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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& mesh, UInt dim, const ID & id,
			const MemoryID & memory_id) :
			Memory(id, memory_id), ModelSolver(mesh, id, memory_id),
			mesh(mesh),
			spatial_dimension(dim == _all_dimensions ? mesh.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;

			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[dimi1] << "," << coords[dimi1+1] << ","
			<< coords[dim*i1+2]
			<< ") with "
			<< i2 << " ("
			<< coords[dimi2] << "," << coords[dimi2+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) {
			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__

rAKA/src/model/model.cc1e72176f9e34bugfixes/39-the-python…

model.ccView Options

rAKA/src/model/model.cc
1e72176f9e34bugfixes/39-the-python…

model.cc
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