v0.15.0
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OpAssembleVolumePositiveDefine Struct Reference

#include "users_modules/eshelbian_plasticity/src/EshelbianOperators.hpp"

Inheritance diagram for OpAssembleVolumePositiveDefine:
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Collaboration diagram for OpAssembleVolumePositiveDefine:
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Public Member Functions

MoFEMErrorCode doWork (int side, EntityType type, EntData &data)
 Operator for linear form, usually to calculate values on right hand side.
 
MoFEMErrorCode doWork (int row_side, int col_side, EntityType row_type, EntityType col_type, EntData &row_data, EntData &col_data)
 Operator for bi-linear form, usually to calculate values on left hand side.
 
- Public Member Functions inherited from OpAssembleVolume
MoFEMErrorCode assemble (int row_side, int col_side, EntityType row_type, EntityType col_type, EntData &row_data, EntData &col_data)
 
- Public Member Functions inherited from OpAssembleBasic< VolUserDataOperator >
 OpAssembleBasic (const std::string &field_name, boost::shared_ptr< DataAtIntegrationPts > data_ptr, const char type)
 
 OpAssembleBasic (std::string row_field, std::string col_field, boost::shared_ptr< DataAtIntegrationPts > data_ptr, const char type, const bool assemble_symmetry, ScaleOff scale_off=[]() { return 1;})
 
 OpAssembleBasic (const FieldSpace space)
 
virtual MoFEMErrorCode integrate (EntData &data)
 
virtual MoFEMErrorCode integrate (int row_side, EntityType row_type, EntData &data)
 
virtual MoFEMErrorCode integrate (EntData &row_data, EntData &col_data)
 
virtual MoFEMErrorCode assemble (EntData &data)
 
virtual MoFEMErrorCode assemble (int row_side, EntityType row_type, EntData &data)
 
- Public Member Functions inherited from MoFEM::VolumeElementForcesAndSourcesCore::UserDataOperator
int getNumNodes ()
 get element number of nodes
 
const EntityHandlegetConn ()
 get element connectivity
 
double getVolume () const
 element volume (linear geometry)
 
doublegetVolume ()
 element volume (linear geometry)
 
FTensor::Tensor2< double *, 3, 3 > & getJac ()
 get element Jacobian
 
FTensor::Tensor2< double *, 3, 3 > & getInvJac ()
 get element inverse Jacobian
 
VectorDoublegetCoords ()
 nodal coordinates
 
VolumeElementForcesAndSourcesCoregetVolumeFE () 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)
 
 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.
 
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< SideNumbergetSideNumberPtr (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 FEMethodgetFEMethod () 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.
 
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
 
auto getFTensor0IntegrationWeight ()
 Get integration weights.
 
MatrixDoublegetCoordsAtGaussPts ()
 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
 
doublegetMeasure ()
 get measure of element
 
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 opLhs (EntitiesFieldData &row_data, EntitiesFieldData &col_data)
 
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
 

Additional Inherited Members

- Public Types inherited from OpAssembleVolume
using OP = OpAssembleBasic<VolUserDataOperator>
 
- Public Types inherited from OpAssembleBasic< VolUserDataOperator >
using ScaleOff
 
- 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
 
- Public Types inherited from MoFEM::DataOperator
using DoWorkLhsHookFunType
 
using DoWorkRhsHookFunType
 
- Public Attributes inherited from OpAssembleBasic< VolUserDataOperator >
const bool assembleSymmetry
 
boost::shared_ptr< DataAtIntegrationPtsdataAtPts
 data at integration pts
 
VectorDouble nF
 local right hand side vector
 
MatrixDouble K
 local tangent matrix
 
MatrixDouble transposeK
 
ScaleOff scaleOff
 
- 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.
 
booldoVertices
 \deprectaed If false skip vertices
 
booldoEdges
 \deprectaed If false skip edges
 
booldoQuads
 \deprectaed
 
booldoTris
 \deprectaed
 
booldoTets
 \deprectaed
 
booldoPrisms
 \deprectaed
 
- 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 Member Functions inherited from MoFEM::ForcesAndSourcesCore::UserDataOperator
- Protected Attributes inherited from MoFEM::ForcesAndSourcesCore::UserDataOperator
ForcesAndSourcesCoreptrFE
 
- Static Protected Attributes inherited from OpAssembleVolume
static std::map< std::pair< std::string, std::string >, MatrixDouble > mapMatrix
 

Detailed Description

Definition at line 194 of file EshelbianOperators.hpp.

Member Function Documentation

◆ doWork() [1/2]

MoFEMErrorCode OpAssembleVolumePositiveDefine::doWork ( int row_side,
int col_side,
EntityType row_type,
EntityType col_type,
EntData & row_data,
EntData & col_data )
inlinevirtual

Operator for bi-linear form, usually to calculate values on left hand side.

