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DudleyDomain.h
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1 
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3 *
4 * Copyright (c) 2003-2018 by The University of Queensland
5 * http://www.uq.edu.au
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8 * Licensed under the Apache License, version 2.0
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12 * Development 2012-2013 by School of Earth Sciences
13 * Development from 2014 by Centre for Geoscience Computing (GeoComp)
14 *
15 *****************************************************************************/
16 
17 #ifndef __DUDLEY_DOMAIN_H__
18 #define __DUDLEY_DOMAIN_H__
19 
20 /****************************************************************************
21 
22  Dudley: Domain
23 
24  A mesh is built from nodes and elements which describe the domain, surface,
25  and point sources (the latter are needed to establish links with other
26  codes, in particular particle codes). The nodes are stored in a NodeFile
27  and elements in ElementFiles. Dudley domains have three ElementFiles
28  containing the elements, surface and point sources, respectively.
29  Notice that the surface elements do not necessarily cover the entire
30  surface of the domain.
31 
32  The element type is either Tri3 or Tet4 depending on dimensionality
33  and also determines the type of surface elements to be used.
34 
35  The numbering of the nodes starts with 0.
36 
37  Important: it is assumed that every node appears in at least one element or
38  surface element and that any node used in an element, surface element or as
39  a point is specified in the NodeFile, see also resolveNodeIds.
40 
41  All nodes and elements are tagged. The tag allows to group nodes and
42  elements. A typical application is to mark surface elements on a
43  certain portion of the domain with the same tag. All these surface
44  elements can then be assigned the same value e.g. for the pressure.
45 
46 *****************************************************************************/
47 
48 #include <dudley/Dudley.h>
49 #include <dudley/ElementFile.h>
50 #include <dudley/NodeFile.h>
51 #include <dudley/Util.h>
52 
53 #include <escript/AbstractContinuousDomain.h>
54 #include <escript/FunctionSpace.h>
55 #include <escript/FunctionSpaceFactory.h>
56 
57 #ifdef ESYS_HAVE_PASO
58 #include <paso/SystemMatrixPattern.h>
59 #endif
60 #ifdef ESYS_HAVE_TRILINOS
61 #include <trilinoswrap/types.h>
62 #endif
63 
64 #include <map>
65 #include <string>
66 #include <vector>
67 
68 namespace dudley {
69 
70 typedef std::map<std::string, int> TagMap;
71 
73  SMT_PASO = 1<<8,
74  SMT_TRILINOS = 1<<10,
75  SMT_COMPLEX = 1<<16,
76  SMT_UNROLL = 1<<17
77 };
78 
85 {
86 public:
92  static escript::Domain_ptr load(const std::string& filename);
93 
102  static escript::Domain_ptr read(escript::JMPI mpiInfo,
103  const std::string& filename, bool optimize);
104 
114  const std::string& filename, int numDim,
115  bool optimize);
116 
128  static escript::Domain_ptr create2D(dim_t NE0, dim_t NE1, double l0,
129  double l1, bool optimize,
130  escript::JMPI jmpi);
131 
145  static escript::Domain_ptr create3D(dim_t NE0, dim_t NE1, dim_t NE2,
146  double l0, double l1, double l2,
147  bool optimize, escript::JMPI jmpi);
148 
157  DudleyDomain(const std::string& name, int numDim, escript::JMPI jmpi);
158 
163  DudleyDomain(const DudleyDomain& in);
164 
169  ~DudleyDomain();
170 
175  NodeFile* getNodes() const { return m_nodes; }
176 
181  void setElements(ElementFile* elements);
182 
187  ElementFile* getElements() const { return m_elements; }
188 
193  void setFaceElements(ElementFile* elements);
194 
200 
205  void setPoints(ElementFile* elements);
206 
211  ElementFile* getPoints() const { return m_points; }
212 
217  virtual escript::JMPI getMPI() const { return m_mpiInfo; }
218 
223  virtual int getMPISize() const { return m_mpiInfo->size; }
224 
229  virtual int getMPIRank() const { return m_mpiInfo->rank; }
230 
235  virtual void MPIBarrier() const;
236 
241  virtual bool onMasterProcessor() const { return getMPIRank() == 0; }
