#include "users_modules/basic_finite_elements/src/PostProcStresses.hpp"

Inheritance diagram for PostProcStress:

Collaboration diagram for PostProcStress:

Public Member Functions
	PostProcStress (moab::Interface &post_proc_mesh, std::vector< EntityHandle > &map_gauss_pts, Range &post_proc_elements, const std::string field_name, NonlinearElasticElement::BlockData &data, boost::shared_ptr< MatrixDouble > field_values_ptr, boost::shared_ptr< MatrixDouble > mesh_positions_ptr, boost::shared_ptr< MatrixDouble > field_gradient_ptr, const std::string mesh_positions_field_name="MESH_NODE_POSITIONS", const bool field_disp=false, const bool replace_nonanumber_by_max_value=false, const double max_val=1e16, const bool print_cauchy_stress=false)

MoFEMErrorCode	doWork (int side, EntityType type, EntitiesFieldData::EntData &data)

Public Member Functions inherited from MoFEM::VolumeElementForcesAndSourcesCore::UserDataOperator
int	getNumNodes ()
	get element number of nodes

const EntityHandle *	getConn ()
	get element connectivity

double	getVolume () const
	element volume (linear geometry)

double &	getVolume ()
	element volume (linear geometry)

FTensor::Tensor2< double *, 3, 3 > &	getJac ()
	get element Jacobian

FTensor::Tensor2< double *, 3, 3 > &	getInvJac ()
	get element inverse Jacobian

VectorDouble &	getCoords ()
	nodal coordinates

VolumeElementForcesAndSourcesCore *	getVolumeFE () const
	return pointer to Generic Volume Finite Element object

Public Member Functions inherited from MoFEM::ForcesAndSourcesCore::UserDataOperator
	UserDataOperator (const FieldSpace space, const char type=OPSPACE, const bool symm=true)
	Constructor for operators working on finite element spaces.

	UserDataOperator (const std::string field_name, const char type, const bool symm=true)
	Constructor for operators working on a single field.

	UserDataOperator (const std::string row_field_name, const std::string col_field_name, const char type, const bool symm=true)
	Constructor for operators working on two fields (bilinear forms)

boost::shared_ptr< const NumeredEntFiniteElement >	getNumeredEntFiniteElementPtr () const
	Return raw pointer to NumeredEntFiniteElement.

EntityHandle	getFEEntityHandle () const
	Return finite element entity handle.

int	getFEDim () const
	Get dimension of finite element.

EntityType	getFEType () const
	Get dimension of finite element.

boost::weak_ptr< SideNumber >	getSideNumberPtr (const int side_number, const EntityType type)
	Get the side number pointer.

EntityHandle	getSideEntity (const int side_number, const EntityType type)
	Get the side entity.

int	getNumberOfNodesOnElement () const
	Get the number of nodes on finite element.

MoFEMErrorCode	getProblemRowIndices (const std::string filed_name, const EntityType type, const int side, VectorInt &indices) const
	Get row indices.

MoFEMErrorCode	getProblemColIndices (const std::string filed_name, const EntityType type, const int side, VectorInt &indices) const
	Get col indices.

const FEMethod *	getFEMethod () const
	Return raw pointer to Finite Element Method object.

int	getOpType () const
	Get operator types.

void	setOpType (const OpType type)
	Set operator type.

void	addOpType (const OpType type)
	Add operator type.

int	getNinTheLoop () const
	get number of finite element in the loop

int	getLoopSize () const
	get size of elements in the loop

std::string	getFEName () const
	Get name of the element.

