escript  Revision_
speckley/src/SpeckleyDomain.h
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1 
2 /*****************************************************************************
3 *
4 * Copyright (c) 2003-2020 by The University of Queensland
5 * http://www.uq.edu.au
6 *
7 * Primary Business: Queensland, Australia
8 * Licensed under the Apache License, version 2.0
9 * http://www.apache.org/licenses/LICENSE-2.0
10 *
11 * Development until 2012 by Earth Systems Science Computational Center (ESSCC)
12 * Development 2012-2013 by School of Earth Sciences
13 * Development from 2014-2017 by Centre for Geoscience Computing (GeoComp)
14 * Development from 2019 by School of Earth and Environmental Sciences
15 **
16 *****************************************************************************/
17 
18 #ifndef __Speckley_DOMAIN_H__
19 #define __Speckley_DOMAIN_H__
20 
21 #include <speckley/Speckley.h>
22 #include <speckley/SpeckleyException.h>
23 #include <speckley/AbstractAssembler.h>
24 #include <speckley/domainhelpers.h>
25 
26 #include <escript/AbstractContinuousDomain.h>
27 #include <escript/Data.h>
28 #include <escript/FunctionSpace.h>
29 #include <escript/SubWorld.h>
30 
31 #include <boost/python/tuple.hpp>
32 #include <boost/python/list.hpp>
33 
34 namespace speckley {
35 
38 };
39 
40 /* There is no particular significance to this type,
41 It is here as a typedef because a bug in clang++ prevents
42 that compiler from recognising it as a valid part of
43 a constant expression.
44 */
45 typedef std::map<std::string, int> simap_t;
46 
47 
53 {
55  std::vector<dim_t> first;
57  std::vector<dim_t> numValues;
60  std::vector<int> multiplier;
62  std::vector<int> reverse;
64  int byteOrder;
66  int dataType;
67 };
68 
73 struct DiracPoint
74 {
76  int tag;
77 };
78 
86 {
87 public:
93 
98  ~SpeckleyDomain();
99 
104  virtual escript::JMPI getMPI() const { return m_mpiInfo; }
105 
110  virtual int getMPISize() const { return m_mpiInfo->size; }
111 
116  virtual int getMPIRank() const { return m_mpiInfo->rank; }
117 
122  virtual void MPIBarrier() const {
123 #ifdef ESYS_MPI
124  MPI_Barrier(m_mpiInfo->comm);
125 #endif
126  }
127 
132  virtual bool onMasterProcessor() const { return getMPIRank()==0; }
133 
138  MPI_Comm getMPIComm() const { return m_mpiInfo->comm; }
139 
145  virtual bool isValidFunctionSpaceType(int fsType) const;
146 
151  virtual std::string functionSpaceTypeAsString(int fsType) const;
152 
157  virtual int getDim() const { return m_numDim; }
158 
162  virtual bool operator==(const escript::AbstractDomain& other) const;
163 
167  virtual bool operator!=(const escript::AbstractDomain& other) const {
168  return !(operator==(other));
169  }
170 
177  virtual std::pair<int,dim_t> getDataShape(int fsType) const;
178 
185  int getTagFromSampleNo(int fsType, dim_t sampleNo) const;
186 
193  virtual void setTagMap(const std::string& name, int tag) {
194  m_tagMap[name] = tag;
195  }
196 
202  virtual int getTag(const std::string& name) const {
203  if (m_tagMap.find(name) != m_tagMap.end()) {
204  return m_tagMap.find(name)->second;
205  } else {
206  throw SpeckleyException("getTag: invalid tag name");
207  }
208  }
209 
215  virtual bool isValidTagName(const std::string& name) const {
216  return (m_tagMap.find(name)!=m_tagMap.end());
217  }
218 
223  virtual std::string showTagNames() const;
224 
230  virtual void setNewX(const escript::Data& arg);
231 
237  virtual void interpolateOnDomain(escript::Data& target,
238  const escript::Data& source) const;
239 
245  virtual bool probeInterpolationOnDomain(int fsType_source,
246  int fsType_target) const;
247 
255  virtual signed char preferredInterpolationOnDomain(int fsType_source,
256  int fsType_target) const;
257 
264  bool
265  commonFunctionSpace(const std::vector<int>& fs, int& resultcode) const;
266 
272  virtual void interpolateAcross(escript::Data& target,
273  const escript::Data& source) const = 0;
274 
280  int) const = 0;
281 
286  virtual escript::Data getX() const;
287 
288 #ifdef ESYS_HAVE_BOOST_NUMPY
289 
293  virtual boost::python::numpy::ndarray getNumpyX() const;
294 
298  virtual boost::python::numpy::ndarray getConnectivityInfo() const;
299 #endif
300 
305  virtual escript::Data getNormal() const;
306 
310  virtual escript::Data getSize() const;
311 
317  virtual void setToX(escript::Data& arg) const;
318 
325  virtual void setToGradient(escript::Data& out,
326  const escript::Data& in) const;
327 
333  virtual void setTags(int fsType, int newTag, const escript::Data& mask) const;
334 
340  virtual bool isCellOriented(int fsType) const;
341 
348  virtual StatusType getStatus() const { return m_status; }
349 
354  virtual int getNumberOfTagsInUse(int fsType) const;
355 
360  virtual const int* borrowListOfTagsInUse(int fsType) const;
361 
366  virtual bool canTag(int fsType) const;
367 
372  virtual int getApproximationOrder(int fsType) const { return 1; }
373 
378  virtual bool supportsContactElements() const { return false; }
379 
384  virtual int getContinuousFunctionCode() const { return Nodes; }
385 
390  virtual int getReducedContinuousFunctionCode() const {
391  throw SpeckleyException("Speckley does not support reduced functionspaces");
392  }
393 
398  virtual int getFunctionCode() const { return Elements; }
399 
404  virtual int getReducedFunctionCode() const {
405  return ReducedElements;
406  }
407 
412  virtual int getFunctionOnBoundaryCode() const {
413  throw SpeckleyException("Speckley does not support face elements");
414  }
415 
421  virtual int getReducedFunctionOnBoundaryCode() const {
422  throw SpeckleyException("Speckley does not support face elements");
423  }
424 
429  virtual int getFunctionOnContactZeroCode() const {
430  throw SpeckleyException("Speckley does not support contact elements");
431  }
432 
438  throw SpeckleyException("Speckley does not support contact elements");
439  }
440 
445  virtual int getFunctionOnContactOneCode() const {
446  throw SpeckleyException("Speckley does not support contact elements");
447  }
448 
454  throw SpeckleyException("Speckley does not support contact elements");
455  }
456 
461  virtual int getSolutionCode() const {
462  return DegreesOfFreedom;
463  }
464 
469  virtual int getReducedSolutionCode() const {
470  throw SpeckleyException("Speckley does not support reduced function spaces");
471  }
472 
477  virtual int getDiracDeltaFunctionsCode() const { return Points; }
478 
487  virtual int getSystemMatrixTypeId(const boost::python::object& options) const;
488 
498  virtual int getTransportTypeId(int solver, int preconditioner, int package,
499  bool symmetry) const;
500 
506  virtual void setToIntegrals(std::vector<real_t>& integrals,
507  const escript::Data& arg) const;
508  virtual void setToIntegrals(std::vector<cplx_t>& integrals,
509  const escript::Data& arg) const;
510 
511 