242 
243  MPI_Comm getMPIComm() const { return m_mpiInfo->comm; }
244 
251  void write(const std::string& fileName) const;
252 
257  void Print_Mesh_Info(bool full=false) const;
258 
264  void dump(const std::string& fileName) const;
265 
272  int getTagFromSampleNo(int functionSpaceType, index_t sampleNo) const;
273 
279  const index_t* borrowSampleReferenceIDs(int functionSpaceType) const;
280 
286  virtual bool isValidFunctionSpaceType(int functionSpaceType) const;
287 
292  virtual std::string getDescription() const;
293 
298  virtual std::string functionSpaceTypeAsString(int functionSpaceType) const;
299 
305 
310  virtual int getContinuousFunctionCode() const;
311 
316  virtual int getReducedContinuousFunctionCode() const;
317 
322  virtual int getFunctionCode() const;
323 
328  virtual int getReducedFunctionCode() const;
329 
334  virtual int getFunctionOnBoundaryCode() const;
335 
340  virtual int getReducedFunctionOnBoundaryCode() const;
341 
346  virtual int getFunctionOnContactZeroCode() const;
347 
352  virtual int getReducedFunctionOnContactZeroCode() const;
353 
358  virtual int getFunctionOnContactOneCode() const;
359 
364  virtual int getReducedFunctionOnContactOneCode() const;
365 
370  virtual int getSolutionCode() const;
371 
376  virtual int getReducedSolutionCode() const;
377 
382  virtual int getDiracDeltaFunctionsCode() const;
383 
387  typedef std::map<int, std::string> FunctionSpaceNamesMapType;
388 
392  virtual int getDim() const { return m_nodes->numDim; }
393 
400  virtual StatusType getStatus() const;
401 
406  virtual dim_t getNumDataPointsGlobal() const;
407 
413  virtual std::pair<int,dim_t> getDataShape(int functionSpaceCode) const;
414 
420  virtual void setToX(escript::Data& arg) const;
421 
428  virtual void setTagMap(const std::string& name, int tag);
429 
435  virtual int getTag(const std::string& name) const;
436 
442  virtual bool isValidTagName(const std::string& name) const;
443 
448  virtual std::string showTagNames() const;
449 
454  virtual void setNewX(const escript::Data& arg);
455 
460  virtual void interpolateOnDomain(escript::Data& target,
461  const escript::Data& source) const;
462 
463  virtual bool probeInterpolationOnDomain(int functionSpaceType_source,
464  int functionSpaceType_target) const;
465 
466  virtual signed char preferredInterpolationOnDomain(int functionSpaceType_source, int functionSpaceType_target) const;
467 
472  bool commonFunctionSpace(const std::vector<int>& fs, int& resultcode) const;
473 
478  virtual void interpolateAcross(escript::Data& target, const escript::Data& source) const;
479 
483  virtual bool probeInterpolationAcross(int functionSpaceType_source,
484  const escript::AbstractDomain& targetDomain,
485  int functionSpaceType_target) const;
486 
492  virtual void setToNormal(escript::Data& out) const;
493 
499  virtual void setToSize(escript::Data& out) const;
500 
506  virtual void setToGradient(escript::Data& grad, const escript::Data& arg) const;
507 
513  virtual void setToIntegrals(std::vector<escript::DataTypes::real_t>& integrals,
514  const escript::Data& arg) const;
515  virtual void setToIntegrals(std::vector<escript::DataTypes::cplx_t>& integrals,
516  const escript::Data& arg) const;
517 
526  virtual int getSystemMatrixTypeId(const boost::python::object& options) const;
527 
537  virtual int getTransportTypeId(int solver, int preconditioner, int package,
538  bool symmetry) const;
539 
545  virtual bool isCellOriented(int functionSpaceCode) const;
546 
547  virtual bool ownSample(int fsCode, index_t id) const;
548 
553  virtual void addPDEToSystem(
555  const escript::Data& A, const escript::Data& B,
556  const escript::Data& C, const escript::Data& D,
557  const escript::Data& X, const escript::Data& Y,
558  const escript::Data& d, const escript::Data& y,
559  const escript::Data& d_contact,
560  const escript::Data& y_contact,
561  const escript::Data& d_dirac,
562  const escript::Data& y_dirac) const;
563 
568  virtual void addPDEToLumpedSystem(escript::Data& mat,
569  const escript::Data& D,
570  const escript::Data& d,
571  const escript::Data& d_dirac,
572  bool useHRZ) const;
