escript  Revision_
ripley/src/Brick.h
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1 
2 /*****************************************************************************
3 *
4 * Copyright (c) 2003-2020 by The University of Queensland
5 * http://www.uq.edu.au
6 *
7 * Primary Business: Queensland, Australia
8 * Licensed under the Apache License, version 2.0
9 * http://www.apache.org/licenses/LICENSE-2.0
10 *
11 * Development until 2012 by Earth Systems Science Computational Center (ESSCC)
12 * Development 2012-2013 by School of Earth Sciences
13 * Development from 2014-2017 by Centre for Geoscience Computing (GeoComp)
14 * Development from 2019 by School of Earth and Environmental Sciences
15 **
16 *****************************************************************************/
17 
18 #ifndef __RIPLEY_BRICK_H__
19 #define __RIPLEY_BRICK_H__
20 
21 #ifdef _WIN32 // for M_1_PI
22 #define _USE_MATH_DEFINES
23 #include <math.h>
24 #endif
25 
26 #include <ripley/RipleyDomain.h>
27 
28 namespace ripley {
29 
35 {
36  template<class Scalar> friend class DefaultAssembler3D;
37  friend class WaveAssembler3D;
38  friend class LameAssembler3D;
39 public:
40 
48  Brick(dim_t n0, dim_t n1, dim_t n2, double x0, double y0, double z0,
49  double x1, double y1, double z1, int d0=-1, int d1=-1, int d2=-1,
50  const std::vector<double>& points = std::vector<double>(),
51  const std::vector<int>& tags = std::vector<int>(),
52  const TagMap& tagnamestonums = TagMap(),
54 
59  ~Brick();
60 
65  virtual std::string getDescription() const;
66 
70  virtual bool operator==(const escript::AbstractDomain& other) const;
71 
77  virtual void write(const std::string& filename) const;
78 
84  void dump(const std::string& filename) const;
85 
88  virtual void readNcGrid(escript::Data& out, std::string filename,
89  std::string varname, const ReaderParameters& params) const;
90 
93  virtual void readBinaryGrid(escript::Data& out, std::string filename,
94  const ReaderParameters& params) const;
95 
96  virtual void readBinaryGridFromZipped(escript::Data& out, std::string filename,
97  const ReaderParameters& params) const;
98 
101  virtual void writeBinaryGrid(const escript::Data& in,
102  std::string filename,
103  int byteOrder, int dataType) const;
104 
110  const dim_t* borrowSampleReferenceIDs(int fsType) const;
111 
116  virtual bool ownSample(int fsType, index_t id) const;
117 
124  virtual void setToNormal(escript::Data& out) const;
125 
131  virtual void setToSize(escript::Data& out) const;
132 
137  virtual dim_t getNumDataPointsGlobal() const;
138 
144  virtual void Print_Mesh_Info(const bool full=false) const;
145 
150  virtual const dim_t* getNumNodesPerDim() const { return m_NN; }
151 
156  virtual const dim_t* getNumElementsPerDim() const { return m_NE; }
157 
163  virtual const dim_t* getNumFacesPerBoundary() const { return m_faceCount; }
164 
169  virtual IndexVector getNodeDistribution() const { return m_nodeDistribution; }
170 
175  virtual const int* getNumSubdivisionsPerDim() const { return m_NX; }
176 
181  virtual double getLocalCoordinate(index_t index, int dim) const;
182 
187  virtual boost::python::tuple getGridParameters() const;
188 
194  const escript::FunctionSpace& what,
195  long seed,
196  const boost::python::tuple& filter) const;
197 
198  virtual Assembler_ptr createAssembler(std::string type,
199  const DataMap& options) const;
204  const double *getLength() const { return m_length; }
205 
210  const double *getElementLength() const { return m_dx; }
211 
217  virtual RankVector getOwnerVector(int fsType) const;
218 
219 protected:
220  virtual dim_t getNumNodes() const;
221  virtual dim_t getNumElements() const;
222  virtual dim_t getNumFaceElements() const;
223  virtual dim_t getNumDOF() const;
224  virtual dim_t getNumDOFInAxis(unsigned axis) const;
225  virtual dim_t getFirstInDim(unsigned axis) const;
226 
227  virtual IndexVector getDiagonalIndices(bool upperOnly) const;
228  virtual void assembleCoordinates(escript::Data& arg) const;
229  virtual void assembleGradient(escript::Data& out,
230  const escript::Data& in) const;
231  virtual void assembleIntegrate(std::vector<real_t>& integrals,
232  const escript::Data& arg) const;
233  virtual void assembleIntegrate(std::vector<cplx_t>& integrals,
234  const escript::Data& arg) const;
235  virtual std::vector<IndexVector> getConnections(bool includeShared=false) const;
236 #ifdef ESYS_HAVE_TRILINOS
237  virtual esys_trilinos::const_TrilinosGraph_ptr getTrilinosGraph() const;
238 #endif
239 
240 #ifdef ESYS_HAVE_PASO
241  virtual paso::SystemMatrixPattern_ptr getPasoMatrixPattern(
242  bool reducedRowOrder, bool reducedColOrder) const;
243 #endif
244  virtual void interpolateNodesOnElements(escript::Data& out,
245  const escript::Data& in, bool reduced) const;
246  virtual void interpolateNodesOnFaces(escript::Data& out,
247  const escript::Data& in,
248  bool reduced) const;
249  virtual void nodesToDOF(escript::Data& out, const escript::Data& in) const;
250  virtual dim_t getDofOfNode(dim_t node) const;
251 
252  void populateSampleIds();
253  void populateDofMap();
254 
255  template<typename Scalar>
256  void assembleGradientImpl(escript::Data& out,
257  const escript::Data& in) const;
258 
259  template<typename Scalar>
260  void addToMatrixAndRHS(escript::AbstractSystemMatrix* S, escript::Data& F,
261  const std::vector<Scalar>& EM_S, const std::vector<Scalar>& EM_F,
262  bool addS, bool addF, index_t firstNode, int nEq=1, int nComp=1) const;
263 
264  template<typename ValueType>
265  void readBinaryGridImpl(escript::Data& out, const std::string& filename,
266  const ReaderParameters& params) const;
267 #ifdef ESYS_HAVE_BOOST_IO
268  template<typename ValueType>
269  void readBinaryGridZippedImpl(escript::Data& out,
270  const std::string& filename,
271  const ReaderParameters& params) const;
272 #endif
273  template<typename ValueType>
274  void writeBinaryGridImpl(const escript::Data& in,
275  const std::string& filename, int byteOrder) const;
276 
277  dim_t findNode(const double *coords) const;
278 
280  const escript::DataTypes::ShapeType& shape, long seed,
281  const boost::python::tuple& filter) const;
282 
284  dim_t m_gNE[3];
285 
287  double m_origin[3];
288 
290  double m_length[3];
291 
293  double m_dx[3];
294 
296  int m_NX[3];
297 
299  dim_t m_NE[3];
300 
302  dim_t m_ownNE[3];
303 
305  dim_t m_NN[3];
306 
308  dim_t m_offset[3];
309 
311  dim_t m_faceCount[6];
312 
317 
323 
324  // vector with first node id on each rank
326 
327  // vector that maps each node to a DOF index
329 
330 #ifdef ESYS_HAVE_PASO
331  // the Paso System Matrix pattern
332  mutable paso::SystemMatrixPattern_ptr m_pattern;
333 #endif
334 
335 #ifdef ESYS_HAVE_TRILINOS