517  virtual void addToSystem(escript::AbstractSystemMatrix& mat,
518  escript::Data& rhs, const DataMap& data,
519  Assembler_ptr assembler) const;
520 
525  virtual void addToSystemFromPython(escript::AbstractSystemMatrix& mat,
526  escript::Data& rhs, const boost::python::list& data,
527  Assembler_ptr assembler) const;
528 
534  virtual void addToRHS(escript::Data& rhs, const DataMap& data,
535  Assembler_ptr assembler) const;
536 
541  virtual void addToRHSFromPython(escript::Data& rhs,
542  const boost::python::list& data,
543  Assembler_ptr assembler) const;
544 
550  virtual void addPDEToTransportProblem(escript::AbstractTransportProblem& tp,
551  escript::Data& source, const DataMap& data,
552  Assembler_ptr assembler) const;
557  void addPDEToTransportProblemFromPython(
559  escript::Data& source, const boost::python::list& data,
560  Assembler_ptr assembler) const;
561 
566  virtual escript::ASM_ptr newSystemMatrix(int row_blocksize,
567  const escript::FunctionSpace& row_functionspace,
568  int column_blocksize,
569  const escript::FunctionSpace& column_functionspace, int type) const;
570 
575  virtual escript::ATP_ptr newTransportProblem(int blocksize,
576  const escript::FunctionSpace& functionspace,
577  int type) const;
578 
584  virtual void Print_Mesh_Info(bool full=false) const;
585 
586 
587  /************************************************************************/
588 
594  virtual void write(const std::string& filename) const = 0;
595 
600  virtual std::string getDescription() const = 0;
601 
607  void dump(const std::string& filename) const = 0;
608 
614  const index_t* borrowSampleReferenceIDs(int fsType) const = 0;
615 
622  virtual void setToNormal(escript::Data& out) const = 0;
623 
629  virtual void setToSize(escript::Data& out) const = 0;
630 
635  virtual void readNcGrid(escript::Data& out, std::string filename,
636  std::string varname, const ReaderParameters& params) const = 0;
637 
642  virtual void readBinaryGrid(escript::Data& out, std::string filename,
643  const ReaderParameters& params) const = 0;
644 
650  std::string filename, const ReaderParameters& params) const = 0;
651 
656  virtual void writeBinaryGrid(const escript::Data& in, std::string filename,
657  int byteOrder, int dataType) const = 0;
658 
663  virtual bool ownSample(int fsType, index_t id) const = 0;
664 
669  virtual dim_t getNumDataPointsGlobal() const = 0;
670 
675  virtual const dim_t* getNumNodesPerDim() const = 0;
676 
681  virtual const dim_t* getNumElementsPerDim() const = 0;
682 
688  virtual const dim_t* getNumFacesPerBoundary() const = 0;
689 
694  virtual IndexVector getNodeDistribution() const = 0;
695 
700  virtual const int* getNumSubdivisionsPerDim() const = 0;
701 
706  virtual double getLocalCoordinate(dim_t index, int dim) const = 0;
707 
712  virtual boost::python::tuple getGridParameters() const = 0;
713 
719  virtual bool supportsFilter(const boost::python::tuple& t) const;
720 
724  virtual Assembler_ptr createAssembler(const std::string type,
725  const DataMap& options) const {
726  throw SpeckleyException("Domain does not support custom assemblers");
727  }
728 
729  Assembler_ptr createAssemblerFromPython(const std::string type,
730  const boost::python::list& options) const;
731 
736  virtual const double *getLength() const = 0;
737 
742  inline int getOrder() const { return m_order;}
743 
744 protected:
745  int m_numDim;
749  mutable std::vector<int> m_nodeTags, m_nodeTagsInUse;
750  mutable std::vector<int> m_elementTags, m_elementTagsInUse;
751  std::vector<DiracPoint> m_diracPoints;
752  IndexVector m_diracPointNodeIDs; //for borrowSampleID
755  int m_order;
756 
758  template<typename Scalar>
759  void copyData(escript::Data& out, const escript::Data& in) const;
760 
761  // this is const because setTags is const
762  void updateTagsInUse(int fsType) const;
763 
764  void addToSystemMatrix(escript::AbstractSystemMatrix* mat,
765  const IndexVector& nodes, dim_t numEq,
766  const DoubleVector& array) const;
767 
768  void addPoints(const std::vector<double>& coords,
769  const std::vector<int>& tags);
770 
772  template<typename Scalar>
773  void multiplyData(escript::Data& out, const escript::Data& in) const;
774 
775  /***********************************************************************/
776 
778  virtual dim_t getNumNodes() const = 0;
779 
781  virtual dim_t getNumElements() const = 0;
782 
784  virtual dim_t getNumDOF() const = 0;
785 
787  virtual void assembleCoordinates(escript::Data& arg) const = 0;
788 
790  virtual void assembleGradient(escript::Data& out,
791  const escript::Data& in) const = 0;
792 
794  virtual void assembleIntegrate(std::vector<real_t>& integrals,
795  const escript::Data& arg) const = 0;
796  virtual void assembleIntegrate(std::vector<cplx_t>& integrals,
797  const escript::Data& arg) const = 0;
798 
801  const escript::Data& in,
802  bool reduced) const = 0;
803 
806  const escript::Data& in) const = 0;
807 
808  virtual dim_t getDofOfNode(dim_t node) const = 0;
809 
811  virtual void reduceElements(escript::Data& out, const escript::Data& in) const = 0;
812 
813 #ifdef ESYS_MPI
814  virtual void balanceNeighbours(escript::Data& data, bool average) const = 0;
816 #endif
817 
818 private:
820  void assemblePDE(escript::AbstractSystemMatrix* mat, escript::Data& rhs,
821  const DataMap& coefs, Assembler_ptr assembler) const;
822 
825  void assemblePDEBoundary(escript::AbstractSystemMatrix* mat,
826  escript::Data& rhs, const DataMap& coefs,
827  Assembler_ptr assembler) const;
828 
829  void assemblePDEDiracWrap(escript::AbstractSystemMatrix* mat,
830  escript::Data& rhs, const DataMap& coefs,
831  Assembler_ptr assembler) const;
832 
833  void assemblePDEDirac(escript::AbstractSystemMatrix* mat,
834  escript::Data& rhs, const DataMap& coefs,
835  Assembler_ptr assembler) const;
836  void assembleComplexPDEDirac(escript::AbstractSystemMatrix* mat,
837  escript::Data& rhs, const DataMap& coefs,
838  Assembler_ptr assembler) const;
839 
840  template<typename Scalar>
841  void setToIntegralsWorker(std::vector<Scalar>& integrals,
842  const escript::Data& arg) const;
843 
845  virtual dim_t findNode(const double *coords) const = 0;
846 };
847 
848 } // end of namespace speckley
849 
850 #endif // __Speckley_DOMAIN_H__
speckley::DATATYPE_INT32
@ DATATYPE_INT32
Definition: speckley/src/system_dep.h:63
speckley::simap_t
std::map< std::string, int > simap_t
Definition: speckley/src/SpeckleyDomain.h:45
speckley::TagMap
std::map< std::string, int > TagMap
Definition: Speckley.h:46
speckley::SpeckleyDomain::probeInterpolationAcross
virtual bool probeInterpolationAcross(int, const escript::AbstractDomain &, int) const =0
determines whether interpolation from source to target is possible
weipa::SpeckleyDomain::initFromFile
virtual bool initFromFile(const std::string &filename)
Reads the domain from a dump file.