573 
578  virtual void addPDEToRHS(escript::Data& rhs, const escript::Data& X,
579  const escript::Data& Y, const escript::Data& y,
580  const escript::Data& y_contact,
581  const escript::Data& y_dirac) const;
582 
587  virtual void addPDEToTransportProblem(
589  escript::Data& source, const escript::Data& M,
590  const escript::Data& A, const escript::Data& B,
591  const escript::Data& C, const escript::Data& D,
592  const escript::Data& X, const escript::Data& Y,
593  const escript::Data& d, const escript::Data& y,
594  const escript::Data& d_contact,
595  const escript::Data& y_contact,
596  const escript::Data& d_dirac,
597  const escript::Data& y_dirac) const;
598 
604  int row_blocksize,
605  const escript::FunctionSpace& row_functionspace,
606  int column_blocksize,
607  const escript::FunctionSpace& column_functionspace,
608  int type) const;
609 
615  const escript::FunctionSpace& functionspace,
616  int type) const;
617 
621  virtual escript::Data getX() const;
622 
627  virtual escript::Data getNormal() const;
628 
632  virtual escript::Data getSize() const;
633 
637  virtual bool operator==(const escript::AbstractDomain& other) const;
638  virtual bool operator!=(const escript::AbstractDomain& other) const;
639 
644  virtual void setTags(int functionSpaceType, int newTag,
645  const escript::Data& mask) const;
646 
652  virtual int getNumberOfTagsInUse(int functionSpaceCode) const;
653 
654  virtual const int* borrowListOfTagsInUse(int functionSpaceCode) const;
655 
660  virtual bool canTag(int functionSpaceCode) const;
661 
665  virtual int getApproximationOrder(int functionSpaceCode) const;
666 
667  virtual bool supportsContactElements() const { return false; }
668 
670  const escript::FunctionSpace& what, long seed,
671  const boost::python::tuple& filter) const;
672 
673  void createMappings(const std::vector<index_t>& dofDistribution,
674  const std::vector<index_t>& nodeDistribution);
675 
678  void relabelElementNodes(const index_t* newNode, index_t offset);
679 
680  template<typename Scalar>
681  void setToIntegralsWorker(std::vector<Scalar>& integrals,
682  const escript::Data& arg) const;
683 
684 #ifdef ESYS_HAVE_PASO
685  paso::SystemMatrixPattern_ptr getPasoPattern() const;
687 #endif
688 
689 #ifdef ESYS_HAVE_TRILINOS
690  esys_trilinos::const_TrilinosGraph_ptr getTrilinosGraph() const {
692  return m_nodes->getTrilinosGraph();
693  }
694 #endif
695 
696 private:
697  void prepare(bool optimize);
698 
706  void resolveNodeIds();
707 
708 #ifdef ESYS_HAVE_PASO
709  paso::SystemMatrixPattern_ptr makePasoPattern() const;
710 #endif
711 
712  void createColoring(const index_t* dofMap);
713  void distributeByRankOfDOF(const IndexVector& distribution);
714  void markNodes(std::vector<short>& mask, index_t offset) const;
715  void optimizeDOFDistribution(IndexVector& distribution);
716  void optimizeDOFLabeling(const IndexVector& distribution);
718  void updateTagList();
719  void printElementInfo(const ElementFile* e, const std::string& title,
720  const std::string& defaultType, bool full) const;
721 
722  void writeElementInfo(std::ostream& stream, const ElementFile* e,
723  const std::string& defaultType) const;
724 
728  std::string m_name;
738  TagMap m_tagMap;
739 #ifdef ESYS_HAVE_PASO
740  // pointer to the sparse matrix pattern
741  mutable paso::SystemMatrixPattern_ptr pasoPattern;
742 #endif
743 
744  static FunctionSpaceNamesMapType m_functionSpaceTypeNames;
745 };
746 
747 } // end of namespace
748 
749 #endif // __DUDLEY_DOMAIN_H__
750 
void createMappings(const std::vector< index_t > &dofDistribution, const std::vector< index_t > &nodeDistribution)
Definition: DudleyDomain.cpp:124
AbstractContinuousDomain, base class for continuous domains.
Definition: AbstractContinuousDomain.h:45
virtual std::string showTagNames() const
Returns all tag names in a single string sperated by commas.
Definition: DudleyDomain.cpp:1930
Definition: FunctionSpace.h:34
bool commonFunctionSpace(const std::vector< int > &fs, int &resultcode) const
given a vector of FunctionSpace typecodes, pass back a code which then can all be interpolated to...