Reimplemented from OpAssembleBasic< VolUserDataOperator >.

Definition at line 203 of file EshelbianOperators.hpp.

205 {
207 if (row_data.getIndices().empty())
209 if (col_data.getIndices().empty())
211 K.resize(row_data.getIndices().size(), col_data.getIndices().size(), false);
212 K.clear();
213 CHKERR integrate(row_data, col_data);
214
215 constexpr bool run_psd = true;
216
217 if (run_psd) {
218
219 auto symmetrize = [](MatrixDouble &mat) {
220 MatrixDouble r = (mat + trans(mat)) / 2.0;
221 return r;
222 };
223 auto check_positive_definite = [](MatrixDouble &mat) {
224 int n = mat.size1();
225 return (lapack_dpotrf('U', n, mat.data().data(), n) == 0);
226 };
227 auto frobenius_norm = [](MatrixDouble &mat) {
228 double sum = 0.0;
229 for (std::size_t i = 0; i < mat.size1(); ++i)
230 for (std::size_t j = 0; j < mat.size2(); ++j)
231 sum += mat(i, j) * mat(i, j);
232 return std::sqrt(sum);
233 };
234
235 auto higham_method_one_pass = [&](MatrixDouble &mat) {
236 int n = mat.size1();
237 const int lda = n;
238 const int size = (n + 2) * n;
239 int lwork = size;
240 double *work = new double[size];
241
242 VectorDouble eig(n, 0.0);
243 MatrixDouble eigen_vec = prod(trans(mat), mat);
244 if (lapack_dsyev('V', 'U', n, eigen_vec.data().data(), lda,
245 eig.data().data(), work, lwork) > 0)
247 "The algorithm failed to compute eigenvalues.");
248 delete[] work;
249
250 for (auto &e : eig) {
251 constexpr double eps = std::numeric_limits<double>::epsilon();
252 e = std::max(std::sqrt(std::abs(e)), eps);
253 }
254
255 auto diagonal_matrix =
256 ublas::diagonal_matrix<double, ublas::row_major,
257 VecAllocator<double>>(n, eig.data());
258 MatrixDouble symm_mat;
259 symm_mat = prod(trans(eigen_vec), diagonal_matrix);
260 symm_mat = prod(symm_mat, eigen_vec);
261
262 MatrixDouble hat_m = (mat + symm_mat) / 2.0;
263
264 return hat_m;
265 };
266
267 auto hat_k = higham_method_one_pass(K);
268 K.swap(hat_k);
269 }
270
271 CHKERR assemble(row_side, col_side, row_type, col_type, row_data, col_data);
273 }
static const double eps
#define CHK_THROW_MESSAGE(err, msg)
Check and throw MoFEM exception.
#define MoFEMFunctionReturnHot(a)
Last executable line of each PETSc function used for error handling. Replaces return()
#define MoFEMFunctionBegin
First executable line of each MoFEM function, used for error handling. Final line of MoFEM functions ...
@ MOFEM_INVALID_DATA
Definition definitions.h:36
#define MoFEMFunctionReturn(a)
Last executable line of each PETSc function used for error handling. Replaces return()
#define CHKERR
Inline error check.
FTensor::Index< 'i', SPACE_DIM > i
const double n
refractive index of diffusive medium
static __CLPK_integer lapack_dpotrf(char uplo, __CLPK_integer n, __CLPK_doublereal *a, __CLPK_integer lda)
static __CLPK_integer lapack_dsyev(char jobz, char uplo, __CLPK_integer n, __CLPK_doublereal *a, __CLPK_integer lda, __CLPK_doublereal *w, __CLPK_doublereal *work, __CLPK_integer lwork)
FTensor::Index< 'j', 3 > j
int r
Definition sdf.py:8
const VectorInt & getIndices() const
Get global indices of dofs on entity.
virtual MoFEMErrorCode integrate(EntData &data)
MoFEMErrorCode assemble(int row_side, int col_side, EntityType row_type, EntityType col_type, EntData &row_data, EntData &col_data)

◆ doWork() [2/2]

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

Operator for linear form, usually to calculate values on right hand side.

Reimplemented from OpAssembleBasic< VolUserDataOperator >.

Definition at line 196 of file EshelbianOperators.hpp.

196 {
198 SETERRQ(PETSC_COMM_SELF, MOFEM_NOT_IMPLEMENTED,
199 "OpAssembleVolumePositiveDefine not implemented");
201 }
@ MOFEM_NOT_IMPLEMENTED
Definition definitions.h:32

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