh();
UInt spatial_dimension = mesh.getSpatialDimension();
GhostType ghost_type = _not_ghost;
Mesh::type_iterator it = mesh.firstType(spatial_dimension, ghost_type);
Mesh::type_iterator last_type =
mesh.lastType(spatial_dimension, ghost_type);
for (; it != last_type; ++it) {
Array<UInt> & mat_indexes = model.getMaterialByElement(*it, ghost_type);
UInt nb_element = mesh.getNbElement(*it, ghost_type);
Array<Real>::iterator<Vector<Real>> bary =
barycenters(*it, ghost_type).begin(spatial_dimension);
for (UInt elem = 0; elem < nb_element; ++elem, ++bary) {
/// compare element_index_by material to material index that should be
/// assigned due to the geometry of the interface
UInt mat_index;
if ((*bary)(!horizontal) < pos_interface)
mat_index = model.getMaterialIndex(mat_1_material);
else
mat_index = model.getMaterialIndex(mat_2_material);
if (mat_indexes(elem) != mat_index)
/// wrong material index, make test fail
return false;
}
}
return true;
}
void moveInterface(Real & pos_new, bool & horizontal_new) {
/// update position and orientation of material interface plane
pos_interface = pos_new;
horizontal = horizontal_new;
model.reassignMaterial();
}
protected:
SolidMechanicsModel & model;
ElementTypeMapArray<Real> barycenters;
std::string mat_1_material;
std::string mat_2_material;
bool horizontal;
Real pos_interface;
};
/* -------------------------------------------------------------------------- */
/* Main */
/* -------------------------------------------------------------------------- */
int main(int argc, char * argv[]) {
bool test_passed;
debug::setDebugLevel(dblWarning);
initialize("two_materials.dat", argc, argv);
/// specify position and orientation of material interface plane
bool horizontal = true;
Real pos_interface = 0.;
UInt spatial_dimension = 3;
akantu::StaticCommunicator & comm =
akantu::StaticCommunicator::getStaticCommunicator();
akantu::Int psize = comm.getNbProc();
akantu::Int prank = comm.whoAmI();
Mesh mesh(spatial_dimension);
akantu::MeshPartition * partition = NULL;
if (prank == 0) {
/// creation mesh
mesh.read("cube_two_materials.msh");
partition = new akantu::MeshPartitionScotch(mesh, spatial_dimension);
partition->partitionate(psize);
}
/// model creation
SolidMechanicsModel model(mesh);
- model.initParallel(partition);
- delete partition;
+ //model.initParallel(partition);
+ //delete partition;
/// assign the two different materials using the
/// StraightInterfaceMaterialSelector
StraightInterfaceMaterialSelector * mat_selector;
mat_selector = new StraightInterfaceMaterialSelector(
model, "mat_1", "mat_2", horizontal, pos_interface);
model.setMaterialSelector(*mat_selector);
model.initFull(SolidMechanicsModelOptions(_static));
MeshUtils::buildFacets(mesh);
// model.setBaseName("test_reassign_material");
// model.addDumpField("element_index_by_material");
// model.addDumpField("partitions");
// model.dump();
/// check if different materials have been assigned correctly
test_passed = mat_selector->isConditonVerified();
if (!test_passed) {
AKANTU_DEBUG_ERROR("materials not correctly assigned");
return EXIT_FAILURE;
}
/// change orientation of material interface plane
horizontal = false;
mat_selector->moveInterface(pos_interface, horizontal);
// model.dump();
/// test if material has been reassigned correctly
test_passed = mat_selector->isConditonVerified();
if (!test_passed) {
AKANTU_DEBUG_ERROR("materials not correctly reassigned");
return EXIT_FAILURE;
}
finalize();
if (prank == 0)
std::cout << "OK: test passed!" << std::endl;
return EXIT_SUCCESS;
}
/* -------------------------------------------------------------------------- */