336  mutable esys_trilinos::const_TrilinosGraph_ptr m_graph;
338 #endif
339 private:
340  template<typename Scalar>
341  void assembleIntegrateImpl(std::vector<Scalar>& integrals, const escript::Data& arg) const;
342 
343  template <typename S>
344  void interpolateNodesOnElementsWorker(escript::Data& out,
345  const escript::Data& in, bool reduced, S sentinel) const;
346  template <typename S>
347  void interpolateNodesOnFacesWorker(escript::Data& out,
348  const escript::Data& in,
349  bool reduced, S sentinel) const;
350 };
351 
353 inline dim_t Brick::getDofOfNode(dim_t node) const
354 {
355  return m_dofMap[node];
356 }
357 
359 {
360  return (m_gNE[0]+1)*(m_gNE[1]+1)*(m_gNE[2]+1);
361 }
362 
363 inline double Brick::getLocalCoordinate(index_t index, int dim) const
364 {
365  ESYS_ASSERT(dim>=0 && dim<3, "'dim' out of bounds");
366  ESYS_ASSERT(index>=0 && index<m_NN[dim], "'index' out of bounds");
367  return m_origin[dim]+m_dx[dim]*(m_offset[dim]+index);
368 }
369 
370 inline boost::python::tuple Brick::getGridParameters() const
371 {
372  return boost::python::make_tuple(
373  boost::python::make_tuple(m_origin[0], m_origin[1], m_origin[2]),
374  boost::python::make_tuple(m_dx[0], m_dx[1], m_dx[2]),
375  boost::python::make_tuple(m_gNE[0], m_gNE[1], m_gNE[2]));
376 }
377 
378 //protected
379 inline dim_t Brick::getNumDOF() const
380 {
381  return (m_gNE[0]+1)/m_NX[0]*(m_gNE[1]+1)/m_NX[1]*(m_gNE[2]+1)/m_NX[2];
382 }
383 
384 //protected
385 inline dim_t Brick::getNumDOFInAxis(unsigned axis) const
386 {
387  ESYS_ASSERT(axis < m_numDim, "Invalid axis");
388  return (m_gNE[axis]+1)/m_NX[axis];
389 }
390 
391 //protected
392 inline dim_t Brick::getNumNodes() const
393 {
394  return m_NN[0]*m_NN[1]*m_NN[2];
395 }
396 
397 //protected
399 {
400  return m_NE[0]*m_NE[1]*m_NE[2];
401 }
402 
403 //protected
405 {
406  return m_faceCount[0] + m_faceCount[1] + m_faceCount[2]
407  + m_faceCount[3] + m_faceCount[4] + m_faceCount[5];
408 }
409 
410 //protected
411 inline index_t Brick::getFirstInDim(unsigned axis) const
412 {
413  return m_offset[axis] == 0 ? 0 : 1;
414 }
415 
416 } // end of namespace ripley
417 
418 #endif // __RIPLEY_BRICK_H__
419 
speckley::DATATYPE_INT32
@ DATATYPE_INT32
Definition: speckley/src/system_dep.h:63
ripley::Brick::readNcGrid
virtual void readNcGrid(escript::Data &out, std::string filename, std::string varname, const ReaderParameters &params) const
reads grid data from a netCDF file into a Data object
Definition: ripley/src/Brick.cpp:475
ripley::Brick::operator==
virtual bool operator==(const escript::AbstractDomain &other) const
equality operator
Definition: ripley/src/Brick.cpp:286
speckley::TagMap
std::map< std::string, int > TagMap
Definition: Speckley.h:46
ripley::Brick::randomFill
virtual escript::Data randomFill(const escript::DataTypes::ShapeType &shape, const escript::FunctionSpace &what, long seed, const boost::python::tuple &filter) const
Returns a Data object filled with random data passed through filter.
speckley::Brick::getLocalCoordinate
virtual double getLocalCoordinate(index_t index, int dim) const
returns the index'th coordinate value in given dimension for this rank
Definition: speckley/src/Brick.h:400
MPI_Status
int MPI_Status
Definition: EsysMPI.h:47
escript::Data::getNumDataPointsPerSample
int getNumDataPointsPerSample() const
Return the number of data points per sample.
Definition: Data.h:544
ripley::ReducedElements
@ ReducedElements
Definition: Ripley.h:55
ripley::Brick::setToNormal
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: ripley/src/Brick.cpp:1389
escript::Data::isComplex
bool isComplex() const
True if components of this data are stored as complex.
Definition: Data.cpp:1160
ripley
Definition: ripley/src/AbstractAssembler.h:26
ripley::RipleyDomain::m_mpiInfo
escript::JMPI m_mpiInfo
Definition: ripley/src/RipleyDomain.h:773
message::sourceID
neighbourID_t sourceID
Definition: blocktools.h:72
speckley::Brick::setToNormal
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: speckley/src/Brick.cpp:1264
Block2::populateOffsetTable
void populateOffsetTable(size_t inset, size_t xmidlen, size_t ymidlen)
Definition: blocktools2.cpp:184
speckley::Brick::randomFillWorker
escript::Data randomFillWorker(const escript::DataTypes::ShapeType &shape, long seed, const boost::python::tuple &filter) const
Definition: speckley/src/Brick.cpp:2820
ripley::Brick::m_faceCount
dim_t m_faceCount[6]
number of face elements per edge (left, right, bottom, top, front, back)
Definition: ripley/src/Brick.h:311
ripley::DECOMP_STRICT
@ DECOMP_STRICT
Definition: ripley/src/RipleyDomain.h:62
speckley::Brick::integral_order2
void integral_order2(std::vector< Scalar > &, const escript::Data &) const
Definition: BrickIntegrals.cpp:25
speckley::Brick::m_elementId
IndexVector m_elementId
Definition: speckley/src/Brick.h:379
speckley::Brick::writeBinaryGridImpl
void writeBinaryGridImpl(const escript::Data &in, const std::string &filename, int byteOrder) const
Definition: speckley/src/Brick.cpp:1006
escript::DataTypes::real_t
double real_t
type of all real-valued scalars in escript
Definition: DataTypes.h:52
ripley::byte_swap64
char * byte_swap64(char *val)
Definition: ripley/src/system_dep.h:118
Block2::startOffset
size_t startOffset(unsigned char subx, unsigned char suby)
Definition: blocktools2.cpp:277
ripley::DataMap
std::map< std::string, escript::Data > DataMap
Definition: ripley/src/domainhelpers.h:25
message
Definition: blocktools.h:70
ripley::DefaultAssembler3D
Definition: ripley/src/DefaultAssembler3D.h:26
ripley::Brick::interpolateNodesOnElementsWorker
void interpolateNodesOnElementsWorker(escript::Data &out, const escript::Data &in, bool reduced, S sentinel) const
Definition: ripley/src/Brick.cpp:3316
ripley::Brick::addToMatrixAndRHS
void addToMatrixAndRHS(escript::AbstractSystemMatrix *S, escript::Data &F, const std::vector< Scalar > &EM_S, const std::vector< Scalar > &EM_F, bool addS, bool addF, index_t firstNode, int nEq=1, int nComp=1) const
Definition: ripley/src/Brick.cpp:3239
speckley::SpeckleyDomain::addPoints
void addPoints(const std::vector< double > &coords, const std::vector< int > &tags)
Definition: speckley/src/SpeckleyDomain.cpp:1134
ripley::Brick::borrowSampleReferenceIDs
const dim_t * borrowSampleReferenceIDs(int fsType) const
returns the array of reference numbers for a function space type
Definition: ripley/src/Brick.cpp:1200
ripley::Brick::m_NX
int m_NX[3]
number of spatial subdivisions
Definition: ripley/src/Brick.h:296
getSrcBuffID2
unsigned char getSrcBuffID2(unsigned char destx, unsigned char desty, bool deltax, bool deltay)
Definition: blocktools2.cpp:381
escript::Data::requireWrite
void requireWrite()
Ensures data is ready for write access. This means that the data will be resolved if lazy and will be...
