v0.14.0
Public Member Functions | Public Attributes | List of all members
BoneRemodeling::OpAssmbleStressLhs_dF< ADOLC > Struct Template Reference

Off diagonal block of tangent matrix \(K_{u u}\). More...

#include <users_modules/bone_remodelling/src/Remodeling.hpp>

Inheritance diagram for BoneRemodeling::OpAssmbleStressLhs_dF< ADOLC >:
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Collaboration diagram for BoneRemodeling::OpAssmbleStressLhs_dF< ADOLC >:
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Public Member Functions

 OpAssmbleStressLhs_dF (Remodeling::CommonData &common_data)
 
MoFEMErrorCode doWork (int row_side, int col_side, EntityType row_type, EntityType col_type, DataForcesAndSourcesCore::EntData &row_data, DataForcesAndSourcesCore::EntData &col_data)
 
- Public Member Functions inherited from MoFEM::VolumeElementForcesAndSourcesCore::UserDataOperator
int getNumNodes ()
 get element number of nodes More...
 
const EntityHandlegetConn ()
 get element connectivity More...
 
double getVolume () const
 element volume (linear geometry) More...
 
doublegetVolume ()
 element volume (linear geometry) More...
 
FTensor::Tensor2< double *, 3, 3 > & getJac ()
 get element Jacobian More...
 
FTensor::Tensor2< double *, 3, 3 > & getInvJac ()
 get element inverse Jacobian More...
 
VectorDoublegetCoords ()
 nodal coordinates More...
 
VolumeElementForcesAndSourcesCoregetVolumeFE () const
 return pointer to Generic Volume Finite Element object More...
 
- Public Member Functions inherited from MoFEM::ForcesAndSourcesCore::UserDataOperator
 UserDataOperator (const FieldSpace space, const char type=OPSPACE, const bool symm=true)
 
 UserDataOperator (const std::string field_name, const char type, const bool symm=true)
 
 UserDataOperator (const std::string row_field_name, const std::string col_field_name, const char type, const bool symm=true)
 
boost::shared_ptr< const NumeredEntFiniteElementgetNumeredEntFiniteElementPtr () const
 Return raw pointer to NumeredEntFiniteElement. More...
 
EntityHandle getFEEntityHandle () const
 Return finite element entity handle. More...
 
int getFEDim () const
 Get dimension of finite element. More...
 
EntityType getFEType () const
 Get dimension of finite element. More...
 
boost::weak_ptr< SideNumbergetSideNumberPtr (const int side_number, const EntityType type)
 Get the side number pointer. More...
 
EntityHandle getSideEntity (const int side_number, const EntityType type)
 Get the side entity. More...
 
int getNumberOfNodesOnElement () const
 Get the number of nodes on finite element. More...
 
MoFEMErrorCode getProblemRowIndices (const std::string filed_name, const EntityType type, const int side, VectorInt &indices) const
 Get row indices. More...
 
MoFEMErrorCode getProblemColIndices (const std::string filed_name, const EntityType type, const int side, VectorInt &indices) const
 Get col indices. More...
 
const FEMethodgetFEMethod () const
 Return raw pointer to Finite Element Method object. More...
 
int getOpType () const
 Get operator types. More...
 
void setOpType (const OpType type)
 Set operator type. More...
 
void addOpType (const OpType type)
 Add operator type. More...
 
int getNinTheLoop () const
 get number of finite element in the loop More...
 
int getLoopSize () const
 get size of elements in the loop More...
 
std::string getFEName () const
 Get name of the element. More...
 
ForcesAndSourcesCoregetPtrFE () const
 
ForcesAndSourcesCoregetSidePtrFE () const
 
ForcesAndSourcesCoregetRefinePtrFE () const
 
const PetscData::SwitchesgetDataCtx () const
 
const KspMethod::KSPContext getKSPCtx () const
 
const SnesMethod::SNESContext getSNESCtx () const
 
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
 
MatrixDoublegetGaussPts ()
 matrix of integration (Gauss) points for Volume Element More...
 
auto getFTensor0IntegrationWeight ()
 Get integration weights. More...
 
