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18 #ifndef __RIPLEY_DOMAIN_H__
19 #define __RIPLEY_DOMAIN_H__
21 #include <ripley/Ripley.h>
22 #include <ripley/AbstractAssembler.h>
23 #include <ripley/RipleyException.h>
25 #include <escript/AbstractContinuousDomain.h>
26 #include <escript/Data.h>
27 #include <escript/FunctionSpace.h>
28 #include <escript/SubWorld.h>
31 #include <paso/Coupler.h>
32 #include <paso/SystemMatrix.h>
35 #ifdef ESYS_HAVE_TRILINOS
36 #include <trilinoswrap/types.h>
39 #include <boost/python/list.hpp>
40 #include <boost/python/tuple.hpp>
130 virtual int getMPISize()
const {
return m_mpiInfo->size; }
136 virtual int getMPIRank()
const {
return m_mpiInfo->rank; }
142 virtual void MPIBarrier()
const {
144 MPI_Barrier(m_mpiInfo->comm);
152 virtual bool onMasterProcessor()
const {
return getMPIRank()==0; }
158 MPI_Comm getMPIComm()
const {
return m_mpiInfo->comm; }
165 virtual bool isValidFunctionSpaceType(
int fsType)
const;
171 virtual std::string functionSpaceTypeAsString(
int fsType)
const;
177 virtual int getDim()
const {
return m_numDim; }
188 return !(operator==(other));
197 virtual std::pair<int,dim_t> getDataShape(
int fsType)
const;
205 int getTagFromSampleNo(
int fsType,
dim_t sampleNo)
const;
213 virtual void setTagMap(
const std::string& name,
int tag) {
214 m_tagMap[name] = tag;
222 virtual int getTag(
const std::string& name)
const {
223 if (m_tagMap.find(name) != m_tagMap.end()) {
224 return m_tagMap.find(name)->second;
235 virtual bool isValidTagName(
const std::string& name)
const {
236 return (m_tagMap.find(name)!=m_tagMap.end());
243 virtual std::string showTagNames()
const;
264 virtual bool probeInterpolationOnDomain(
int fsType_source,
int fsType_target)
const;
273 virtual signed char preferredInterpolationOnDomain(
int fsType_source,
274 int fsType_target)
const;
283 commonFunctionSpace(
const std::vector<int>& fs,
int& resultcode)
const;
305 #ifdef ESYS_HAVE_BOOST_NUMPY
310 virtual boost::python::numpy::ndarray getNumpyX()
const;
315 virtual boost::python::numpy::ndarray getConnectivityInfo()
const;
349 virtual void setTags(
int fsType,
int newTag,
const escript::Data& mask)
const;
356 virtual bool isCellOriented(
int fsType)
const;
364 virtual StatusType getStatus()
const {
return m_status; }
370 virtual int getNumberOfTagsInUse(
int fsType)
const;
376 virtual const int* borrowListOfTagsInUse(
int fsType)
const;
382 virtual bool canTag(
int fsType)
const;
388 virtual int getApproximationOrder(
int fsType)
const {
return 1; }
394 virtual bool supportsContactElements()
const {
return false; }
400 virtual int getContinuousFunctionCode()
const {
return Nodes; }
406 virtual int getReducedContinuousFunctionCode()
const {
return ReducedNodes; }
412 virtual int getFunctionCode()
const {
return Elements; }
437 virtual int getFunctionOnContactZeroCode()
const {
445 virtual int getReducedFunctionOnContactZeroCode()
const {
453 virtual int getFunctionOnContactOneCode()
const {
461 virtual int getReducedFunctionOnContactOneCode()
const {
481 virtual int getDiracDeltaFunctionsCode()
const {
return Points; }
491 virtual int getSystemMatrixTypeId(
const boost::python::object& options)
const;
502 virtual int getTransportTypeId(
int solver,
int preconditioner,
int package,
503 bool symmetry)
const;
510 virtual void setToIntegrals(std::vector<real_t>& integrals,
512 virtual void setToIntegrals(std::vector<cplx_t>& integrals,
523 Assembler_ptr assembler)
const;
531 Assembler_ptr assembler)
const;
539 Assembler_ptr assembler)
const;
546 const boost::python::list& data,
547 Assembler_ptr assembler)
const;
555 Assembler_ptr assembler)
const;
559 virtual void addPDEToTransportProblem(
572 void addPDEToTransportProblemFromPython(
575 Assembler_ptr assembler)
const;