ForcesAndSourcesCore *	getPtrFE () const

ForcesAndSourcesCore *	getSidePtrFE () const

ForcesAndSourcesCore *	getRefinePtrFE () const

const PetscData::Switches &	getDataCtx () const

KspMethod::KSPContext	getKSPCtx () const

SnesMethod::SNESContext	getSNESCtx () const

TSMethod::TSContext	getTSCtx () const

Vec	getKSPf () const

Mat	getKSPA () const

Mat	getKSPB () const

Vec	getSNESf () const

Vec	getSNESx () const

Mat	getSNESA () const

Mat	getSNESB () const

Vec	getTSu () const

Vec	getTSu_t () const

Vec	getTSu_tt () const

Vec	getTSf () const

Mat	getTSA () const

Mat	getTSB () const

int	getTSstep () const

double	getTStime () const

double	getTStimeStep () const

double	getTSa () const

double	getTSaa () const

MatrixDouble &	getGaussPts ()
	matrix of integration (Gauss) points for Volume Element

auto	getFTensor0IntegrationWeight ()
	Get integration weights.

MatrixDouble &	getCoordsAtGaussPts ()
	Gauss points and weight, matrix (nb. of points x 3)

auto	getFTensor1CoordsAtGaussPts ()
	Get coordinates at integration points assuming linear geometry.

double	getMeasure () const
	get measure of element

double &	getMeasure ()
	get measure of element

MoFEM::Interface &	getMField ()

moab::Interface &	getMoab ()

virtual boost::weak_ptr< ForcesAndSourcesCore >	getSubPipelinePtr () const

MoFEMErrorCode	loopSide (const string &fe_name, ForcesAndSourcesCore side_fe, const size_t dim, const EntityHandle ent_for_side=0, boost::shared_ptr< Range > fe_range=nullptr, const int verb=QUIET, const LogManager::SeverityLevel sev=Sev::noisy, AdjCache adj_cache=nullptr)
	User calls this function to loop over elements on the side of face. This function calls finite element with its operator to do calculations.

MoFEMErrorCode	loopThis (const string &fe_name, ForcesAndSourcesCore *this_fe, const int verb=QUIET, const LogManager::SeverityLevel sev=Sev::noisy)
	User calls this function to loop over the same element using a different set of integration points. This function calls finite element with its operator to do calculations.

MoFEMErrorCode	loopParent (const string &fe_name, ForcesAndSourcesCore *parent_fe, const int verb=QUIET, const LogManager::SeverityLevel sev=Sev::noisy)
	User calls this function to loop over parent elements. This function calls finite element with its operator to do calculations.

MoFEMErrorCode	loopChildren (const string &fe_name, ForcesAndSourcesCore *child_fe, const int verb=QUIET, const LogManager::SeverityLevel sev=Sev::noisy)
	User calls this function to loop over parent elements. This function calls finite element with its operator to do calculations.

MoFEMErrorCode	loopRange (const string &fe_name, ForcesAndSourcesCore *range_fe, boost::shared_ptr< Range > fe_range, const int verb=QUIET, const LogManager::SeverityLevel sev=Sev::noisy)
	Iterate over range of elements.

Public Member Functions inherited from MoFEM::DataOperator
	DataOperator (const bool symm=true)

virtual	~DataOperator ()=default

virtual MoFEMErrorCode	doWork (int row_side, int col_side, EntityType row_type, EntityType col_type, EntitiesFieldData::EntData &row_data, EntitiesFieldData::EntData &col_data)
	Operator for bi-linear form, usually to calculate values on left hand side.

virtual MoFEMErrorCode	opLhs (EntitiesFieldData &row_data, EntitiesFieldData &col_data)

virtual MoFEMErrorCode	doWork (int side, EntityType type, EntitiesFieldData::EntData &data)
	Operator for linear form, usually to calculate values on right hand side.

virtual MoFEMErrorCode	opRhs (EntitiesFieldData &data, const bool error_if_no_base=false)

bool	getSymm () const
	Get if operator uses symmetry of DOFs or not.