MatrixDoublegetCoordsAtGaussPts ()
 Gauss points and weight, matrix (nb. of points x 3) More...
 
auto getFTensor1CoordsAtGaussPts ()
 Get coordinates at integration points assuming linear geometry. More...
 
double getMeasure () const
 get measure of element More...
 
doublegetMeasure ()
 get measure of element More...
 
MoFEMErrorCode loopSide (const string &fe_name, ForcesAndSourcesCore *side_fe, const size_t dim, const EntityHandle ent_for_side=0, 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. More...
 
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. More...
 
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. More...
 
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. More...
 
- 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. More...
 
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. More...
 
virtual MoFEMErrorCode opRhs (EntitiesFieldData &data, const bool error_if_no_base=false)
 
bool getSymm () const
 Get if operator uses symmetry of DOFs or not. More...
 
void setSymm ()
 set if operator is executed taking in account symmetry More...
 
void unSetSymm ()
 unset if operator is executed for non symmetric problem More...
 

Public Attributes

Remodeling::CommonDatacommonData
 
MatrixDouble locK_P_F
 
MatrixDouble transLocK_P_F
 
FTensor::Tensor2< double, 3, 3 > diffDiff
 
- 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. More...
 
std::array< bool, MBMAXTYPE > doEntities
 If true operator is executed for entity. More...
 
booldoVertices
 \deprectaed If false skip vertices More...
 
booldoEdges
 \deprectaed If false skip edges More...
 
booldoQuads
 \deprectaed More...
 
booldoTris
 \deprectaed More...
 
booldoTets
 \deprectaed More...
 
booldoPrisms
 \deprectaed More...
 

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
ForcesAndSourcesCoreptrFE
 

Detailed Description

template<bool ADOLC>
struct BoneRemodeling::OpAssmbleStressLhs_dF< ADOLC >

Off diagonal block of tangent matrix \(K_{u u}\).

\[ K_{u u}=\left[\frac{\rho_{0}}{\rho_{0}^{\ast}}\right]^{n} \nabla N_j D_{ijkl}\nabla N_l S_{jl} \]

Definition at line 513 of file Remodeling.hpp.

Constructor & Destructor Documentation

◆ OpAssmbleStressLhs_dF()

template<bool ADOLC>
BoneRemodeling::OpAssmbleStressLhs_dF< ADOLC >::OpAssmbleStressLhs_dF ( Remodeling::CommonData common_data)
Examples
Remodeling.hpp.

Definition at line 1145 of file Remodeling.cpp.

1148  "DISPLACEMENTS", "DISPLACEMENTS", UserDataOperator::OPROWCOL),
1149  commonData(common_data) {
1150  sYmm = true;
1151 }

Member Function Documentation

◆ doWork()

template<bool ADOLC>
MoFEMErrorCode BoneRemodeling::OpAssmbleStressLhs_dF< ADOLC >::doWork ( int  row_side,
int  col_side,
EntityType  row_type,
EntityType  col_type,
DataForcesAndSourcesCore::EntData row_data,
DataForcesAndSourcesCore::EntData col_data 
)
Examples
Remodeling.hpp.

Definition at line 1153 of file Remodeling.cpp.