583 int column_blocksize,
599 virtual void Print_Mesh_Info(
bool full=
false)
const;
609 virtual void write(
const std::string& filename)
const = 0;
615 virtual std::string getDescription()
const = 0;
622 void dump(
const std::string& filename)
const = 0;
629 const dim_t* borrowSampleReferenceIDs(
int fsType)
const = 0;
671 virtual void writeBinaryGrid(
const escript::Data& in, std::string filename,
672 int byteOrder,
int dataType)
const = 0;
678 virtual bool ownSample(
int fsType,
index_t id)
const = 0;
684 virtual dim_t getNumDataPointsGlobal()
const = 0;
690 virtual const dim_t* getNumNodesPerDim()
const = 0;
696 virtual const dim_t* getNumElementsPerDim()
const = 0;
703 virtual const dim_t* getNumFacesPerBoundary()
const = 0;
709 virtual IndexVector getNodeDistribution()
const = 0;
715 virtual const int* getNumSubdivisionsPerDim()
const = 0;
721 virtual double getLocalCoordinate(
index_t index,
int dim)
const = 0;
727 virtual boost::python::tuple getGridParameters()
const = 0;
733 virtual const double *getLength()
const = 0;
739 virtual const double *getElementLength()
const = 0;
746 virtual RankVector getOwnerVector(
int fsType)
const = 0;
753 virtual bool supportsFilter(
const boost::python::tuple& t)
const;
758 virtual Assembler_ptr createAssembler(std::string type,
759 const DataMap& options)
const {
766 Assembler_ptr createAssemblerFromPython(std::string type,
767 const boost::python::list& options)
const;
775 mutable std::vector<int> m_nodeTags, m_nodeTagsInUse;
776 mutable std::vector<int> m_elementTags, m_elementTagsInUse;
777 mutable std::vector<int> m_faceTags, m_faceTagsInUse;
778 std::vector<DiracPoint> m_diracPoints;
783 template<
typename Scalar>
787 template<
typename Scalar>
791 template<
typename Scalar>
795 void updateTagsInUse(
int fsType)
const;
797 #ifdef ESYS_HAVE_PASO
798 void createPasoConnector(
const RankVector& neighbour,
814 #ifdef ESYS_HAVE_TRILINOS
815 esys_trilinos::const_TrilinosGraph_ptr createTrilinosGraph(
821 template<
typename Scalar>
824 const std::vector<Scalar>& array)
const;
826 void addPoints(
const std::vector<double>& coords,
827 const std::vector<int>& tags);
832 virtual dim_t getNumNodes()
const = 0;
835 virtual dim_t getNumElements()
const = 0;
838 virtual dim_t getNumDOF()
const = 0;
841 virtual dim_t getNumFaceElements()
const = 0;
844 virtual IndexVector getDiagonalIndices(
bool upperOnly)
const = 0;
847 virtual void assembleCoordinates(
escript::Data& arg)
const = 0;
853 virtual void assembleIntegrate(std::vector<real_t>& integrals,
const escript::Data& arg)
const = 0;
854 virtual void assembleIntegrate(std::vector<cplx_t>& integrals,
const escript::Data& arg)
const = 0;
856 #ifdef ESYS_HAVE_TRILINOS
857 virtual esys_trilinos::const_TrilinosGraph_ptr getTrilinosGraph()
const = 0;
862 virtual std::vector<IndexVector> getConnections(
bool includeShared)
const = 0;
864 #ifdef ESYS_HAVE_PASO
867 bool reducedRowOrder,
868 bool reducedColOrder)
const = 0;
874 bool reduced)
const = 0;
879 bool reduced)
const = 0;
885 template<
typename Scalar>
888 virtual dim_t getDofOfNode(
dim_t node)
const = 0;
893 #ifdef ESYS_HAVE_PASO
905 const DataMap& coefs, Assembler_ptr assembler)
const;
911 Assembler_ptr assembler)
const;
915 Assembler_ptr assembler)
const;
917 template<
typename Scalar>
918 void setToIntegralsWorker(std::vector<Scalar>& integrals,
922 virtual dim_t findNode(
const double *coords)
const = 0;
927 #endif // __RIPLEY_DOMAIN_H__
virtual void assembleCoordinates(escript::Data &arg) const =0
populates the data object 'arg' with the node coordinates
virtual dim_t getNumElements() const =0
returns the number of elements per MPI rank
SolverOptions
Definition: SolverOptions.h:92
int getNumDataPointsPerSample() const
Return the number of data points per sample.
