| ▼ doc | |
| ► doxy | |
| ► headers | |
| assembly_process.h | |
| exceptions.h | |
| input.h | |
| input_accessors.h | |
| input_types.h | |
| main_doc.hh | |
| ▼ src | |
| ► coupling | |
| application.cc | |
| application.hh | |
| assembly_base.hh | |
| assembly_hm.hh | |
| balance.cc | Mass balance |
| balance.hh |
|
| equation.cc | Abstract base class for equation clasess |
| equation.hh | Abstract base class for equation clasess |
| generic_assembly.hh | |
| hc_explicit_sequential.cc |
|
| hc_explicit_sequential.hh |
|
| hm_iterative.cc |
|
| hm_iterative.hh |
|
| ► fem | |
| arena_resource.hh | |
| arena_vec.hh | |
| dh_cell_accessor.hh | |
| discrete_space.cc | Implementation of class which provides the finite element for every mesh cell |
| discrete_space.hh | Declaration of class which provides the finite element for every mesh cell |
| dofhandler.cc | Declaration of class which handles the ordering of degrees of freedom (dof) and mappings between local and global dofs |
| dofhandler.hh | Declaration of class which handles the ordering of degrees of freedom (dof) and mappings between local and global dofs |
| eigen_tools.hh | Store finite element data on the actual patch such as shape function values, gradients, Jacobian of the mapping from the reference cell etc |
| element_values.cc | |
| element_values.hh | Class ElementValues calculates data related to transformation of reference cell to actual cell (Jacobian, inverse Jacobian, determinant, point coordinates etc.) |
| fe_p.cc |
|
| fe_p.hh | Definitions of basic Lagrangean finite elements with polynomial shape functions |
| fe_rt.cc | Definitions of Raviart-Thomas finite elements |
| fe_rt.hh | Definitions of Raviart-Thomas finite elements |
| fe_system.cc | Class FESystem for compound finite elements |
| fe_system.hh | Class FESystem for compound finite elements |
| fe_values.cc | Class ElementValues calculates data related to transformation of reference cell to actual cell (Jacobian, inverse Jacobian, determinant, point coordinates etc.) |
| fe_values.hh | Class FEValues calculates finite element data on the actual cells such as shape function values, gradients, Jacobian of the mapping from the reference cell etc |
| fe_values_map.hh | |
| fe_values_views.cc | |
| fe_values_views.hh | |
| fem_tools.hh | |
| finite_element.cc | Abstract class for description of finite elements |
| finite_element.hh | Abstract class for description of finite elements |
| mapping_p1.cc | Class MappingP1 implements the affine transformation of the unit cell onto the actual cell |
| mapping_p1.hh | Class MappingP1 implements the affine transformation of the unit cell onto the actual cell |
| patch_fe_values.cc | Class FEValues calculates finite element data on the actual cells such as shape function values, gradients, Jacobian of the mapping from the reference cell etc |
| patch_fe_values.hh | Class FEValues calculates finite element data on the actual cells such as shape function values, gradients, Jacobian of the mapping from the reference cell etc |
| patch_point_values.cc | Store finite element data on the actual patch such as shape function values, gradients, Jacobian of the mapping from the reference cell etc |
| patch_point_values.hh | Store finite element data on the actual patch such as shape function values, gradients, Jacobian of the mapping from the reference cell etc |
| update_flags.hh | Enum type UpdateFlags indicates which quantities are to be recomputed on each finite element cell |
| ► fields | |
| assembly_observe.hh | |
| assembly_output.hh | |
| bc_field.cc |
|
| bc_field.hh |
|
| bc_multi_field.cc |
|
| bc_multi_field.hh |
|
| equation_output.cc | |
| equation_output.hh | |
| eval_points.cc | |
| eval_points.hh | |
| eval_subset.cc | |
| eval_subset.hh | |
| field.cc |
|
| field.hh |
|
| field.impl.hh |
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| field_add_potential.hh |
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| field_algo_base.cc |
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| field_algo_base.hh |
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| field_algo_base.impl.hh |
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| field_common.cc |
|
| field_common.hh |
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| field_constant.cc |
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| field_constant.hh |
