Nektar++
Field.hpp
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3 // File: Field.hpp
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9 // Copyright (c) 2006 Division of Applied Mathematics, Brown University (USA),
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11 // Computing and Imaging Institute, University of Utah (USA).
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30 //
31 // Description: Field converter module base classes.
32 //
33 ////////////////////////////////////////////////////////////////////////////////
34 
35 #ifndef FIELDUTILS_FIELD
36 #define FIELDUTILS_FIELD
37 
38 #include <memory>
39 #include <iomanip>
40 #include <boost/program_options.hpp>
41 #include <LibUtilities/BasicUtils/NekFactory.hpp>
42 #include <LibUtilities/BasicUtils/PtsField.h>
43 #include <LibUtilities/BasicUtils/PtsIO.h>
44 #include <LibUtilities/BasicUtils/SessionReader.h>
45 #include <LibUtilities/BasicUtils/SharedArray.hpp>
46 #include <SpatialDomains/MeshGraph.h>
47 
48 #include <MultiRegions/ContField.h>
49 #include <MultiRegions/ContField3DHomogeneous1D.h>
50 #include <MultiRegions/ContField3DHomogeneous2D.h>
51 #include <MultiRegions/ExpList2DHomogeneous1D.h>
52 
53 #include "FieldUtilsDeclspec.h"
54 
55 namespace po = boost::program_options;
56 
57 namespace Nektar
58 {
59 namespace FieldUtils
60 {
61 
62 struct Field
63 {
64  FIELD_UTILS_EXPORT Field()
65  : m_verbose(false), m_declareExpansionAsContField(false),
66  m_declareExpansionAsDisContField(false),
67  m_requireBoundaryExpansion(false), m_writeBndFld(false),
68  m_addNormals(false), m_fieldPts(LibUtilities::NullPtsField)
69  {
70  }
71 
72  FIELD_UTILS_EXPORT ~Field()
73  {
74  if (m_comm)
75  {
76  m_comm->Finalise();
77  }
78  }
79  bool m_verbose;
80  std::vector<LibUtilities::FieldDefinitionsSharedPtr> m_fielddef;
81  std::vector<std::vector<double> > m_data;
82  std::vector<MultiRegions::ExpListSharedPtr> m_exp;
83  std::vector<std::string> m_variables;
84 
85  int m_numHomogeneousDir;
86 
87  bool m_declareExpansionAsContField;
88  bool m_declareExpansionAsDisContField;
89 
90  bool m_requireBoundaryExpansion;
91 
92  bool m_useFFT;
93 
94  LibUtilities::CommSharedPtr m_comm;
95  LibUtilities::CommSharedPtr m_defComm;
96  LibUtilities::CommSharedPtr m_partComm;
97  int m_nParts = 1;
98  po::variables_map m_vm;
99 
100  LibUtilities::SessionReaderSharedPtr m_session;
101  SpatialDomains::MeshGraphSharedPtr m_graph;
102  std::map<std::string, std::vector<std::string> > m_inputfiles;
103 
104  bool m_writeBndFld;
105  std::vector<unsigned int> m_bndRegionsToWrite;
106  bool m_addNormals;
107 
108  LibUtilities::PtsFieldSharedPtr m_fieldPts;
109 
110  LibUtilities::FieldMetaDataMap m_fieldMetaDataMap;
111 
112  FIELD_UTILS_EXPORT void SetUpExp(boost::program_options::variables_map &vm)
113  {
114  if (m_graph && !m_exp.size())
115  {
116  CreateExp(vm, true);
117  }
118  else if (m_graph && m_data.size())
119  {
120  CreateExp(vm, false);
121  }
122  }
123 
124  FIELD_UTILS_EXPORT void CreateExp(boost::program_options::variables_map &vm, bool newExp)
125  {
126 
127  bool fldfilegiven = (m_fielddef.size() != 0);
128  if (newExp)
129  {
130  LibUtilities::Timer timerpart;
131  if (m_verbose)
132  {
133  if (m_comm->TreatAsRankZero())
134  {
135  timerpart.Start();
136  }
137  }
138  // check to see if fld file defined so can use in