Definition: Data.h:543
Definition: SolverOptions.h:170
bool isNotEmpty(const std::string target, const DataMap &mapping)
Definition: ripley/src/domainhelpers.h:52
bool isComplex() const
True if components of this data are stored as complex.
Definition: Data.cpp:1164
static dim_t N
Definition: SparseMatrix_saveHB.cpp:50
Definition: ripley/src/AbstractAssembler.h:25
escript::JMPI m_mpiInfo
Definition: ripley/src/RipleyDomain.h:785
escript::Data getSize() const
Returns the sample size (e.g. the diameter of elements, radius of particles).
Definition: FunctionSpace.cpp:294
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
Definition: ripley/src/RipleyDomain.h:74
virtual dim_t getNumFaceElements() const =0
returns the number of face elements on current MPI rank
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: ripley/src/RipleyDomain.cpp:325
virtual dim_t getDofOfNode(dim_t node) const =0
Definition: ripley/src/RipleyDomain.h:64
std::map< std::string, escript::Data > DataMap
Definition: ripley/src/domainhelpers.h:37
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/RipleyDomain.cpp:215
#define REGISTER_ESCRIPT_EXCEPTION_TRANSLATORS
Definition: ExceptionTranslators.h:25
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
FunctionSpace reducedContinuousFunction(const AbstractDomain &domain)
Return a continuous with reduced order FunctionSpace (overlapped node values on reduced element order...
Definition: FunctionSpaceFactory.cpp:49
Definition: ripley/src/RipleyDomain.h:67
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:1243
std::vector< int > m_elementTags
Definition: ripley/src/RipleyDomain.h:788
BOOST_PYTHON_MODULE(ripleycpp)
Definition: ripleycpp.cpp:491
std::vector< dim_t > first
the (global) offset into the data object to start writing into
Definition: ripley/src/RipleyDomain.h:84
virtual bool operator==(const escript::AbstractDomain &other) const
equality operator
Definition: ripley/src/RipleyDomain.cpp:94
std::vector< int > m_faceTags
Definition: ripley/src/RipleyDomain.h:789
this class holds a (distributed) stiffness matrix
Definition: SystemMatrix.h:60
virtual void removeGhostZones(int ownIndex)
Removes 'ghost' elements and nodes.
Definition: weipa/src/RipleyDomain.cpp:228
Definition: SolverOptions.h:125
virtual bool canTag(int fsType) const
checks if this domain allows tags for the specified function space type
Definition: ripley/src/RipleyDomain.cpp:724
#define MATRIX_FORMAT_CSC
Definition: Paso.h:62
std::vector< int > m_elementTagsInUse
Definition: ripley/src/RipleyDomain.h:788
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: ripley/src/RipleyDomain.cpp:652
#define INDEX2(_X1_, _X2_, _N1_)
Definition: index.h:22
RipleyException exception class.
Definition: RipleyException.h:42
virtual std::vector< IndexVector > getConnections(bool includeShared) const =0
returns occupied matrix column indices for all matrix rows
void multiplyData(escript::Data &out, const escript::Data &in) const
copies data in 'in' to 'out' (from reduced to non-reduced fs)
Definition: ripley/src/RipleyDomain.cpp:1249
Definition: ripley/src/RipleyDomain.h:72
std::vector< int > m_nodeTagsInUse
Definition: ripley/src/RipleyDomain.h:787
void tupleListToMap(DataMap &mapping, const bp::list &list)
Definition: ripley/src/RipleyDomain.cpp:62
std::map< std::string, int > TagMap
Definition: Ripley.h:60
#define RIPLEY_DLL_API
Definition: ripley/src/system_dep.h:20
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:1988
virtual bool probeInterpolationAcross(int, const escript::AbstractDomain &, int) const
determines whether interpolation from source to target is possible
Definition: ripley/src/RipleyDomain.cpp:1780
virtual escript::ATP_ptr newTransportProblem(int blocksize, const escript::FunctionSpace &functionspace, int type) const
creates a transport problem
Definition: ripley/src/RipleyDomain.cpp:1070
bool initialized
Definition: VisItControl.cpp:63
Definition: ripley/src/system_dep.h:61
virtual int getNumberOfTagsInUse(int fsType) const
returns the number of tags in use for a function space type
Definition: ripley/src/RipleyDomain.cpp:816
Definition: ripley/src/system_dep.h:59
Stores and manipulates one type of ripley mesh elements (cells, faces).