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| field_coords.hh | |
| field_depth.hh | |
| field_fe.cc |
|
| field_fe.hh |
|
| field_flag.cc |
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| field_flag.hh |
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| field_formula.cc |
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| field_formula.hh |
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| field_instances.hh | |
| field_model.hh | |
| field_python.hh |
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| field_python.impl.hh |
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| field_set.cc |
|
| field_set.hh |
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| field_time_function.cc | |
| field_time_function.hh | |
| field_value_cache.cc | |
| field_value_cache.hh | |
| field_values.cc |
|
| field_values.hh |
|
| generic_field.cc |
|
| generic_field.hh |
|
| generic_field.impl.hh |
|
| multi_field.cc |
|
| multi_field.hh |
|
| multi_field.impl.hh |
|
| python_field_proxy.cc | |
| python_field_proxy.hh | |
| surface_depth.cc | |
| surface_depth.hh | |
| table_function.cc | |
| table_function.hh | |
| ► flow | |
| ► old_mh_code | |
| assembly_mh_old.hh | |
| darcy_flow_mh.cc | Setup and solve linear system of mixed-hybrid discretization of the linear porous media flow with possible preferential flow in fractures and chanels |
| darcy_flow_mh.hh | Mixed-hybrid model of linear Darcy flow, possibly unsteady |
| mh_dofhandler.cc |
|
| mh_dofhandler.hh |
|
| mortar_assembly.cc | |
| mortar_assembly.hh | |
| assembly_flow_output.hh | |
| assembly_lmh.hh | |
| assembly_models.hh | Functors of FieldModels used in Darcy flow module |
| assembly_richards.hh | |
| assembly_theory.hh | |
| darcy_flow_interface.hh | |
| darcy_flow_lmh.cc | Setup and solve linear system of mixed-hybrid discretization of the linear porous media flow with possible preferential flow in fractures and chanels |
| darcy_flow_lmh.hh | Lumped mixed-hybrid model of linear Darcy flow, possibly unsteady |
| darcy_flow_mh_output.cc | Output class for darcy_flow_mh model |
| darcy_flow_mh_output.hh | Output class for darcy_flow_mh model |
| richards_lmh.cc | |
| richards_lmh.hh | |
| soil_models.cc | |
| soil_models.hh | |
| ► input | |
| ► json_spirit | |
| json_spirit.h | |
| json_spirit_error_position.h | |
| json_spirit_reader.cpp | |
| json_spirit_reader.h | |
| json_spirit_reader_template.h | |
| json_spirit_stream_reader.h | |
| json_spirit_utils.h | |
| json_spirit_value.cpp | |
| json_spirit_value.h | |
| json_spirit_writer.cpp | |
| json_spirit_writer.h | |
| json_spirit_writer_options.h | |
| json_spirit_writer_template.h | |
| accessors.cc |
|
| accessors.hh |
|
| accessors_forward.hh | |
| accessors_impl.hh |
|
| attribute_lib.hh | |
| comment_filter.hh |
|
| const_hashes.h | |
| csv_tokenizer.cc | |
| csv_tokenizer.hh | |
| factory.hh |
|
| factory_impl.hh |
|
| finite_state_filter.hpp | |
| flow_attribute_lib.hh | |
| input_exception.hh |
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| input_type.hh |
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| input_type_forward.hh | |
| path_base.cc |
|
| path_base.hh |
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| path_json.cc |
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| path_json.hh |
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| path_yaml.cc |
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| path_yaml.hh |
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| reader_internal.cc | |
| reader_internal.hh | |
| reader_internal_base.cc | |
| reader_internal_base.hh | |
| reader_internal_csv.cc | |
| reader_internal_csv.hh | |
| reader_internal_transpose.cc | |
| reader_internal_transpose.hh | |
| reader_to_storage.cc |
|
| reader_to_storage.hh |
|
| storage.cc |
|
| storage.hh |
|
| type_abstract.cc | |
| type_abstract.hh | |
| type_base.cc |
|
| type_base.hh |
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| type_generic.cc |
|
| type_generic.hh |
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| type_output.cc |
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| type_output.hh |
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| type_record.cc |
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| type_record.hh |
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| type_repository.hh |