1156  {
1157 
1159 
1160  const int row_nb_dofs = row_data.getIndices().size();
1161  if (!row_nb_dofs)
1163  const int col_nb_dofs = col_data.getIndices().size();
1164  if (!col_nb_dofs)
1166 
1167  const bool diagonal_block = (row_type == col_type) && (row_side == col_side);
1168 
1169  // Set size can clear local tangent matrix
1170  locK_P_F.resize(row_nb_dofs, col_nb_dofs, false);
1171  locK_P_F.clear();
1172 
1173  const int row_nb_gauss_pts = row_data.getN().size1();
1174  const int row_nb_base_functions = row_data.getN().size2();
1175 
1176  MatrixDouble &matS = commonData.data.matS;
1178  // MatrixDouble &dS_dC = commonData.data.matMaterialTangent;
1179  // MatrixDouble &matF = commonData.data.matGradientOfDeformation;
1180 
1181  double t0;
1182 
1183  const double n = commonData.n;
1184  const double rho_ref = commonData.rHo_ref;
1185 
1193 
1194  auto row_diff_base_functions = row_data.getFTensor1DiffN<3>();
1198 
1199  // FTensor::Tensor4_ddg<double*,3,3> D1(SYMMETRIC_TENSOR4_MAT_PTR(dS_dC),6);
1200  // FTensor::Tensor2<double*,3,3> F(TENSOR2_MAT_PTR(matF));
1201 
1202  for (int gg = 0; gg != row_nb_gauss_pts; gg++) {
1203 
1204  // Get volume and integration weight
1205  double w = getVolume() * getGaussPts()(3, gg);
1206  const double a = w * pow(rho / rho_ref, n);
1207 
1208  int row_bb = 0;
1209  for (; row_bb != row_nb_dofs / 3; row_bb++) {
1210 
1211  auto col_diff_base_functions = col_data.getFTensor1DiffN<3>(gg, 0);
1212 
1213  const int final_bb = diagonal_block ? row_bb + 1 : col_nb_dofs / 3;
1214  int col_bb = 0;
1215  for (; col_bb != final_bb; col_bb++) {
1216 
1218  &locK_P_F(3 * row_bb + 0, 3 * col_bb + 0),
1219  &locK_P_F(3 * row_bb + 0, 3 * col_bb + 1),
1220  &locK_P_F(3 * row_bb + 0, 3 * col_bb + 2),
1221  &locK_P_F(3 * row_bb + 1, 3 * col_bb + 0),
1222  &locK_P_F(3 * row_bb + 1, 3 * col_bb + 1),
1223  &locK_P_F(3 * row_bb + 1, 3 * col_bb + 2),
1224  &locK_P_F(3 * row_bb + 2, 3 * col_bb + 0),
1225  &locK_P_F(3 * row_bb + 2, 3 * col_bb + 1),
1226  &locK_P_F(3 * row_bb + 2, 3 * col_bb + 2));
1227 
1228  diffDiff(J, L) =
1229  a * row_diff_base_functions(J) * col_diff_base_functions(L);
1230 
1231  // TODO: FIXME: Tensor D2 has major symmetry, we do not have such tensor
1232  // implemented at the moment. Using tensor with major symmetry will
1233  // improve code efficiency.
1234  t_assemble(i, k) += diffDiff(J, L) * D2(i, J, k, L);