Definition: weipa/src/SpeckleyDomain.cpp:69
speckley::SpeckleyDomain::addToSystemMatrix
void addToSystemMatrix(escript::AbstractSystemMatrix *mat, const IndexVector &nodes, dim_t numEq, const DoubleVector &array) const
Definition: speckley/src/SpeckleyDomain.cpp:903
escript::Data::getNumDataPointsPerSample
int getNumDataPointsPerSample() const
Return the number of data points per sample.
Definition: Data.h:544
escript::Data::isComplex
bool isComplex() const
True if components of this data are stored as complex.
Definition: Data.cpp:1160
speckley::readNcGrid
escript::Data readNcGrid(std::string filename, std::string varname, escript::FunctionSpace fs, const object &pyShape, double fill, const object &pyFirst, const object &pyNum, const object &pyMultiplier, const object &pyReverse)
Definition: speckleycpp.cpp:115
escript::FunctionSpace::getSize
escript::Data getSize() const
Returns the sample size (e.g. the diameter of elements, radius of particles).
Definition: FunctionSpace.cpp:295
speckley::SpeckleyDomain::preferredInterpolationOnDomain
virtual signed char preferredInterpolationOnDomain(int fsType_source, int fsType_target) const
Preferred direction of interpolation. If you really need to test for a particular direction,...
Definition: speckley/src/SpeckleyDomain.cpp:262
speckley::SpeckleyDomain::showTagNames
virtual std::string showTagNames() const
returns all tag names in a single string separated by commas
Definition: speckley/src/SpeckleyDomain.cpp:138
speckley::DoubleVector
std::vector< real_t > DoubleVector
Definition: Speckley.h:45
REGISTER_ESCRIPT_EXCEPTION_TRANSLATORS
#define REGISTER_ESCRIPT_EXCEPTION_TRANSLATORS
Definition: ExceptionTranslators.h:27
speckley::SpeckleyDomain::getLocalCoordinate
virtual double getLocalCoordinate(dim_t index, int dim) const =0
returns the index'th coordinate value in given dimension for this rank
speckley::SpeckleyDomain::addPDEToTransportProblem
virtual void addPDEToTransportProblem(escript::AbstractTransportProblem &tp, escript::Data &source, const DataMap &data, Assembler_ptr assembler) const
adds a PDE onto a transport problem
Definition: speckley/src/SpeckleyDomain.cpp:795
speckley::SpeckleyDomain::addPoints
void addPoints(const std::vector< double > &coords, const std::vector< int > &tags)
Definition: speckley/src/SpeckleyDomain.cpp:1134
speckley::assembler_t
assembler_t
Definition: speckley/src/SpeckleyDomain.h:36
speckley::SpeckleyDomain::getDescription
virtual std::string getDescription() const =0
returns a description for this domain
speckley::SpeckleyDomain::setToX
virtual void setToX(escript::Data &arg) const
copies the location of data points into arg. The domain of arg has to match this domain.
Definition: speckley/src/SpeckleyDomain.cpp:450
escript::Data::requireWrite
void requireWrite()
Ensures data is ready for write access. This means that the data will be resolved if lazy and will be...
Definition: Data.cpp:1239
weipa::SpeckleyDomain
Represents a full Speckley domain including nodes and elements.
Definition: weipa/src/SpeckleyDomain.h:37
weipa::SpeckleyDomain::getCenteringForFunctionSpace
virtual Centering getCenteringForFunctionSpace(int fsCode) const
Returns whether data on given function space is node or cell centered.
Definition: weipa/src/SpeckleyDomain.cpp:75
speckley::SpeckleyDomain::operator!=
virtual bool operator!=(const escript::AbstractDomain &other) const
inequality operator
Definition: speckley/src/SpeckleyDomain.h:167
speckley::SpeckleyDomain::m_diracPointNodeIDs
IndexVector m_diracPointNodeIDs
Definition: speckley/src/SpeckleyDomain.h:752
speckley::SpeckleyDomain::getNormal
virtual escript::Data getNormal() const
returns boundary normals at the quadrature point on the face elements
Definition: speckley/src/SpeckleyDomain.cpp:440
speckley::SpeckleyDomain::m_order
int m_order
element order (will be m_order + 1 quad points in each axis)
Definition: speckley/src/SpeckleyDomain.h:755
speckley::DATATYPE_FLOAT64
@ DATATYPE_FLOAT64
Definition: speckley/src/system_dep.h:65
speckley::ReducedDegreesOfFreedom
@ ReducedDegreesOfFreedom
Definition: Speckley.h:60
speckley::SpeckleyDomain::supportsContactElements
virtual bool supportsContactElements() const
returns true if this domain supports contact elements, false otherwise
Definition: speckley/src/SpeckleyDomain.h:378
INDEX2
#define INDEX2(_X1_, _X2_, _N1_)
Definition: index.h:23
speckley::SpeckleyDomain::addToRHSFromPython
virtual void addToRHSFromPython(escript::Data &rhs, const boost::python::list &data, Assembler_ptr assembler) const
a wrapper for addToRHS that allows calling from Python
Definition: speckley/src/SpeckleyDomain.cpp:751
escript::Data::getSampleDataRO
const DataTypes::real_t * getSampleDataRO(DataTypes::RealVectorType::size_type sampleNo, DataTypes::real_t dummy=0) const
Return the sample data for the given sample no. Please do not use this unless you NEED to access samp...
Definition: Data.h:1991
speckley::SpeckleyDomain::copyData
void copyData(escript::Data &out, const escript::Data &in) const
copies data in 'in' to 'out' (both must be on same function space)
Definition: speckley/src/SpeckleyDomain.cpp:810
speckley::_rectangle
escript::Domain_ptr _rectangle(int order, double _n0, double _n1, const object &l0, const object &l1, int d0, int d1, const object &objpoints, const object &objtags, escript::SubWorld_ptr world)
Definition: speckleycpp.cpp:235
weipa::VisItControl::initialized
bool initialized
Definition: VisItControl.cpp:38
speckley::SpeckleyDomain::addToSystem
virtual void addToSystem(escript::AbstractSystemMatrix &mat, escript::Data &rhs, const DataMap &data, Assembler_ptr assembler) const
adds a PDE onto the stiffness matrix mat and rhs, used for custom solvers with varying arguments coun...
Definition: speckley/src/SpeckleyDomain.cpp:726
speckley::ReducedFaceElements
@ ReducedFaceElements
Definition: Speckley.h:66
speckley::SpeckleyDomain::interpolateOnDomain
virtual void interpolateOnDomain(escript::Data &target, const escript::Data &source) const
interpolates data given on source onto target where source and target have to be given on the same do...
Definition: speckley/src/SpeckleyDomain.cpp:306
escript::continuousFunction
FunctionSpace continuousFunction(const AbstractDomain &domain)
Create function space objects.
Definition: FunctionSpaceFactory.cpp:31
speckley::SpeckleyDomain::ownSample
virtual bool ownSample(int fsType, index_t id) const =0
returns true if this rank owns the sample id on given function space
weipa::SpeckleyDomain::siloPath
std::string siloPath
Definition: weipa/src/SpeckleyDomain.h:66
escript::Data::getDataPointShape
const DataTypes::ShapeType & getDataPointShape() const
Return a reference to the data point shape.