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| type_selection.cc |
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| type_selection.hh |
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| type_tuple.cc | |
| type_tuple.hh | |
| ► intersection | |
| compute_intersection.cc | |
| compute_intersection.hh | Fundamental simplicial intersections |
| inspect_elements_algorithm.cc | |
| inspect_elements_algorithm.hh | |
| intersection_aux.cc | |
| intersection_aux.hh | Internal class representing intersection object |
| intersection_local.cc | |
| intersection_local.hh | Classes with algorithms for computation of intersections of meshes |
| intersection_point_aux.cc | |
| intersection_point_aux.hh | Internal class representing intersection point |
| mixed_mesh_intersections.cc | |
| mixed_mesh_intersections.hh | |
| plucker.cc | |
| plucker.hh | Plucker coordinates class |
| ► io | |
| element_data_cache.cc | |
| element_data_cache.hh |
|
| element_data_cache_base.hh | |
| msh_basereader.cc | |
| msh_basereader.hh | |
| msh_gmshreader.cc |
|
| msh_gmshreader.h |
|
| msh_pvdreader.cc | |
| msh_pvdreader.hh | |
| msh_vtkreader.cc | |
| msh_vtkreader.hh | |
| observe.cc | |
| observe.hh | |
| output_element.hh | Class OutputElement and its iterator OutputElementIterator on the output mesh |
| output_mesh.cc | Classes for auxiliary output mesh |
| output_mesh.hh | Classes for auxiliary output mesh |
| output_msh.cc | The functions for outputs to GMSH files |
| output_msh.hh | |
| output_time.cc | |
| output_time.hh |
|
| output_time.impl.hh | |
| output_time_set.cc | |
| output_time_set.hh | |
| output_vtk.cc | The functions for outputs to VTK files |
| output_vtk.hh | |
| reader_cache.cc |
|
| reader_cache.hh |
|
| ► la | |
| bddcml_wrapper.cc | |
| bddcml_wrapper.hh | |
| distribution.cc | Objects and functions for mesh partitioning |
| distribution.hh | Support classes for parallel programing |
| la_linsys_new.hh |
|
| linsys.cc | Wrappers for linear systems based on MPIAIJ and MATIS format |
| linsys.hh | Wrappers for linear systems based on MPIAIJ and MATIS format |
| linsys_BDDC.cc | Solver based on Multilevel BDDC - using corresponding class of OpenFTL package |
| linsys_BDDC.hh | Solver based on Multilevel BDDC - using corresponding class of OpenFTL package |
| linsys_PERMON.cc | |
| linsys_PERMON.hh | PERMON QP solvers and FETI |
| linsys_PETSC.cc | Solver based on the original PETSc solver using MPIAIJ matrix and succesive Schur complement construction |
| linsys_PETSC.hh | Solver based on the original PETSc solver using MPIAIJ matrix and succesive Schur complement construction |
| local_constraint.hh | |
| local_system.cc | |
| local_system.hh | |
| local_to_global_map.cc |
|
| local_to_global_map.hh |
|
| matrix_coo.hpp |
|
| schur.cc | Assembly explicit Schur complement for the given linear system. Provides method for resolution of the full original vector of unknowns |
| schur.hh | Assembly explicit Schur complement for the given linear system. Provides method for resolution of the full original vector of unknowns |
| sparse_graph.cc | Construction and partitioning of a sparse graph |
| sparse_graph.hh | Distributed sparse graphs, partitioning |
| vector_mpi.cc | |
| vector_mpi.hh | |
| ► mechanics | |
| assembly_elasticity.hh | |
| elasticity.cc | |
| elasticity.hh | FEM for linear elasticity |
| ► mesh | |
| accessors.cc | Implementation of other functions of the mesh accessors |
| accessors.hh |
|
| accessors_impl.hh | Implementation of the inline functions of the mesh accessors |
| bc_mesh.cc | Mesh construction |
| bc_mesh.hh | |
| bih_node.hh |
|
| bih_tree.cc |
|
| bih_tree.hh |
|
| bounding_box.cc |
|
| bounding_box.hh |
|
| duplicate_nodes.cc | Construction of mesh structure with nodes duplicated at fractures |
| duplicate_nodes.h |
|
| elements.cc | Various element oriented stuff, should be restricted to purely geometric functions |
| elements.h |
|
| intersectionquadrature.cc | |
| intersectionquadrature.hh | ??? |
| mesh.cc | Mesh construction |
| mesh.h |
|
| mesh_data.hh | Internal mesh data classes |
| mesh_optimizer.hh | |
| neighbours.cc | Initialize neighbouring |
| neighbours.h |
|
| node_accessor.hh | |
| partitioning.cc |
|
| partitioning.hh |
|
| point.hh |
|
| range_wrapper.hh | Implementation of range helper class |
