Go to the documentation of this file.
18 #ifndef __Speckley_DOMAIN_H__
19 #define __Speckley_DOMAIN_H__
21 #include <speckley/Speckley.h>
22 #include <speckley/SpeckleyException.h>
23 #include <speckley/AbstractAssembler.h>
24 #include <speckley/domainhelpers.h>
26 #include <escript/AbstractContinuousDomain.h>
27 #include <escript/Data.h>
28 #include <escript/FunctionSpace.h>
29 #include <escript/SubWorld.h>
31 #include <boost/python/tuple.hpp>
32 #include <boost/python/list.hpp>
45 typedef std::map<std::string, int>
simap_t;
124 MPI_Barrier(m_mpiInfo->comm);
145 virtual bool isValidFunctionSpaceType(
int fsType)
const;
151 virtual std::string functionSpaceTypeAsString(
int fsType)
const;
157 virtual int getDim()
const {
return m_numDim; }
168 return !(operator==(other));
177 virtual std::pair<int,dim_t> getDataShape(
int fsType)
const;
185 int getTagFromSampleNo(
int fsType,
dim_t sampleNo)
const;
193 virtual void setTagMap(
const std::string& name,
int tag) {
194 m_tagMap[name] = tag;
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;
216 return (m_tagMap.find(name)!=m_tagMap.end());
223 virtual std::string showTagNames()
const;
245 virtual bool probeInterpolationOnDomain(
int fsType_source,
246 int fsType_target)
const;
255 virtual signed char preferredInterpolationOnDomain(
int fsType_source,
256 int fsType_target)
const;
265 commonFunctionSpace(
const std::vector<int>& fs,
int& resultcode)
const;
288 #ifdef ESYS_HAVE_BOOST_NUMPY
293 virtual boost::python::numpy::ndarray getNumpyX()
const;
298 virtual boost::python::numpy::ndarray getConnectivityInfo()
const;
333 virtual void setTags(
int fsType,
int newTag,
const escript::Data& mask)
const;
340 virtual bool isCellOriented(
int fsType)
const;
354 virtual int getNumberOfTagsInUse(
int fsType)
const;
360 virtual const int* borrowListOfTagsInUse(
int fsType)
const;
366 virtual bool canTag(
int fsType)
const;
487 virtual int getSystemMatrixTypeId(
const boost::python::object& options)
const;
498 virtual int getTransportTypeId(
int solver,
int preconditioner,
int package,
499 bool symmetry)
const;
506 virtual void setToIntegrals(std::vector<real_t>& integrals,
508 virtual void setToIntegrals(std::vector<cplx_t>& integrals,
519 Assembler_ptr assembler)
const;
527 Assembler_ptr assembler)
const;
535 Assembler_ptr assembler)
const;
542 const boost::python::list& data,
543 Assembler_ptr assembler)
const;
552 Assembler_ptr assembler)
const;
557 void addPDEToTransportProblemFromPython(
560 Assembler_ptr assembler)
const;
568 int column_blocksize,
584 virtual void Print_Mesh_Info(
bool full=
false)
const;
594 virtual void write(
const std::string& filename)
const = 0;
607 void dump(
const std::string& filename)
const = 0;
657 int byteOrder,
int dataType)
const = 0;
719 virtual bool supportsFilter(
const boost::python::tuple& t)
const;
725 const DataMap& options)
const {
729 Assembler_ptr createAssemblerFromPython(
const std::string type,
730 const boost::python::list& options)
const;
758 template<
typename Scalar>
762 void updateTagsInUse(
int fsType)
const;
768 void addPoints(
const std::vector<double>& coords,
769 const std::vector<int>& tags);
772 template<
typename Scalar>
802 bool reduced)
const = 0;
814 virtual void balanceNeighbours(
escript::Data& data,
bool average)
const = 0;
821 const DataMap& coefs, Assembler_ptr assembler)
const;
827 Assembler_ptr assembler)
const;
831 Assembler_ptr assembler)
const;
835 Assembler_ptr assembler)
const;
838 Assembler_ptr assembler)
const;
840 template<
typename Scalar>
841 void setToIntegralsWorker(std::vector<Scalar>& integrals,
850 #endif // __Speckley_DOMAIN_H__
@ DATATYPE_INT32
Definition: speckley/src/system_dep.h:63
std::map< std::string, int > simap_t
Definition: speckley/src/SpeckleyDomain.h:45
std::map< std::string, int > TagMap
Definition: Speckley.h:46
virtual bool probeInterpolationAcross(int, const escript::AbstractDomain &, int) const =0
determines whether interpolation from source to target is possible
virtual bool initFromFile(const std::string &filename)
Reads the domain from a dump file.