1235 
1236  if (ADOLC) {
1237  // Stress stiffening part (only with adolc since it is using dS / dC
1238  // derrivative. Check OpCalculateStressTangentWithAdolc operator)
1239  t0 = diffDiff(J, L) * S(J, L);
1240  t_assemble(0, 0) += t0;
1241  t_assemble(1, 1) += t0;
1242  t_assemble(2, 2) += t0;
1243  }
1244 
1245  // Next base function for column
1246  ++col_diff_base_functions;
1247  }
1248 
1249  ++row_diff_base_functions;
1250  }
1251  for (; row_bb != row_nb_base_functions; row_bb++) {
1252  ++row_diff_base_functions;
1253  }
1254 
1255  // ++D1;
1256  ++D2;
1257  ++S;
1258  // ++F;
1259  ++rho;
1260  }
1261 
1262  // Copy of symmetric part for assemble
1263  if (diagonal_block) {
1264  for (int row_bb = 0; row_bb != row_nb_dofs / 3; row_bb++) {
1265  int col_bb = 0;
1266  for (; col_bb != row_bb + 1; col_bb++) {
1268  &locK_P_F(3 * row_bb + 0, 3 * col_bb + 0),
1269  &locK_P_F(3 * row_bb + 0, 3 * col_bb + 1),
1270  &locK_P_F(3 * row_bb + 0, 3 * col_bb + 2),
1271  &locK_P_F(3 * row_bb + 1, 3 * col_bb + 0),
1272  &locK_P_F(3 * row_bb + 1, 3 * col_bb + 1),
1273  &locK_P_F(3 * row_bb + 1, 3 * col_bb + 2),
1274  &locK_P_F(3 * row_bb + 2, 3 * col_bb + 0),
1275  &locK_P_F(3 * row_bb + 2, 3 * col_bb + 1),
1276  &locK_P_F(3 * row_bb + 2, 3 * col_bb + 2));
1278  &locK_P_F(3 * col_bb + 0, 3 * row_bb + 0),
1279  &locK_P_F(3 * col_bb + 0, 3 * row_bb + 1),
1280  &locK_P_F(3 * col_bb + 0, 3 * row_bb + 2),
1281  &locK_P_F(3 * col_bb + 1, 3 * row_bb + 0),
1282  &locK_P_F(3 * col_bb + 1, 3 * row_bb + 1),
1283  &locK_P_F(3 * col_bb + 1, 3 * row_bb + 2),
1284  &locK_P_F(3 * col_bb + 2, 3 * row_bb + 0),
1285  &locK_P_F(3 * col_bb + 2, 3 * row_bb + 1),
1286  &locK_P_F(3 * col_bb + 2, 3 * row_bb + 2));
1287  t_off_side(i, k) = t_assemble(k, i);
1288  }
1289  }
1290  }
1291 
1292  const int *row_ind = &*row_data.getIndices().begin();
1293  const int *col_ind = &*col_data.getIndices().begin();
1294  CHKERR MatSetValues(getFEMethod()->ts_B, row_nb_dofs, row_ind, col_nb_dofs,
1295  col_ind, &locK_P_F(0, 0), ADD_VALUES);
1296 
1297  if (row_type != col_type || row_side != col_side) {
1298  transLocK_P_F.resize(col_nb_dofs, row_nb_dofs, false);
1299  noalias(transLocK_P_F) = trans(locK_P_F);
1300  CHKERR MatSetValues(getFEMethod()->ts_B, col_nb_dofs, col_ind, row_nb_dofs,
1301  row_ind, &transLocK_P_F(0, 0), ADD_VALUES);
1302  }
1303 
1305 }