Definition: DudleyDomain.cpp:1554
virtual escript::JMPI getMPI() const
returns a reference to the MPI information wrapper for this domain
Definition: DudleyDomain.h:217
virtual escript::Data getSize() const
returns the element size
Definition: DudleyDomain.cpp:1812
virtual signed char preferredInterpolationOnDomain(int functionSpaceType_source, int functionSpaceType_target) const
Preferred direction of interpolation. If you really need to test for a particular direction...
Definition: DudleyDomain.cpp:1696
double l2(dim_t n, const double *x, escript::JMPI mpiinfo)
returns the global L2 norm of x
Definition: PasoUtil.cpp:501
void setElements(ElementFile *elements)
replaces the element file by elements
Definition: DudleyDomain.cpp:106
virtual escript::Data getX() const
returns locations in the FEM nodes
Definition: DudleyDomain.cpp:1802
virtual int getFunctionOnContactZeroCode() const
Return a FunctionOnContactZero code.
Definition: DudleyDomain.cpp:839
Definition: DudleyDomain.h:74
void setFunctionSpaceTypeNames()
Build the table of function space type names.
Definition: DudleyDomain.cpp:791
virtual escript::Data getNormal() const
returns boundary normals at the quadrature point on the face elements
Definition: DudleyDomain.cpp:1807
static FunctionSpaceNamesMapType m_functionSpaceTypeNames
Definition: DudleyDomain.h:744
std::string m_name
domain description
Definition: DudleyDomain.h:728
virtual dim_t getNumDataPointsGlobal() const
Return the number of data points summed across all MPI processes.
Definition: DudleyDomain.cpp:877
boost::shared_ptr< AbstractDomain > Domain_ptr
Definition: AbstractDomain.h:36
NodeFile * m_nodes
the table of the nodes
Definition: DudleyDomain.h:730
escript::JMPI m_mpiInfo
MPI information.
Definition: DudleyDomain.h:726
virtual int getFunctionCode() const
Return a function FunctionSpace code.
Definition: DudleyDomain.cpp:819
virtual int getReducedFunctionOnBoundaryCode() const
Return a function on boundary with reduced integration order FunctionSpace code.
Definition: DudleyDomain.cpp:834
SystemMatrixType
Definition: DudleyDomain.h:72
void distributeByRankOfDOF(const IndexVector &distribution)
Definition: Mesh_distributeByRankOfDOF.cpp:24
virtual bool supportsContactElements() const
Definition: DudleyDomain.h:667
virtual std::pair< int, dim_t > getDataShape(int functionSpaceCode) const
Return the number of data points per sample, and the number of samples as a pair. ...
Definition: DudleyDomain.cpp:886
virtual std::string functionSpaceTypeAsString(int functionSpaceType) const
Return a description for the given function space type code.
Definition: DudleyDomain.cpp:773
void write(const std::string &fileName) const
writes the current mesh to a file with the given name in the fly file format.
Definition: dudley/src/Mesh_write.cpp:83
void prepare(bool optimize)
prepares the mesh for further use
Definition: DudleyDomain.cpp:2054
virtual bool probeInterpolationOnDomain(int functionSpaceType_source, int functionSpaceType_target) const
True if interpolation is possible from source to target.
Definition: DudleyDomain.cpp:1638
ElementFile * m_faceElements
the table of face elements
Definition: DudleyDomain.h:734
virtual void setToX(escript::Data &arg) const
copies the location of data points into arg. The domain of arg has to match this. has to be implement...
Definition: DudleyDomain.cpp:1248
void markNodes(std::vector< short > &mask, index_t offset) const
Definition: DudleyDomain.cpp:150
void setFaceElements(ElementFile *elements)
replaces the face element file by elements
Definition: DudleyDomain.cpp:112
NodeFile * getNodes() const
returns a pointer to this domain&#39;s node file
Definition: DudleyDomain.h:175
std::vector< index_t > IndexVector
Definition: DataTypes.h:62
virtual StatusType getStatus() const
Returns a status indicator of the domain. The status identifier should be unique over the live time i...
Definition: DudleyDomain.cpp:2015
DudleyDomain(const std::string &name, int numDim, escript::JMPI jmpi)
Constructor for DudleyDomain.
