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test_transfer_internals.cc
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test_transfer_internals.cc
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/**
* @file test_transfer_internals.cc
*
* @author Aurelia Isabel Cuba Ramos <aurelia.cubaramos@epfl.ch>
*
*
* @brief test to test the transfer of internals such as damage
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
*/
/* -------------------------------------------------------------------------- */
#include "aka_common.hh"
#include "dumper_paraview.hh"
#include "mesh_geom_common.hh"
#include "solid_mechanics_model_igfem.hh"
/* -------------------------------------------------------------------------- */
using namespace akantu;
bool checkResults(Real & error, UInt & counter, SolidMechanicsModel & model,
Real diagonal);
class ASRMaterialSelector : public DefaultMaterialIGFEMSelector {
public:
ASRMaterialSelector(SolidMechanicsModelIGFEM & model)
: DefaultMaterialIGFEMSelector(model), model(model) {}
UInt operator()(const Element & elem) {
if (Mesh::getKind(elem.type) == _ek_igfem)
/// choose IGFEM material
return this->fallback_value_igfem;
const Mesh & mesh = model.getMesh();
UInt spatial_dimension = model.getSpatialDimension();
Vector<Real> barycenter(spatial_dimension);
mesh.getBarycenter(elem, barycenter);
if (model.isInside(barycenter))
return 1;
return 0;
}
protected:
SolidMechanicsModelIGFEM & model;
};
typedef Spherical SK;
int main(int argc, char * argv[]) {
initialize("material_damage.dat", argc, argv);
StaticCommunicator & comm =
akantu::StaticCommunicator::getStaticCommunicator();
Int psize = comm.getNbProc();
Int prank = comm.whoAmI();
/// problem dimension
UInt spatial_dimension = 2;
/// mesh creation and partioning
Mesh mesh(spatial_dimension);
akantu::MeshPartition * partition = NULL;
if (prank == 0) {
mesh.read("fine_mesh.msh");
/// partition the mesh
partition = new MeshPartitionScotch(mesh, spatial_dimension);
partition->partitionate(psize);
}
/// model creation and initialization
SolidMechanicsModelIGFEM model(mesh);
model.initParallel(partition);
delete partition;
/// create the list to store the gel pockets
std::list<SK::Sphere_3> gel_pocket_list;
model.registerGeometryObject(gel_pocket_list, "mat_1");
/// set the material selector
ASRMaterialSelector * mat_selector = new ASRMaterialSelector(model);
model.setMaterialSelector(*mat_selector);
model.initFull();
/// add fields that should be dumped
model.setBaseName("regular_elements");
model.addDumpField("material_index");
model.addDumpField("damage");
model.addDumpField("Sc");
model.addDumpField("partitions");
model.setBaseNameToDumper("igfem elements", "igfem elements");
model.addDumpFieldToDumper("igfem elements", "material_index");
model.addDumpFieldToDumper("igfem elements", "Sc");
model.addDumpFieldToDumper("igfem elements", "damage");
model.addDumpFieldToDumper("igfem elements", "lambda");
model.addDumpFieldToDumper("igfem elements", "partitions");
/// set damage state as a function of the position of the quadrature
/// point the damage state is the absolute value of bary center
/// position normalized by the half of the diagonal of the mesh (which is a
/// square)
/// compute the mesh diagonal
mesh.computeBoundingBox();
const Vector<Real> & lower_bounds = mesh.getLowerBounds();
const Vector<Real> & upper_bounds = mesh.getUpperBounds();
Real diagonal = upper_bounds.distance(lower_bounds);
/// compute barycenters and set damage state
GhostType ghost_type = _not_ghost;
ElementType el_type = _triangle_3;
UInt nb_element = mesh.getNbElement(el_type, ghost_type);
Array<Real> barycenter(nb_element, spatial_dimension);
Array<Real>::iterator<Vector<Real>> bary_it =
barycenter.begin(spatial_dimension);
for (UInt elem = 0; elem < nb_element; ++elem) {
mesh.getBarycenter(elem, el_type, bary_it->storage(), ghost_type);
UInt mat_index =
model.getMaterialByElement(el_type, ghost_type).begin()[elem];
UInt local_index =
model.getMaterialLocalNumbering(el_type, ghost_type).begin()[elem];
Material & mat = model.getMaterial(mat_index);
Array<Real> & damage = mat.getArray<Real>("damage", el_type, ghost_type);
Array<Real>::scalar_iterator damage_it = damage.begin();
damage_it[local_index] = (*bary_it).norm() / (0.5 * diagonal);
++bary_it;
}
/// dump
model.dump("igfem elements");
model.dump();
/// create the inclusions
SK::Sphere_3 sphere_1(SK::Point_3(0., 0., 0.), 0.13 * 0.13);
SK::Sphere_3 sphere_2(SK::Point_3(0.5, 0.5, 0.), 0.4 * 0.4);
SK::Sphere_3 sphere_3(SK::Point_3(-0.75, -0.75, 0.), 0.12 * 0.12);
SK::Sphere_3 sphere_4(SK::Point_3(0.625, -0.625, 0.), 0.25 * 0.25);
gel_pocket_list.push_back(sphere_1);
gel_pocket_list.push_back(sphere_2);
gel_pocket_list.push_back(sphere_3);
gel_pocket_list.push_back(sphere_4);
/// create the interface
model.update("mat_1");
/// dump