139  // expansion defintion if required
140 
141  bool expFromFld = fldfilegiven && !vm.count("useSessionExpansion");
142 
143  // load fielddef header if fld file is defined. This gives
144  // precedence to Homogeneous definition in fld file
145  m_numHomogeneousDir = 0;
146  if (expFromFld)
147  {
148  m_numHomogeneousDir = m_fielddef[0]->m_numHomogeneousDir;
149 
150  // Set up Expansion information to use mode order from field
151  m_graph->SetExpansionInfo(m_fielddef);
152  }
153  else
154  {
155  if (m_session->DefinesSolverInfo("HOMOGENEOUS"))
156  {
157  std::string HomoStr =
158  m_session->GetSolverInfo("HOMOGENEOUS");
159 
160  if ((HomoStr == "HOMOGENEOUS1D") ||
161  (HomoStr == "Homogeneous1D") ||
162  (HomoStr == "1D") || (HomoStr == "Homo1D"))
163  {
164  m_numHomogeneousDir = 1;
165  }
166  if ((HomoStr == "HOMOGENEOUS2D") ||
167  (HomoStr == "Homogeneous2D") ||
168  (HomoStr == "2D") || (HomoStr == "Homo2D"))
169  {
170  m_numHomogeneousDir = 2;
171  }
172  }
173  }
174 
175  m_exp.resize(1);
176  // Check if there are any elements to process
177  std::vector<int> IDs;
178  auto domain = m_graph->GetDomain();
179  for(int d = 0; d < domain.size(); ++d)
180  {
181  for (auto &compIter : domain[d])
182  {
183  for (auto &x : compIter.second->m_geomVec)
184  {
185  IDs.push_back(x->GetGlobalID());
186  }
187  }
188  }
189  // if Range has been specified it is possible to have a
190  // partition which is empty so check this and return with empty
191  // expansion if no elements present.
192  if (!IDs.size())
193  {
194  m_exp[0] = MemoryManager<MultiRegions::ExpList>::
195  AllocateSharedPtr();
196  return;
197  }
198 
199  // Adjust number of quadrature points
200  if (vm.count("output-points"))
201  {
202  int nPointsNew = vm["output-points"].as<int>();
203  m_graph->SetExpansionInfoToPointOrder(nPointsNew);
204  }
205 
206  if (m_verbose)
207  {
208  if (m_comm->TreatAsRankZero())
209  {
210  timerpart.Stop();
211  NekDouble cpuTime = timerpart.TimePerTest(1);
212 
213  std::stringstream ss;
214  ss << cpuTime << "s";
215  std::cout << "\t CreateExp setexpansion CPU Time: "
216  << std::setw(8) << std::left
217  << ss.str() << std::endl;
218  timerpart.Start();
219  }
220  }
221  // Override number of planes with value from cmd line
222  if (m_numHomogeneousDir == 1 && vm.count("output-points-hom-z"))
223  {
224  int expdim = m_graph->GetMeshDimension();
225  m_fielddef[0]->m_numModes[expdim] =
226  vm["output-points-hom-z"].as<int>();
227 
228  }
229  m_exp[0] = SetUpFirstExpList(m_numHomogeneousDir,
230  expFromFld);
231  if (m_verbose)
232  {
233  if (m_comm->TreatAsRankZero())
234  {
235  timerpart.Stop();
236  NekDouble cpuTime = timerpart.TimePerTest(1);
237 
238  std::stringstream ss1;
239 
240  ss1 << cpuTime << "s";
241  std::cout << "\t CreateExp set first exp CPU Time: "
242  << std::setw(8) << std::left
243  << ss1.str() << std::endl;
244  }
245  }
246  }
247 
248  if (fldfilegiven)
249  {
250  int i, j, nfields, nstrips;
251  m_session->LoadParameter("Strip_Z", nstrips, 1);
252  std::vector<std::string> vars = m_session->GetVariables();
253 
254  if (vm.count("useSessionVariables"))
255  {
256  m_variables = vars;
257  }
258  nfields = m_variables.size();
259 
260  m_exp.resize(nfields * nstrips);
261  // declare other fields;
262  for (int s = 0; s < nstrips; ++s) // homogeneous strip varient
