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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: Fri Sep 05 2014
*
* @brief implementation of model common parts
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014 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),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(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
Real * coords = mesh.getNodes().storage();
UInt dim = mesh.getSpatialDimension();
#endif
while(it != end){
UInt i1 = (*it).first;
is_pbc_slave_node(i1) = true;
#ifndef AKANTU_NDEBUG
UInt i2 = (*it).second;
AKANTU_DEBUG_INFO("pairing " << i1 << " ("
<< coords[dim*i1] << "," << coords[dim*i1+1] << ","
<< coords[dim*i1+2]
<< ") with "
<< i2 << " ("
<< coords[dim*i2] << "," << coords[dim*i2+1] << ","
<< coords[dim*i2+2]
<< ")");
#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) {
#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,this->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);
}
__END_AKANTU__
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