Definition: weipa/src/SpeckleyDomain.cpp:69
void addToSystemMatrix(escript::AbstractSystemMatrix *mat, const IndexVector &nodes, dim_t numEq, const DoubleVector &array) const
Definition: speckley/src/SpeckleyDomain.cpp:903
int getNumDataPointsPerSample() const
Return the number of data points per sample.
Definition: Data.h:544
bool isComplex() const
True if components of this data are stored as complex.
Definition: Data.cpp:1160
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::Data getSize() const
Returns the sample size (e.g. the diameter of elements, radius of particles).
Definition: FunctionSpace.cpp:295
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
virtual std::string showTagNames() const
returns all tag names in a single string separated by commas
Definition: speckley/src/SpeckleyDomain.cpp:138
std::vector< real_t > DoubleVector
Definition: Speckley.h:45
#define REGISTER_ESCRIPT_EXCEPTION_TRANSLATORS
Definition: ExceptionTranslators.h:27
virtual double getLocalCoordinate(dim_t index, int dim) const =0
returns the index'th coordinate value in given dimension for this rank
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
void addPoints(const std::vector< double > &coords, const std::vector< int > &tags)
Definition: speckley/src/SpeckleyDomain.cpp:1134
assembler_t
Definition: speckley/src/SpeckleyDomain.h:36
virtual std::string getDescription() const =0
returns a description for this domain
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
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
Represents a full Speckley domain including nodes and elements.
Definition: weipa/src/SpeckleyDomain.h:37
virtual Centering getCenteringForFunctionSpace(int fsCode) const
Returns whether data on given function space is node or cell centered.
Definition: weipa/src/SpeckleyDomain.cpp:75
virtual bool operator!=(const escript::AbstractDomain &other) const
inequality operator
Definition: speckley/src/SpeckleyDomain.h:167
IndexVector m_diracPointNodeIDs
Definition: speckley/src/SpeckleyDomain.h:752
virtual escript::Data getNormal() const
returns boundary normals at the quadrature point on the face elements
Definition: speckley/src/SpeckleyDomain.cpp:440
int m_order
element order (will be m_order + 1 quad points in each axis)
Definition: speckley/src/SpeckleyDomain.h:755
@ DATATYPE_FLOAT64
Definition: speckley/src/system_dep.h:65
@ ReducedDegreesOfFreedom
Definition: Speckley.h:60
virtual bool supportsContactElements() const
returns true if this domain supports contact elements, false otherwise
Definition: speckley/src/SpeckleyDomain.h:378
#define INDEX2(_X1_, _X2_, _N1_)
Definition: index.h:23
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
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
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
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
bool initialized
Definition: VisItControl.cpp:38
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
@ ReducedFaceElements
Definition: Speckley.h:66
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
FunctionSpace continuousFunction(const AbstractDomain &domain)
Create function space objects.
Definition: FunctionSpaceFactory.cpp:31
virtual bool ownSample(int fsType, index_t id) const =0
returns true if this rank owns the sample id on given function space
std::string siloPath
Definition: weipa/src/SpeckleyDomain.h:66
const DataTypes::ShapeType & getDataPointShape() const
Return a reference to the data point shape.