Definition: Data.h:705
speckley::SpeckleyDomain::onMasterProcessor
virtual bool onMasterProcessor() const
returns true if on MPI processor 0, else false
Definition: speckley/src/SpeckleyDomain.h:132
speckley::SpeckleyDomain::createAssemblerFromPython
Assembler_ptr createAssemblerFromPython(const std::string type, const boost::python::list &options) const
Definition: speckley/src/SpeckleyDomain.cpp:743
speckley::SpeckleyDomain::getSolutionCode
virtual int getSolutionCode() const
returns a Solution FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:461
speckley::SpeckleyDomain::getApproximationOrder
virtual int getApproximationOrder(int fsType) const
returns the approximation order used for a function space
Definition: speckley/src/SpeckleyDomain.h:372
speckley::SpeckleyDomain::dump
void dump(const std::string &filename) const =0
dumps the mesh to a file with the given name
speckley::SpeckleyDomain::getOrder
int getOrder() const
returns the order of the domain
Definition: speckley/src/SpeckleyDomain.h:742
speckley::SpeckleyDomain::isValidFunctionSpaceType
virtual bool isValidFunctionSpaceType(int fsType) const
returns true if the argument is a valid function space type for this domain
Definition: speckley/src/SpeckleyDomain.cpp:79
speckley::SpeckleyDomain::m_nodeTags
std::vector< int > m_nodeTags
Definition: speckley/src/SpeckleyDomain.h:749
speckley::ReaderParameters::byteOrder
int byteOrder
byte order in the file (used by binary reader only)
Definition: speckley/src/SpeckleyDomain.h:64
escript::AbstractDomain::StatusType
int StatusType
Definition: AbstractDomain.h:53
speckley::SpeckleyDomain::assembleGradient
virtual void assembleGradient(escript::Data &out, const escript::Data &in) const =0
computes the gradient of 'in' and puts the result in 'out'
speckley::SpeckleyDomain::m_status
StatusType m_status
Definition: speckley/src/SpeckleyDomain.h:746
speckley::readBinaryGridFromZipped
escript::Data readBinaryGridFromZipped(std::string filename, escript::FunctionSpace fs, const object &pyShape, double fill, int byteOrder, int dataType, const object &pyFirst, const object &pyNum, const object &pyMultiplier, const object &pyReverse)
Definition: speckleycpp.cpp:86
speckley::SpeckleyDomain::getReducedFunctionCode
virtual int getReducedFunctionCode() const
returns a function with reduced integration order FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:404
speckley::SpeckleyDomain::assemblePDEBoundary
void assemblePDEBoundary(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
Definition: speckley/src/SpeckleyDomain.cpp:969
speckley::SpeckleyDomain::SpeckleyDomain
SpeckleyDomain(dim_t dim, int order, escript::SubWorld_ptr p=escript::SubWorld_ptr())
Constructor with number of dimensions. Allocates MPI info structure.
Definition: speckley/src/SpeckleyDomain.cpp:51
speckley::SpeckleyDomain::m_numDim
int m_numDim
Definition: speckley/src/SpeckleyDomain.h:745
weipa::SpeckleyDomain::getMeshByName
virtual NodeData_ptr getMeshByName(const std::string &name) const
Returns the node mesh with given name.
Definition: weipa/src/SpeckleyDomain.cpp:200
weipa::SpeckleyNodes_ptr
boost::shared_ptr< SpeckleyNodes > SpeckleyNodes_ptr
Definition: SpeckleyNodes.h:31
escript::Domain_ptr
boost::shared_ptr< AbstractDomain > Domain_ptr
Definition: AbstractDomain.h:41
escript::AbstractTransportProblem
Give a short description of what AbstractTransportProblem does.
Definition: AbstractTransportProblem.h:45
speckley::SpeckleyDomain::setToGradient
virtual void setToGradient(escript::Data &out, const escript::Data &in) const
copies the gradient of 'in' into 'out'. The actual function space to be considered for the gradient i...
Definition: speckley/src/SpeckleyDomain.cpp:469
speckley::SpeckleyDomain::getReducedFunctionOnBoundaryCode
virtual int getReducedFunctionOnBoundaryCode() const
returns a function on boundary with reduced integration order FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:421
speckley::SpeckleyDomain::Print_Mesh_Info
virtual void Print_Mesh_Info(bool full=false) const
writes information about the mesh to standard output
Definition: speckley/src/SpeckleyDomain.cpp:692
escript::Data::getDataPointSize
int getDataPointSize() const
Return the size of the data point. It is the product of the data point shape dimensions.
Definition: Data.cpp:1360
speckley::SpeckleyDomain::setNewX
virtual void setNewX(const escript::Data &arg)
assigns new location to the domain.
Definition: speckley/src/SpeckleyDomain.cpp:803
weipa::SpeckleyDomain::writeToSilo
virtual bool writeToSilo(DBfile *dbfile, const std::string &pathInSilo, const StringVec &labels, const StringVec &units, bool writeMeshData)
Writes the domain to a Silo file.
Definition: weipa/src/SpeckleyDomain.cpp:222
speckley::ReaderParameters::first
std::vector< dim_t > first
the (global) offset into the data object to start writing into
Definition: speckley/src/SpeckleyDomain.h:55
speckley::SpeckleyDomain::newSystemMatrix
virtual escript::ASM_ptr newSystemMatrix(int row_blocksize, const escript::FunctionSpace &row_functionspace, int column_blocksize, const escript::FunctionSpace &column_functionspace, int type) const
creates a stiffness matrix and initializes it with zeros
Definition: speckley/src/SpeckleyDomain.cpp:719
speckley::SpeckleyDomain::getGridParameters
virtual boost::python::tuple getGridParameters() const =0
returns the tuple (origin, spacing, number_of_elements)
weipa::SpeckleyDomain::getMeshNames
virtual StringVec getMeshNames() const
Returns the names of all meshes within this domain.
Definition: weipa/src/SpeckleyDomain.cpp:126
escript::FunctionSpace
Definition: FunctionSpace.h:36
speckley::SpeckleyDomain::getNumNodes
virtual dim_t getNumNodes() const =0
returns the number of nodes per MPI rank
speckley::SpeckleyDomain::getNumSubdivisionsPerDim
virtual const int * getNumSubdivisionsPerDim() const =0
returns the number of spatial subdivisions in each dimension
escript::makeInfo
JMPI makeInfo(MPI_Comm comm, bool owncom)
Definition: EsysMPI.cpp:29
speckley::SpeckleyDomain::m_diracPoints
std::vector< DiracPoint > m_diracPoints
Definition: speckley/src/SpeckleyDomain.h:751
speckley::SpeckleyDomain::m_elementTagsInUse
std::vector< int > m_elementTagsInUse
Definition: speckley/src/SpeckleyDomain.h:750
weipa::SpeckleyDomain::faces
SpeckleyElements_ptr faces
Definition: weipa/src/SpeckleyDomain.h:65
escript::Data::getFunctionSpace
const FunctionSpace & getFunctionSpace() const
Return the function space.
Definition: Data.h:463
escript::Data::complicate
void complicate()
Definition: Data.cpp:6053
weipa::DataVar_ptr
boost::shared_ptr< DataVar > DataVar_ptr
Definition: weipa.h:65
weipa
Definition: DataVar.cpp:51
escript::FunctionSpace::getDomain
const_Domain_ptr getDomain() const
Returns the function space domain.