Definition: RipleyElements.h:44
SolverOptions getPackage() const
Definition: SolverOptions.cpp:471
FunctionSpace continuousFunction(const AbstractDomain &domain)
Create function space objects.
Definition: FunctionSpaceFactory.cpp:43
virtual bool onMasterProcessor() const
returns true if on MPI processor 0, else false
Definition: ripley/src/RipleyDomain.h:164
An exception class for features which are not (yet) implemented.
Definition: EsysException.h:91
Definition: ripley/src/RipleyDomain.h:63
RipleyElements_ptr cells
Definition: weipa/src/RipleyDomain.h:89
escript::Domain_ptr _multibrick(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, unsigned int multiplier)
Definition: ripleycpp.cpp:239
virtual dim_t getNumDOF() const =0
returns the number of degrees of freedom per MPI rank
SystemMatrixType
Definition: ripley/src/RipleyDomain.h:62
SystemMatrix_ptr borrowMassMatrix() const
Definition: Transport.h:69
SolverOptions getSolverMethod() const
Definition: SolverOptions.cpp:408
Definition: ripley/src/RipleyDomain.h:71
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: ripley/src/RipleyDomain.cpp:1040
int StatusType
Definition: AbstractDomain.h:65
boost::shared_ptr< SystemMatrixPattern > SystemMatrixPattern_ptr
Definition: SystemMatrixPattern.h:52
Definition: ripley/src/RipleyDomain.h:65
virtual Assembler_ptr createAssembler(std::string type, const DataMap &options) const
Definition: ripley/src/RipleyDomain.h:770
dim_t node
Definition: ripley/src/RipleyDomain.h:104
virtual void interpolateNodesOnElements(escript::Data &out, const escript::Data &in, bool reduced) const =0
interpolates data on nodes in 'in' onto (reduced) elements in 'out'
virtual int getMPIRank() const
returns the MPI rank of this processor
Definition: ripley/src/RipleyDomain.h:148
Definition: ripley/src/system_dep.h:46
virtual const int * borrowListOfTagsInUse(int fsType) const
returns a pointer to the list of tags in use for a function space type
Definition: ripley/src/RipleyDomain.cpp:836
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: ripley/src/RipleyDomain.cpp:192
std::vector< int > m_faceTagsInUse
Definition: ripley/src/RipleyDomain.h:789
Definition: SharedComponents.h:53
int byteOrder
byte order in the file (used by binary reader only)
Definition: ripley/src/RipleyDomain.h:93
IndexVector m_diracPointNodeIDs
Definition: ripley/src/RipleyDomain.h:791
boost::shared_ptr< AbstractDomain > Domain_ptr
Definition: AbstractDomain.h:53
std::vector< dim_t > numValues
the number of values to read from file
Definition: ripley/src/RipleyDomain.h:86
Give a short description of what AbstractTransportProblem does.
Definition: AbstractTransportProblem.h:56
A struct to contain a dirac point's information.
Definition: ripley/src/RipleyDomain.h:102
escript::Domain_ptr _rectangle(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: ripleycpp.cpp:409
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
Definition: SolverOptions.h:145
int getDataPointSize() const
Return the size of the data point. It is the product of the data point shape dimensions.
Definition: Data.cpp:1364
bool isComplex() const
Definition: SolverOptions.cpp:637
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: ripley/src/RipleyDomain.cpp:1786
const escript::Data unpackData(const std::string target, const DataMap &mapping)
Definition: ripley/src/domainhelpers.h:41
Definition: FunctionSpace.h:47
virtual void MPIBarrier() const
if compiled for MPI then executes an MPI_Barrier, else does nothing
Definition: ripley/src/RipleyDomain.h:154
JMPI makeInfo(MPI_Comm comm, bool owncom)
Definition: EsysMPI.cpp:41
Definition: ripley/src/RipleyDomain.h:70
const FunctionSpace & getFunctionSpace() const
Return the function space.