Definition: Data.cpp:1239
ripley::RipleyDomain::m_elementTags
std::vector< int > m_elementTags
Definition: ripley/src/RipleyDomain.h:776
speckley::Brick::dump
void dump(const std::string &filename) const
dumps the mesh to a file with the given name
Definition: speckley/src/Brick.cpp:1078
speckley::Brick::readBinaryGridFromZipped
virtual void readBinaryGridFromZipped(escript::Data &out, std::string filename, const ReaderParameters &params) const
reads grid data from a compressed raw binary file into a Data object
Definition: speckley/src/Brick.cpp:566
speckley::Brick::m_gNE
dim_t m_gNE[3]
total number of elements in each dimension
Definition: speckley/src/Brick.h:349
speckley::Brick::operator==
virtual bool operator==(const escript::AbstractDomain &other) const
equality operator
Definition: speckley/src/Brick.cpp:234
ripley::ReaderParameters::first
std::vector< dim_t > first
the (global) offset into the data object to start writing into
Definition: ripley/src/RipleyDomain.h:72
Block2::createBuffArrays
void createBuffArrays(double *startaddress, double *buffptr[27], size_t inset, size_t xmidlen, size_t ymidlen)
Definition: blocktools2.cpp:206
INDEX4
#define INDEX4(_X1_, _X2_, _X3_, _X4_, _N1_, _N2_, _N3_)
Definition: index.h:27
ripley::Brick::getLocalCoordinate
virtual double getLocalCoordinate(index_t index, int dim) const
returns the index'th coordinate value in given dimension for this rank
Definition: ripley/src/Brick.h:363
ripley::Brick::m_faceId
IndexVector m_faceId
Definition: ripley/src/Brick.h:322
ripley::RipleyDomain::m_faceTags
std::vector< int > m_faceTags
Definition: ripley/src/RipleyDomain.h:777
ripley::Brick::WaveAssembler3D
friend class WaveAssembler3D
Definition: ripley/src/Brick.h:37
escript::Distribution_ptr
boost::shared_ptr< Distribution > Distribution_ptr
Definition: Distribution.h:25
speckley::SpeckleyDomain::m_diracPointNodeIDs
IndexVector m_diracPointNodeIDs
Definition: speckley/src/SpeckleyDomain.h:752
speckley::DATATYPE_FLOAT64
@ DATATYPE_FLOAT64
Definition: speckley/src/system_dep.h:65
speckley::SpeckleyDomain::m_order
int m_order
element order (will be m_order + 1 quad points in each axis)
Definition: speckley/src/SpeckleyDomain.h:755
message::destID
neighbourID_t destID
Definition: blocktools.h:73
Block2::dpsize
const unsigned int dpsize
Definition: blocktools.h:289
ripley::Brick::assembleGradientImpl
void assembleGradientImpl(escript::Data &out, const escript::Data &in) const
Definition: ripley/src/Brick.cpp:1722
ripley::Brick::assembleIntegrateImpl
void assembleIntegrateImpl(std::vector< Scalar > &integrals, const escript::Data &arg) const
Definition: ripley/src/Brick.cpp:2220
ripley::Brick::m_ownNE
dim_t m_ownNE[3]
number of own elements for this rank in each dimension
Definition: ripley/src/Brick.h:302
speckley::Brick::borrowSampleReferenceIDs
const dim_t * borrowSampleReferenceIDs(int fsType) const
returns the array of reference numbers for a function space type
Definition: speckley/src/Brick.cpp:1227
INDEX2
#define INDEX2(_X1_, _X2_, _N1_)
Definition: index.h:23
ripley::RipleyException
RipleyException exception class.
Definition: RipleyException.h:31
ripley::Points
@ Points
Definition: Ripley.h:58
ripley::DECOMP_ADD_ELEMENTS
@ DECOMP_ADD_ELEMENTS
Definition: ripley/src/RipleyDomain.h:60
ripley::TagMap
std::map< std::string, int > TagMap
Definition: Ripley.h:47
RIPLEY_DLL_API
#define RIPLEY_DLL_API
Definition: ripley/src/system_dep.h:21
escript::Data::getSampleDataRO
const DataTypes::real_t * getSampleDataRO(DataTypes::RealVectorType::size_type sampleNo, DataTypes::real_t dummy=0) const
Return the sample data for the given sample no. Please do not use this unless you NEED to access samp...
Definition: Data.h:1991
Block2::dims
size_t dims[9][2]
Definition: blocktools.h:281
ripley::factorise
void factorise(std::vector< int > &factors, int product)
Definition: ripley/src/domainhelpers.cpp:29
ripley::Brick::readBinaryGridImpl
void readBinaryGridImpl(escript::Data &out, const std::string &filename, const ReaderParameters &params) const
Definition: ripley/src/Brick.cpp:669
ripley::Brick::m_dx
double m_dx[3]
grid spacings / cell sizes of domain
Definition: ripley/src/Brick.h:293
ripley::DATATYPE_FLOAT64
@ DATATYPE_FLOAT64
Definition: ripley/src/system_dep.h:65
ripley::DATATYPE_INT32
@ DATATYPE_INT32
Definition: ripley/src/system_dep.h:63
escript::NotImplementedError
An exception class for features which are not (yet) implemented.
Definition: EsysException.h:90
speckley::Brick::integral_order6
void integral_order6(std::vector< Scalar > &, const escript::Data &) const
Definition: BrickIntegrals.cpp:142
escript::AbstractDomain::getPtr
Domain_ptr getPtr()
Returns smart pointer which is managing this object. If one does not exist yet it creates one.
Definition: AbstractDomain.cpp:25
speckley::Brick::m_length
double m_length[3]
side lengths of domain
Definition: speckley/src/Brick.h:355
ripley::Nodes
@ Nodes
Definition: Ripley.h:52
ripley::ReducedDegreesOfFreedom
@ ReducedDegreesOfFreedom
Definition: Ripley.h:51
escript::Data::getNumberOfTaggedValues
size_t getNumberOfTaggedValues() const
For tagged Data returns the number of tags with values. For non-tagged data will return 0 (even Data ...