Definition: FunctionSpace.cpp:103
MPI_INT
#define MPI_INT
Definition: EsysMPI.h:48
speckley::BYTEORDER_NATIVE
@ BYTEORDER_NATIVE
Definition: speckley/src/system_dep.h:50
speckley::SpeckleyDomain::getReducedSolutionCode
virtual int getReducedSolutionCode() const
returns a ReducedSolution FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:469
speckley
Definition: AbstractAssembler.cpp:19
speckley::SpeckleyDomain::getReducedContinuousFunctionCode
virtual int getReducedContinuousFunctionCode() const
returns a continuous on reduced order nodes FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:390
weipa::ZONE_CENTERED
@ ZONE_CENTERED
Definition: DomainChunk.h:33
speckley::SpeckleyDomain::borrowListOfTagsInUse
virtual const int * borrowListOfTagsInUse(int fsType) const
returns a pointer to the list of tags in use for a function space type
Definition: speckley/src/SpeckleyDomain.cpp:675
escript::Data::getNumSamples
int getNumSamples() const
Return the number of samples.
Definition: Data.h:533
paso::util::copy
void copy(dim_t N, double *out, const double *in)
out = in
Definition: PasoUtil.h:88
speckley::SpeckleyDomain::setTagMap
virtual void setTagMap(const std::string &name, int tag)
sets a map from a clear tag name to a tag key
Definition: speckley/src/SpeckleyDomain.h:193
speckley::readBinaryGrid
escript::Data readBinaryGrid(std::string filename, escript::FunctionSpace fs, const object &pyShape, double fill, int byteOrder, int dataType, const object &pyFirst, const object &pyNum, const object &pyMultiplier, const object &pyReverse)
Definition: speckleycpp.cpp:61
weipa::SpeckleyDomain::initFromEscript
virtual bool initFromEscript(const escript::AbstractDomain *domain)
Initialises the domain using an escript domain instance.
Definition: weipa/src/SpeckleyDomain.cpp:50
speckley::SpeckleyDomain::assembleComplexPDEDirac
void assembleComplexPDEDirac(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
Definition: speckley/src/SpeckleyDomain.cpp:1069
MPI_COMM_WORLD
#define MPI_COMM_WORLD
Definition: EsysMPI.h:50
speckley::SpeckleyDomain::newTransportProblem
virtual escript::ATP_ptr newTransportProblem(int blocksize, const escript::FunctionSpace &functionspace, int type) const
creates a transport problem
Definition: speckley/src/SpeckleyDomain.cpp:782
escript::Data
Data represents a collection of datapoints.
Definition: Data.h:64
speckley::SpeckleyDomain::m_elementTags
std::vector< int > m_elementTags
Definition: speckley/src/SpeckleyDomain.h:750
paso::util::l2
double l2(dim_t n, const double *x, escript::JMPI mpiinfo)
returns the global L2 norm of x
Definition: PasoUtil.cpp:501
weipa::SpeckleyDomain::getDataVarByName
virtual DataVar_ptr getDataVarByName(const std::string &name) const
Creates and returns a variable with domain data.
Definition: weipa/src/SpeckleyDomain.cpp:157
speckley::SpeckleyDomain::getMPI
virtual escript::JMPI getMPI() const
returns a reference to the MPI information wrapper for this domain
Definition: speckley/src/SpeckleyDomain.h:104
escript::FunctionSpace::getX
escript::Data getX() const
Returns the spatial locations of the data points.
Definition: FunctionSpace.cpp:229
escript::DataTypes::dim_t
index_t dim_t
Definition: DataTypes.h:66
speckley::tupleListToMap
void tupleListToMap(DataMap &mapping, const bp::list &list)
Definition: speckley/src/SpeckleyDomain.cpp:36
speckley::ReaderParameters::reverse
std::vector< int > reverse
if non-zero, values are written from last index to first index
Definition: speckley/src/SpeckleyDomain.h:62
speckley::SpeckleyDomain::interpolateNodesOnElements
virtual void interpolateNodesOnElements(escript::Data &out, const escript::Data &in, bool reduced) const =0
interpolates data on nodes in 'in' onto elements in 'out'
speckley::SpeckleyDomain::borrowSampleReferenceIDs
const index_t * borrowSampleReferenceIDs(int fsType) const =0
returns the array of reference numbers for a function space type
escript::JMPI
boost::shared_ptr< JMPI_ > JMPI
Definition: EsysMPI.h:74
speckley::SpeckleyDomain::readBinaryGridFromZipped
virtual void readBinaryGridFromZipped(escript::Data &out, std::string filename, const ReaderParameters &params) const =0
reads grid data from a compressed raw binary file into a Data object
speckley::SpeckleyDomain::getStatus
virtual StatusType getStatus() const
returns a status indicator of the domain. The status identifier should be unique over the lifetime of...
Definition: speckley/src/SpeckleyDomain.h:348
escript::ATP_ptr
boost::shared_ptr< AbstractTransportProblem > ATP_ptr
Definition: AbstractTransportProblem.h:161
escript::AbstractSystemMatrix
Base class for escript system matrices.
Definition: AbstractSystemMatrix.h:44
weipa::SpeckleyElements
Stores and manipulates one type of speckley mesh elements (cells, faces).
Definition: SpeckleyElements.h:46
speckley::DATATYPE_FLOAT32
@ DATATYPE_FLOAT32
Definition: speckley/src/system_dep.h:64
speckley::SpeckleyDomain::getX
virtual escript::Data getX() const
returns locations in the SEM nodes
Definition: speckley/src/SpeckleyDomain.cpp:423
speckley::SpeckleyDomain::m_mpiInfo
escript::JMPI m_mpiInfo
Definition: speckley/src/SpeckleyDomain.h:747
speckley::SpeckleyDomain::setToNormal
virtual void setToNormal(escript::Data &out) const =0
copies the surface normals at data points into out. The actual function space to be considered is def...
escript::Data::getSampleDataRW
DataTypes::real_t * getSampleDataRW(DataTypes::RealVectorType::size_type sampleNo, DataTypes::real_t dummy=0)
Return the sample data for the given sample no. Please do not use this unless you NEED to access samp...
Definition: Data.h:1956
speckley::isComplexCoef
bool isComplexCoef(const std::string target, const DataMap &mapping)
returns true if the target data object is complex
Definition: speckley/src/domainhelpers.h:47
speckley::SpeckleyDomain::getFunctionOnContactZeroCode
virtual int getFunctionOnContactZeroCode() const
return a FunctionOnContactZero code
Definition: speckley/src/SpeckleyDomain.h:429
speckley::SpeckleyDomain::probeInterpolationOnDomain
virtual bool probeInterpolationOnDomain(int fsType_source, int fsType_target) const
returns true if data on fsType_source can be interpolated onto fsType_target, false otherwise
Definition: speckley/src/SpeckleyDomain.cpp:228
speckley::unpackData
escript::Data unpackData(std::string target, std::map< std::string, escript::Data > mapping)
Definition: AbstractAssembler.cpp:21
speckley::SpeckleyDomain::getMPISize
virtual int getMPISize() const
returns the number of processors used for this domain
Definition: speckley/src/SpeckleyDomain.h:110
weipa::ElementData_ptr
boost::shared_ptr< ElementData > ElementData_ptr
Definition: weipa.h:67
speckley::Brick
Brick is the 3-dimensional implementation of a SpeckleyDomain.
