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model.cc
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/**
* @file model.cc
*
* @author Guillaume Anciaux <guillaume.anciaux@epfl.ch>
* @author David Simon Kammer <david.kammer@epfl.ch>
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Mon Oct 03 2011
* @date last modification: Thu Nov 19 2015
*
* @brief implementation of model common parts
*
* @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 "model.hh"
#include "element_group.hh"
__BEGIN_AKANTU__
/* -------------------------------------------------------------------------- */
Model::Model(Mesh & m, UInt dim, const ID & id, const MemoryID & memory_id)
: Memory(id, memory_id), mesh(m),
spatial_dimension(dim == _all_dimensions ? m.getSpatialDimension() : dim),
synch_registry(NULL), dof_synchronizer(NULL),
is_pbc_slave_node(0, 1, "is_pbc_slave_node"), parser(&getStaticParser()) {
AKANTU_DEBUG_IN();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
Model::~Model() {
AKANTU_DEBUG_IN();
FEEngineMap::iterator it;
for (it = fems.begin(); it != fems.end(); ++it) {
if (it->second)
delete it->second;
}
for (it = fems_boundary.begin(); it != fems_boundary.end(); ++it) {
if (it->second)
delete it->second;
}
delete synch_registry;
delete dof_synchronizer;
dof_synchronizer = NULL;
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Model::setParser(Parser & parser) { this->parser = &parser; }
/* -------------------------------------------------------------------------- */
void Model::initFull(__attribute__((unused)) const ModelOptions & options) {
AKANTU_DEBUG_IN();
initModel();
AKANTU_DEBUG_OUT();
}
/* -------------------------------------------------------------------------- */
void Model::createSynchronizerRegistry(DataAccessor * data_accessor) {
synch_registry = new SynchronizerRegistry(*data_accessor);
}
/* -------------------------------------------------------------------------- */
void Model::setPBC(UInt x, UInt y, UInt z) {
mesh.computeBoundingBox();
if (x)
MeshUtils::computePBCMap(this->mesh, 0, this->pbc_pair);
if (y)
MeshUtils::computePBCMap(this->mesh, 1, this->pbc_pair);
if (z)
MeshUtils::computePBCMap(this->mesh, 2, this->pbc_pair);
}
/* -------------------------------------------------------------------------- */
void Model::setPBC(SurfacePairList & surface_pairs) {
SurfacePairList::iterator s_it;
for (s_it = surface_pairs.begin(); s_it != surface_pairs.end(); ++s_it) {
MeshUtils::computePBCMap(this->mesh, *s_it, this->pbc_pair);
}
}
/* -------------------------------------------------------------------------- */
void Model::initPBC() {
std::map<UInt, UInt>::iterator it = pbc_pair.begin();
std::map<UInt, UInt>::iterator end = pbc_pair.end();
is_pbc_slave_node.resize(mesh.getNbNodes());
#ifndef AKANTU_NDEBUG
Array<Real>::const_vector_iterator coord_it =
mesh.getNodes().begin(this->spatial_dimension);
#endif
while (it != end) {
UInt i1 = (*it).first;
is_pbc_slave_node(i1) = true;
#ifndef AKANTU_NDEBUG
UInt i2 = (*it).second;
UInt slave = mesh.isDistributed() ? mesh.getGlobalNodesIds()(i1) : i1;
UInt master = mesh.isDistributed() ? mesh.getGlobalNodesIds()(i2) : i2;
AKANTU_DEBUG_INFO("pairing " << slave << " (" << Vector<Real>(coord_it[i1])
<< ") with " << master << " ("
<< Vector<Real>(coord_it[i2]) << ")");
#endif
++it;
}
}
/* -------------------------------------------------------------------------- */
DistributedSynchronizer &
Model::createParallelSynch(MeshPartition * partition,
__attribute__((unused))
DataAccessor * data_accessor) {
AKANTU_DEBUG_IN();
/* ------------------------------------------------------------------------ */
/* Parallel initialization */
/* ------------------------------------------------------------------------ */
StaticCommunicator & comm = StaticCommunicator::getStaticCommunicator();
Int prank = comm.whoAmI();
DistributedSynchronizer * synch = NULL;
if (prank == 0)
synch = DistributedSynchronizer::createDistributedSynchronizerMesh(
getFEEngine().getMesh(), partition);
else
synch = DistributedSynchronizer::createDistributedSynchronizerMesh(
getFEEngine().getMesh(), NULL);