Definition: Data.cpp:5855
Block2::sx
size_t sx
Definition: blocktools.h:282
speckley::Brick::integral_order5
void integral_order5(std::vector< Scalar > &, const escript::Data &) const
Definition: BrickIntegrals.cpp:113
ripley::Elements
@ Elements
Definition: Ripley.h:54
escript::FileWriter
Definition: FileWriter.h:30
ripley::Brick::interpolateNodesOnFacesWorker
void interpolateNodesOnFacesWorker(escript::Data &out, const escript::Data &in, bool reduced, S sentinel) const
Definition: ripley/src/Brick.cpp:3401
escript::DataTypes::DataVectorAlt< real_t >
escript::randomFillArray
void randomFillArray(long seed, double *array, size_t n)
Definition: Random.cpp:79
speckley::SpeckleyDomain::m_nodeTags
std::vector< int > m_nodeTags
Definition: speckley/src/SpeckleyDomain.h:749
speckley::ReaderParameters::byteOrder
int byteOrder
byte order in the file (used by binary reader only)
Definition: speckley/src/SpeckleyDomain.h:64
speckley::Brick::integral_order3
void integral_order3(std::vector< Scalar > &, const escript::Data &) const
Definition: BrickIntegrals.cpp:55
ripley::DegreesOfFreedom
@ DegreesOfFreedom
Definition: Ripley.h:50
paso::SystemMatrixPattern_ptr
boost::shared_ptr< SystemMatrixPattern > SystemMatrixPattern_ptr
Definition: SystemMatrixPattern.h:40
speckley::Brick::populateSampleIds
void populateSampleIds()
Definition: speckley/src/Brick.cpp:1469
speckley::Brick::WaveAssembler3D
friend class WaveAssembler3D
Definition: speckley/src/Brick.h:36
speckley::Brick::findNode
dim_t findNode(const double *coords) const
finds the node that the given point coordinates belong to
Definition: speckley/src/Brick.cpp:2825
speckley::SpeckleyDomain::m_numDim
int m_numDim
Definition: speckley/src/SpeckleyDomain.h:745
speckley::Brick::assembleIntegrateWorker
void assembleIntegrateWorker(std::vector< Scalar > &integrals, const escript::Data &arg) const
Definition: speckley/src/Brick.cpp:1433
ripley::Brick::getLength
const double * getLength() const
returns the lengths of the domain
Definition: ripley/src/Brick.h:204
ripley::BYTEORDER_NATIVE
@ BYTEORDER_NATIVE
Definition: ripley/src/system_dep.h:50
ripley::byte_swap32
char * byte_swap32(char *val)
Definition: ripley/src/system_dep.h:111
ripley::Brick::getNumNodes
virtual dim_t getNumNodes() const
returns the number of nodes per MPI rank
Definition: ripley/src/Brick.h:392
ripley::Brick::getNumDOFInAxis
virtual dim_t getNumDOFInAxis(unsigned axis) const
Definition: ripley/src/Brick.h:385
ripley::ReaderParameters::byteOrder
int byteOrder
byte order in the file (used by binary reader only)
Definition: ripley/src/RipleyDomain.h:81
ripley::RipleyDomain::m_diracPointNodeIDs
IndexVector m_diracPointNodeIDs
Definition: ripley/src/RipleyDomain.h:779
ripley::ReaderParameters::numValues
std::vector< dim_t > numValues
the number of values to read from file
Definition: ripley/src/RipleyDomain.h:74
ripley::Brick::m_offset
dim_t m_offset[3]
first node on this rank is at (offset0,offset1,offset2) in global mesh
Definition: ripley/src/Brick.h:308
speckley::SpeckleyDomain::Print_Mesh_Info
virtual void Print_Mesh_Info(bool full=false) const
writes information about the mesh to standard output
Definition: speckley/src/SpeckleyDomain.cpp:692
ripley::Brick::getNodeDistribution
virtual IndexVector getNodeDistribution() const
returns the node distribution vector
Definition: ripley/src/Brick.h:169
ripley::ReducedNodes
@ ReducedNodes
Definition: Ripley.h:53
Block2::outbuff
double * outbuff
Definition: blocktools.h:277
ripley::Brick::readBinaryGridFromZipped
virtual void readBinaryGridFromZipped(escript::Data &out, std::string filename, const ReaderParameters &params) const
reads grid data from a compressed raw binary file into a Data object
Definition: ripley/src/Brick.cpp:624
escript::Data::getDataPointSize
int getDataPointSize() const
Return the size of the data point. It is the product of the data point shape dimensions.
Definition: Data.cpp:1360
ripley::Brick::dump
void dump(const std::string &filename) const
dumps the mesh to a file with the given name
Definition: ripley/src/Brick.cpp:1050
speckley::ReaderParameters::first
std::vector< dim_t > first
the (global) offset into the data object to start writing into
Definition: speckley/src/SpeckleyDomain.h:55
Block2::populateDimsTable
void populateDimsTable()
Definition: blocktools2.cpp:166
ripley::LameAssembler3D
Definition: LameAssembler3D.h:26
speckley::Brick::interpolateFromCorners
void interpolateFromCorners(escript::Data &out) const
Definition: speckley/src/Brick.cpp:924
escript::FunctionSpace
Definition: FunctionSpace.h:36
ripley::Brick::writeBinaryGridImpl
void writeBinaryGridImpl(const escript::Data &in, const std::string &filename, int byteOrder) const
Definition: ripley/src/Brick.cpp:964
speckley::Brick::reduceElements
virtual void reduceElements(escript::Data &out, const escript::Data &in) const
interpolates from Element -> ReducedElement
Definition: speckley/src/Brick.cpp:1746
ripley::Brick::createAssembler
virtual Assembler_ptr createAssembler(std::string type, const DataMap &options) const
Definition: ripley/src/Brick.cpp:3972
ripley::RipleyDomain::MPIBarrier
virtual void MPIBarrier() const
if compiled for MPI then executes an MPI_Barrier, else does nothing
Definition: ripley/src/RipleyDomain.h:142
speckley::Brick::integral_order4
void integral_order4(std::vector< Scalar > &, const escript::Data &) const
Definition: BrickIntegrals.cpp:84
ripley::Brick::m_faceOffset
IndexVector m_faceOffset
Definition: ripley/src/Brick.h:316
speckley::Brick::interpolateNodesOnElements
virtual void interpolateNodesOnElements(escript::Data &out, const escript::Data &in, bool reduced) const
interpolates data on nodes in 'in' onto elements in 'out'
Definition: speckley/src/Brick.cpp:1797
escript::Data::getFunctionSpace
const FunctionSpace & getFunctionSpace() const
Return the function space.
Definition: Data.h:463
message::tag
int tag
Definition: blocktools.h:74
ripley::Brick::m_NE
dim_t m_NE[3]
number of elements for this rank in each dimension including shared
Definition: ripley/src/Brick.h:299
escript::FileWriter::openFile
bool openFile(std::string filename, size_t initialSize=0, bool binary=false, bool append=false)
Definition: FileWriter.h:49
speckley::probeInterpolationAcross
bool probeInterpolationAcross(int fsType_source, const escript::AbstractDomain &domain, int fsType_target, int dim)
Definition: CrossDomainCoupler.cpp:32
Block2::inbuff
double * inbuff
Definition: blocktools.h:276
escript::Distribution
Definition: Distribution.h:33
ripley::Brick::getGridParameters
virtual boost::python::tuple getGridParameters() const
returns the tuple (origin, spacing, number_of_elements)
Definition: ripley/src/Brick.h:370
speckley::Brick::getNumDataPointsGlobal
virtual dim_t getNumDataPointsGlobal() const
returns the number of data points summed across all MPI processes
Definition: speckley/src/Brick.h:395
ripley::Brick::m_nodeDistribution
IndexVector m_nodeDistribution
Definition: ripley/src/Brick.h:325
ripley::Brick::getNumDataPointsGlobal
virtual dim_t getNumDataPointsGlobal() const
returns the number of data points summed across all MPI processes
Definition: ripley/src/Brick.h:358
ripley::Brick::Brick
Brick(dim_t n0, dim_t n1, dim_t n2, double x0, double y0, double z0, double x1, double y1, double z1, int d0=-1, int d1=-1, int d2=-1, const std::vector< double > &points=std::vector< double >(), const std::vector< int > &tags=std::vector< int >(), const TagMap &tagnamestonums=TagMap(), escript::SubWorld_ptr w=escript::SubWorld_ptr())
creates a hexagonal mesh with n0 x n1 x n2 elements over the brick [x0,x1] x [y0,y1] x [z0,...