Definition: Data.h:462
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: ripley/src/RipleyDomain.cpp:601
boost::shared_ptr< DataVar > DataVar_ptr
Definition: weipa.h:64
Definition: DataVar.cpp:50
#define MATRIX_FORMAT_OFFSET1
Definition: Paso.h:64
bool probeInterpolationAcross(int fsType_source, const escript::AbstractDomain &domain, int fsType_target, int dim)
Definition: CrossDomainCoupler.cpp:31
void averageData(escript::Data &out, const escript::Data &in) const
averages data in 'in' to 'out' (from non-reduced to reduced fs)
Definition: ripley/src/RipleyDomain.cpp:1227
const_Domain_ptr getDomain() const
Returns the function space domain.
Definition: FunctionSpace.cpp:102
#define MPI_INT
Definition: EsysMPI.h:45
RipleyNodes_ptr nodes
Definition: weipa/src/RipleyDomain.h:88
virtual escript::Data getSize() const
returns the element size
Definition: ripley/src/RipleyDomain.cpp:577
Represents a full Ripley domain including nodes and elements.
Definition: weipa/src/RipleyDomain.h:48
assembler_t assembler_type
Definition: ripley/src/RipleyDomain.h:792
boost::shared_ptr< RipleyElements > RipleyElements_ptr
Definition: RipleyElements.h:32
std::string siloPath
Definition: weipa/src/RipleyDomain.h:91
std::vector< int > m_nodeTags
Definition: ripley/src/RipleyDomain.h:787
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/RipleyDomain.cpp:242
Definition: ripley/src/system_dep.h:54
Definition: ripley/src/system_dep.h:60
Assembler_ptr createAssemblerFromPython(std::string type, const boost::python::list &options) const
Definition: ripley/src/RipleyDomain.cpp:1032
Stores and manipulates ripley mesh nodes.
Definition: RipleyNodes.h:38
std::vector< int > RankVector
Definition: Ripley.h:59
Definition: DomainChunk.h:32
int getNumSamples() const
Return the number of samples.
Definition: Data.h:532
escript::Data getNormal() const
Returns the surface normal field.
Definition: FunctionSpace.cpp:285
void copy(dim_t N, double *out, const double *in)
out = in
Definition: PasoUtil.h:113
Rectangle is the 2-dimensional implementation of a RipleyDomain.
Definition: ripley/src/Rectangle.h:41
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: ripley/src/RipleyDomain.cpp:1048
#define MPI_COMM_WORLD
Definition: EsysMPI.h:47
Data represents a collection of datapoints.
Definition: Data.h:63
RipleyDomain extends the AbstractContinuousDomain interface for the Ripley library and is the base cl...
Definition: ripley/src/RipleyDomain.h:114
virtual dim_t getNumDataPointsGlobal() const =0
returns the number of data points summed across all MPI processes
double l2(dim_t n, const double *x, escript::JMPI mpiinfo)
returns the global L2 norm of x
Definition: PasoUtil.cpp:527
SystemMatrix_ptr borrowTransportMatrix() const
Definition: Transport.h:64
int m_numDim
Definition: ripley/src/RipleyDomain.h:783
virtual boost::python::tuple getGridParameters() const =0
returns the tuple (origin, spacing, number_of_elements)
escript::Data getX() const
Returns the spatial locations of the data points.
Definition: FunctionSpace.cpp:228
index_t dim_t
Definition: DataTypes.h:90
boost::shared_ptr< JMPI_ > JMPI
Definition: EsysMPI.h:71
SystemMatrixType type
Definition: SystemMatrix.h:322
boost::shared_ptr< AbstractTransportProblem > ATP_ptr
Definition: AbstractTransportProblem.h:173
Base class for escript system matrices.
Definition: AbstractSystemMatrix.h:55
virtual bool initFromEscript(const escript::AbstractDomain *domain)
Initialises the domain using an escript domain instance.
Definition: weipa/src/RipleyDomain.cpp:49
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:1953
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: ripley/src/RipleyDomain.cpp:373
SparseMatrix_ptr mainBlock
main block
Definition: SystemMatrix.h:340
boost::shared_ptr< Coupler< T > > Coupler_ptr
Definition: Coupler.h:55
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: ripleycpp.cpp:87
virtual bool isValidFunctionSpaceType(int fsType) const
returns true if the argument is a valid function space type for this domain
Definition: ripley/src/RipleyDomain.cpp:105
virtual StringVec getVarNames() const
Returns the names of all 'special' domain variables.