AKANTU_DEBUG_OUT();
return *synch;
}
/* -------------------------------------------------------------------------- */
void Model::dumpGroup(const std::string & group_name) {
ElementGroup & group = mesh.getElementGroup(group_name);
group.dump();
}
/* -------------------------------------------------------------------------- */
void Model::dumpGroup(const std::string & group_name,
const std::string & dumper_name) {
ElementGroup & group = mesh.getElementGroup(group_name);
group.dump(dumper_name);
}
/* -------------------------------------------------------------------------- */
void Model::dumpGroup() {
GroupManager::element_group_iterator bit = mesh.element_group_begin();
GroupManager::element_group_iterator bend = mesh.element_group_end();
for (; bit != bend; ++bit) {
bit->second->dump();
}
}
/* -------------------------------------------------------------------------- */
void Model::setGroupDirectory(const std::string & directory) {
GroupManager::element_group_iterator bit = mesh.element_group_begin();
GroupManager::element_group_iterator bend = mesh.element_group_end();
for (; bit != bend; ++bit) {
bit->second->setDirectory(directory);
}
}
/* -------------------------------------------------------------------------- */
void Model::setGroupDirectory(const std::string & directory,
const std::string & group_name) {
ElementGroup & group = mesh.getElementGroup(group_name);
group.setDirectory(directory);
}
/* -------------------------------------------------------------------------- */
void Model::setGroupBaseName(const std::string & basename,
const std::string & group_name) {
ElementGroup & group = mesh.getElementGroup(group_name);
group.setBaseName(basename);
}
/* -------------------------------------------------------------------------- */
DumperIOHelper & Model::getGroupDumper(const std::string & group_name) {
ElementGroup & group = mesh.getElementGroup(group_name);
return group.getDumper();
}
/* -------------------------------------------------------------------------- */
// DUMPER stuff
/* -------------------------------------------------------------------------- */
void Model::addDumpGroupFieldToDumper(const std::string & field_id,
dumper::Field * field,
DumperIOHelper & dumper) {
#ifdef AKANTU_USE_IOHELPER
dumper.registerField(field_id, field);
#endif
}
/* -------------------------------------------------------------------------- */
void Model::addDumpField(const std::string & field_id) {
this->addDumpFieldToDumper(mesh.getDefaultDumperName(), field_id);
}
/* -------------------------------------------------------------------------- */
void Model::addDumpFieldVector(const std::string & field_id) {
this->addDumpFieldVectorToDumper(mesh.getDefaultDumperName(), field_id);
}
/* -------------------------------------------------------------------------- */
void Model::addDumpFieldTensor(const std::string & field_id) {
this->addDumpFieldTensorToDumper(mesh.getDefaultDumperName(), field_id);
}
/* -------------------------------------------------------------------------- */
void Model::setBaseName(const std::string & field_id) {
mesh.setBaseName(field_id);
}
/* -------------------------------------------------------------------------- */
void Model::setBaseNameToDumper(const std::string & dumper_name,
const std::string & basename) {
mesh.setBaseNameToDumper(dumper_name, basename);
}
/* -------------------------------------------------------------------------- */
void Model::addDumpFieldToDumper(const std::string & dumper_name,
const std::string & field_id) {
this->addDumpGroupFieldToDumper(dumper_name, field_id, "all", _ek_regular,
false);
}
/* -------------------------------------------------------------------------- */
void Model::addDumpGroupField(const std::string & field_id,
const std::string & group_name) {
ElementGroup & group = mesh.getElementGroup(group_name);
this->addDumpGroupFieldToDumper(group.getDefaultDumperName(), field_id,
group_name, _ek_regular, false);
}
/* -------------------------------------------------------------------------- */
void Model::removeDumpGroupField(const std::string & field_id,