void	setSymm ()
	set if operator is executed taking in account symmetry

void	unSetSymm ()
	unset if operator is executed for non symmetric problem

Public Attributes
moab::Interface &	postProcMesh

std::vector< EntityHandle > &	mapGaussPts

Range &	postProcElements

NonlinearElasticElement::BlockData &	dAta

boost::shared_ptr< MatrixDouble >	fieldValuesPtr

boost::shared_ptr< MatrixDouble >	meshPositionsPtr

boost::shared_ptr< MatrixDouble >	fieldGradientPtr

const std::string	meshPositionsFieldName

const bool	fieldDisp

const bool	replaceNonANumberByMaxValue

const double	maxVal

const bool	printCauchy

NonlinearElasticElement::CommonData	nonLinearElementCommonData

Public Attributes inherited from MoFEM::ForcesAndSourcesCore::UserDataOperator
char	opType

std::string	rowFieldName

std::string	colFieldName

FieldSpace	sPace

Public Attributes inherited from MoFEM::DataOperator
DoWorkLhsHookFunType	doWorkLhsHook

DoWorkRhsHookFunType	doWorkRhsHook

bool	sYmm
	If true assume that matrix is symmetric structure.

std::array< bool, MBMAXTYPE >	doEntities
	If true operator is executed for entity.

bool &	doVertices
	\deprectaed If false skip vertices

bool &	doEdges
	\deprectaed If false skip edges

bool &	doQuads
	\deprectaed

bool &	doTris
	\deprectaed

bool &	doTets
	\deprectaed

bool &	doPrisms
	\deprectaed

Additional Inherited Members
Public Types inherited from MoFEM::ForcesAndSourcesCore::UserDataOperator
enum	OpType { OPROW = 1 << 0 , OPCOL = 1 << 1 , OPROWCOL = 1 << 2 , OPSPACE = 1 << 3 , OPLAST = 1 << 3 }
	Controls loop over entities on element. More...

using	AdjCache = std::map< EntityHandle, std::vector< boost::weak_ptr< NumeredEntFiniteElement > > >

Public Types inherited from MoFEM::DataOperator
using	DoWorkLhsHookFunType = boost::function< MoFEMErrorCode(DataOperator *op_ptr, int row_side, int col_side, EntityType row_type, EntityType col_type, EntitiesFieldData::EntData &row_data, EntitiesFieldData::EntData &col_data)>

using	DoWorkRhsHookFunType = boost::function< MoFEMErrorCode(DataOperator *op_ptr, int side, EntityType type, EntitiesFieldData::EntData &data)>

Static Public Attributes inherited from MoFEM::ForcesAndSourcesCore::UserDataOperator
static const char *const	OpTypeNames []

Protected Member Functions inherited from MoFEM::VolumeElementForcesAndSourcesCore::UserDataOperator
MoFEMErrorCode	setPtrFE (ForcesAndSourcesCore *ptr)

Protected Attributes inherited from MoFEM::ForcesAndSourcesCore::UserDataOperator
ForcesAndSourcesCore *	ptrFE

Detailed Description

Examples: mofem/users_modules/basic_finite_elements/nonlinear_elastic_materials/src/NonlinearElasticElementInterface.hpp, mofem/users_modules/basic_finite_elements/nonlinear_elasticity/nonlinear_dynamics.cpp, and mofem/users_modules/bone_remodelling/src/impl/Remodeling.cpp.

Definition at line 17 of file PostProcStresses.hpp.

Constructor & Destructor Documentation

◆ PostProcStress()

PostProcStress::PostProcStress	(	moab::Interface &	post_proc_mesh,
		std::vector< EntityHandle > &	map_gauss_pts,
		Range &	post_proc_elements,
		const std::string	field_name,
		NonlinearElasticElement::BlockData &	data,
		boost::shared_ptr< MatrixDouble >	field_values_ptr,
		boost::shared_ptr< MatrixDouble >	mesh_positions_ptr,
		boost::shared_ptr< MatrixDouble >	field_gradient_ptr,
		const std::string	mesh_positions_field_name = `"MESH_NODE_POSITIONS"`,
		const bool	field_disp = `false`,
		const bool	replace_nonanumber_by_max_value = `false`,
		const double	max_val = `1e16`,
		const bool	print_cauchy_stress = `false`
	)

inline

Definition at line 34 of file PostProcStresses.hpp.