model.dump("igfem elements");
model.dump();
/// check that internals have been transferred correctly
Real error = 0.;
UInt counter = 0;
bool check_passed = checkResults(error, counter, model, diagonal);
if (!check_passed) {
finalize();
return EXIT_FAILURE;
}
comm.allReduce(&error, 1, _so_sum);
comm.allReduce(&counter, 1, _so_sum);
if (prank == 0) {
std::cout << "The error is: " << error << std::endl;
std::cout << "There are " << counter
<< " igfem quads with damage material in the mesh" << std::endl;
std::cout
<< "There should be 156 igfem quads with damage material in the mesh"
<< std::endl;
}
if (error > 1e-14 || counter != 156) {
finalize();
return EXIT_FAILURE;
}
// /// grow two of the gel pockets (gel pocket 1 and 3) and repeat the test
std::list<SK::Sphere_3> new_gel_pocket_list;
/// grow sphere 2
SK::Sphere_3 sphere_5(SK::Point_3(0., 0., 0.), 0.15 * 0.15);
/// grow sphere 3
SK::Sphere_3 sphere_6(SK::Point_3(-0.75, -0.75, 0.), 0.5 * 0.5);
new_gel_pocket_list.push_back(sphere_5);
new_gel_pocket_list.push_back(sphere_2);
new_gel_pocket_list.push_back(sphere_6);
new_gel_pocket_list.push_back(sphere_4);
gel_pocket_list.clear();
gel_pocket_list = new_gel_pocket_list;
model.update("mat_1");
/// check again that internals have been transferred correctly
error = 0.;
counter = 0;
check_passed = checkResults(error, counter, model, diagonal);
if (!check_passed) {
finalize();
return EXIT_FAILURE;
}
comm.allReduce(&error, 1, _so_sum);
comm.allReduce(&counter, 1, _so_sum);
if (prank == 0) {
std::cout << "The error is: " << error << std::endl;
std::cout << "There are " << counter
<< " igfem quads with damage material in the mesh" << std::endl;
std::cout
<< "There should be 150 igfem quads with damage material in the mesh"
<< std::endl;
}
if (error > 1e-14 || counter != 150) {
finalize();
return EXIT_FAILURE;
}
/// dump
model.dump("igfem elements");
model.dump();
finalize();
return EXIT_SUCCESS;
}
/* -------------------------------------------------------------------------- */
bool checkResults(Real & error, UInt & counter, SolidMechanicsModel & model,
Real diagonal) {
/// check that damage values have been correctly transferred
FEEngine & fee = model.getFEEngine("IGFEMFEEngine");
GhostType ghost_type = _not_ghost;
Mesh & mesh = model.getMesh();
UInt spatial_dimension = model.getSpatialDimension();
bool check_passed = true;
/// loop over all IGFEM elements of type _not_ghost
Mesh::type_iterator it =
mesh.firstType(spatial_dimension, ghost_type, _ek_igfem);
Mesh::type_iterator last =
mesh.lastType(spatial_dimension, ghost_type, _ek_igfem);
for (; it != last; ++it) {
ElementType igfem_el_type = *it;
UInt nb_igfem_element = mesh.getNbElement(igfem_el_type);
UInt nb_quads = fee.getNbIntegrationPoints(igfem_el_type, ghost_type);
Array<Real> barycenter_igfem(nb_igfem_element, spatial_dimension);
Array<Real>::vector_iterator bary_it =
barycenter_igfem.begin(spatial_dimension);
UInt * conn_val = mesh.getConnectivity(igfem_el_type, ghost_type).data();
Array<Real> & nodes = mesh.getNodes();
UInt nb_parent_nodes = IGFEMHelper::getNbParentNodes(igfem_el_type);
/// compute the bary center of the underlying parent element
UInt nb_el_nodes = mesh.getNbNodesPerElement(igfem_el_type);
for (UInt elem = 0; elem < nb_igfem_element; ++elem) {
Real local_coord[spatial_dimension * nb_parent_nodes];
UInt offset = elem * nb_el_nodes;
for (UInt n = 0; n < nb_parent_nodes; ++n) {
memcpy(local_coord + n * spatial_dimension,
nodes.data() + conn_val[offset + n] * spatial_dimension,
spatial_dimension * sizeof(Real));
}
Math::barycenter(local_coord, nb_parent_nodes, spatial_dimension,
bary_it->storage());
UInt mat_index =
model.getMaterialByElement(igfem_el_type, ghost_type).begin()[elem];
Material & mat = model.getMaterial(mat_index);
UInt local_index =
model.getMaterialLocalNumbering(igfem_el_type, ghost_type)
.begin()[elem];
Array<Real> & damage =
mat.getArray<Real>("damage", igfem_el_type, ghost_type);
Array<UInt> & sub_mat =
mat.getArray<UInt>("sub_material", igfem_el_type, ghost_type);
Array<Real> & strength =
mat.getArray<Real>("Sc", igfem_el_type, ghost_type);
Array<Real>::scalar_iterator damage_it = damage.begin();
Array<UInt>::scalar_iterator sub_mat_it = sub_mat.begin();
Array<Real>::scalar_iterator Sc_it = strength.begin();
for (UInt q = 0; q < nb_quads; ++q) {
UInt q_global = local_index * nb_quads + q;
if (sub_mat_it[q_global] == 1) {
if (std::abs(Sc_it[q_global] - 100) > 1e-15) {
check_passed = false;
return check_passed;
}
error += std::abs(
(damage_it[q_global] - (*bary_it).norm() / (0.5 * diagonal)));
++counter;
} else if ((std::abs(Sc_it[q_global]) > Math::getTolerance()) ||
(std::abs(damage_it[q_global]) > Math::getTolerance())) {
check_passed = false;
return check_passed;
}
}
++bary_it;
}
}
return check_passed;
}

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