diff --git a/packages/core.cmake b/packages/core.cmake
index f9689ab69..37670a067 100644
--- a/packages/core.cmake
+++ b/packages/core.cmake
@@ -1,440 +1,439 @@
#===============================================================================
# @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: Fri Apr 09 2021
#
# @brief package description for core
#
#
# @section LICENSE
#
# Copyright (©) 2010-2021 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 cxx_auto_type cxx_decltype_auto
- cxx_std_14
FEATURES_PRIVATE cxx_lambdas cxx_nullptr cxx_range_for
cxx_delegating_constructors
DEPENDS INTERFACE akantu_iterators Boost Eigen3
)
if (CMAKE_CXX_COMPILER_ID STREQUAL "GNU" OR CMAKE_CXX_COMPILER_ID STREQUAL "Clang")
package_set_compile_flags(core "-Wall -Wextra -pedantic")
else()
package_set_compile_flags(core "-Wall")
endif()
package_declare_sources(core
common/aka_array.cc
common/aka_array.hh
common/aka_array_filter.hh
common/aka_array_tmpl.hh
common/aka_array_printer.hh
common/aka_bbox.hh
common/aka_blas_lapack.hh
common/aka_circular_array.hh
common/aka_circular_array_inline_impl.hh
common/aka_common.cc
common/aka_common.hh
common/aka_common_inline_impl.hh
common/aka_csr.hh
common/aka_element_classes_info_inline_impl.hh
common/aka_enum_macros.hh
common/aka_error.cc
common/aka_error.hh
common/aka_event_handler_manager.hh
common/aka_extern.cc
common/aka_factory.hh
common/aka_fwd.hh
common/aka_grid_dynamic.hh
common/aka_math.cc
common/aka_math.hh
common/aka_math_tmpl.hh
common/aka_named_argument.hh
common/aka_random_generator.hh
common/aka_safe_enum.hh
common/aka_tensor.hh
common/aka_types.hh
common/aka_types_eigen_matrix_plugin.hh
common/aka_types_eigen_matrix_base_plugin.hh
common/aka_types_eigen_plain_object_base_plugin.hh
common/aka_view_iterators.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.hh
fe_engine/element_class_helper.hh
fe_engine/element_class_tmpl.hh
fe_engine/element_classes/element_class_hexahedron_8_inline_impl.hh
fe_engine/element_classes/element_class_hexahedron_20_inline_impl.hh
fe_engine/element_classes/element_class_pentahedron_6_inline_impl.hh
fe_engine/element_classes/element_class_pentahedron_15_inline_impl.hh
fe_engine/element_classes/element_class_point_1_inline_impl.hh
fe_engine/element_classes/element_class_quadrangle_4_inline_impl.hh
fe_engine/element_classes/element_class_quadrangle_8_inline_impl.hh
fe_engine/element_classes/element_class_segment_2_inline_impl.hh
fe_engine/element_classes/element_class_segment_3_inline_impl.hh
fe_engine/element_classes/element_class_tetrahedron_10_inline_impl.hh
fe_engine/element_classes/element_class_tetrahedron_4_inline_impl.hh
fe_engine/element_classes/element_class_triangle_3_inline_impl.hh
fe_engine/element_classes/element_class_triangle_6_inline_impl.hh
fe_engine/element_type_conversion.hh
fe_engine/fe_engine.cc
fe_engine/fe_engine.hh
fe_engine/fe_engine_inline_impl.hh
fe_engine/fe_engine_template.hh
fe_engine/fe_engine_template_tmpl_field.hh
fe_engine/fe_engine_template_tmpl.hh
fe_engine/geometrical_element_property.hh
fe_engine/geometrical_element_property.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.hh
fe_engine/interpolation_element_tmpl.hh
fe_engine/integration_point.hh
fe_engine/shape_functions.hh
fe_engine/shape_functions.cc
fe_engine/shape_functions_inline_impl.hh
fe_engine/shape_lagrange_base.cc
fe_engine/shape_lagrange_base.hh
fe_engine/shape_lagrange_base_inline_impl.hh
fe_engine/shape_lagrange.hh
fe_engine/shape_lagrange_inline_impl.hh
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_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/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.hh
mesh/element_type_map.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.hh
mesh/mesh.cc
mesh/mesh.hh
mesh/mesh_periodic.cc
mesh/mesh_accessor.hh
mesh/mesh_events.hh
mesh/mesh_filter.hh
mesh/mesh_global_data_updater.hh
mesh/mesh_data.cc
mesh/mesh_data.hh
mesh/mesh_data_tmpl.hh
mesh/mesh_inline_impl.hh
mesh/node_group.cc
mesh/node_group.hh
mesh/node_group_inline_impl.hh
mesh/mesh_iterators.hh
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.hh
mesh_utils/global_ids_updater.hh
mesh_utils/global_ids_updater.cc
mesh_utils/global_ids_updater_inline_impl.hh
model/common/boundary_condition/boundary_condition.hh
model/common/boundary_condition/boundary_condition_functor.hh
model/common/boundary_condition/boundary_condition_functor_inline_impl.hh
model/common/boundary_condition/boundary_condition_tmpl.hh
model/common/non_local_toolbox/neighborhood_base.hh
model/common/non_local_toolbox/neighborhood_base.cc
model/common/non_local_toolbox/neighborhood_base_inline_impl.hh
model/common/non_local_toolbox/neighborhoods_criterion_evaluation/neighborhood_max_criterion.hh
model/common/non_local_toolbox/neighborhoods_criterion_evaluation/neighborhood_max_criterion.cc
model/common/non_local_toolbox/neighborhoods_criterion_evaluation/neighborhood_max_criterion_inline_impl.hh
model/common/non_local_toolbox/non_local_manager.hh