Definition: Data.h:705
virtual bool onMasterProcessor() const
returns true if on MPI processor 0, else false
Definition: speckley/src/SpeckleyDomain.h:132
Assembler_ptr createAssemblerFromPython(const std::string type, const boost::python::list &options) const
Definition: speckley/src/SpeckleyDomain.cpp:743
virtual int getSolutionCode() const
returns a Solution FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:461
virtual int getApproximationOrder(int fsType) const
returns the approximation order used for a function space
Definition: speckley/src/SpeckleyDomain.h:372
void dump(const std::string &filename) const =0
dumps the mesh to a file with the given name
int getOrder() const
returns the order of the domain
Definition: speckley/src/SpeckleyDomain.h:742
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
std::vector< int > m_nodeTags
Definition: speckley/src/SpeckleyDomain.h:749
int byteOrder
byte order in the file (used by binary reader only)
Definition: speckley/src/SpeckleyDomain.h:64
int StatusType
Definition: AbstractDomain.h:53
virtual void assembleGradient(escript::Data &out, const escript::Data &in) const =0
computes the gradient of 'in' and puts the result in 'out'
StatusType m_status
Definition: speckley/src/SpeckleyDomain.h:746
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
virtual int getReducedFunctionCode() const
returns a function with reduced integration order FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:404
void assemblePDEBoundary(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
Definition: speckley/src/SpeckleyDomain.cpp:969
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
int m_numDim
Definition: speckley/src/SpeckleyDomain.h:745
virtual NodeData_ptr getMeshByName(const std::string &name) const
Returns the node mesh with given name.
Definition: weipa/src/SpeckleyDomain.cpp:200
boost::shared_ptr< SpeckleyNodes > SpeckleyNodes_ptr
Definition: SpeckleyNodes.h:31
boost::shared_ptr< AbstractDomain > Domain_ptr
Definition: AbstractDomain.h:41
Give a short description of what AbstractTransportProblem does.
Definition: AbstractTransportProblem.h:45
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
virtual int getReducedFunctionOnBoundaryCode() const
returns a function on boundary with reduced integration order FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:421
virtual void Print_Mesh_Info(bool full=false) const
writes information about the mesh to standard output
Definition: speckley/src/SpeckleyDomain.cpp:692
int getDataPointSize() const
Return the size of the data point. It is the product of the data point shape dimensions.
Definition: Data.cpp:1360
virtual void setNewX(const escript::Data &arg)
assigns new location to the domain.
Definition: speckley/src/SpeckleyDomain.cpp:803
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
std::vector< dim_t > first
the (global) offset into the data object to start writing into
Definition: speckley/src/SpeckleyDomain.h:55
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
virtual boost::python::tuple getGridParameters() const =0
returns the tuple (origin, spacing, number_of_elements)
virtual StringVec getMeshNames() const
Returns the names of all meshes within this domain.
Definition: weipa/src/SpeckleyDomain.cpp:126
Definition: FunctionSpace.h:36
virtual dim_t getNumNodes() const =0
returns the number of nodes per MPI rank
virtual const int * getNumSubdivisionsPerDim() const =0
returns the number of spatial subdivisions in each dimension
JMPI makeInfo(MPI_Comm comm, bool owncom)
Definition: EsysMPI.cpp:29
std::vector< DiracPoint > m_diracPoints
Definition: speckley/src/SpeckleyDomain.h:751
std::vector< int > m_elementTagsInUse
Definition: speckley/src/SpeckleyDomain.h:750
SpeckleyElements_ptr faces
Definition: weipa/src/SpeckleyDomain.h:65
const FunctionSpace & getFunctionSpace() const
Return the function space.
Definition: Data.h:463
void complicate()
Definition: Data.cpp:6053
boost::shared_ptr< DataVar > DataVar_ptr
Definition: weipa.h:65
Definition: DataVar.cpp:51
const_Domain_ptr getDomain() const
Returns the function space domain.