Definition: ripley/src/Brick.cpp:89
speckley::BYTEORDER_NATIVE
@ BYTEORDER_NATIVE
Definition: speckley/src/system_dep.h:50
ripley::RipleyDomain::m_nodeTags
std::vector< int > m_nodeTags
Definition: ripley/src/RipleyDomain.h:775
speckley::Brick::integral_order7
void integral_order7(std::vector< Scalar > &, const escript::Data &) const
Definition: BrickIntegrals.cpp:171
speckley::Brick::readNcGrid
virtual void readNcGrid(escript::Data &out, std::string filename, std::string varname, const ReaderParameters &params) const
reads grid data from a netCDF file into a Data object
Definition: speckley/src/Brick.cpp:418
speckley
Definition: AbstractAssembler.cpp:19
speckley::Brick::m_NN
dim_t m_NN[3]
number of nodes for this rank in each dimension
Definition: speckley/src/Brick.h:367
ripley::DATATYPE_FLOAT32
@ DATATYPE_FLOAT32
Definition: ripley/src/system_dep.h:64
ripley::RankVector
std::vector< int > RankVector
Definition: Ripley.h:46
ripley::WaveAssembler3D
Definition: ripley/src/WaveAssembler3D.h:26
paso::util::copy
void copy(dim_t N, double *out, const double *in)
out = in
Definition: PasoUtil.h:88
speckley::indexOfMax
int indexOfMax(dim_t a, dim_t b, dim_t c)
Definition: speckley/src/Brick.cpp:69
speckley::SpeckleyDomain::setTagMap
virtual void setTagMap(const std::string &name, int tag)
sets a map from a clear tag name to a tag key
Definition: speckley/src/SpeckleyDomain.h:193
Block2::getOutBuffer
double * getOutBuffer(unsigned char subx, unsigned char suby)
Definition: blocktools2.cpp:101
escript::Data
Data represents a collection of datapoints.
Definition: Data.h:64
speckley::SpeckleyDomain::m_elementTags
std::vector< int > m_elementTags
Definition: speckley/src/SpeckleyDomain.h:750
ripley::RipleyDomain
RipleyDomain extends the AbstractContinuousDomain interface for the Ripley library and is the base cl...
Definition: ripley/src/RipleyDomain.h:103
paso::util::l2
double l2(dim_t n, const double *x, escript::JMPI mpiinfo)
returns the global L2 norm of x
Definition: PasoUtil.cpp:501
paso::nz
static dim_t nz
Definition: SparseMatrix_saveHB.cpp:37
ripley::RipleyDomain::m_numDim
int m_numDim
Definition: ripley/src/RipleyDomain.h:771
INDEX3
#define INDEX3(_X1_, _X2_, _X3_, _N1_, _N2_)
Definition: index.h:25
ripley::Brick::m_NN
dim_t m_NN[3]
number of nodes for this rank in each dimension
Definition: ripley/src/Brick.h:305
Block2::outbuffptr
double * outbuffptr[9]
Definition: blocktools.h:288
speckley::Brick::m_offset
dim_t m_offset[3]
first node on this rank is at (offset0,offset1,offset2) in global mesh
Definition: speckley/src/Brick.h:370
escript::DataTypes::dim_t
index_t dim_t
Definition: DataTypes.h:66
escript::DataTypes::ShapeType
std::vector< int > ShapeType
The shape of a single datapoint.
Definition: DataTypes.h:44
ripley::Brick::getNumFacesPerBoundary
virtual const dim_t * getNumFacesPerBoundary() const
returns the number of face elements in the order (left,right,bottom,top,front,back) on current MPI ra...
Definition: ripley/src/Brick.h:163
speckley::ReaderParameters::reverse
std::vector< int > reverse
if non-zero, values are written from last index to first index
Definition: speckley/src/SpeckleyDomain.h:62
speckley::Brick::m_faceCount
dim_t m_faceCount[6]
number of face elements per edge (left, right, bottom, top, front, back)
Definition: speckley/src/Brick.h:373
speckley::byte_swap64
char * byte_swap64(char *val)
Definition: speckley/src/system_dep.h:118
ripley::Brick::assembleCoordinates
virtual void assembleCoordinates(escript::Data &arg) const
populates the data object 'arg' with the node coordinates
Definition: ripley/src/Brick.cpp:1683
escript::AbstractSystemMatrix
Base class for escript system matrices.
Definition: AbstractSystemMatrix.h:44
speckley::DATATYPE_FLOAT32
@ DATATYPE_FLOAT32
Definition: speckley/src/system_dep.h:64
speckley::SpeckleyDomain::m_mpiInfo
escript::JMPI m_mpiInfo
Definition: speckley/src/SpeckleyDomain.h:747
escript::Data::getSampleDataRW
DataTypes::real_t * getSampleDataRW(DataTypes::RealVectorType::size_type sampleNo, DataTypes::real_t dummy=0)
Return the sample data for the given sample no. Please do not use this unless you NEED to access samp...
Definition: Data.h:1956
ripley::Brick::write
virtual void write(const std::string &filename) const
writes the current mesh to a file with the given name
Definition: ripley/src/Brick.cpp:1045
ripley::readBinaryGridFromZipped
escript::Data readBinaryGridFromZipped(std::string filename, escript::FunctionSpace fs, const object &pyShape, double fill, int byteOrder, int dataType, const object &pyFirst, const object &pyNum, const object &pyMultiplier, const object &pyReverse)
Definition: ripleycpp.cpp:88
speckley::Brick::getNumElements
virtual dim_t getNumElements() const
returns the number of elements per MPI rank
Definition: speckley/src/Brick.h:430
speckley::Brick::write
virtual void write(const std::string &filename) const
writes the current mesh to a file with the given name
Definition: speckley/src/Brick.cpp:1073
escript::DataTypes::noValues
int noValues(const ShapeType &shape)
Calculate the number of values in a datapoint with the given shape.
Definition: DataTypes.cpp:91
ripley::Brick::m_length
double m_length[3]
side lengths of domain
Definition: ripley/src/Brick.h:290
speckley::SpeckleyDomain::getMPISize
virtual int getMPISize() const
returns the number of processors used for this domain
Definition: speckley/src/SpeckleyDomain.h:110
speckley::Brick::createAssembler
Assembler_ptr createAssembler(std::string type, const DataMap &constants) const
Definition: speckley/src/Brick.cpp:2876
speckley::Brick
Brick is the 3-dimensional implementation of a SpeckleyDomain.
Definition: speckley/src/Brick.h:34
speckley::factorise
void factorise(std::vector< int > &factors, int product)
Definition: speckley/src/domainhelpers.cpp:30
paso::SystemMatrixPattern
Definition: SystemMatrixPattern.h:45
ripley::Brick::ownSample
virtual bool ownSample(int fsType, index_t id) const
returns true if this rank owns the sample id.