Definition: speckley/src/Brick.h:34
speckley::SpeckleyDomain::setTags
virtual void setTags(int fsType, int newTag, const escript::Data &mask) const
assigns new tag newTag to all samples of given function space with a positive value of mask for any o...
Definition: speckley/src/SpeckleyDomain.cpp:600
speckley::SpeckleyDomain::setToIntegrals
virtual void setToIntegrals(std::vector< real_t > &integrals, const escript::Data &arg) const
copies the integrals of the function defined by arg into integrals. arg has to be defined on this dom...
Definition: speckley/src/SpeckleyDomain.cpp:518
speckley::SpeckleyDomain::write
virtual void write(const std::string &filename) const =0
writes the current mesh to a file with the given name
weipa::SpeckleyDomain::reorderGhostZones
virtual void reorderGhostZones(int ownIndex)
Reorders elements so that 'ghost' elements (i.e. those that do not belong to ownIndex) appear last.
Definition: weipa/src/SpeckleyDomain.cpp:212
speckley::SpeckleyDomain::writeBinaryGrid
virtual void writeBinaryGrid(const escript::Data &in, std::string filename, int byteOrder, int dataType) const =0
writes a Data object to a file in raw binary format
weipa::NODE_CENTERED
@ NODE_CENTERED
Definition: DomainChunk.h:32
speckley::SpeckleyDomain::assemblePDEDirac
void assemblePDEDirac(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
Definition: speckley/src/SpeckleyDomain.cpp:1025
speckley::SpeckleyDomain::getNumElementsPerDim
virtual const dim_t * getNumElementsPerDim() const =0
returns the number of elements per MPI rank in each dimension
speckley::SpeckleyDomain
SpeckleyDomain extends the AbstractContinuousDomain interface for the Speckley library and is the bas...
Definition: speckley/src/SpeckleyDomain.h:86
speckley::SpeckleyDomain::getDofOfNode
virtual dim_t getDofOfNode(dim_t node) const =0
speckley::ReducedElements
@ ReducedElements
Definition: Speckley.h:64
speckley::SpeckleyDomain::getMPIComm
MPI_Comm getMPIComm() const
returns the MPI communicator
Definition: speckley/src/SpeckleyDomain.h:138
speckley::SpeckleyDomain::MPIBarrier
virtual void MPIBarrier() const
if compiled for MPI then executes an MPI_Barrier, else does nothing
Definition: speckley/src/SpeckleyDomain.h:122
escript::Data::isEmpty
bool isEmpty() const
Definition: Data.cpp:1132
speckley::SpeckleyDomain::getNumDOF
virtual dim_t getNumDOF() const =0
returns the number of degrees of freedom per MPI rank
weipa::SpeckleyDomain::initialized
bool initialized
Definition: weipa/src/SpeckleyDomain.h:62
speckley::FaceElements
@ FaceElements
Definition: Speckley.h:65
speckley::SpeckleyDomain::isValidTagName
virtual bool isValidTagName(const std::string &name) const
returns true if name is a defined tag name
Definition: speckley/src/SpeckleyDomain.h:215
speckley::SpeckleyDomain::m_tagMap
TagMap m_tagMap
Definition: speckley/src/SpeckleyDomain.h:748
weipa::SpeckleyElements_ptr
boost::shared_ptr< SpeckleyElements > SpeckleyElements_ptr
Definition: SpeckleyElements.h:33
speckley::Rectangle
Rectangle is the 2-dimensional implementation of a SpeckleyDomain.
Definition: speckley/src/Rectangle.h:34
speckley::SpeckleyDomain::getNodeDistribution
virtual IndexVector getNodeDistribution() const =0
returns the node distribution vector
speckley::SpeckleyDomain::getTag
virtual int getTag(const std::string &name) const
returns the tag key for tag name
Definition: speckley/src/SpeckleyDomain.h:202
speckley::DegreesOfFreedom
@ DegreesOfFreedom
Definition: Speckley.h:59
speckley::SpeckleyDomain::m_nodeTagsInUse
std::vector< int > m_nodeTagsInUse
Definition: speckley/src/SpeckleyDomain.h:749
speckley::SpeckleyDomain::getNumNodesPerDim
virtual const dim_t * getNumNodesPerDim() const =0
returns the number of nodes per MPI rank in each dimension
speckley::Elements
@ Elements
Definition: Speckley.h:63
speckley::SpeckleyDomain::getTransportTypeId
virtual int getTransportTypeId(int solver, int preconditioner, int package, bool symmetry) const
returns the identifier of the transport problem type to be used when a particular solver,...
Definition: speckley/src/SpeckleyDomain.cpp:713
weipa::SpeckleyDomain::getElementsForFunctionSpace
virtual ElementData_ptr getElementsForFunctionSpace(int fsCode) const
Returns the element data for given function space code.
Definition: weipa/src/SpeckleyDomain.cpp:97
speckley::SpeckleyDomain::updateTagsInUse
void updateTagsInUse(int fsType) const
Definition: speckley/src/SpeckleyDomain.cpp:844
speckley::SpeckleyDomain::assembler_type
assembler_t assembler_type
Definition: speckley/src/SpeckleyDomain.h:753
weipa::SpeckleyDomain::getVarNames
virtual StringVec getVarNames() const
Returns the names of all 'special' domain variables.
Definition: weipa/src/SpeckleyDomain.cpp:142
speckley::ReducedNodes
@ ReducedNodes
Definition: Speckley.h:62
speckley::SpeckleyDomain::canTag
virtual bool canTag(int fsType) const
checks if this domain allows tags for the specified function space type
Definition: speckley/src/SpeckleyDomain.cpp:581
escript::SubWorld_ptr
boost::shared_ptr< SubWorld > SubWorld_ptr
Definition: SubWorld.h:147
speckley::SpeckleyDomain::getDataShape
virtual std::pair< int, dim_t > getDataShape(int fsType) const
returns the number of data points per sample, and the number of samples as a pair.
Definition: speckley/src/SpeckleyDomain.cpp:112
MPI_MIN
#define MPI_MIN
Definition: EsysMPI.h:55
weipa::SpeckleyDomain::cells
SpeckleyElements_ptr cells
Definition: weipa/src/SpeckleyDomain.h:64
speckley::SpeckleyDomain::getReducedFunctionOnContactOneCode
virtual int getReducedFunctionOnContactOneCode() const
returns a FunctionOnContactOne code with reduced integration order
Definition: speckley/src/SpeckleyDomain.h:453
speckley::BYTEORDER_LITTLE_ENDIAN
@ BYTEORDER_LITTLE_ENDIAN
Definition: speckley/src/system_dep.h:58
weipa::SpeckleyDomain::getElementsByName
virtual ElementData_ptr getElementsByName(const std::string &name) const
Returns element data with given name.
Definition: weipa/src/SpeckleyDomain.cpp:189
speckley::SpeckleyDomain::getDiracDeltaFunctionsCode
virtual int getDiracDeltaFunctionsCode() const
returns a DiracDeltaFunctions FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:477
weipa::SpeckleyDomain::nodes
SpeckleyNodes_ptr nodes
Definition: weipa/src/SpeckleyDomain.h:63
speckley::SpeckleyDomain::interpolateAcross
virtual void interpolateAcross(escript::Data &target, const escript::Data &source) const =0
interpolates data given on source onto target where source and target are given on different domains
speckley::BYTEORDER_BIG_ENDIAN
@ BYTEORDER_BIG_ENDIAN
Definition: speckley/src/system_dep.h:59
speckley::ReaderParameters::dataType
int dataType
data type in the file (used by binary reader only)
Definition: speckley/src/SpeckleyDomain.h:66
BOOST_PYTHON_MODULE
BOOST_PYTHON_MODULE(speckleycpp)
Definition: speckleycpp.cpp:319
escript::RuntimeErrorTranslator
void RuntimeErrorTranslator(const EsysException &e)
Function which translates an EsysException into a python RuntimeError.