Definition: FunctionSpace.cpp:103
#define MPI_INT
Definition: EsysMPI.h:48
@ BYTEORDER_NATIVE
Definition: speckley/src/system_dep.h:50
virtual int getReducedSolutionCode() const
returns a ReducedSolution FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:469
Definition: AbstractAssembler.cpp:19
virtual int getReducedContinuousFunctionCode() const
returns a continuous on reduced order nodes FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:390
@ ZONE_CENTERED
Definition: DomainChunk.h:33
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
int getNumSamples() const
Return the number of samples.
Definition: Data.h:533
void copy(dim_t N, double *out, const double *in)
out = in
Definition: PasoUtil.h:88
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
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
virtual bool initFromEscript(const escript::AbstractDomain *domain)
Initialises the domain using an escript domain instance.
Definition: weipa/src/SpeckleyDomain.cpp:50
void assembleComplexPDEDirac(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
Definition: speckley/src/SpeckleyDomain.cpp:1069
#define MPI_COMM_WORLD
Definition: EsysMPI.h:50
virtual escript::ATP_ptr newTransportProblem(int blocksize, const escript::FunctionSpace &functionspace, int type) const
creates a transport problem
Definition: speckley/src/SpeckleyDomain.cpp:782
Data represents a collection of datapoints.
Definition: Data.h:64
std::vector< int > m_elementTags
Definition: speckley/src/SpeckleyDomain.h:750
double l2(dim_t n, const double *x, escript::JMPI mpiinfo)
returns the global L2 norm of x
Definition: PasoUtil.cpp:501
virtual DataVar_ptr getDataVarByName(const std::string &name) const
Creates and returns a variable with domain data.
Definition: weipa/src/SpeckleyDomain.cpp:157
virtual escript::JMPI getMPI() const
returns a reference to the MPI information wrapper for this domain
Definition: speckley/src/SpeckleyDomain.h:104
escript::Data getX() const
Returns the spatial locations of the data points.
Definition: FunctionSpace.cpp:229
index_t dim_t
Definition: DataTypes.h:66
void tupleListToMap(DataMap &mapping, const bp::list &list)
Definition: speckley/src/SpeckleyDomain.cpp:36
std::vector< int > reverse
if non-zero, values are written from last index to first index
Definition: speckley/src/SpeckleyDomain.h:62
virtual void interpolateNodesOnElements(escript::Data &out, const escript::Data &in, bool reduced) const =0
interpolates data on nodes in 'in' onto elements in 'out'
const index_t * borrowSampleReferenceIDs(int fsType) const =0
returns the array of reference numbers for a function space type
boost::shared_ptr< JMPI_ > JMPI
Definition: EsysMPI.h:74
virtual void readBinaryGridFromZipped(escript::Data &out, std::string filename, const ReaderParameters ¶ms) const =0
reads grid data from a compressed raw binary file into a Data object
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
boost::shared_ptr< AbstractTransportProblem > ATP_ptr
Definition: AbstractTransportProblem.h:161
Base class for escript system matrices.
Definition: AbstractSystemMatrix.h:44
Stores and manipulates one type of speckley mesh elements (cells, faces).
Definition: SpeckleyElements.h:46
@ DATATYPE_FLOAT32
Definition: speckley/src/system_dep.h:64
virtual escript::Data getX() const
returns locations in the SEM nodes
Definition: speckley/src/SpeckleyDomain.cpp:423
escript::JMPI m_mpiInfo
Definition: speckley/src/SpeckleyDomain.h:747
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...
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
bool isComplexCoef(const std::string target, const DataMap &mapping)
returns true if the target data object is complex
Definition: speckley/src/domainhelpers.h:47
virtual int getFunctionOnContactZeroCode() const
return a FunctionOnContactZero code
Definition: speckley/src/SpeckleyDomain.h:429
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
escript::Data unpackData(std::string target, std::map< std::string, escript::Data > mapping)
Definition: AbstractAssembler.cpp:21
virtual int getMPISize() const
returns the number of processors used for this domain
Definition: speckley/src/SpeckleyDomain.h:110
boost::shared_ptr< ElementData > ElementData_ptr
Definition: weipa.h:67
Brick is the 3-dimensional implementation of a SpeckleyDomain.