Definition: ripley/src/Brick.cpp:1226
ripley::readBinaryGrid
escript::Data readBinaryGrid(std::string filename, escript::FunctionSpace fs, const object &pyShape, double fill, int byteOrder, int dataType, const object &pyFirst, const object &pyNum, const object &pyMultiplier, const object &pyReverse)
Definition: ripleycpp.cpp:63
speckley::Brick::m_nodeDistribution
IndexVector m_nodeDistribution
Definition: speckley/src/Brick.h:382
speckley::SpeckleyDomain
SpeckleyDomain extends the AbstractContinuousDomain interface for the Speckley library and is the bas...
Definition: speckley/src/SpeckleyDomain.h:86
BlockGrid
Definition: blocktools.h:83
ripley::ReaderParameters::multiplier
std::vector< int > multiplier
Definition: ripley/src/RipleyDomain.h:77
ripley::Brick::m_origin
double m_origin[3]
origin of domain
Definition: ripley/src/Brick.h:287
Block2::copyFromBuffer
void copyFromBuffer(unsigned char buffid, double *dest)
Definition: blocktools2.cpp:346
Block2::sy
size_t sy
Definition: blocktools.h:283
speckley::ReducedElements
@ ReducedElements
Definition: Speckley.h:64
speckley::Brick::assembleIntegrate
virtual void assembleIntegrate(std::vector< real_t > &integrals, const escript::Data &arg) const
copies the integrals of the function defined by 'arg' into 'integrals'
Definition: speckley/src/Brick.cpp:1418
ripley::readNcGrid
escript::Data readNcGrid(std::string filename, std::string varname, escript::FunctionSpace fs, const object &pyShape, double fill, const object &pyFirst, const object &pyNum, const object &pyMultiplier, const object &pyReverse)
Definition: ripleycpp.cpp:117
RANK_BELOW
#define RANK_BELOW(__rank__)
escript::Data::isDataPointShapeEqual
bool isDataPointShapeEqual(int rank, const int *dimensions) const
Returns true if the shape matches the vector (dimensions[0],..., dimensions[rank-1])....
Definition: Data.h:567
speckley::SpeckleyDomain::MPIBarrier
virtual void MPIBarrier() const
if compiled for MPI then executes an MPI_Barrier, else does nothing
Definition: speckley/src/SpeckleyDomain.h:122
speckley::Brick::integral_order8
void integral_order8(std::vector< Scalar > &, const escript::Data &) const
Definition: BrickIntegrals.cpp:200
ripley::Brick::getDofOfNode
virtual dim_t getDofOfNode(dim_t node) const
Definition: ripley/src/Brick.h:353
Block2::copyToBuffer
void copyToBuffer(unsigned char buffid, double *src)
Definition: blocktools2.cpp:318
BlockGrid2::getNID
neighbourID_t getNID(coord_t x, coord_t y) const
Definition: blocktools2.cpp:28
Block2::getInBuffer
double * getInBuffer(unsigned char subx, unsigned char suby)
Definition: blocktools2.cpp:111
ripley::doublyLink
void doublyLink(std::vector< ripley::IndexVector > &va, std::vector< ripley::IndexVector > &vb, int a, int b)
Definition: ripley/src/domainhelpers.h:50
Block2::flatoffsets
size_t flatoffsets[9]
Definition: blocktools.h:279
speckley::Brick::writeBinaryGrid
virtual void writeBinaryGrid(const escript::Data &in, std::string filename, int byteOrder, int dataType) const
writes a Data object to a file in raw binary format
Definition: speckley/src/Brick.cpp:985
speckley::Brick::setToSize
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: speckley/src/Brick.cpp:1269
messvec
std::vector< message > messvec
Definition: blocktools.h:79
speckley::Brick::~Brick
~Brick()
Destructor.
Definition: speckley/src/Brick.cpp:221
ripley::Brick::randomFillWorker
virtual escript::Data randomFillWorker(const escript::DataTypes::ShapeType &shape, long seed, const boost::python::tuple &filter) const
ripley::FaceElements
@ FaceElements
Definition: Ripley.h:56
ripley::Brick::getNumSubdivisionsPerDim
virtual const int * getNumSubdivisionsPerDim() const
returns the number of spatial subdivisions in each dimension
Definition: ripley/src/Brick.h:175
escript::Data::numSamplesEqual
bool numSamplesEqual(int numDataPointsPerSample, int numSamples) const
Returns true if the number of data points per sample and the number of samples match the respective a...
Definition: Data.h:555
ripley::Brick::nodesToDOF
virtual void nodesToDOF(escript::Data &out, const escript::Data &in) const
converts data on nodes in 'in' to degrees of freedom in 'out'
Definition: ripley/src/Brick.cpp:2510
speckley::Brick::getDescription
virtual std::string getDescription() const
returns a description for this domain
Definition: speckley/src/Brick.cpp:229
ripley::RipleyDomain::getDecompositionPolicy
static DecompositionPolicy getDecompositionPolicy()
Definition: ripley/src/RipleyDomain.cpp:58
ripley::Brick::LameAssembler3D
friend class LameAssembler3D
Definition: ripley/src/Brick.h:38
speckley::RipleyCoupler
Definition: CrossDomainCoupler.h:29
ripley::Brick::Print_Mesh_Info
virtual void Print_Mesh_Info(const bool full=false) const
writes information about the mesh to standard output
Definition: ripley/src/Brick.cpp:1665
ripley::Brick::getNumElementsPerDim
virtual const dim_t * getNumElementsPerDim() const
returns the number of elements per MPI rank in each dimension
Definition: ripley/src/Brick.h:156
speckley::DegreesOfFreedom
@ DegreesOfFreedom
Definition: Speckley.h:59
Block2::Block2
Block2(size_t sx, size_t sy, size_t inset, size_t xmidlen, size_t ymidlen, unsigned int dpp=1)
Definition: blocktools2.cpp:247
speckley::Brick::integral_order9
void integral_order9(std::vector< Scalar > &, const escript::Data &) const
Definition: BrickIntegrals.cpp:229
ripley::RipleyDomain::getContinuousFunctionCode
virtual int getContinuousFunctionCode() const
returns a continuous FunctionSpace code
Definition: ripley/src/RipleyDomain.h:400
ripley::RipleyDomain::updateTagsInUse
void updateTagsInUse(int fsType) const
Definition: ripley/src/RipleyDomain.cpp:1283
ripley::RipleyDomain::setTagMap
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:213
ripley::Brick::writeBinaryGrid
virtual void writeBinaryGrid(const escript::Data &in, std::string filename, int byteOrder, int dataType) const
writes a Data object to a file in raw binary format
Definition: ripley/src/Brick.cpp:943
ripley::Brick::getElementLength
const double * getElementLength() const
returns the lengths of an element
Definition: ripley/src/Brick.h:210
speckley::Elements
@ Elements
Definition: Speckley.h:63
speckley::SpeckleyDomain::updateTagsInUse
void updateTagsInUse(int fsType) const
Definition: speckley/src/SpeckleyDomain.cpp:844
ripley::ReaderParameters
Structure that wraps parameters for the grid reading routines.