      : MoFEM::VolumeElementForcesAndSourcesCore::UserDataOperator(
            field_name, ForcesAndSourcesCore::UserDataOperator::OPROW),
        postProcMesh(post_proc_mesh), mapGaussPts(map_gauss_pts),
        postProcElements(post_proc_elements), dAta(data),
        fieldValuesPtr(field_values_ptr), meshPositionsPtr(mesh_positions_ptr),
        fieldGradientPtr(field_gradient_ptr),
        meshPositionsFieldName(mesh_positions_field_name),
        fieldDisp(field_disp),
        replaceNonANumberByMaxValue(replace_nonanumber_by_max_value),
        maxVal(max_val), printCauchy(print_cauchy_stress) {}

Member Function Documentation

◆ doWork()

MoFEMErrorCode PostProcStress::doWork	(	int	side,
		EntityType	type,
		EntitiesFieldData::EntData &	data
	)

inline

Definition at line 61 of file PostProcStresses.hpp.

                                                        {
    MoFEMFunctionBegin;
 
    if (type != MBVERTEX)
      MoFEMFunctionReturnHot(0);
    if (data.getIndices().size() == 0)
      MoFEMFunctionReturnHot(0);
    if (dAta.tEts.find(getNumeredEntFiniteElementPtr()->getEnt()) ==
        dAta.tEts.end()) {
      MoFEMFunctionReturnHot(0);
    }
 
    const auto &dof_ptr = data.getFieldDofs()[0];
 
    int id = dAta.iD;
 
    Tag th_id;
    int def_block_id = -1;
    CHKERR postProcMesh.tag_get_handle("BLOCK_ID", 1, MB_TYPE_INTEGER, th_id,
                                       MB_TAG_CREAT | MB_TAG_SPARSE,
                                       &def_block_id);
    CHKERR postProcMesh.tag_clear_data(th_id, postProcElements, &id);
 
    string tag_name_piola1 = dof_ptr->getName() + "_PIOLA1_STRESS";
    string tag_name_energy = dof_ptr->getName() + "_ENERGY_DENSITY";
 
    int tag_length = 9;
    double def_VAL[tag_length];
    bzero(def_VAL, tag_length * sizeof(double));
    Tag th_piola1, th_energy, th_cauchy;
    CHKERR postProcMesh.tag_get_handle(tag_name_piola1.c_str(), tag_length,
                                       MB_TYPE_DOUBLE, th_piola1,
                                       MB_TAG_CREAT | MB_TAG_SPARSE, def_VAL);
    CHKERR postProcMesh.tag_get_handle(tag_name_energy.c_str(), 1,
                                       MB_TYPE_DOUBLE, th_energy,
                                       MB_TAG_CREAT | MB_TAG_SPARSE, def_VAL);
 
    if (printCauchy) {
      string tag_name_cauchy = "MED_" + dof_ptr->getName() + "_CAUCHY_STRESS";
      CHKERR postProcMesh.tag_get_handle(tag_name_cauchy.c_str(), tag_length,
                                         MB_TYPE_DOUBLE, th_cauchy,
                                         MB_TAG_CREAT | MB_TAG_SPARSE, def_VAL);
    }
 
    int nb_gauss_pts = data.getN().size1();
    if (mapGaussPts.size() != (unsigned int)nb_gauss_pts) {
      SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
              "Nb. of integration points is not equal to number points on "
              "post-processing mesh");
    }
    if (!fieldGradientPtr ||
        fieldGradientPtr->size1() != (unsigned int)nb_gauss_pts ||
        fieldGradientPtr->size2() != 9) {
      SETERRQ(PETSC_COMM_SELF, MOFEM_DATA_INCONSISTENCY,
              "Gradient of field not found, filed <%s> not found",
              rowFieldName.c_str());
    }
 