Definition: speckley/src/Brick.h:34
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
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
virtual void write(const std::string &filename) const =0
writes the current mesh to a file with the given name
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
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
@ NODE_CENTERED
Definition: DomainChunk.h:32
void assemblePDEDirac(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
Definition: speckley/src/SpeckleyDomain.cpp:1025
virtual const dim_t * getNumElementsPerDim() const =0
returns the number of elements per MPI rank in each dimension
SpeckleyDomain extends the AbstractContinuousDomain interface for the Speckley library and is the bas...
Definition: speckley/src/SpeckleyDomain.h:86
virtual dim_t getDofOfNode(dim_t node) const =0
@ ReducedElements
Definition: Speckley.h:64
MPI_Comm getMPIComm() const
returns the MPI communicator
Definition: speckley/src/SpeckleyDomain.h:138
virtual void MPIBarrier() const
if compiled for MPI then executes an MPI_Barrier, else does nothing
Definition: speckley/src/SpeckleyDomain.h:122
bool isEmpty() const
Definition: Data.cpp:1132
virtual dim_t getNumDOF() const =0
returns the number of degrees of freedom per MPI rank
bool initialized
Definition: weipa/src/SpeckleyDomain.h:62
@ FaceElements
Definition: Speckley.h:65
virtual bool isValidTagName(const std::string &name) const
returns true if name is a defined tag name
Definition: speckley/src/SpeckleyDomain.h:215
TagMap m_tagMap
Definition: speckley/src/SpeckleyDomain.h:748
boost::shared_ptr< SpeckleyElements > SpeckleyElements_ptr
Definition: SpeckleyElements.h:33
Rectangle is the 2-dimensional implementation of a SpeckleyDomain.
Definition: speckley/src/Rectangle.h:34
virtual IndexVector getNodeDistribution() const =0
returns the node distribution vector
virtual int getTag(const std::string &name) const
returns the tag key for tag name
Definition: speckley/src/SpeckleyDomain.h:202
@ DegreesOfFreedom
Definition: Speckley.h:59
std::vector< int > m_nodeTagsInUse
Definition: speckley/src/SpeckleyDomain.h:749
virtual const dim_t * getNumNodesPerDim() const =0
returns the number of nodes per MPI rank in each dimension
@ Elements
Definition: Speckley.h:63
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
virtual ElementData_ptr getElementsForFunctionSpace(int fsCode) const
Returns the element data for given function space code.
Definition: weipa/src/SpeckleyDomain.cpp:97
void updateTagsInUse(int fsType) const
Definition: speckley/src/SpeckleyDomain.cpp:844
assembler_t assembler_type
Definition: speckley/src/SpeckleyDomain.h:753
virtual StringVec getVarNames() const
Returns the names of all 'special' domain variables.
Definition: weipa/src/SpeckleyDomain.cpp:142
@ ReducedNodes
Definition: Speckley.h:62
virtual bool canTag(int fsType) const
checks if this domain allows tags for the specified function space type
Definition: speckley/src/SpeckleyDomain.cpp:581
boost::shared_ptr< SubWorld > SubWorld_ptr
Definition: SubWorld.h:147
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
#define MPI_MIN
Definition: EsysMPI.h:55
SpeckleyElements_ptr cells
Definition: weipa/src/SpeckleyDomain.h:64
virtual int getReducedFunctionOnContactOneCode() const
returns a FunctionOnContactOne code with reduced integration order
Definition: speckley/src/SpeckleyDomain.h:453
@ BYTEORDER_LITTLE_ENDIAN
Definition: speckley/src/system_dep.h:58
virtual ElementData_ptr getElementsByName(const std::string &name) const
Returns element data with given name.