Definition: ripley/src/RipleyDomain.h:70
speckley::Brick::interpolateNodesOnElementsWorker
void interpolateNodesOnElementsWorker(escript::Data &out, const escript::Data &in, bool reduced) const
Definition: speckley/src/Brick.cpp:1809
speckley::Brick::m_dx
double m_dx[3]
grid spacings / cell sizes of domain
Definition: speckley/src/Brick.h:358
speckley::Brick::assembleCoordinates
virtual void assembleCoordinates(escript::Data &arg) const
populates the data object 'arg' with the node coordinates
Definition: speckley/src/Brick.cpp:1333
Block2::buffoffsets
size_t buffoffsets[9]
Definition: blocktools.h:278
MPI_DOUBLE
#define MPI_DOUBLE
Definition: EsysMPI.h:49
Block2::xmidlen
size_t xmidlen
Definition: blocktools.h:285
escript::SubWorld_ptr
boost::shared_ptr< SubWorld > SubWorld_ptr
Definition: SubWorld.h:147
ripley::Brick::m_dofMap
IndexVector m_dofMap
Definition: ripley/src/Brick.h:328
speckley::Brick::DefaultAssembler3D
friend class DefaultAssembler3D
Definition: speckley/src/Brick.h:35
speckley::Brick::integral_order10
void integral_order10(std::vector< Scalar > &, const escript::Data &) const
Definition: BrickIntegrals.cpp:258
ripley::Brick::getDiagonalIndices
virtual IndexVector getDiagonalIndices(bool upperOnly) const
returns the indices of the occupied matrix diagonals
Definition: ripley/src/Brick.cpp:2484
speckley::Brick::getNumNodes
virtual dim_t getNumNodes() const
returns the number of nodes per MPI rank
Definition: speckley/src/Brick.h:424
ripley::Brick
Brick is the 3-dimensional implementation of a RipleyDomain.
Definition: ripley/src/Brick.h:35
speckley::ReaderParameters::dataType
int dataType
data type in the file (used by binary reader only)
Definition: speckley/src/SpeckleyDomain.h:66
Block2::getBuffSize
size_t getBuffSize(unsigned char subx, unsigned char suby)
Definition: blocktools2.cpp:121
ripley::Brick::getOwnerVector
virtual RankVector getOwnerVector(int fsType) const
returns a vector of rank numbers where vec[i]=n means that rank n 'owns' element/face element i.
Definition: ripley/src/Brick.cpp:1279
ripley::Brick::getNumFaceElements
virtual dim_t getNumFaceElements() const
returns the number of face elements on current MPI rank
Definition: ripley/src/Brick.h:404
ripley::Brick::getNumDOF
virtual dim_t getNumDOF() const
returns the number of degrees of freedom per MPI rank
Definition: ripley/src/Brick.h:379
RANK_LEFT
#define RANK_LEFT(__rank__)
escript::DataTypes::index_t
int index_t
type for array/matrix indices used both globally and on each rank
Definition: DataTypes.h:61
ripley::IndexVector
std::vector< index_t > IndexVector
Definition: Ripley.h:44
RANK_FRONT
#define RANK_FRONT(__rank__)
ripley::ReaderParameters::reverse
std::vector< int > reverse
if non-zero, values are written from last index to first index
Definition: ripley/src/RipleyDomain.h:79
ripley::Brick::findNode
dim_t findNode(const double *coords) const
finds the node that the given point coordinates belong to
Definition: ripley/src/Brick.cpp:3913
ripley::Brick::getNumElements
virtual dim_t getNumElements() const
returns the number of elements per MPI rank
Definition: ripley/src/Brick.h:398
speckley::Brick::m_NE
dim_t m_NE[3]
number of elements for this rank in each dimension including shared
Definition: speckley/src/Brick.h:364
speckley::Brick::randomFill
virtual escript::Data randomFill(const escript::DataTypes::ShapeType &shape, const escript::FunctionSpace &what, long seed, const boost::python::tuple &filter) const
Returns a Data object filled with random data passed through filter.
Definition: speckley/src/Brick.cpp:2789
speckley::Brick::m_NX
int m_NX[3]
number of spatial subdivisions
Definition: speckley/src/Brick.h:361
speckley::ReaderParameters::multiplier
std::vector< int > multiplier
Definition: speckley/src/SpeckleyDomain.h:60
ripley::RipleyDomain::addPoints
void addPoints(const std::vector< double > &coords, const std::vector< int > &tags)
Definition: ripley/src/RipleyDomain.cpp:1834
ripley::Brick::m_nodeId
IndexVector m_nodeId
Definition: ripley/src/Brick.h:320
speckley::Brick::interpolateAcross
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: speckley/src/Brick.cpp:2900
ripley::Brick::~Brick
~Brick()
Destructor.
Definition: ripley/src/Brick.cpp:277
Block2::used
bool used[9]
Definition: blocktools.h:280
ripley::Brick::interpolateNodesOnElements
virtual void interpolateNodesOnElements(escript::Data &out, const escript::Data &in, bool reduced) const
interpolates data on nodes in 'in' onto (reduced) elements in 'out'
Definition: ripley/src/Brick.cpp:3278
ripley::ReducedFaceElements
@ ReducedFaceElements
Definition: Ripley.h:57
ripley::Brick::getFirstInDim
virtual dim_t getFirstInDim(unsigned axis) const
Definition: ripley/src/Brick.h:411
ripley::indexOfMax
int indexOfMax(dim_t a, dim_t b, dim_t c)
Definition: ripley/src/Brick.cpp:76
Block2::setUsed
void setUsed(unsigned char buffid)
Definition: blocktools2.cpp:216
escript::FunctionSpace::getTypeCode
int getTypeCode() const
Returns the function space type code.
Definition: FunctionSpace.cpp:95
ripley::Brick::populateDofMap
void populateDofMap()
Definition: ripley/src/Brick.cpp:3064
speckley::Brick::Print_Mesh_Info
virtual void Print_Mesh_Info(const bool full=false) const
writes information about the mesh to standard output
Definition: speckley/src/Brick.cpp:1315
speckley::SpeckleyDomain::getMPIRank
virtual int getMPIRank() const
returns the MPI rank of this processor
Definition: speckley/src/SpeckleyDomain.h:116
ripley::Brick::m_elementId
IndexVector m_elementId
Definition: ripley/src/Brick.h:321
escript::function
FunctionSpace function(const AbstractDomain &domain)
Return a function FunctionSpace.
Definition: FunctionSpaceFactory.cpp:43
Block
Definition: blocktools.h:120
ripley::Brick::populateSampleIds
void populateSampleIds()
Definition: ripley/src/Brick.cpp:2751
speckley::ReaderParameters
Structure that wraps parameters for the grid reading routines.
Definition: speckley/src/SpeckleyDomain.h:53
speckley::Brick::m_origin
double m_origin[3]
origin of domain
Definition: speckley/src/Brick.h:352
ripley::Brick::getConnections
virtual std::vector< IndexVector > getConnections(bool includeShared=false) const
returns occupied matrix column indices for all matrix rows
Definition: ripley/src/Brick.cpp:3000
blocktools.h
MPI_Request
int MPI_Request
Definition: EsysMPI.h:45
ripley::Brick::readBinaryGrid
virtual void readBinaryGrid(escript::Data &out, std::string filename, const ReaderParameters &params) const
reads grid data from a raw binary file into a Data object
Definition: ripley/src/Brick.cpp:648
speckley::Points
@ Points
Definition: Speckley.h:67
MPI_Comm
int MPI_Comm
Definition: EsysMPI.h:44
escript::DataTypes::real_t_eps
real_t real_t_eps()
Returns the machine epsilon for the real_t type.