const std::string & group_name) {
ElementGroup & group = mesh.getElementGroup(group_name);
this->removeDumpGroupFieldFromDumper(group.getDefaultDumperName(), field_id,
group_name);
}
/* -------------------------------------------------------------------------- */
void Model::removeDumpGroupFieldFromDumper(const std::string & dumper_name,
const std::string & field_id,
const std::string & group_name) {
ElementGroup & group = mesh.getElementGroup(group_name);
group.removeDumpFieldFromDumper(dumper_name, field_id);
}
/* -------------------------------------------------------------------------- */
void Model::addDumpFieldVectorToDumper(const std::string & dumper_name,
const std::string & field_id) {
this->addDumpGroupFieldToDumper(dumper_name, field_id, "all", _ek_regular, 3);
}
/* -------------------------------------------------------------------------- */
void Model::addDumpGroupFieldVector(const std::string & field_id,
const std::string & group_name) {
ElementGroup & group = mesh.getElementGroup(group_name);
this->addDumpGroupFieldVectorToDumper(group.getDefaultDumperName(), field_id,
group_name);
}
/* -------------------------------------------------------------------------- */
void Model::addDumpGroupFieldVectorToDumper(const std::string & dumper_name,
const std::string & field_id,
const std::string & group_name) {
this->addDumpGroupFieldToDumper(dumper_name, field_id, group_name,
_ek_regular, true);
}
/* -------------------------------------------------------------------------- */
void Model::addDumpFieldTensorToDumper(const std::string & dumper_name,
const std::string & field_id) {
this->addDumpGroupFieldToDumper(dumper_name, field_id, "all", _ek_regular,
true);
}
/* -------------------------------------------------------------------------- */
void Model::addDumpGroupFieldToDumper(const std::string & dumper_name,
const std::string & field_id,
const std::string & group_name,
const ElementKind & element_kind,
bool padding_flag) {
this->addDumpGroupFieldToDumper(dumper_name, field_id, group_name,
this->spatial_dimension, element_kind,
padding_flag);
}
/* -------------------------------------------------------------------------- */
void Model::addDumpGroupFieldToDumper(const std::string & dumper_name,
const std::string & field_id,
const std::string & group_name,
UInt spatial_dimension,
const ElementKind & element_kind,
bool padding_flag) {
#ifdef AKANTU_USE_IOHELPER
dumper::Field * field = NULL;
if (!field)
field = this->createNodalFieldReal(field_id, group_name, padding_flag);
if (!field)
field = this->createNodalFieldUInt(field_id, group_name, padding_flag);
if (!field)
field = this->createNodalFieldBool(field_id, group_name, padding_flag);
if (!field)
field = this->createElementalField(field_id, group_name, padding_flag,
spatial_dimension, element_kind);
if (!field)
field = this->mesh.createFieldFromAttachedData<UInt>(field_id, group_name,
element_kind);
if (!field)
field = this->mesh.createFieldFromAttachedData<Real>(field_id, group_name,
element_kind);
if (!field)
AKANTU_DEBUG_WARNING("No field could be found based on name: " << field_id);
if (field) {
DumperIOHelper & dumper = mesh.getGroupDumper(dumper_name, group_name);
this->addDumpGroupFieldToDumper(field_id, field, dumper);
}
#endif
}
/* -------------------------------------------------------------------------- */
void Model::dump() { mesh.dump(); }
/* -------------------------------------------------------------------------- */
void Model::setDirectory(const std::string & directory) {
mesh.setDirectory(directory);
}
/* -------------------------------------------------------------------------- */
void Model::setDirectoryToDumper(const std::string & dumper_name,
const std::string & directory) {
mesh.setDirectoryToDumper(dumper_name, directory);
}
/* -------------------------------------------------------------------------- */
void Model::setTextModeToDumper() { mesh.setTextModeToDumper(); }
/* -------------------------------------------------------------------------- */
__END_AKANTU__
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