Definition: weipa/src/RipleyDomain.cpp:145
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: ripley/src/RipleyDomain.cpp:942
boost::shared_ptr< ElementData > ElementData_ptr
Definition: weipa.h:66
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: ripley/src/RipleyDomain.cpp:1022
virtual bool initFromFile(const std::string &filename)
Reads the domain from a dump file.
Definition: weipa/src/RipleyDomain.cpp:70
virtual DataVar_ptr getDataVarByName(const std::string &name) const
Creates and returns a variable with domain data.
Definition: weipa/src/RipleyDomain.cpp:160
Definition: DomainChunk.h:31
virtual void assembleGradient(escript::Data &out, const escript::Data &in) const =0
computes the gradient of 'in' and puts the result in 'out'
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: ripleycpp.cpp:62
assembler_t
Definition: ripley/src/RipleyDomain.h:56
void assemblePDEBoundary(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
Definition: ripley/src/RipleyDomain.cpp:1667
RipleyElements_ptr faces
Definition: weipa/src/RipleyDomain.h:90
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'
std::vector< int > multiplier
Definition: ripley/src/RipleyDomain.h:89
SparseMatrix_ptr row_coupleBlock
coupling to neighbouring processors (col - row)
Definition: SystemMatrix.h:344
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: ripleycpp.cpp:116
bool isEmpty() const
Definition: Data.cpp:1136
std::vector< real_t > DoubleVector
Definition: Ripley.h:58
int getNumDataPoints() const
Return the number of data points.
Definition: Data.h:522
dim_t col_block_size
Definition: SystemMatrix.h:329
virtual bool supportsFilter(const boost::python::tuple &t) const
returns true if this domain can handle the specified tuple of filter options.
Definition: ripley/src/RipleyDomain.cpp:1793
virtual int getDim() const
returns the number of spatial dimensions of the domain
Definition: ripley/src/RipleyDomain.h:189
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: ripley/src/RipleyDomain.cpp:931
virtual ElementData_ptr getElementsByName(const std::string &name) const
Returns element data with given name.
Definition: weipa/src/RipleyDomain.cpp:192
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: ripley/src/RipleyDomain.cpp:1009
virtual void setNewX(const escript::Data &arg)
assigns new location to the domain.
Definition: ripley/src/RipleyDomain.cpp:1142
boost::shared_ptr< SharedComponents > SharedComponents_ptr
Definition: SharedComponents.h:48
Definition: SolverOptions.h:142
Definition: Transport.h:35
void setToIntegralsWorker(std::vector< Scalar > &integrals, const escript::Data &arg) const
Definition: ripley/src/RipleyDomain.cpp:663
virtual std::string getDescription() const =0
returns a description for this domain
static int getTypeId(int solver, int preconditioner, int package, bool symmetry, const escript::JMPI &mpi_info)
Definition: Transport.h:94
int tag
Definition: ripley/src/RipleyDomain.h:105
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: ripley/src/RipleyDomain.cpp:701
void assemblePDEDirac(escript::AbstractSystemMatrix *mat, escript::Data &rhs, const DataMap &coefs, Assembler_ptr assembler) const
Definition: ripley/src/RipleyDomain.cpp:1733
void updateTagsInUse(int fsType) const
Definition: ripley/src/RipleyDomain.cpp:1268
virtual ElementData_ptr getElementsForFunctionSpace(int fsCode) const
Returns the element data for given function space code.
Definition: weipa/src/RipleyDomain.cpp:96
virtual void setTagMap(const std::string &name, int tag)
sets a map from a clear tag name to a tag key
Definition: ripley/src/RipleyDomain.h:225
dim_t row_block_size
Definition: SystemMatrix.h:328
void dump(const std::string &filename) const =0
dumps the mesh to a file with the given name
Definition: ripley/src/system_dep.h:55
bool isSymmetric() const
Definition: SolverOptions.cpp:647
const dim_t * borrowSampleReferenceIDs(int fsType) const =0
returns the array of reference numbers for a function space type
Definition: ripley/src/RipleyDomain.h:68
Structure that wraps parameters for the grid reading routines.