Member Data Documentation

◆ commonData

template<bool ADOLC>
Remodeling::CommonData& BoneRemodeling::OpAssmbleStressLhs_dF< ADOLC >::commonData
Examples
Remodeling.hpp.

Definition at line 516 of file Remodeling.hpp.

◆ diffDiff

template<bool ADOLC>
FTensor::Tensor2<double, 3, 3> BoneRemodeling::OpAssmbleStressLhs_dF< ADOLC >::diffDiff
Examples
Remodeling.hpp.

Definition at line 519 of file Remodeling.hpp.

◆ locK_P_F

template<bool ADOLC>
MatrixDouble BoneRemodeling::OpAssmbleStressLhs_dF< ADOLC >::locK_P_F
Examples
Remodeling.hpp.

Definition at line 517 of file Remodeling.hpp.

◆ transLocK_P_F

template<bool ADOLC>
MatrixDouble BoneRemodeling::OpAssmbleStressLhs_dF< ADOLC >::transLocK_P_F
Examples
Remodeling.hpp.

Definition at line 518 of file Remodeling.hpp.


The documentation for this struct was generated from the following files:
MoFEMFunctionReturnHot
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:460
MoFEM::K
VectorDouble K
Definition: Projection10NodeCoordsOnField.cpp:125
MoFEM::MatSetValues
MoFEMErrorCode MatSetValues(Mat M, const EntitiesFieldData::EntData &row_data, const EntitiesFieldData::EntData &col_data, const double *ptr, InsertMode iora)
Assemble PETSc matrix.
Definition: EntitiesFieldData.hpp:1634
BoneRemodeling::Remodeling::CommonData::n
double n
porosity exponent [-]
Definition: Remodeling.hpp:148
rho
double rho
Definition: plastic.cpp:140
BoneRemodeling::OpAssmbleStressLhs_dF::transLocK_P_F
MatrixDouble transLocK_P_F
Definition: Remodeling.hpp:518
MoFEM::Types::MatrixDouble
UBlasMatrix< double > MatrixDouble
Definition: Types.hpp:77
BoneRemodeling::Remodeling::CommonData::rHo_ref
double rHo_ref
reference density
Definition: Remodeling.hpp:150
TENSOR4_MAT_PTR
#define TENSOR4_MAT_PTR(MAT)
Definition: Remodeling.cpp:48
J
FTensor::Index< 'J', DIM1 > J
Definition: level_set.cpp:30
MoFEM::VolumeElementForcesAndSourcesCore::UserDataOperator::getVolume
double getVolume() const
element volume (linear geometry)
Definition: VolumeElementForcesAndSourcesCore.hpp:161
FTensor::Tensor2_symmetric
Definition: Tensor2_symmetric_value.hpp:13
BoneRemodeling::Remodeling::CommonData::DataContainers::rhoPtr
boost::shared_ptr< VectorDouble > rhoPtr
Ptr to density matrix container.
Definition: Remodeling.hpp:187
MoFEM::ForcesAndSourcesCore::UserDataOperator::OPROWCOL
@ OPROWCOL
operator doWork is executed on FE rows &columns
Definition: ForcesAndSourcesCore.hpp:569
FTensor::Tensor2< double *, 3, 3 >
I
constexpr IntegrationType I
Definition: operators_tests.cpp:31
MoFEM::ForcesAndSourcesCore::UserDataOperator::getGaussPts
MatrixDouble & getGaussPts()
matrix of integration (Gauss) points for Volume Element
Definition: ForcesAndSourcesCore.hpp:1236
CHKERR
#define CHKERR
Inline error check.
Definition: definitions.h:548
SYMMETRIC_TENSOR2_MAT_PTR
#define SYMMETRIC_TENSOR2_MAT_PTR(MAT)
Definition: Remodeling.cpp:54
a
constexpr double a
Definition: approx_sphere.cpp:30
BoneRemodeling::OpAssmbleStressLhs_dF::locK_P_F
MatrixDouble locK_P_F
Definition: Remodeling.hpp:517
MoFEM::getFTensor0FromVec
static auto getFTensor0FromVec(ublas::vector< T, A > &data)
Get tensor rank 0 (scalar) form data vector.
Definition: Templates.hpp:135
MoFEM::L
VectorDouble L
Definition: Projection10NodeCoordsOnField.cpp:124
FTensor::Tensor4
Definition: Tensor4_value.hpp:18
i
FTensor::Index< 'i', SPACE_DIM > i
Definition: hcurl_divergence_operator_2d.cpp:27
BoneRemodeling::OpAssmbleStressLhs_dF::diffDiff
FTensor::Tensor2< double, 3, 3 > diffDiff
Definition: Remodeling.hpp:519
FTensor::Index< 'i', 3 >
MoFEM::ForcesAndSourcesCore::UserDataOperator::getFEMethod
const FEMethod * getFEMethod() const
Return raw pointer to Finite Element Method object.
Definition: ForcesAndSourcesCore.hpp:1042
convert.n
n
Definition: convert.py:82
BoneRemodeling::Remodeling::CommonData::DataContainers::matPushedMaterialTangent
MatrixDouble matPushedMaterialTangent
Definition: Remodeling.hpp:196
UserDataOperator
ForcesAndSourcesCore::UserDataOperator UserDataOperator
Definition: HookeElement.hpp:75
j
FTensor::Index< 'j', 3 > j
Definition: matrix_function.cpp:19
sdf_wavy_2d.w
int w
Definition: sdf_wavy_2d.py:7
BoneRemodeling::Remodeling::CommonData::DataContainers::matS
MatrixDouble matS
2nd Piola stress
Definition: Remodeling.hpp:190
BoneRemodeling::Remodeling::CommonData::data
DataContainers data
Definition: Remodeling.hpp:203
k
FTensor::Index< 'k', 3 > k
Definition: matrix_function.cpp:20
BoneRemodeling::OpAssmbleStressLhs_dF::commonData
Remodeling::CommonData & commonData
Definition: Remodeling.hpp:516
MoFEM::DataOperator::sYmm
bool sYmm
If true assume that matrix is symmetric structure.
Definition: DataOperators.hpp:82
MoFEMFunctionReturn
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
Definition: definitions.h:429
MoFEMFunctionBegin
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
Definition: definitions.h:359