model/common/non_local_toolbox/non_local_manager.cc
model/common/non_local_toolbox/non_local_manager_inline_impl.hh
model/common/non_local_toolbox/non_local_manager_callback.hh
model/common/non_local_toolbox/non_local_neighborhood_base.hh
model/common/non_local_toolbox/non_local_neighborhood_base.cc
model/common/non_local_toolbox/non_local_neighborhood.hh
model/common/non_local_toolbox/non_local_neighborhood_tmpl.hh
model/common/non_local_toolbox/non_local_neighborhood_inline_impl.hh
model/common/non_local_toolbox/base_weight_function.hh
model/common/non_local_toolbox/base_weight_function.cc
model/common/non_local_toolbox/base_weight_function_inline_impl.hh
model/common/model_solver.cc
model/common/model_solver.hh
model/common/solver_callback.hh
model/common/solver_callback.cc
model/common/dof_manager/dof_manager.cc
model/common/dof_manager/dof_manager.hh
model/common/dof_manager/dof_manager_default.cc
model/common/dof_manager/dof_manager_default.hh
model/common/dof_manager/dof_manager_default_inline_impl.hh
model/common/dof_manager/dof_manager_inline_impl.hh
model/common/non_linear_solver/non_linear_solver.cc
model/common/non_linear_solver/non_linear_solver.hh
model/common/non_linear_solver/non_linear_solver_default.hh
model/common/non_linear_solver/non_linear_solver_lumped.cc
model/common/non_linear_solver/non_linear_solver_lumped.hh
model/common/time_step_solvers/time_step_solver.hh
model/common/time_step_solvers/time_step_solver.cc
model/common/time_step_solvers/time_step_solver_default.cc
model/common/time_step_solvers/time_step_solver_default.hh
model/common/time_step_solvers/time_step_solver_default_explicit.hh
model/common/integration_scheme/generalized_trapezoidal.cc
model/common/integration_scheme/generalized_trapezoidal.hh
model/common/integration_scheme/integration_scheme.cc
model/common/integration_scheme/integration_scheme.hh
model/common/integration_scheme/integration_scheme_1st_order.cc
model/common/integration_scheme/integration_scheme_1st_order.hh
model/common/integration_scheme/integration_scheme_2nd_order.cc
model/common/integration_scheme/integration_scheme_2nd_order.hh
model/common/integration_scheme/newmark-beta.cc
model/common/integration_scheme/newmark-beta.hh
model/common/integration_scheme/pseudo_time.cc
model/common/integration_scheme/pseudo_time.hh
model/model.cc
model/model.hh
model/model_inline_impl.hh
model/model_options.hh
solver/solver_vector.hh
solver/solver_vector_default.hh
solver/solver_vector_default_tmpl.hh
solver/solver_vector_distributed.cc
solver/solver_vector_distributed.hh
solver/sparse_matrix.cc
solver/sparse_matrix.hh
solver/sparse_matrix_aij.cc
solver/sparse_matrix_aij.hh
solver/sparse_matrix_aij_inline_impl.hh
solver/sparse_matrix_inline_impl.hh
solver/sparse_solver.cc
solver/sparse_solver.hh
solver/sparse_solver_inline_impl.hh
solver/terms_to_assemble.hh
synchronizer/communication_buffer_inline_impl.hh
synchronizer/communication_descriptor.hh
synchronizer/communication_descriptor_tmpl.hh
synchronizer/communication_request.hh
synchronizer/communication_tag.hh
synchronizer/communications.hh
synchronizer/communications_tmpl.hh
synchronizer/communicator.cc
synchronizer/communicator.hh
synchronizer/communicator_dummy_inline_impl.hh
synchronizer/communicator_event_handler.hh
synchronizer/communicator_inline_impl.hh
synchronizer/data_accessor.cc
synchronizer/data_accessor.hh
synchronizer/dof_synchronizer.cc
synchronizer/dof_synchronizer.hh
synchronizer/dof_synchronizer_inline_impl.hh
synchronizer/element_info_per_processor.cc
synchronizer/element_info_per_processor.hh
synchronizer/element_info_per_processor_tmpl.hh
synchronizer/element_synchronizer.cc
synchronizer/element_synchronizer.hh
synchronizer/facet_synchronizer.cc
synchronizer/facet_synchronizer.hh
synchronizer/facet_synchronizer_inline_impl.hh
synchronizer/grid_synchronizer.cc
synchronizer/grid_synchronizer.hh
synchronizer/grid_synchronizer_tmpl.hh
synchronizer/master_element_info_per_processor.cc
synchronizer/node_info_per_processor.cc
synchronizer/node_info_per_processor.hh
synchronizer/node_synchronizer.cc
synchronizer/node_synchronizer.hh
synchronizer/node_synchronizer_inline_impl.hh
synchronizer/periodic_node_synchronizer.cc
synchronizer/periodic_node_synchronizer.hh
synchronizer/slave_element_info_per_processor.cc
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
synchronizer/communication_buffer.hh
)
set(AKANTU_SPIRIT_SOURCES
io/mesh_io/mesh_io_abaqus.cc
io/parser/parser_real.cc
io/parser/parser_random.cc
io/parser/parser_types.cc
io/parser/parser_input_files.cc
PARENT_SCOPE
)
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_N
compute_dnds
compute_d2nds2
compute_jmat
get_shapes_derivatives
lagrange_base
assemble_fields
)
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)
package_declare_extra_files_to_package(core
SOURCES
common/aka_element_classes_info.hh.in
common/aka_config.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()