Definition: ripley/src/RipleyDomain.h:81
void copyData(escript::Data &out, const escript::Data &in) const
copies data in 'in' to 'out' (both must be on same function space)
Definition: ripley/src/RipleyDomain.cpp:1212
SystemMatrixPattern_ptr pattern
Definition: SystemMatrix.h:323
virtual dim_t findNode(const double *coords) const =0
finds the node that the given point coordinates belong to
virtual escript::Data getX() const
returns locations in the FEM nodes
Definition: ripley/src/RipleyDomain.cpp:555
SolverOptions getPreconditioner() const
Definition: SolverOptions.cpp:352
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: ripley/src/RipleyDomain.cpp:1595
boost::shared_ptr< SubWorld > SubWorld_ptr
Definition: SubWorld.h:159
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: ripley/src/RipleyDomain.cpp:872
#define MPI_MIN
Definition: EsysMPI.h:52
bool isDirectSolver(const SolverOptions &method)
returns true if the passed solver method refers to a direct solver type
Definition: SolverOptions.h:155
Brick is the 3-dimensional implementation of a RipleyDomain.
Definition: ripley/src/Brick.h:41
void setDecompositionPolicy(int policy)
Definition: ripleycpp.cpp:139
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
virtual bool isValidTagName(const std::string &name) const
returns true if name is a defined tag name
Definition: ripley/src/RipleyDomain.h:247
virtual StringVec getMeshNames() const
Returns the names of all meshes within this domain.
Definition: weipa/src/RipleyDomain.cpp:129
virtual void nodesToDOF(escript::Data &out, const escript::Data &in) const =0
converts data on nodes in 'in' to degrees of freedom in 'out'
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: ripley/src/RipleyDomain.cpp:747
void RuntimeErrorTranslator(const EsysException &e)
Function which translates an EsysException into a python RuntimeError.
Definition: ExceptionTranslators.cpp:49
int index_t
type for array/matrix indices used both globally and on each rank
Definition: DataTypes.h:85
std::vector< index_t > IndexVector
Definition: Ripley.h:57
Brick is the 3-dimensional implementation of a RipleyDomain.
Definition: MultiBrick.h:41
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: ripley/src/RipleyDomain.cpp:1095
RipleyDomain()
Definition: weipa/src/RipleyDomain.cpp:35
std::vector< int > reverse
if non-zero, values are written from last index to first index
Definition: ripley/src/RipleyDomain.h:91
virtual std::string showTagNames() const
returns all tag names in a single string separated by commas
Definition: ripley/src/RipleyDomain.cpp:181
bool initialized
Definition: weipa/src/RipleyDomain.h:87
DecompositionPolicy
Definition: ripley/src/RipleyDomain.h:71
virtual std::string functionSpaceTypeAsString(int fsType) const
returns a description for the given function space type code
Definition: ripley/src/RipleyDomain.cpp:124
bool isExpanded() const
Return true if this Data is expanded.
Definition: Data.cpp:1115
void addPoints(const std::vector< double > &coords, const std::vector< int > &tags)
Definition: ripley/src/RipleyDomain.cpp:1811
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: ripley/src/RipleyDomain.cpp:582
boost::shared_ptr< NodeData > NodeData_ptr
Definition: weipa.h:68
Definition: SolverOptions.h:107
std::vector< std::string > StringVec
Definition: weipa.h:60
int getTypeCode() const
Returns the function space type code.
Definition: FunctionSpace.cpp:94
int getDim() const
Return the number of spatial dimensions of the underlying domain.
Definition: FunctionSpace.h:195
FunctionSpace function(const AbstractDomain &domain)
Return a function FunctionSpace.
Definition: FunctionSpaceFactory.cpp:55
~RipleyDomain()
Destructor.
Definition: ripley/src/RipleyDomain.cpp:89
void dofToNodes(escript::Data &out, const escript::Data &in) const
converts data on degrees of freedom in 'in' to nodes in 'out'
Definition: ripley/src/RipleyDomain.cpp:1149
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:138
Definition: ripley/src/RipleyDomain.h:72
virtual Centering getCenteringForFunctionSpace(int fsCode) const
Returns whether data on given function space is node or cell centered.
Definition: weipa/src/RipleyDomain.cpp:76
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: ripley/src/RipleyDomain.cpp:287
static dim_t M
Definition: SparseMatrix_saveHB.cpp:50
FunctionSpace functionOnBoundary(const AbstractDomain &domain)
Return a function on boundary FunctionSpace.
Definition: FunctionSpaceFactory.cpp:67
int MPI_Comm
Definition: EsysMPI.h:41
virtual NodeData_ptr getMeshForFunctionSpace(int fsCode) const
Returns the node mesh for given function space code.