263  {
264  for (i = 0; i < nfields; ++i)
265  {
266  if (i < vars.size())
267  {
268  // check to see if field already defined
269  if (!m_exp[s * nfields + i])
270  {
271  m_exp[s * nfields + i] = AppendExpList(
272  m_numHomogeneousDir, vars[i]);
273  }
274 
275  }
276  else
277  {
278  if (vars.size())
279  {
280  m_exp[s * nfields + i] = AppendExpList(
281  m_numHomogeneousDir, vars[0]);
282  }
283  else
284  {
285  m_exp[s * nfields + i] = AppendExpList(
286  m_numHomogeneousDir);
287  }
288 
289  }
290  }
291  }
292 
293  // Extract data to coeffs and bwd transform
294  for (int s = 0; s < nstrips; ++s) // homogeneous strip varient
295  {
296  for (j = 0; j < nfields; ++j)
297  {
298  for (i = 0; i < m_data.size() / nstrips; ++i)
299  {
300  int n = i * nstrips + s;
301  // In case of multiple flds, we might not have a
302  // variable in this m_data[n] -> skip in this case
303  auto it = find (m_fielddef[n]->m_fields.begin(),
304  m_fielddef[n]->m_fields.end(),
305  m_variables[j]);
306  if(it != m_fielddef[n]->m_fields.end())
307  {
308  m_exp[s * nfields + j]->ExtractDataToCoeffs(
309  m_fielddef[n],
310  m_data[n],
311  m_variables[j],
312  m_exp[s * nfields + j]->UpdateCoeffs());
313  }
314  }
315  m_exp[s * nfields + j]->BwdTrans
316  (m_exp[s * nfields + j]->GetCoeffs(),
317  m_exp[s * nfields + j]->UpdatePhys());
318  }
319  }
320  // Clear fielddef and data
321  // (they should not be used after running this module)
322  m_fielddef = std::vector<LibUtilities::FieldDefinitionsSharedPtr>();
323  m_data = std::vector<std::vector<NekDouble> >();
324  }
325  }
326 
327 
328  FIELD_UTILS_EXPORT MultiRegions::ExpListSharedPtr SetUpFirstExpList(
329  int NumHomogeneousDir, bool fldfilegiven = false)
330  {
331 
332  MultiRegions::ExpListSharedPtr exp;
333 
334  // Set up expansion list
335  int expdim = m_graph->GetMeshDimension();
336  bool dealiasing = false;
337 
338  m_session->MatchSolverInfo("USEFFT", "FFTW", m_useFFT, false);
339 
340  switch (expdim)
341  {
342  case 1:
343  {
344  ASSERTL0(NumHomogeneousDir <= 2,
345  "Quasi-3D approach is only set up for 1 or 2 "
346  "homogeneous directions");
347 
348  if (NumHomogeneousDir == 1)
349  {
350  MultiRegions::ExpList2DHomogeneous1DSharedPtr Exp2DH1;
351 
352  // Define Homogeneous expansion
353  int nplanes;
354  NekDouble ly;
355  LibUtilities::BasisType btype;
356 
357  if (fldfilegiven)
358  {
359  nplanes = m_fielddef[0]->m_numModes[1];
360  ly = m_fielddef[0]->m_homogeneousLengths[0];
361  btype = m_fielddef[0]->m_basis[1];
362  }
363  else
364  {
365  m_session->LoadParameter("HomModesZ", nplanes);
366  m_session->LoadParameter("LY", ly);
367  btype = LibUtilities::eFourier;
368  }
369 
370  // Choose points to be at evenly spaced points at
371  // nplanes points
372  const LibUtilities::PointsKey Pkey(
373  nplanes, LibUtilities::eFourierEvenlySpaced);
374 
375  const LibUtilities::BasisKey Bkey(btype, nplanes, Pkey);
376 
377  if (m_declareExpansionAsContField ||
378  m_declareExpansionAsDisContField)
379  {
380  ASSERTL0(false, "ContFieldHomogeneous1D or "
381  "DisContFieldHomogenenous1D has "
382  "not been implemented");
383  }
384 
385  Exp2DH1 =
386  MemoryManager<MultiRegions::ExpList2DHomogeneous1D>::
387  AllocateSharedPtr(m_session, Bkey, ly, m_useFFT,
388  dealiasing, m_graph,
389  Collections::eNoCollection);
390  exp = Exp2DH1;
