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rAKA/extra_packages/igfem/src/solid_mechanics_model_igfem.cc
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solid_mechanics_model_igfem.cc
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/**
* @file solid_mechanics_model_igfem.hh
*
* @author Aurelia Isabel Cuba Ramos <aurelia.cubaramos@epfl.ch>
*
*
* @brief solid mechanics model for IGFEM analysis
*
*
* Copyright (©) 2010-2012, 2014 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
*/
/* -------------------------------------------------------------------------- */
#include "solid_mechanics_model_igfem.hh"
#include "dumpable_inline_impl.hh"
#include "group_manager_inline_impl.hh"
#include "igfem_helper.hh"
#include "material_igfem.hh"
#ifdef AKANTU_USE_IOHELPER
#include "dumper_igfem_element_partition.hh"
#include "dumper_igfem_elemental_field.hh"
#include "dumper_igfem_material_internal_field.hh"
#include "dumper_material_padders.hh"
#include "dumper_paraview.hh"
#endif
/* -------------------------------------------------------------------------- */
namespace akantu {
const SolidMechanicsModelIGFEMOptions
default_solid_mechanics_model_igfem_options(_static, false);
SolidMechanicsModelIGFEM::SolidMechanicsModelIGFEM(Mesh & mesh, UInt dim,
const ID & id,
const MemoryID & memory_id)
: SolidMechanicsModel(mesh, dim, id, memory_id), IGFEMEnrichment(mesh),
global_ids_updater(NULL) {
AKANTU_DEBUG_IN();
delete material_selector;
material_selector = new DefaultMaterialIGFEMSelector(*this);
this->registerEventHandler(*this);
#if defined(AKANTU_USE_IOHELPER)
this->mesh.registerDumper<DumperParaview>("igfem elements", id);
this->mesh.addDumpMeshToDumper("igfem elements", mesh, spatial_dimension,
_not_ghost, _ek_igfem);
#endif
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
SolidMechanicsModelIGFEM::~SolidMechanicsModelIGFEM() {
AKANTU_DEBUG_IN();
if (global_ids_updater)
delete global_ids_updater;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::initFull(const ModelOptions & options) {
AKANTU_DEBUG_IN();
/// intialize the IGFEM enrichment
this->initialize();
SolidMechanicsModel::initFull(options);
// set the initial condition to 0
real_force->clear();
real_displacement->clear();
real_residual->clear();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
/**
* Allocate all the needed vectors. By default their are not necessarily set to
* 0
*
*/
void SolidMechanicsModelIGFEM::initArrays() {
AKANTU_DEBUG_IN();
UInt nb_nodes = mesh.getNbNodes();
std::stringstream sstr_rdisp;
sstr_rdisp << id << ":real_displacement";
std::stringstream sstr_rforc;
sstr_rforc << id << ":real_force";
std::stringstream sstr_rresi;
sstr_rresi << id << ":real_residual";
real_displacement = &(alloc<Real>(sstr_rdisp.str(), nb_nodes,
spatial_dimension, REAL_INIT_VALUE));
real_force = &(alloc<Real>(sstr_rforc.str(), nb_nodes, spatial_dimension,
REAL_INIT_VALUE));
real_residual = &(alloc<Real>(sstr_rresi.str(), nb_nodes, spatial_dimension,
REAL_INIT_VALUE));
SolidMechanicsModel::initArrays();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::initParallel(MeshPartition * partition,
DataAccessor * data_accessor) {
SolidMechanicsModel::initParallel(partition, data_accessor);
this->intersector_sphere.setDistributedSynchronizer(synch_parallel);
if (mesh.isDistributed())
global_ids_updater = new GlobalIdsUpdater(mesh, synch_parallel);
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::initMaterials() {
AKANTU_DEBUG_IN();
// make sure the material are instantiated
if (!are_materials_instantiated)
instantiateMaterials();
/// find the first igfem material
UInt igfem_index = 0;
while ((dynamic_cast<MaterialIGFEM *>(materials[igfem_index]) == NULL) &&
igfem_index <= materials.size())
++igfem_index;
AKANTU_DEBUG_ASSERT(igfem_index != materials.size(),
"No igfem materials in the material input file");
DefaultMaterialIGFEMSelector * igfem_mat_selector =
dynamic_cast<DefaultMaterialIGFEMSelector *>(material_selector);
if (igfem_mat_selector != NULL)
igfem_mat_selector->setIGFEMFallback(igfem_index);
SolidMechanicsModel::initMaterials();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
/**
* Initialize the model, basically pre-compute the shapes, shapes derivatives
* and jacobian
*
*/
void SolidMechanicsModelIGFEM::initModel() {