Definition: DudleyDomain.cpp:68
virtual void setToIntegrals(std::vector< escript::DataTypes::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...
virtual int getTransportTypeId(int solver, int preconditioner, int package, bool symmetry) const
return the identifier of the transport problem type to be used when a particular solver, perconditioner, package and symmetric matrix is used.
Definition: DudleyDomain.cpp:1790
boost::shared_ptr< JMPI_ > JMPI
Definition: EsysMPI.h:71
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: DudleyDomain.cpp:1057
virtual bool operator==(const escript::AbstractDomain &other) const
comparison operators
Definition: DudleyDomain.cpp:1713
void dump(const std::string &fileName) const
dumps the mesh to a file with the given name.
Definition: DudleyDomain.cpp:464
void setToIntegralsWorker(std::vector< Scalar > &integrals, const escript::Data &arg) const
Definition: DudleyDomain.cpp:1309
virtual void setToSize(escript::Data &out) const
copies the size of samples into out. The actual function space to be considered is defined by out...
Definition: DudleyDomain.cpp:1391
void updateTagList()
regenerates list of tags in use for node file and element files
Definition: DudleyDomain.cpp:2116
virtual bool ownSample(int fsCode, index_t id) const
Definition: DudleyDomain.cpp:1432
ElementFile * getPoints() const
returns a pointer to this domain&#39;s point (nodal) element file
Definition: DudleyDomain.h:211
ElementFile * m_points
the table of points (treated as elements of dimension 0)
Definition: DudleyDomain.h:736
std::vector< int > ShapeType
The shape of a single datapoint.
Definition: DataTypes.h:42
static dim_t M
Definition: SparseMatrix_saveHB.cpp:37
virtual int getContinuousFunctionCode() const
Return a continuous FunctionSpace code.
Definition: DudleyDomain.cpp:809
DudleyDomain implements the AbstractContinuousDomain interface for the Dudley library.
Definition: DudleyDomain.h:84
escript::ATP_ptr newTransportProblem(int blocksize, const escript::FunctionSpace &functionspace, int type) const
creates a TransportProblem
Definition: DudleyDomain.cpp:1507
virtual int getReducedFunctionCode() const
Return a function with reduced integration order FunctionSpace code.
Definition: DudleyDomain.cpp:824
virtual escript::Data randomFill(const escript::DataTypes::ShapeType &shape, const escript::FunctionSpace &what, long seed, const boost::python::tuple &filter) const
Fills the data object with filtered random values.
Definition: DudleyDomain.cpp:2040
void writeElementInfo(std::ostream &stream, const ElementFile *e, const std::string &defaultType) const
Definition: dudley/src/Mesh_write.cpp:32
boost::shared_ptr< SystemMatrixPattern > SystemMatrixPattern_ptr
Definition: SystemMatrixPattern.h:39
boost::shared_ptr< AbstractTransportProblem > ATP_ptr
Definition: AbstractTransportProblem.h:160
static escript::Domain_ptr load(const std::string &filename)
recovers domain from a dump file
Definition: dudley/src/DomainFactory.cpp:365
virtual void addPDEToTransportProblem(escript::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: DudleyDomain.cpp:1014
virtual int getApproximationOrder(int functionSpaceCode) const
returns the approximation order used for a function space functionSpaceCode
Definition: DudleyDomain.cpp:2020
void printElementInfo(const ElementFile *e, const std::string &title, const std::string &defaultType, bool full) const
Definition: dudley/src/Mesh_write.cpp:50
virtual bool probeInterpolationAcross(int functionSpaceType_source, const escript::AbstractDomain &targetDomain, int functionSpaceType_target) const
determines whether interpolation from source to target is possible.
Definition: DudleyDomain.cpp:1707
virtual void interpolateAcross(escript::Data &target, const escript::Data &source) const
interpolates data given on source onto target where source and target are given on different domains...
Definition: DudleyDomain.cpp:1286
virtual bool operator!=(const escript::AbstractDomain &other) const
Return true if given domains are not equal.
Definition: DudleyDomain.cpp:1725
virtual bool onMasterProcessor() const
returns true if on MPI processor 0, else false
Definition: DudleyDomain.h:241
void createColoring(const index_t *dofMap)
tries to reduce the number of colours for all element files
Definition: DudleyDomain.cpp:2100
int index_t
type for array/matrix indices used both globally and on each rank
Definition: DataTypes.h:59
virtual int getDiracDeltaFunctionsCode() const
Return a DiracDeltaFunctions code.
