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Public Member Functions | Public Attributes | List of all members
BoneRemodeling::OpCalculateLhs Struct Reference

Assemble LHS matrix K. More...

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

Inheritance diagram for BoneRemodeling::OpCalculateLhs:
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Collaboration diagram for BoneRemodeling::OpCalculateLhs:
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Public Member Functions

 OpCalculateLhs (const std::string &row_field, const std::string &col_field, CommonData &common_data, DataFromMetaIO &data_from_meta_io)
 
PetscErrorCode 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

CommonDatacommonData
 
DataFromMetaIOdataFromMetaIo
 
- 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)
 
virtual MoFEMErrorCode setPtrFE (ForcesAndSourcesCore *ptr)
 
- Protected Attributes inherited from MoFEM::ForcesAndSourcesCore::UserDataOperator
ForcesAndSourcesCoreptrFE
 

Detailed Description

Assemble LHS matrix K.

\[ K=\int_{V}\phi^{T}\phi\,dV \]

Definition at line 689 of file DensityMaps.hpp.

Constructor & Destructor Documentation

◆ OpCalculateLhs()

BoneRemodeling::OpCalculateLhs::OpCalculateLhs ( const std::string &  row_field,
const std::string &  col_field,
CommonData common_data,
DataFromMetaIO data_from_meta_io 
)
inline

Definition at line 694 of file DensityMaps.hpp.

696 :
698 row_field,col_field,UserDataOperator::OPROWCOL
699 ),
700 commonData(common_data),
701 dataFromMetaIo(data_from_meta_io) {
702 sYmm = true;
703 }
bool sYmm
If true assume that matrix is symmetric structure.

Member Function Documentation

◆ doWork()

PetscErrorCode BoneRemodeling::OpCalculateLhs::doWork ( int  row_side,
int  col_side,
EntityType  row_type,
EntityType  col_type,
DataForcesAndSourcesCore::EntData &  row_data,
DataForcesAndSourcesCore::EntData &  col_data 
)
inline

Definition at line 705 of file DensityMaps.hpp.

710 {
711
712 PetscFunctionBegin;
713
714 int nb_rows = row_data.getIndices().size(); // number of rows
715 int nb_cols = col_data.getIndices().size(); // number of columns
716 if(nb_rows==0) PetscFunctionReturn(0);
717 if(nb_cols==0) PetscFunctionReturn(0);
718
719 commonData.locA.resize(nb_rows,nb_cols,false);
720 commonData.locA.clear();
721 int nb_gauss_pts = row_data.getN().size1();
722 for(int gg = 0;gg<nb_gauss_pts;gg++) {
723 double vol = getVolume()*getGaussPts()(3,gg);
724 VectorAdaptor row_base_function = row_data.getN(gg);
725 VectorAdaptor col_base_function = col_data.getN(gg);
726 commonData.locA += vol*outer_prod(row_base_function,col_base_function);
727 MatrixAdaptor row_diff_base_function = row_data.getDiffN(gg);
728 MatrixAdaptor col_diff_base_function = col_data.getDiffN(gg);
729
730 //const double lambda = 1;
732 row_diff_base_function,trans(col_diff_base_function));
733 }
736 row_data.getIndices().size(),
737 &row_data.getIndices()[0],
738 col_data.getIndices().size(),
739 &col_data.getIndices()[0],
740 &commonData.locA(0,0),
741 ADD_VALUES
742 ); CHKERRQ(ierr);
743
744 // Assemble off symmetric side
745 if(row_side!=col_side || row_type!=col_type) {
746 commonData.transLocA.resize(commonData.locA.size2(),commonData.locA.size1(),false);
747 noalias(commonData.transLocA) = trans(commonData.locA);
750 col_data.getIndices().size(),
751 &col_data.getIndices()[0],
752 row_data.getIndices().size(),
753 &row_data.getIndices()[0],
754 &commonData.transLocA(0,0),
755 ADD_VALUES
756 ); CHKERRQ(ierr);
757 }
758
759 PetscFunctionReturn(0);
760 }
static PetscErrorCode ierr
VectorShallowArrayAdaptor< double > VectorAdaptor
Definition: Types.hpp:115
MatrixShallowArrayAdaptor< double > MatrixAdaptor
Matrix adaptor.
Definition: Types.hpp:132
MoFEMErrorCode MatSetValues(Mat M, const EntitiesFieldData::EntData &row_data, const EntitiesFieldData::EntData &col_data, const double *ptr, InsertMode iora)
Assemble PETSc matrix.
MatrixDouble locA
Local element matrix.
Mat globA
Global matrix.
MatrixDouble & getGaussPts()
matrix of integration (Gauss) points for Volume Element

Member Data Documentation

◆ commonData

CommonData& BoneRemodeling::OpCalculateLhs::commonData

Definition at line 691 of file DensityMaps.hpp.

◆ dataFromMetaIo

DataFromMetaIO& BoneRemodeling::OpCalculateLhs::dataFromMetaIo

Definition at line 692 of file DensityMaps.hpp.


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