AKANTU_DEBUG_IN();
SolidMechanicsModel::initModel();
registerFEEngineObject<MyFEEngineIGFEMType>("IGFEMFEEngine", mesh,
spatial_dimension);
/// insert the two feengines associated with the model in the map
this->fe_engines_per_kind[_ek_regular] = &(this->getFEEngine());
this->fe_engines_per_kind[_ek_igfem] = &(this->getFEEngine("IGFEMFEEngine"));
/// add the igfem type connectivities
for (ghost_type_t::iterator gt = ghost_type_t::begin();
gt != ghost_type_t::end(); ++gt) {
GhostType type_ghost = *gt;
Mesh::type_iterator it = mesh.firstType(spatial_dimension, type_ghost);
Mesh::type_iterator last = mesh.lastType(spatial_dimension, type_ghost);
for (; it != last; ++it) {
const Array<UInt> & connectivity = mesh.getConnectivity(*it, type_ghost);
if (connectivity.getSize() != 0) {
ElementType type = *it;
Vector<ElementType> types_igfem = FEEngine::getIGFEMElementTypes(type);
for (UInt i = 0; i < types_igfem.size(); ++i)
mesh.addConnectivityType(types_igfem(i), type_ghost);
}
}
}
getFEEngine("IGFEMFEEngine").initShapeFunctions(_not_ghost);
getFEEngine("IGFEMFEEngine").initShapeFunctions(_ghost);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::onElementsAdded(const Array<Element> & elements,
const NewElementsEvent & event) {
AKANTU_DEBUG_IN();
const NewIGFEMElementsEvent * igfem_event =
dynamic_cast<const NewIGFEMElementsEvent *>(&event);
/// insert the new and old elements in the map
if (igfem_event != NULL) {
this->element_map.zero();
const Array<Element> & old_elements = igfem_event->getOldElementsList();
for (UInt e = 0; e < elements.getSize(); ++e) {
this->element_map[elements(e)] = old_elements(e);
}
}
/// update shape functions
getFEEngine("IGFEMFEEngine").initShapeFunctions(_not_ghost);
getFEEngine("IGFEMFEEngine").initShapeFunctions(_ghost);
SolidMechanicsModel::onElementsAdded(elements, event);
this->reassignMaterial();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::onElementsRemoved(
const Array<Element> & element_list,
const ElementTypeMapArray<UInt> & new_numbering,
const RemovedElementsEvent & event) {
this->getFEEngine("IGFEMFEEngine").initShapeFunctions(_not_ghost);
this->getFEEngine("IGFEMFEEngine").initShapeFunctions(_ghost);
SolidMechanicsModel::onElementsRemoved(element_list, new_numbering, event);
if (synch_parallel)
synch_parallel->computeAllBufferSizes(*this);
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::onNodesAdded(const Array<UInt> & nodes_list,
const NewNodesEvent & event) {
AKANTU_DEBUG_IN();
const NewIGFEMNodesEvent * igfem_event =
dynamic_cast<const NewIGFEMNodesEvent *>(&event);
// update the node type
if (igfem_event != NULL) {
intersector_sphere.updateNodeType(
nodes_list, igfem_event->getNewNodePerElem(),
igfem_event->getElementType(), igfem_event->getGhostType());
}
UInt nb_nodes = mesh.getNbNodes();
if (real_displacement)
real_displacement->resize(nb_nodes);
if (real_force)
real_force->resize(nb_nodes);
if (real_residual)
real_residual->resize(nb_nodes);
if (mesh.isDistributed())
mesh.getGlobalNodesIds().resize(mesh.getNbNodes());
if (displacement)
displacement->resize(nb_nodes);
if (mass)
mass->resize(nb_nodes);
if (velocity)
velocity->resize(nb_nodes);
if (acceleration)
acceleration->resize(nb_nodes);
if (force)
force->resize(nb_nodes);
if (residual)
residual->resize(nb_nodes);
if (blocked_dofs)
blocked_dofs->resize(nb_nodes);
if (previous_displacement)
previous_displacement->resize(nb_nodes);
if (increment_acceleration)
increment_acceleration->resize(nb_nodes);
if (increment)
increment->resize(nb_nodes);
if (current_position)
current_position->resize(nb_nodes);
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 SolidMechanicsModelIGFEM::onNodesRemoved(const Array<UInt> & nodes_list,
const Array<UInt> & new_numbering,
const RemovedNodesEvent & event) {
if (real_displacement)
mesh.removeNodesFromArray(*real_displacement, new_numbering);
if (real_force)
mesh.removeNodesFromArray(*real_force, new_numbering);
if (real_residual)
mesh.removeNodesFromArray(*real_residual, new_numbering);
// communicate global connectivity for slave nodes
if (global_ids_updater)
global_ids_updater->updateGlobalIDs(
mesh.getNbNodes() - intersector_sphere.getNbStandardNodes());
SolidMechanicsModel::onNodesRemoved(nodes_list, new_numbering, event);
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::addDumpGroupFieldToDumper(