    auto make_field_values = [](auto values_ptr) {
      std::vector<VectorDouble> values;
      if (!values_ptr)
        return values;
      values.resize(values_ptr->size1());
      for (size_t gg = 0; gg != values_ptr->size1(); ++gg) {
        values[gg].resize(values_ptr->size2(), false);
        for (size_t rr = 0; rr != values_ptr->size2(); ++rr) {
          values[gg][rr] = (*values_ptr)(gg, rr);
        }
      }
      return values;
    };
 
    auto make_gradients = [](auto gradient_ptr) {
      std::vector<MatrixDouble> gradients;
      if (!gradient_ptr)
        return gradients;
      const size_t field_rank = gradient_ptr->size2() / 3;
      gradients.resize(gradient_ptr->size1());
      for (size_t gg = 0; gg != gradient_ptr->size1(); ++gg) {
        gradients[gg].resize(field_rank, 3, false);
        for (size_t rr = 0; rr != field_rank; ++rr) {
          for (size_t cc = 0; cc != 3; ++cc) {
            gradients[gg](rr, cc) = (*gradient_ptr)(gg, 3 * rr + cc);
          }
        }
      }
      return gradients;
    };
 
    std::map<std::string, std::vector<VectorDouble>> field_map{
        {rowFieldName, make_field_values(fieldValuesPtr)},
        {meshPositionsFieldName, make_field_values(meshPositionsPtr)}};
    std::map<std::string, std::vector<MatrixDouble>> gradient_map{
        {rowFieldName, make_gradients(fieldGradientPtr)}};
 
    MatrixDouble3by3 H, invH;
    double detH;
 
    dAta.materialDoublePtr->commonDataPtr = &nonLinearElementCommonData;
    dAta.materialDoublePtr->opPtr = this;
    CHKERR dAta.materialDoublePtr->getDataOnPostProcessor(field_map,
                                                          gradient_map);
 
    nonLinearElementCommonData.dataAtGaussPts = field_map;
    nonLinearElementCommonData.gradAtGaussPts = gradient_map;
 
    MatrixDouble3by3 maxP(3, 3);
    maxP.clear();
 
    for (int gg = 0; gg != nb_gauss_pts; ++gg) {
 
      dAta.materialDoublePtr->gG = gg;
      dAta.materialDoublePtr->F.resize(3, 3);
      noalias(dAta.materialDoublePtr->F) =
          gradient_map[rowFieldName][gg];
      if (fieldDisp) {
        for (int dd = 0; dd != 3; dd++) {
          dAta.materialDoublePtr->F(dd, dd) += 1;
        }
      }
      if (gradient_map[meshPositionsFieldName].size() ==
          (unsigned int)nb_gauss_pts) {
        H.resize(3, 3);
        invH.resize(3, 3);
        noalias(H) = gradient_map[meshPositionsFieldName][gg];
        detH = determinantTensor3by3(H);
        CHKERR invertTensor3by3(H, detH, invH);
        noalias(dAta.materialDoublePtr->F) =
            prod(dAta.materialDoublePtr->F, invH);
      }
 