Definition: weipa/src/SpeckleyDomain.cpp:189
virtual int getDiracDeltaFunctionsCode() const
returns a DiracDeltaFunctions FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:477
SpeckleyNodes_ptr nodes
Definition: weipa/src/SpeckleyDomain.h:63
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
@ BYTEORDER_BIG_ENDIAN
Definition: speckley/src/system_dep.h:59
int dataType
data type in the file (used by binary reader only)
Definition: speckley/src/SpeckleyDomain.h:66
BOOST_PYTHON_MODULE(speckleycpp)
Definition: speckleycpp.cpp:319
void RuntimeErrorTranslator(const EsysException &e)
Function which translates an EsysException into a python RuntimeError.
Definition: ExceptionTranslators.cpp:37
virtual void removeGhostZones(int ownIndex)
Removes 'ghost' elements and nodes.
Definition: weipa/src/SpeckleyDomain.cpp:217
int index_t
type for array/matrix indices used both globally and on each rank
Definition: DataTypes.h:61
virtual void assembleCoordinates(escript::Data &arg) const =0
populates the data object 'arg' with the node coordinates
virtual int getNumberOfTagsInUse(int fsType) const
returns the number of tags in use for a function space type
Definition: speckley/src/SpeckleyDomain.cpp:658
virtual int getReducedFunctionOnContactZeroCode() const
returns a FunctionOnContactZero code with reduced integration order
Definition: speckley/src/SpeckleyDomain.h:437
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....
bool isExpanded() const
Return true if this Data is expanded.
Definition: Data.cpp:1111
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
std::vector< int > multiplier
Definition: speckley/src/SpeckleyDomain.h:60
virtual void readBinaryGrid(escript::Data &out, std::string filename, const ReaderParameters ¶ms) const =0
reads grid data from a raw binary file into a Data object
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
boost::shared_ptr< NodeData > NodeData_ptr
Definition: weipa.h:69
virtual int getContinuousFunctionCode() const
returns a continuous FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:384
std::vector< std::string > StringVec
Definition: weipa.h:61
int getTypeCode() const
Returns the function space type code.
Definition: FunctionSpace.cpp:95
@ DEFAULT_ASSEMBLER
Definition: speckley/src/SpeckleyDomain.h:37
virtual Assembler_ptr createAssembler(const std::string type, const DataMap &options) const
Definition: speckley/src/SpeckleyDomain.h:724
int getDim() const
Return the number of spatial dimensions of the underlying domain.
Definition: FunctionSpace.h:183
virtual int getMPIRank() const
returns the MPI rank of this processor
Definition: speckley/src/SpeckleyDomain.h:116
FunctionSpace function(const AbstractDomain &domain)
Return a function FunctionSpace.
Definition: FunctionSpaceFactory.cpp:43
virtual NodeData_ptr getNodes() const
Returns a pointer to the full nodes.
Definition: weipa/src/SpeckleyDomain.h:57
dim_t node
Definition: speckley/src/SpeckleyDomain.h:75
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
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
int getTagFromSampleNo(int fsType, dim_t sampleNo) const
returns the tag key for the given sample number
Definition: speckley/src/SpeckleyDomain.cpp:633
Structure that wraps parameters for the grid reading routines.
Definition: speckley/src/SpeckleyDomain.h:53
virtual int getDim() const
returns the number of spatial dimensions of the domain
Definition: speckley/src/SpeckleyDomain.h:157
virtual std::string functionSpaceTypeAsString(int fsType) const
returns a description for the given function space type code
Definition: speckley/src/SpeckleyDomain.cpp:94
virtual void interpolateElementsOnNodes(escript::Data &out, const escript::Data &in) const =0
interpolates data on elements in 'in' onto nodes in 'out'
SpeckleyDomain()
Definition: weipa/src/SpeckleyDomain.cpp:36
virtual dim_t getNumElements() const =0
returns the number of elements per MPI rank
@ Points
Definition: Speckley.h:67
int MPI_Comm
Definition: EsysMPI.h:44
virtual void reduceElements(escript::Data &out, const escript::Data &in) const =0
interpolates from Element -> ReducedElement
void setToIntegralsWorker(std::vector< Scalar > &integrals, const escript::Data &arg) const
Definition: speckley/src/SpeckleyDomain.cpp:531
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
Base class for all escript domains.