Definition: DataTypes.h:99
paso::Connector_ptr
boost::shared_ptr< Connector > Connector_ptr
Definition: Coupler.h:38
Block2::displayBlock
void displayBlock(unsigned char subx, unsigned char suby, bool out)
Definition: blocktools2.cpp:289
paso::Pattern_ptr
boost::shared_ptr< Pattern > Pattern_ptr
Definition: Pattern.h:39
BlockGrid2::BlockGrid2
BlockGrid2(coord_t maxx, coord_t maxy)
Definition: blocktools2.cpp:24
getTag2
int getTag2(unsigned char sourcex, unsigned char sourcey, unsigned char targetx, unsigned char targety)
Definition: blocktools2.cpp:365
ripley::Brick::getDescription
virtual std::string getDescription() const
returns a description for this domain
Definition: ripley/src/Brick.cpp:281
neighbourID_t
int neighbourID_t
Definition: blocktools.h:62
ripley::Brick::getNumNodesPerDim
virtual const dim_t * getNumNodesPerDim() const
returns the number of nodes per MPI rank in each dimension
Definition: ripley/src/Brick.h:150
ripley::RipleyDomain::getMPISize
virtual int getMPISize() const
returns the number of processors used for this domain
Definition: ripley/src/RipleyDomain.h:130
escript::Data::actsExpanded
bool actsExpanded() const
Return true if this Data is expanded or resolves to expanded. That is, if it has a separate value for...
Definition: Data.cpp:1118
speckley::Brick::assembleGradient
virtual void assembleGradient(escript::Data &out, const escript::Data &in) const
computes the gradient of 'in' and puts the result in 'out'
Definition: speckley/src/Brick.cpp:1359
escript::AbstractDomain
Base class for all escript domains.
Definition: AbstractDomain.h:51
BlockGrid2::xmax
coord_t xmax
Definition: blocktools.h:221
escript::getMPIRankWorld
int getMPIRankWorld()
returns the MPI processor number within MPI_COMM_WORLD
Definition: Utils.cpp:105
speckley::Brick::readBinaryGridImpl
void readBinaryGridImpl(escript::Data &out, const std::string &filename, const ReaderParameters &params) const
Definition: speckley/src/Brick.cpp:611
S
#define S(_J_, _I_)
Definition: ShapeFunctions.cpp:122
speckley::ReaderParameters::numValues
std::vector< dim_t > numValues
the number of values to read from file
Definition: speckley/src/SpeckleyDomain.h:57
ripley::Brick::m_gNE
dim_t m_gNE[3]
total number of elements in each dimension
Definition: ripley/src/Brick.h:284
escript::FileWriter::close
void close()
Definition: FileWriter.h:199
message::destbuffid
unsigned char destbuffid
Definition: blocktools.h:76
escript::DataTypes::cplx_t
std::complex< real_t > cplx_t
complex data type
Definition: DataTypes.h:55
ripley::Brick::setToSize
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: ripley/src/Brick.cpp:1568
escript::Scalar
Data Scalar(double value, const FunctionSpace &what, bool expanded)
A collection of factory functions for creating Data objects which contain data points of various shap...
Definition: DataFactory.cpp:49
message::srcbuffid
unsigned char srcbuffid
Definition: blocktools.h:75
speckley::DataMap
std::map< std::string, escript::Data > DataMap
Definition: speckley/src/domainhelpers.h:25
ripley::ReaderParameters::dataType
int dataType
data type in the file (used by binary reader only)
Definition: ripley/src/RipleyDomain.h:83
speckley::Brick::probeInterpolationAcross
virtual bool probeInterpolationAcross(int, const escript::AbstractDomain &, int) const
determines whether interpolation from source to target is possible
Definition: speckley/src/Brick.cpp:2889
Block2::ymidlen
size_t ymidlen
Definition: blocktools.h:286
speckley::Brick::interpolateElementsOnNodes
virtual void interpolateElementsOnNodes(escript::Data &out, const escript::Data &in) const
interpolates data on elements in 'in' onto nodes in 'out'
Definition: speckley/src/Brick.cpp:1634
Block2::~Block2
~Block2()
Definition: blocktools2.cpp:160
ESYS_ASSERT
#define ESYS_ASSERT(a, b)
EsysAssert is a MACRO that will throw an exception if the boolean condition specified is false.
Definition: Assert.h:79
Block2::copyAllToBuffer
void copyAllToBuffer(double *src)
Definition: blocktools2.cpp:221
escript::FileWriter::writeAt
bool writeAt(std::ostringstream &oss, long offset)
Definition: FileWriter.h:174
escript::ValueError
An exception class that signals an invalid argument value.
Definition: EsysException.h:100
globalNodeId
#define globalNodeId(x, y, z)
Block2::inset
size_t inset
Definition: blocktools.h:284
speckley::Brick::readBinaryGrid
virtual void readBinaryGrid(escript::Data &out, std::string filename, const ReaderParameters &params) const
reads grid data from a raw binary file into a Data object
Definition: speckley/src/Brick.cpp:590
speckley::point_locations
const double point_locations[][11]
Definition: Speckley.h:71
ripley::Brick::interpolateNodesOnFaces
virtual void interpolateNodesOnFaces(escript::Data &out, const escript::Data &in, bool reduced) const
interpolates data on nodes in 'in' onto (reduced) face elements in 'out'
Definition: ripley/src/Brick.cpp:3296
speckley::SpeckleyException
SpeckleyException exception class.
Definition: SpeckleyException.h:31
speckley::byte_swap32
char * byte_swap32(char *val)
Definition: speckley/src/system_dep.h:111
MATRIX_FORMAT_DEFAULT
#define MATRIX_FORMAT_DEFAULT
Definition: Paso.h:61
Block2::inbuffptr
double * inbuffptr[9]
Definition: blocktools.h:287
ripley::RipleyDomain::Print_Mesh_Info
virtual void Print_Mesh_Info(bool full=false) const
writes information about the mesh to standard output
Definition: ripley/src/RipleyDomain.cpp:857
ripley::Brick::m_dofId
IndexVector m_dofId
vector of sample reference identifiers
Definition: ripley/src/Brick.h:319
BlockGrid2::ymax
coord_t ymax
Definition: blocktools.h:222
ripley::DECOMP_EXPAND
@ DECOMP_EXPAND
Definition: ripley/src/RipleyDomain.h:61
speckley::Brick::m_nodeId
IndexVector m_nodeId
Definition: speckley/src/Brick.h:378
escript::DataTypes::scalarShape
static const ShapeType scalarShape
Use this instead of creating empty shape objects for scalars.
Definition: DataTypes.h:48
ripley::Brick::assembleIntegrate
virtual void assembleIntegrate(std::vector< real_t > &integrals, const escript::Data &arg) const
copies the integrals of the function defined by 'arg' into 'integrals'
Definition: ripley/src/Brick.cpp:2207
BlockGrid2::generateInNeighbours
void generateInNeighbours(coord_t blockx, coord_t blocky, messvec &v)
Definition: blocktools2.cpp:35
speckley::Brick::ownSample
virtual bool ownSample(int fsType, index_t id) const
returns true if this rank owns the sample id.
Definition: speckley/src/Brick.cpp:1247
Block2::copyUsedFromBuffer
void copyUsedFromBuffer(double *dest)
Definition: blocktools2.cpp:234
coord_t
unsigned coord_t
Definition: blocktools.h:63
BlockGrid2::generateOutNeighbours
void generateOutNeighbours(coord_t blockx, coord_t blocky, messvec &v)
Definition: blocktools2.cpp:68
ripley::Brick::assembleGradient
virtual void assembleGradient(escript::Data &out, const escript::Data &in) const
computes the gradient of 'in' and puts the result in 'out'
Definition: ripley/src/Brick.cpp:1709
speckley::Nodes
@ Nodes
Definition: Speckley.h:61