      int nb_active_variables = 9;
      CHKERR dAta.materialDoublePtr->setUserActiveVariables(
          nb_active_variables);
      CHKERR dAta.materialDoublePtr->calculateP_PiolaKirchhoffI(
          dAta, getNumeredEntFiniteElementPtr());
      CHKERR dAta.materialDoublePtr->calculateElasticEnergy(
          dAta, getNumeredEntFiniteElementPtr());
      CHKERR postProcMesh.tag_set_data(th_piola1, &mapGaussPts[gg], 1,
                                       &dAta.materialDoublePtr->P(0, 0));
      CHKERR postProcMesh.tag_set_data(th_energy, &mapGaussPts[gg], 1,
                                       &dAta.materialDoublePtr->eNergy);
      if (printCauchy) {
        dAta.materialDoublePtr->sigmaCauchy.resize(3, 3);
        CHKERR dAta.materialDoublePtr->calculateCauchyStress(
            dAta, getNumeredEntFiniteElementPtr());
        CHKERR postProcMesh.tag_set_data(
            th_cauchy, &mapGaussPts[gg], 1,
            &dAta.materialDoublePtr->sigmaCauchy(0, 0));
      }
    }
 
    if (replaceNonANumberByMaxValue) {
      MatrixDouble3by3 P(3, 3);
      for (int gg = 0; gg != nb_gauss_pts; ++gg) {
        double val_energy;
        CHKERR postProcMesh.tag_get_data(th_energy, &mapGaussPts[gg], 1,
                                         &val_energy);
        if (!std::isnormal(val_energy)) {
          CHKERR postProcMesh.tag_set_data(th_energy, &mapGaussPts[gg], 1,
                                           &maxVal);
          CHKERR postProcMesh.tag_get_data(th_piola1, &mapGaussPts[gg], 1,
                                           &P(0, 0));
          for (unsigned int r = 0; r != P.size1(); ++r) {
            for (unsigned int c = 0; c != P.size2(); ++c) {
              if (!std::isnormal(P(r, c)))
                P(r, c) = copysign(maxVal, P(r, c));
            }
          }
          CHKERR postProcMesh.tag_set_data(th_piola1, &mapGaussPts[gg], 1,
                                           &P(0, 0));
        }
      }
    }
 
    MoFEMFunctionReturn(0);
  }

Member Data Documentation

◆ dAta

NonlinearElasticElement::BlockData& PostProcStress::dAta

Definition at line 24 of file PostProcStresses.hpp.

◆ fieldDisp

const bool PostProcStress::fieldDisp

Definition at line 29 of file PostProcStresses.hpp.

◆ fieldGradientPtr

boost::shared_ptr<MatrixDouble> PostProcStress::fieldGradientPtr

Definition at line 27 of file PostProcStresses.hpp.

◆ fieldValuesPtr

boost::shared_ptr<MatrixDouble> PostProcStress::fieldValuesPtr

Definition at line 25 of file PostProcStresses.hpp.

◆ mapGaussPts

std::vector<EntityHandle>& PostProcStress::mapGaussPts

Definition at line 21 of file PostProcStresses.hpp.

◆ maxVal

const double PostProcStress::maxVal

Definition at line 31 of file PostProcStresses.hpp.

◆ meshPositionsFieldName

const std::string PostProcStress::meshPositionsFieldName

Definition at line 28 of file PostProcStresses.hpp.

◆ meshPositionsPtr

boost::shared_ptr<MatrixDouble> PostProcStress::meshPositionsPtr

Definition at line 26 of file PostProcStresses.hpp.

◆ nonLinearElementCommonData

NonlinearElasticElement::CommonData PostProcStress::nonLinearElementCommonData

Definition at line 59 of file PostProcStresses.hpp.

◆ postProcElements

Range& PostProcStress::postProcElements

Definition at line 22 of file PostProcStresses.hpp.

◆ postProcMesh

moab::Interface& PostProcStress::postProcMesh

Definition at line 20 of file PostProcStresses.hpp.

◆ printCauchy

const bool PostProcStress::printCauchy

Definition at line 32 of file PostProcStresses.hpp.

◆ replaceNonANumberByMaxValue

const bool PostProcStress::replaceNonANumberByMaxValue

Definition at line 30 of file PostProcStresses.hpp.

The documentation for this struct was generated from the following file:

users_modules/basic_finite_elements/src/PostProcStresses.hpp

Public Member Functions

Public Attributes

Additional Inherited Members