const std::string & dumper_name, const std::string & field_id,
const std::string & group_name, ElementKind element_kind,
bool padding_flag) {
AKANTU_DEBUG_IN();
ElementKind _element_kind = element_kind;
if (dumper_name == "igfem elements") {
_element_kind = _ek_igfem;
}
SolidMechanicsModel::addDumpGroupFieldToDumper(
dumper_name, field_id, group_name, _element_kind, padding_flag);
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::onDump() {
this->computeValuesOnEnrichedNodes();
this->flattenAllRegisteredInternals(_ek_igfem);
SolidMechanicsModel::onDump();
}
/* -------------------------------------------------------------------------- */
#ifdef AKANTU_USE_IOHELPER
dumpers::Field * SolidMechanicsModelIGFEM::createElementalField(
const std::string & field_name, const std::string & group_name,
bool padding_flag, const UInt & spatial_dimension,
ElementKind kind) {
dumpers::Field * field = NULL;
if (kind != _ek_igfem)
field = SolidMechanicsModel::createElementalField(
field_name, group_name, padding_flag, spatial_dimension, kind);
else {
if (field_name == "partitions")
field =
mesh.createElementalField<UInt, dumpers::IGFEMElementPartitionField>(
mesh.getConnectivities(), group_name, spatial_dimension, kind);
else if (field_name == "material_index")
field =
mesh.createElementalField<UInt, Vector, dumpers::IGFEMElementalField>(
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, dumpers::IGFEMInternalMaterialField>(
internal_flat, group_name, spatial_dimension, kind,
nb_data_per_elem);
if (field_name == "strain") {
dumpers::ComputeStrain<false> * foo =
new dumpers::ComputeStrain<false>(*this);
field = dumpers::FieldComputeProxy::createFieldCompute(field, *foo);
} else if (field_name == "Von Mises stress") {
dumpers::ComputeVonMisesStress * foo =
new dumpers::ComputeVonMisesStress(*this);
field = dumpers::FieldComputeProxy::createFieldCompute(field, *foo);
} else if (field_name == "Green strain") {
dumpers::ComputeStrain<true> * foo =
new dumpers::ComputeStrain<true>(*this);
field = dumpers::FieldComputeProxy::createFieldCompute(field, *foo);
} else if (field_name == "principal strain") {
dumpers::ComputePrincipalStrain<false> * foo =
new dumpers::ComputePrincipalStrain<false>(*this);
field = dumpers::FieldComputeProxy::createFieldCompute(field, *foo);
} else if (field_name == "principal Green strain") {
dumpers::ComputePrincipalStrain<true> * foo =
new dumpers::ComputePrincipalStrain<true>(*this);
field = dumpers::FieldComputeProxy::createFieldCompute(field, *foo);
}
/// treat the paddings
if (padding_flag) {
if (field_name == "stress") {
if (spatial_dimension == 2) {
dumpers::StressPadder<2> * foo =
new dumpers::StressPadder<2>(*this);
field =
dumpers::FieldComputeProxy::createFieldCompute(field, *foo);
}
} else if (field_name == "strain" || field_name == "Green strain") {
if (spatial_dimension == 2) {
dumpers::StrainPadder<2> * foo =
new dumpers::StrainPadder<2>(*this);
field =
dumpers::FieldComputeProxy::createFieldCompute(field, *foo);
}
}
}
// homogenize the field
dumpers::ComputeFunctorInterface * foo =
dumpers::HomogenizerProxy::createHomogenizer(*field);
field = dumpers::FieldComputeProxy::createFieldCompute(field, *foo);
}
}
}
// }
return field;
}
/* -------------------------------------------------------------------------- */
dumpers::Field *
SolidMechanicsModelIGFEM::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["real_displacement"] = real_displacement;
dumpers::Field * field = NULL;
if (padding_flag)
field = mesh.createNodalField(real_nodal_fields[field_name], group_name, 3);
else
field = mesh.createNodalField(real_nodal_fields[field_name], group_name);
if (field == NULL)
return SolidMechanicsModel::createNodalFieldReal(field_name, group_name,
padding_flag);
return field;
}
#else
/* -------------------------------------------------------------------------- */
dumpers::Field * SolidMechanicsModelIGFEM::createElementalField(
const std::string & field_name, const std::string & group_name,
bool padding_flag, const UInt & spatial_dimension,
ElementKind kind) {
return NULL;
}
/* -------------------------------------------------------------------------- */
dumpers::Field *
SolidMechanicsModelIGFEM::createNodalFieldReal(const std::string & field_name,
const std::string & group_name,