Definition: DudleyDomain.cpp:869
static escript::Domain_ptr read(escript::JMPI mpiInfo, const std::string &filename, bool optimize)
reads a mesh from a fly file. For MPI parallel runs fans out the mesh to multiple processes...
Definition: dudley/src/Mesh_read.cpp:149
void optimizeDOFDistribution(IndexVector &distribution)
Definition: dudley/src/Mesh_optimizeDOFDistribution.cpp:63
ElementFile * getElements() const
returns a pointer to this domain&#39;s element file
Definition: DudleyDomain.h:187
virtual int getReducedSolutionCode() const
Return a ReducedSolution code.
Definition: DudleyDomain.cpp:864
virtual int getReducedContinuousFunctionCode() const
Return a continuous on reduced order nodes FunctionSpace code.
Definition: DudleyDomain.cpp:814
void relabelElementNodes(const index_t *newNode, index_t offset)
Definition: DudleyDomain.cpp:157
Definition: DudleyDomain.h:75
virtual int getFunctionOnContactOneCode() const
Return a FunctionOnContactOne code.
Definition: DudleyDomain.cpp:849
Definition: DudleyDomain.h:73
void optimizeElementOrdering()
redistributes elements to minimize communication during assemblage
Definition: DudleyDomain.cpp:2108
int StatusType
Definition: AbstractDomain.h:48
virtual void addPDEToSystem(escript::AbstractSystemMatrix &mat, escript::Data &rhs, 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 the stiffness matrix mat and a rhs
Definition: DudleyDomain.cpp:944
virtual bool isCellOriented(int functionSpaceCode) const
returns true if data on this domain and a function space of type functionSpaceCode has to considered ...
Definition: DudleyDomain.cpp:1534
Data represents a collection of datapoints.
Definition: Data.h:63
virtual int getTag(const std::string &name) const
Return the tag key for tag name.
Definition: DudleyDomain.cpp:1914
static escript::Domain_ptr create2D(dim_t NE0, dim_t NE1, double l0, double l1, bool optimize, escript::JMPI jmpi)
Creates a 2-dimensional rectangular domain.
Definition: Mesh_tri3.cpp:25
Definition: dudley/src/ElementFile.h:51
std::map< std::string, int > TagMap
Definition: DudleyDomain.h:70
A suite of factory methods for creating 2D and 3D dudley domains.
Definition: dudley/src/Assemble.h:31
ElementFile * getFaceElements() const
returns a pointer to this domain&#39;s face element file
Definition: DudleyDomain.h:199
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: DudleyDomain.cpp:1454
virtual int getReducedFunctionOnContactZeroCode() const
Return a FunctionOnContactZero code with reduced integration order.
Definition: DudleyDomain.cpp:844
virtual void setTags(int functionSpaceType, int newTag, const escript::Data &mask) const
assigns new tag newTag to all samples of functionspace with a positive value of mask for any its samp...
Definition: DudleyDomain.cpp:1881
std::map< int, std::string > FunctionSpaceNamesMapType
Definition: DudleyDomain.h:387
void Print_Mesh_Info(bool full=false) const
Definition: dudley/src/Mesh_write.cpp:139
virtual int getMPISize() const
returns the number of processors used for this domain
Definition: DudleyDomain.h:223
virtual void MPIBarrier() const
If compiled for MPI then execute an MPI_Barrier, else do nothing.
Definition: DudleyDomain.cpp:99
int MPI_Comm
Definition: EsysMPI.h:41
virtual void setToNormal(escript::Data &out) const
copies the surface normals at data points into out. The actual function space to be considered is def...
Definition: DudleyDomain.cpp:1267
virtual std::string getDescription() const
Return a description for this domain.
Definition: DudleyDomain.cpp:768
Definition: DudleyDomain.h:76
virtual void setToGradient(escript::Data &grad, const escript::Data &arg) const
copies the gradient of arg into grad. The actual function space to be considered for the gradient is ...
Definition: DudleyDomain.cpp:1344
int getTagFromSampleNo(int functionSpaceType, index_t sampleNo) const
Return the tag key for the given sample number.
Definition: DudleyDomain.cpp:1851
virtual bool isValidFunctionSpaceType(int functionSpaceType) const
Returns true if the given integer is a valid function space type for this domain. ...