| ref_element.cc | Class RefElement defines numbering of vertices, sides, calculation of normal vectors etc |
| ref_element.hh | Class RefElement defines numbering of vertices, sides, calculation of normal vectors etc |
| region.cc |
|
| region.hh |
|
| region_set.cc | |
| region_set.hh | |
| ► python | |
| ► benchmarks | |
| ► src | |
| ► libs | |
| json.hpp | |
| memory.cc | |
| ► quadrature | |
| intersection_quadrature.cc | |
| intersection_quadrature.hh | ??? |
| qmidpoint.hh | Midpoint rule qudrature |
| quad.c | |
| quad.h | |
| quadrature.cc | |
| quadrature.hh | Basic definitions of numerical quadrature rules |
| quadrature_lib.cc | Definitions of particular quadrature rules on simplices |
| quadrature_lib.hh | Definitions of particular quadrature rules on simplices |
| ► reaction | |
| assembly_reaction.hh | |
| dual_porosity.cc |
|
| dual_porosity.hh | Class Dual_por_exchange implements the model of dual porosity |
| first_order_reaction.cc |
|
| first_order_reaction.hh |
|
| first_order_reaction_base.cc |
|
| first_order_reaction_base.hh |
|
| isotherm.cc |
|
| isotherm.hh |
|
| linear_ode_solver.cc |
|
| linear_ode_solver.hh |
|
| radioactive_decay.cc |
|
| radioactive_decay.hh |
|
| reaction_term.cc |
|
| reaction_term.hh | Class ReactionTerm is an abstract class representing reaction term in transport |
| sorption.cc |
|
| sorption.hh | This file contains classes representing sorption model. Sorption model can be computed both in case the dual porosity is considered or not |
| sorption_base.cc |
|
| sorption_base.hh | Class SorptionBase is abstract class representing model of sorption in transport |
| ► system | |
| ► fmt | |
| format.cc | |
| format.h | |
| ostream.cc | |
| ostream.h | |
| posix.cc | |
| posix.h | |
| printf.h | |
| string.h | |
| ► mpiuni | |
| mpi.c | |
| mpi.h | |
| armadillo_tools.cc | |
| armadillo_tools.hh | |
| armor.hh | |
| asserts.cc | Definitions of ASSERTS |
| asserts.hh | Definitions of ASSERTS |
| exc_common.hh |
|
| exceptions.cc |
|
| exceptions.hh |
|
| file_path.cc |
|
| file_path.hh |
|
| flag_array.hh |
|
| global_defs.h | Global macros to enhance readability and debugging, general constants |
| index_types.hh |
|
| lazy_dependecy.hh |
|
| logger.cc | |
| logger.hh | |
| logger_options.cc | |
| logger_options.hh | |
| math_fce.cc | Auxiliary math functions |
| math_fce.h |
|
| python_loader.cc |
|
| python_loader.hh |
|
| simple_allocator.hh | |
| stack_trace.cc | |
| stack_trace.hh | |
| sys_profiler.cc | Profiler |
| sys_profiler.hh |
|
| system.cc | Various system-wide functions |
| system.hh |
|
| time_point.cc |
|
| time_point.hh |
|
| tokenizer.cc |
|
| tokenizer.hh |
|
| ► tools | |
| adaptivesimpson.cc |
|
| adaptivesimpson.hh |
|
| bidirectional_map.hh | Implementation of bidirectional map |
| functors.hh |
|
| functors_impl.hh |
|
| general_iterator.hh | Template Iter serves as general template for internal iterators |
| include_fadbad.hh | |
| interpolant.cc |
|
| interpolant.hh |
|
| interpolant_impl.hh |
|
| mixed.hh | |
| revertable_list.hh | |
| time_governor.cc | Basic time management class |
| time_governor.hh | Basic time management class |
| time_marks.cc |
|
| time_marks.hh |
|
| unit_converter.cc | |
| unit_converter.hh | |
| unit_converter_template.hh | |
| unit_si.cc |
|
| unit_si.hh |
|
| ► transport | |
| advection_diffusion_model.hh | Discontinuous Galerkin method for equation of transport with dispersion |
| advection_process_base.hh | |
| assembly_convection.hh | |
| assembly_dg.hh | |
| concentration_model.cc | Discontinuous Galerkin method for equation of transport with dispersion |
| concentration_model.hh | Discontinuous Galerkin method for equation of transport with dispersion |
| heat_model.cc | Discontinuous Galerkin method for equation of transport with dispersion |
| heat_model.hh | Discontinuous Galerkin method for equation of transport with dispersion |
| substance.cc | Classes for storing substance data |
| substance.hh | Classes for storing substance data |
| transport.cc | Transport |
| transport.h |
|
| transport_dg.cc | Discontinuous Galerkin method for equation of transport with dispersion |
| transport_dg.hh | Discontinuous Galerkin method for equation of transport with dispersion |
| transport_operator_splitting.cc |
|
| transport_operator_splitting.hh |
|
| doxy_dummy_defs.hh | |
| main.cc | This file should contain only creation of Application object |
| main.h |
|