Definition: ExceptionTranslators.cpp:37
weipa::SpeckleyDomain::removeGhostZones
virtual void removeGhostZones(int ownIndex)
Removes 'ghost' elements and nodes.
Definition: weipa/src/SpeckleyDomain.cpp:217
escript::DataTypes::index_t
int index_t
type for array/matrix indices used both globally and on each rank
Definition: DataTypes.h:61
speckley::SpeckleyDomain::assembleCoordinates
virtual void assembleCoordinates(escript::Data &arg) const =0
populates the data object 'arg' with the node coordinates
speckley::SpeckleyDomain::getNumberOfTagsInUse
virtual int getNumberOfTagsInUse(int fsType) const
returns the number of tags in use for a function space type
Definition: speckley/src/SpeckleyDomain.cpp:658
speckley::SpeckleyDomain::getReducedFunctionOnContactZeroCode
virtual int getReducedFunctionOnContactZeroCode() const
returns a FunctionOnContactZero code with reduced integration order
Definition: speckley/src/SpeckleyDomain.h:437
speckley::SpeckleyDomain::setToSize
virtual void setToSize(escript::Data &out) const =0
copies the size of samples into out. The actual function space to be considered is defined by out....
escript::Data::isExpanded
bool isExpanded() const
Return true if this Data is expanded.
Definition: Data.cpp:1111
speckley::SpeckleyDomain::isCellOriented
virtual bool isCellOriented(int fsType) const
returns true if data on this domain and given function space type has to be considered as cell center...
Definition: speckley/src/SpeckleyDomain.cpp:562
speckley::ReaderParameters::multiplier
std::vector< int > multiplier
Definition: speckley/src/SpeckleyDomain.h:60
speckley::SpeckleyDomain::readBinaryGrid
virtual void readBinaryGrid(escript::Data &out, std::string filename, const ReaderParameters &params) const =0
reads grid data from a raw binary file into a Data object
speckley::SpeckleyDomain::supportsFilter
virtual bool supportsFilter(const boost::python::tuple &t) const
returns true if this domain can handle the specified tuple of filter options.
Definition: speckley/src/SpeckleyDomain.cpp:1126
weipa::NodeData_ptr
boost::shared_ptr< NodeData > NodeData_ptr
Definition: weipa.h:69
speckley::SpeckleyDomain::getContinuousFunctionCode
virtual int getContinuousFunctionCode() const
returns a continuous FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:384
weipa::StringVec
std::vector< std::string > StringVec
Definition: weipa.h:61
escript::FunctionSpace::getTypeCode
int getTypeCode() const
Returns the function space type code.
Definition: FunctionSpace.cpp:95
speckley::DEFAULT_ASSEMBLER
@ DEFAULT_ASSEMBLER
Definition: speckley/src/SpeckleyDomain.h:37
speckley::SpeckleyDomain::createAssembler
virtual Assembler_ptr createAssembler(const std::string type, const DataMap &options) const
Definition: speckley/src/SpeckleyDomain.h:724
escript::FunctionSpace::getDim
int getDim() const
Return the number of spatial dimensions of the underlying domain.
Definition: FunctionSpace.h:183
speckley::SpeckleyDomain::getMPIRank
virtual int getMPIRank() const
returns the MPI rank of this processor
Definition: speckley/src/SpeckleyDomain.h:116
escript::function
FunctionSpace function(const AbstractDomain &domain)
Return a function FunctionSpace.
Definition: FunctionSpaceFactory.cpp:43
weipa::SpeckleyDomain::getNodes
virtual NodeData_ptr getNodes() const
Returns a pointer to the full nodes.
Definition: weipa/src/SpeckleyDomain.h:57
speckley::DiracPoint::node
dim_t node
Definition: speckley/src/SpeckleyDomain.h:75
escript::Vector
Data Vector(double value, const FunctionSpace &what, bool expanded)
Return a Data object containing vector data-points. ie: rank 1 data-points.
Definition: DataFactory.cpp:125
speckley::SpeckleyDomain::addPDEToTransportProblemFromPython
void addPDEToTransportProblemFromPython(escript::AbstractTransportProblem &tp, escript::Data &source, const boost::python::list &data, Assembler_ptr assembler) const
adds a PDE onto a transport problem
Definition: speckley/src/SpeckleyDomain.cpp:788
speckley::SpeckleyDomain::getTagFromSampleNo
int getTagFromSampleNo(int fsType, dim_t sampleNo) const
returns the tag key for the given sample number
Definition: speckley/src/SpeckleyDomain.cpp:633
speckley::ReaderParameters
Structure that wraps parameters for the grid reading routines.
Definition: speckley/src/SpeckleyDomain.h:53
speckley::SpeckleyDomain::getDim
virtual int getDim() const
returns the number of spatial dimensions of the domain
Definition: speckley/src/SpeckleyDomain.h:157
speckley::SpeckleyDomain::functionSpaceTypeAsString
virtual std::string functionSpaceTypeAsString(int fsType) const
returns a description for the given function space type code
Definition: speckley/src/SpeckleyDomain.cpp:94
speckley::SpeckleyDomain::interpolateElementsOnNodes
virtual void interpolateElementsOnNodes(escript::Data &out, const escript::Data &in) const =0
interpolates data on elements in 'in' onto nodes in 'out'
weipa::SpeckleyDomain::SpeckleyDomain
SpeckleyDomain()
Definition: weipa/src/SpeckleyDomain.cpp:36
speckley::SpeckleyDomain::getNumElements
virtual dim_t getNumElements() const =0
returns the number of elements per MPI rank
speckley::Points
@ Points
Definition: Speckley.h:67
MPI_Comm
int MPI_Comm
Definition: EsysMPI.h:44
speckley::SpeckleyDomain::reduceElements
virtual void reduceElements(escript::Data &out, const escript::Data &in) const =0
interpolates from Element -> ReducedElement
speckley::SpeckleyDomain::setToIntegralsWorker
void setToIntegralsWorker(std::vector< Scalar > &integrals, const escript::Data &arg) const
Definition: speckley/src/SpeckleyDomain.cpp:531
escript::Data::actsExpanded
bool actsExpanded() const
Return true if this Data is expanded or resolves to expanded. That is, if it has a separate value for...
Definition: Data.cpp:1118
escript::AbstractDomain
Base class for all escript domains.