Definition: AbstractDomain.h:51
std::vector< index_t > IndexVector
Definition: Speckley.h:44
std::vector< dim_t > numValues
the number of values to read from file
Definition: speckley/src/SpeckleyDomain.h:57
#define Speckley_DLL_API
Definition: speckley/src/system_dep.h:23
virtual dim_t getNumDataPointsGlobal() const =0
returns the number of data points summed across all MPI processes
boost::shared_ptr< AbstractSystemMatrix > ASM_ptr
Definition: AbstractSystemMatrix.h:33
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 ...
std::complex< real_t > cplx_t
complex data type
Definition: DataTypes.h:55
A struct to contain a dirac point's information.
Definition: speckley/src/SpeckleyDomain.h:74
Centering
Definition: DomainChunk.h:31
int getRowBlockSize() const
returns the row block size
Definition: AbstractSystemMatrix.h:114
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
virtual escript::Data getSize() const
returns the element size
Definition: speckley/src/SpeckleyDomain.cpp:445
virtual void readNcGrid(escript::Data &out, std::string filename, std::string varname, const ReaderParameters ¶ms) const =0
reads grid data from a netCDF file into a Data object
std::map< std::string, escript::Data > DataMap
Definition: speckley/src/domainhelpers.h:25
void expand()
Whatever the current Data type make this into a DataExpanded.
Definition: Data.cpp:1180
int getColumnBlockSize() const
returns the column block size
Definition: AbstractSystemMatrix.h:125
std::vector< int > IntVec
Definition: weipa.h:60
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
virtual NodeData_ptr getMeshForFunctionSpace(int fsCode) const
Returns the node mesh for given function space code.
Definition: weipa/src/SpeckleyDomain.cpp:81
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
bool isNotEmpty(const std::string target, const DataMap &mapping)
Definition: speckley/src/domainhelpers.h:40
An exception class that signals an invalid argument value.
Definition: EsysException.h:100
virtual void assembleIntegrate(std::vector< cplx_t > &integrals, const escript::Data &arg) const =0
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
int tag
Definition: speckley/src/SpeckleyDomain.h:76
A class that provides functionality to read an escript data object from a dump file or an escript::Da...
Definition: DataVar.h:37
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
~SpeckleyDomain()
Destructor.
Definition: speckley/src/SpeckleyDomain.cpp:64
void assemblePDEDiracWrap(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
Definition: speckley/src/SpeckleyDomain.cpp:1013
AbstractContinuousDomain, base class for continuous domains.
Definition: AbstractContinuousDomain.h:47
SpeckleyException exception class.
Definition: SpeckleyException.h:31
virtual dim_t findNode(const double *coords) const =0
finds the node that the given point coordinates belong to
virtual bool operator==(const escript::AbstractDomain &other) const
equality operator
Definition: speckley/src/SpeckleyDomain.cpp:69
virtual int getFunctionOnBoundaryCode() const
returns a function on boundary FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:412
virtual int getFunctionOnContactOneCode() const
returns a FunctionOnContactOne code
Definition: speckley/src/SpeckleyDomain.h:445
void multiplyData(escript::Data &out, const escript::Data &in) const
expands ReducedFunction (in) to Function (out)
Definition: speckley/src/SpeckleyDomain.cpp:825
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
Stores and manipulates speckley mesh nodes.
Definition: SpeckleyNodes.h:40
virtual int getFunctionCode() const
returns a function FunctionSpace code
Definition: speckley/src/SpeckleyDomain.h:398
virtual const double * getLength() const =0
returns the lengths of the domain
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
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
@ Nodes
Definition: Speckley.h:61
std::vector< T > extractPyArray(const object &obj, const std::string &name, int expectedLength=0)
Definition: speckleycpp.cpp:36
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'