Definition: DudleyDomain.cpp:784
virtual void setNewX(const escript::Data &arg)
assigns new location to the domain
Definition: DudleyDomain.cpp:1419
virtual int getNumberOfTagsInUse(int functionSpaceCode) const
returns the number of tags in use and a pointer to an array with the number of tags in use ...
Definition: DudleyDomain.cpp:1943
virtual int getSystemMatrixTypeId(const boost::python::object &options) const
return the identifier of the matrix type to be used for the global stiffness matrix when a particular...
Definition: DudleyDomain.cpp:1730
Give a short description of what AbstractTransportProblem does.
Definition: AbstractTransportProblem.h:43
static escript::Domain_ptr create3D(dim_t NE0, dim_t NE1, dim_t NE2, double l0, double l1, double l2, bool optimize, escript::JMPI jmpi)
Creates a 3-dimensional rectangular domain.
Definition: Mesh_tet4.cpp:27
virtual const int * borrowListOfTagsInUse(int functionSpaceCode) const
Definition: DudleyDomain.cpp:1965
void setPoints(ElementFile *elements)
replaces the point element file by elements
Definition: DudleyDomain.cpp:118
virtual void setTagMap(const std::string &name, int tag)
sets a map from a clear tag name to a tag key
Definition: DudleyDomain.cpp:1909
virtual void addPDEToRHS(escript::Data &rhs, const escript::Data &X, const escript::Data &Y, const escript::Data &y, const escript::Data &y_contact, const escript::Data &y_dirac) const
adds a PDE onto the stiffness matrix mat and a rhs
Definition: DudleyDomain.cpp:991
TagMap m_tagMap
the tag map mapping names to tag keys
Definition: DudleyDomain.h:738
virtual int getSolutionCode() const
Return a Solution code.
Definition: DudleyDomain.cpp:859
Base class for escript system matrices.
Definition: AbstractSystemMatrix.h:42
MPI_Comm getMPIComm() const
get the communicator for this domain. Returns an integer on non-MPI builds Routine must be implemente...
Definition: DudleyDomain.h:243
boost::shared_ptr< AbstractSystemMatrix > ASM_ptr
Definition: AbstractSystemMatrix.h:32
void optimizeDOFLabeling(const IndexVector &distribution)
optimizes the labeling of the DOFs on each processor
Definition: Mesh_optimizeDOFLabeling.cpp:25
Definition: dudley/src/NodeFile.h:38
const index_t * borrowSampleReferenceIDs(int functionSpaceType) const
Return the reference number of the given sample number.
Definition: DudleyDomain.cpp:1817
Base class for all escript domains.
Definition: AbstractDomain.h:45
virtual int getDim() const
Returns the spatial dimension of the domain.
Definition: DudleyDomain.h:392
ElementFile * m_elements
the table of the elements
Definition: DudleyDomain.h:732
virtual int getMPIRank() const
returns the number MPI rank of this processor
Definition: DudleyDomain.h:229
virtual bool isValidTagName(const std::string &name) const
Returns true if name is a defined tag name.
Definition: DudleyDomain.cpp:1925
virtual int getReducedFunctionOnContactOneCode() const
Return a FunctionOnContactOne code with reduced integration order.
Definition: DudleyDomain.cpp:854
virtual void addPDEToLumpedSystem(escript::Data &mat, const escript::Data &D, const escript::Data &d, const escript::Data &d_dirac, bool useHRZ) const
adds a PDE onto the lumped stiffness matrix matrix
Definition: DudleyDomain.cpp:977
int numDim
number of spatial dimensions
Definition: dudley/src/NodeFile.h:145
~DudleyDomain()
Destructor for DudleyDomain.
Definition: DudleyDomain.cpp:91
virtual int getFunctionOnBoundaryCode() const
Return a function on boundary FunctionSpace code.
Definition: DudleyDomain.cpp:829
index_t dim_t
Definition: DataTypes.h:64
void resolveNodeIds()
Definition: Mesh_resolveNodeIds.cpp:22
static escript::Domain_ptr readGmsh(escript::JMPI mpiInfo, const std::string &filename, int numDim, bool optimize)
reads a gmsh mesh file.
Definition: dudley/src/Mesh_readGmsh.cpp:28
virtual bool canTag(int functionSpaceCode) const
Checks if this domain allows tags for the specified functionSpace code.
Definition: DudleyDomain.cpp:2000