bool padding_flag) {
return NULL;
}
#endif
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::computeValuesOnEnrichedNodes() {
for (UInt n = 0; n < mesh.getNbNodes(); ++n) {
for (UInt s = 0; s < spatial_dimension; ++s)
(*real_displacement)(n, s) = (*displacement)(n, s);
}
Element element;
Vector<Real> real_coords(spatial_dimension);
Vector<Real> interpolated(spatial_dimension);
Array<Real>::const_vector_iterator r_displ_it =
this->real_displacement->begin(spatial_dimension);
for (ghost_type_t::iterator gt = ghost_type_t::begin();
gt != ghost_type_t::end(); ++gt) {
element.ghost_type = *gt;
Mesh::type_iterator it = mesh.firstType(spatial_dimension, *gt, _ek_igfem);
Mesh::type_iterator last = mesh.lastType(spatial_dimension, *gt, _ek_igfem);
for (; it != last; ++it) {
element.type = *it;
UInt nb_element = mesh.getNbElement(*it, *gt);
if (!nb_element)
continue;
UInt * elem_val = mesh.getConnectivity(*it, *gt).storage();
UInt nb_nodes_per_element = mesh.getNbNodesPerElement(*it);
Matrix<Real> nodes_coord(spatial_dimension, nb_nodes_per_element);
Matrix<Real> displ_val(spatial_dimension, nb_nodes_per_element);
UInt nb_enriched_nodes = IGFEMHelper::getNbEnrichedNodes(*it);
UInt nb_parent_nodes = IGFEMHelper::getNbParentNodes(*it);
for (UInt el = 0; el < nb_element; ++el) {
element.element = el;
/// get the node coordinates of the element
mesh.extractNodalValuesFromElement(
mesh.getNodes(), nodes_coord.storage(),
elem_val + el * nb_nodes_per_element, nb_nodes_per_element,
spatial_dimension);
/// get the displacement values at the nodes of the element
mesh.extractNodalValuesFromElement(
*(this->displacement), displ_val.storage(),
elem_val + el * nb_nodes_per_element, nb_nodes_per_element,
spatial_dimension);
for (UInt i = 0; i < nb_enriched_nodes; ++i) {
/// coordinates of enriched node
real_coords = nodes_coord(nb_parent_nodes + i);
/// global index of the enriched node
UInt idx = elem_val[el * nb_nodes_per_element + nb_parent_nodes + i];
/// compute the real displacement value
this->getFEEngine("IGFEMFEEngine")
.interpolate(real_coords, displ_val, interpolated, element);
r_displ_it[idx] = interpolated;
}
}
}
}
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::transferInternalValues(
const ID & internal, std::vector<Element> & new_elements,
Array<Real> & added_quads, Array<Real> & internal_values) {
/// @todo sort the new elements by their corresponding old element type and
/// old material!!!
/// get the number of elements for which iternals need to be transfered
UInt nb_new_elements = new_elements.size();
UInt nb_new_quads = added_quads.getSize() / nb_new_elements;
Array<Real>::const_matrix_iterator quad_coords =
added_quads.begin_reinterpret(this->spatial_dimension, nb_new_quads,
nb_new_elements);
UInt nb_internal_component = internal_values.getNbComponent();
Array<Real>::matrix_iterator internal_val = internal_values.begin_reinterpret(
nb_internal_component, nb_new_quads, nb_new_elements);
Vector<Real> default_values(nb_internal_component, 0.);
for (UInt e = 0; e < nb_new_elements; ++e, ++quad_coords, ++internal_val) {
Element new_element = new_elements[e];
Element old_element = this->element_map[new_element];
UInt mat_idx = (this->material_index(
old_element.type, old_element.ghost_type))(old_element.element);
Material & old_material = *(this->materials[mat_idx]);
old_material.extrapolateInternal(internal, old_element, *quad_coords,
*internal_val);
}
}
/* -------------------------------------------------------------------------- */
void SolidMechanicsModelIGFEM::applyEigenGradU(
const Matrix<Real> & prescribed_eigen_grad_u, const ID & material_name,
const GhostType ghost_type) {
AKANTU_DEBUG_ASSERT(prescribed_eigen_grad_u.size() ==
spatial_dimension * spatial_dimension,
"The prescribed grad_u is not of the good size");
std::vector<Material *>::iterator mat_it;
for (mat_it = this->materials.begin(); mat_it != this->materials.end();
++mat_it) {
MaterialIGFEM * mat_igfem = dynamic_cast<MaterialIGFEM *>(*mat_it);
if (mat_igfem != NULL)
mat_igfem->applyEigenGradU(prescribed_eigen_grad_u, material_name,
ghost_type);
else if ((*mat_it)->getName() == material_name)
(*mat_it)->applyEigenGradU(prescribed_eigen_grad_u, ghost_type);
}
}
} // namespace akantu
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