391  }
392  else if (NumHomogeneousDir == 2)
393  {
394  MultiRegions::ExpList3DHomogeneous2DSharedPtr Exp3DH2;
395 
396  int nylines, nzlines;
397  NekDouble ly, lz;
398  LibUtilities::BasisType btype1, btype2;
399 
400  if (fldfilegiven)
401  {
402  nylines = m_fielddef[0]->m_numModes[1];
403  nzlines = m_fielddef[0]->m_numModes[2];
404  ly = m_fielddef[0]->m_homogeneousLengths[0];
405  lz = m_fielddef[0]->m_homogeneousLengths[1];
406  btype1 = m_fielddef[0]->m_basis[1];
407  btype2 = m_fielddef[0]->m_basis[2];
408  }
409  else
410  {
411  m_session->LoadParameter("HomModesY", nylines);
412  m_session->LoadParameter("HomModesZ", nzlines);
413  m_session->LoadParameter("LY", ly);
414  m_session->LoadParameter("LZ", lz);
415  btype1 = LibUtilities::eFourier;
416  btype2 = LibUtilities::eFourier;
417  }
418 
419  // Choose points to be at evenly spaced points at
420  // nplanes points
421  const LibUtilities::PointsKey PkeyY(
422  nylines, LibUtilities::eFourierEvenlySpaced);
423  const LibUtilities::BasisKey BkeyY(btype1, nylines, PkeyY);
424 
425  const LibUtilities::PointsKey PkeyZ(
426  nzlines, LibUtilities::eFourierEvenlySpaced);
427  const LibUtilities::BasisKey BkeyZ(btype2, nzlines, PkeyZ);
428 
429  if (m_declareExpansionAsContField)
430  {
431  Exp3DH2 = MemoryManager<
432  MultiRegions::ContField3DHomogeneous2D>::
433  AllocateSharedPtr(m_session, BkeyY, BkeyZ, ly, lz,
434  m_useFFT, dealiasing, m_graph,
435  m_session->GetVariable(0),
436  Collections::eNoCollection);
437  }
438  else if (m_declareExpansionAsDisContField)
439  {
440  Exp3DH2 = MemoryManager<
441  MultiRegions::DisContField3DHomogeneous2D>::
442  AllocateSharedPtr(m_session, BkeyY, BkeyZ, ly, lz,
443  m_useFFT, dealiasing, m_graph,
444  m_session->GetVariable(0),
445  Collections::eNoCollection);
446  }
447  else
448  {
449  Exp3DH2 = MemoryManager<
450  MultiRegions::ExpList3DHomogeneous2D>::
451  AllocateSharedPtr(m_session, BkeyY, BkeyZ, ly, lz,
452  m_useFFT, dealiasing, m_graph,
453  Collections::eNoCollection);
454  }
455 
456  exp = Exp3DH2;
457  }
458  else
459  {
460  MultiRegions::ExpListSharedPtr Exp1D;
461 
462  if (m_declareExpansionAsContField)
463  {
464  Exp1D = MemoryManager<MultiRegions::ContField>::
465  AllocateSharedPtr(m_session, m_graph,
466  m_session->GetVariable(0),
467  true,false,
468  Collections::eNoCollection);
469  }
470  else if (m_declareExpansionAsDisContField)
471  {
472  Exp1D = MemoryManager<MultiRegions::DisContField>::
473  AllocateSharedPtr(m_session, m_graph,
474  m_session->GetVariable(0),
475  true,
476  Collections::eNoCollection);
477  }
478  else
479  {
480  Exp1D = MemoryManager<MultiRegions::ExpList>::
481  AllocateSharedPtr(m_session, m_graph,
482  true,"DefaultVar",
483  Collections::eNoCollection);
484  }
485 
486  exp = Exp1D;
487  }
488  }
489  break;
490  case 2:
491  {
492  ASSERTL0(NumHomogeneousDir <= 1,
493  "NumHomogeneousDir is only set up for 1");
494 
495  if (NumHomogeneousDir == 1)
496  {
497  MultiRegions::ExpList3DHomogeneous1DSharedPtr Exp3DH1;
498 
499  // Define Homogeneous expansion
500  int nplanes;
501  NekDouble lz;
502  LibUtilities::BasisType btype;
503  LibUtilities::PointsType ptype =
504  LibUtilities::eFourierEvenlySpaced;
505 
506  if (fldfilegiven)
507  {
508  nplanes = m_fielddef[0]->m_numModes[2];
509  lz = m_fielddef[0]->m_homogeneousLengths[0];