Definition: AbstractDomain.h:51
speckley::IndexVector
std::vector< index_t > IndexVector
Definition: Speckley.h:44
speckley::ReaderParameters::numValues
std::vector< dim_t > numValues
the number of values to read from file
Definition: speckley/src/SpeckleyDomain.h:57
Speckley_DLL_API
#define Speckley_DLL_API
Definition: speckley/src/system_dep.h:23
speckley::SpeckleyDomain::getNumDataPointsGlobal
virtual dim_t getNumDataPointsGlobal() const =0
returns the number of data points summed across all MPI processes
escript::ASM_ptr
boost::shared_ptr< AbstractSystemMatrix > ASM_ptr
Definition: AbstractSystemMatrix.h:33
speckley::SpeckleyDomain::getNumFacesPerBoundary
virtual const dim_t * getNumFacesPerBoundary() const =0
returns the number of face elements in the order (left,right,bottom,top,[front,back]) on current MPI ...
escript::DataTypes::cplx_t
std::complex< real_t > cplx_t
complex data type
Definition: DataTypes.h:55
speckley::DiracPoint
A struct to contain a dirac point's information.
Definition: speckley/src/SpeckleyDomain.h:74
weipa::Centering
Centering
Definition: DomainChunk.h:31
escript::AbstractSystemMatrix::getRowBlockSize
int getRowBlockSize() const
returns the row block size
Definition: AbstractSystemMatrix.h:114
escript::Scalar
Data Scalar(double value, const FunctionSpace &what, bool expanded)
A collection of factory functions for creating Data objects which contain data points of various shap...
Definition: DataFactory.cpp:49
speckley::SpeckleyDomain::getSize
virtual escript::Data getSize() const
returns the element size
Definition: speckley/src/SpeckleyDomain.cpp:445
speckley::SpeckleyDomain::readNcGrid
virtual void readNcGrid(escript::Data &out, std::string filename, std::string varname, const ReaderParameters &params) const =0
reads grid data from a netCDF file into a Data object
speckley::DataMap
std::map< std::string, escript::Data > DataMap
Definition: speckley/src/domainhelpers.h:25
escript::Data::expand
void expand()
Whatever the current Data type make this into a DataExpanded.
Definition: Data.cpp:1180
escript::AbstractSystemMatrix::getColumnBlockSize
int getColumnBlockSize() const
returns the column block size
Definition: AbstractSystemMatrix.h:125
weipa::IntVec
std::vector< int > IntVec
Definition: weipa.h:60
speckley::SpeckleyDomain::commonFunctionSpace
bool commonFunctionSpace(const std::vector< int > &fs, int &resultcode) const
given a vector of FunctionSpace type codes, passes back a code which all can be interpolated to
Definition: speckley/src/SpeckleyDomain.cpp:149
weipa::SpeckleyDomain::getMeshForFunctionSpace
virtual NodeData_ptr getMeshForFunctionSpace(int fsCode) const
Returns the node mesh for given function space code.
Definition: weipa/src/SpeckleyDomain.cpp:81
speckley::SpeckleyDomain::getSystemMatrixTypeId
virtual int getSystemMatrixTypeId(const boost::python::object &options) const
returns the identifier of the matrix type to be used for the global stiffness matrix when a particula...
Definition: speckley/src/SpeckleyDomain.cpp:708
speckley::isNotEmpty
bool isNotEmpty(const std::string target, const DataMap &mapping)
Definition: speckley/src/domainhelpers.h:40
escript::ValueError
An exception class that signals an invalid argument value.
Definition: EsysException.h:100
speckley::SpeckleyDomain::assembleIntegrate
virtual void assembleIntegrate(std::vector< cplx_t > &integrals, const escript::Data &arg) const =0
speckley::SpeckleyDomain::addToRHS
virtual void addToRHS(escript::Data &rhs, const DataMap &data, Assembler_ptr assembler) const
adds a PDE onto rhs, used for custom solvers with varying arguments counts and so on
Definition: speckley/src/SpeckleyDomain.cpp:760
speckley::DiracPoint::tag
int tag
Definition: speckley/src/SpeckleyDomain.h:76
weipa::DataVar
A class that provides functionality to read an escript data object from a dump file or an escript::Da...
Definition: DataVar.h:37
speckley::SpeckleyDomain::assemblePDE
void assemblePDE(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
calls the right PDE assembly routines after performing input checks
Definition: speckley/src/SpeckleyDomain.cpp:911
speckley::SpeckleyDomain::~SpeckleyDomain
~SpeckleyDomain()
Destructor.
Definition: speckley/src/SpeckleyDomain.cpp:64
speckley::SpeckleyDomain::assemblePDEDiracWrap
void assemblePDEDiracWrap(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
Definition: speckley/src/SpeckleyDomain.cpp:1013
escript::AbstractContinuousDomain
AbstractContinuousDomain, base class for continuous domains.
Definition: AbstractContinuousDomain.h:47
speckley::SpeckleyException
SpeckleyException exception class.
Definition: SpeckleyException.h:31
speckley::SpeckleyDomain::findNode
virtual dim_t findNode(const double *coords) const =0
finds the node that the given point coordinates belong to
speckley::SpeckleyDomain::operator==
virtual bool operator==(const escript::AbstractDomain &other) const
equality operator
Definition: speckley/src/SpeckleyDomain.cpp:69
speckley::SpeckleyDomain::getFunctionOnBoundaryCode
virtual int getFunctionOnBoundaryCode() const
returns a function on boundary FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:412
speckley::SpeckleyDomain::getFunctionOnContactOneCode
virtual int getFunctionOnContactOneCode() const
returns a FunctionOnContactOne code
Definition: speckley/src/SpeckleyDomain.h:445
speckley::SpeckleyDomain::multiplyData
void multiplyData(escript::Data &out, const escript::Data &in) const
expands ReducedFunction (in) to Function (out)
Definition: speckley/src/SpeckleyDomain.cpp:825
speckley::_brick
escript::Domain_ptr _brick(int order, double _n0, double _n1, double _n2, const object &l0, const object &l1, const object &l2, int d0, int d1, int d2, const object &objpoints, const object &objtags, escript::SubWorld_ptr world)
Definition: speckleycpp.cpp:143
weipa::SpeckleyNodes
Stores and manipulates speckley mesh nodes.
Definition: SpeckleyNodes.h:40
speckley::SpeckleyDomain::getFunctionCode
virtual int getFunctionCode() const
returns a function FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:398
speckley::SpeckleyDomain::getLength
virtual const double * getLength() const =0
returns the lengths of the domain
escript::AbstractContinuousDomain::addPDEToTransportProblem
virtual void addPDEToTransportProblem(AbstractTransportProblem &tp, escript::Data &source, const escript::Data &M, const escript::Data &A, const escript::Data &B, const escript::Data &C, const escript::Data &D, const escript::Data &X, const escript::Data &Y, const escript::Data &d, const escript::Data &y, const escript::Data &d_contact, const escript::Data &y_contact, const escript::Data &d_dirac, const escript::Data &y_dirac) const
adds a PDE onto a transport problem
Definition: AbstractContinuousDomain.cpp:166
speckley::SpeckleyDomain::addToSystemFromPython
virtual void addToSystemFromPython(escript::AbstractSystemMatrix &mat, escript::Data &rhs, const boost::python::list &data, Assembler_ptr assembler) const
a wrapper for addToSystem that allows calling from Python
Definition: speckley/src/SpeckleyDomain.cpp:733
speckley::Nodes
@ Nodes
Definition: Speckley.h:61
speckley::extractPyArray
std::vector< T > extractPyArray(const object &obj, const std::string &name, int expectedLength=0)
Definition: speckleycpp.cpp:36
speckley::SpeckleyDomain::assembleIntegrate
virtual void assembleIntegrate(std::vector< real_t > &integrals, const escript::Data &arg) const =0
copies the integrals of the function defined by 'arg' into 'integrals'