Definition: weipa/src/RipleyDomain.cpp:82
boost::shared_ptr< Connector > Connector_ptr
Definition: Coupler.h:50
boost::shared_ptr< Pattern > Pattern_ptr
Definition: Pattern.h:50
virtual int getMPISize() const
returns the number of processors used for this domain
Definition: ripley/src/RipleyDomain.h:142
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:1122
Base class for all escript domains.
Definition: AbstractDomain.h:62
int getTagFromSampleNo(int fsType, dim_t sampleNo) const
returns the tag key for the given sample number
Definition: ripley/src/RipleyDomain.cpp:786
static int getSystemMatrixTypeId(int solver, int preconditioner, int package, bool symmetry, const escript::JMPI &mpi_info)
Definition: SystemMatrix.cpp:545
Definition: SolverOptions.h:116
boost::shared_ptr< AbstractSystemMatrix > ASM_ptr
Definition: AbstractSystemMatrix.h:45
Definition: ripley/src/RipleyDomain.h:66
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: ripley/src/RipleyDomain.cpp:151
virtual int getTag(const std::string &name) const
returns the tag key for tag name
Definition: ripley/src/RipleyDomain.h:234
std::vector< DiracPoint > m_diracPoints
Definition: ripley/src/RipleyDomain.h:790
Centering
Definition: DomainChunk.h:30
int getRowBlockSize() const
returns the row block size
Definition: AbstractSystemMatrix.h:126
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:62
int dataType
data type in the file (used by binary reader only)
Definition: ripley/src/RipleyDomain.h:95
int getColumnBlockSize() const
returns the column block size
Definition: AbstractSystemMatrix.h:137
std::vector< int > IntVec
Definition: weipa.h:59
TagMap m_tagMap
Definition: ripley/src/RipleyDomain.h:786
Definition: RipleySystemMatrix.h:38
Rectangle is the 2-dimensional implementation of a RipleyDomain.
Definition: MultiRectangle.h:41
virtual NodeData_ptr getMeshByName(const std::string &name) const
Returns the node mesh with given name.
Definition: weipa/src/RipleyDomain.cpp:203
An exception class that signals an invalid argument value.
Definition: EsysException.h:101
A class that provides functionality to read an escript data object from a dump file or an escript::Da...
Definition: DataVar.h:35
AbstractContinuousDomain, base class for continuous domains.
Definition: AbstractContinuousDomain.h:58
escript::Domain_ptr _multirectangle(double _n0, double _n1, const object &l0, const object &l1, int d0, int d1, const object &objpoints, const object &objtags, escript::SubWorld_ptr world, unsigned int multiplier)
Definition: ripleycpp.cpp:330
virtual escript::Data getNormal() const
returns boundary normals at the quadrature point on the face elements
Definition: ripley/src/RipleyDomain.cpp:572
#define MATRIX_FORMAT_DEFAULT
Definition: Paso.h:61
virtual void Print_Mesh_Info(bool full=false) const
writes information about the mesh to standard output
Definition: ripley/src/RipleyDomain.cpp:856
escript::Domain_ptr _brick(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: ripleycpp.cpp:150
virtual NodeData_ptr getNodes() const
Returns a pointer to the full nodes.
Definition: weipa/src/RipleyDomain.h:82
virtual dim_t getNumNodes() const =0
returns the number of nodes per MPI rank
Definition: ripley/src/RipleyDomain.h:73
boost::shared_ptr< RipleyNodes > RipleyNodes_ptr
Definition: RipleyNodes.h:30
virtual void interpolateNodesOnFaces(escript::Data &out, const escript::Data &in, bool reduced) const =0
interpolates data on nodes in 'in' onto (reduced) face elements in 'out'
void add(const IndexVector &rowIndex, const std::vector< double > &array)
std::vector< T > extractPyArray(const object &obj, const std::string &name, int expectedLength=0)
Definition: ripleycpp.cpp:37
virtual void addPDEToTransportProblem(escript::AbstractTransportProblem &tp, escript::Data &source, const DataMap &data, Assembler_ptr assembler) const
adds a PDE onto a transport problem
Definition: ripley/src/RipleyDomain.cpp:1104
SparseMatrix_ptr col_coupleBlock
coupling to neighbouring processors (row - col)
Definition: SystemMatrix.h:342
void addToSystemMatrix(escript::AbstractSystemMatrix *mat, const IndexVector &nodes, dim_t numEq, const std::vector< Scalar > &array) const