510  btype = m_fielddef[0]->m_basis[2];
511 
512  if (btype == LibUtilities::eFourierSingleMode)
513  {
514  btype = LibUtilities::eFourier;
515  m_fielddef[0]->m_basis[2] =
516  LibUtilities::eFourierSingleMode;
517  if (nplanes <= 2)
518  {
519  nplanes = 4;
520  }
521  }
522  else if (btype == LibUtilities::eFourierHalfModeRe &&
523  nplanes == 1)
524  {
525  ptype = LibUtilities::ePolyEvenlySpaced;
526  }
527  }
528  else
529  {
530  m_session->LoadParameter("HomModesZ", nplanes);
531  m_session->LoadParameter("LZ", lz);
532  btype = LibUtilities::eFourier;
533  }
534  // Choose points to be at evenly spaced points at
535  // nplanes points
536  const LibUtilities::PointsKey Pkey(nplanes, ptype);
537 
538  const LibUtilities::BasisKey Bkey(btype, nplanes, Pkey);
539 
540  if (m_declareExpansionAsContField)
541  {
542  Exp3DH1 = MemoryManager<
543  MultiRegions::ContField3DHomogeneous1D>::
544  AllocateSharedPtr(m_session, Bkey, lz, m_useFFT,
545  dealiasing, m_graph,
546  m_session->GetVariable(0),
547  Collections::eNoCollection);
548  }
549 
550  else if (m_declareExpansionAsDisContField)
551  {
552  Exp3DH1 = MemoryManager<
553  MultiRegions::DisContField3DHomogeneous1D>::
554  AllocateSharedPtr(m_session, Bkey, lz, m_useFFT,
555  dealiasing, m_graph,
556  m_session->GetVariable(0),
557  Collections::eNoCollection);
558  }
559 
560  else
561  {
562  Exp3DH1 = MemoryManager<
563  MultiRegions::ExpList3DHomogeneous1D>::
564  AllocateSharedPtr(m_session, Bkey, lz, m_useFFT,
565  dealiasing, m_graph,
566  "DefaultVar",
567  Collections::eNoCollection);
568  }
569  exp = Exp3DH1;
570  }
571  else
572  {
573  MultiRegions::ExpListSharedPtr Exp2D;
574 
575  if (m_declareExpansionAsContField)
576  {
577  Exp2D = MemoryManager<MultiRegions::ContField>::
578  AllocateSharedPtr(m_session, m_graph,
579  m_session->GetVariable(0),
580  true,false,
581  Collections::eNoCollection);
582  }
583 
584  else if (m_declareExpansionAsDisContField)
585  {
586  Exp2D = MemoryManager<MultiRegions::DisContField>::
587  AllocateSharedPtr(m_session, m_graph,
588  m_session->GetVariable(0),
589  true,true,
590  Collections::eNoCollection);
591  }
592  else
593  {
594  Exp2D = MemoryManager<MultiRegions::ExpList>::
595  AllocateSharedPtr(m_session, m_graph,
596  true,
597  "DefaultVar",
598  Collections::eNoCollection);
599  }
600 
601  exp = Exp2D;
602  }
603  }
604  break;
605  case 3:
606  {
607  MultiRegions::ExpListSharedPtr Exp3D;
608 
609  if (m_declareExpansionAsContField)
610  {
611  Exp3D = MemoryManager<MultiRegions::ContField>::
612  AllocateSharedPtr(m_session, m_graph,
613  m_session->GetVariable(0),
614  true,
615  false,
616  Collections::eNoCollection);
617  }
618  else if (m_declareExpansionAsDisContField)
619  {
620  Exp3D = MemoryManager<MultiRegions::DisContField>::
621  AllocateSharedPtr(m_session, m_graph,
622  m_session->GetVariable(0),
623  true,
624  Collections::eNoCollection);
625  }
626  else
627  {
628  Exp3D = MemoryManager<
629  MultiRegions::ExpList>::AllocateSharedPtr(
630  m_session,
631  m_graph,
632  true,
633  "DefaultVar",
634  Collections::eNoCollection);
635  }
636 
637  exp = Exp3D;
638  }
639  break;
640  default:
641  ASSERTL0(false, "Expansion dimension not recognised");
642  break;
643  }
644 
645  return exp;
646  };
647 
648  /**
649  * @brief Construct a FieldIO object for the file @p filename.
650  *
651  * This routine constructs an appropriate FieldIO object for a filename
652  * through the LibUtilities::FieldIO::GetFileType function to detect the
653  * file format. The result is then cached in Field::m_fld to avoid needing
654  * to repeatedly construct the object.
655  *
656  * @param filename Filename to open.
657  * @return Reader for @p filename.
658  */
659  FIELD_UTILS_EXPORT LibUtilities::FieldIOSharedPtr FieldIOForFile(
660  std::string filename)
661  {
662  LibUtilities::CommSharedPtr c = m_comm;
663  std::string fmt = LibUtilities::FieldIO::GetFileType(filename, c);
664 
665  auto it = m_fld.find(fmt);
666 
667  if (it == m_fld.end())
668  {
669  LibUtilities::FieldIOSharedPtr fld =
670  LibUtilities::GetFieldIOFactory().CreateInstance(fmt, c, true);
671  m_fld[fmt] = fld;
672  return fld;
673  }
674  else
675  {
676  return it->second;
677  }
678  }
679 
680  FIELD_UTILS_EXPORT MultiRegions::ExpListSharedPtr AppendExpList(
681  int NumHomogeneousDir,
682  std::string var = "DefaultVar",
683  bool NewField = false)
684  {
685  if (var.compare("DefaultVar") == 0 && m_requireBoundaryExpansion)
686  {
687  if (m_session->GetVariables().size())
688  {
689  var = m_session->GetVariables()[0];
690  }
691  }
692  MultiRegions::ExpListSharedPtr tmp;
693  switch (m_graph->GetMeshDimension())
694  {
695  case 1:
696  {
697  if (NumHomogeneousDir == 1)
698  {
699  ASSERTL0(!(m_declareExpansionAsContField ||
700  m_declareExpansionAsDisContField),
701  "ContFieldHomogeneous1D or "
702  "DisContFieldHomogenenous1D has not been "
703  "implemented");
704 
705  MultiRegions::ExpList2DHomogeneous1DSharedPtr tmp2 =
706  std::dynamic_pointer_cast<
707  MultiRegions::ExpList2DHomogeneous1D>(m_exp[0]);
708 
709  tmp = MemoryManager<MultiRegions::ExpList2DHomogeneous1D>::
710  AllocateSharedPtr(*tmp2);
711  }
712  else if (NumHomogeneousDir == 2)
713  {
714  if (m_declareExpansionAsContField)
715  {
716  MultiRegions::ContField3DHomogeneous2DSharedPtr tmp2 =
717  std::dynamic_pointer_cast<
718  MultiRegions::ContField3DHomogeneous2D>(
719  m_exp[0]);
720 
721  tmp = MemoryManager<
722  MultiRegions::ContField3DHomogeneous2D>::
723  AllocateSharedPtr(*tmp2);
724  }
725  else if (m_declareExpansionAsDisContField)
726  {
727  MultiRegions::DisContField3DHomogeneous2DSharedPtr
728  tmp2 = std::dynamic_pointer_cast<
729  MultiRegions::DisContField3DHomogeneous2D>(
730  m_exp[0]);
731 
732  tmp = MemoryManager<
733  MultiRegions::DisContField3DHomogeneous2D>::
734  AllocateSharedPtr(*tmp2);
735  }
736  else
737  {
738  MultiRegions::ExpList3DHomogeneous2DSharedPtr tmp2 =
739  std::dynamic_pointer_cast<
740  MultiRegions::ExpList3DHomogeneous2D>(m_exp[0]);
741 
742  tmp = MemoryManager<
743  MultiRegions::ExpList3DHomogeneous2D>::
744  AllocateSharedPtr(*tmp2);
745  }
746  }
747  else
748  {
749  if (m_declareExpansionAsContField)
750  {
751  MultiRegions::ContFieldSharedPtr tmp2 =
752  std::dynamic_pointer_cast<
753  MultiRegions::ContField>(m_exp[0]);
754 
755  tmp = MemoryManager<MultiRegions::ContField>::
756  AllocateSharedPtr(m_session, m_graph, var);
757  }
758  else if (m_declareExpansionAsDisContField)
759  {
760  MultiRegions::DisContFieldSharedPtr tmp2 =
761  std::dynamic_pointer_cast<
762  MultiRegions::DisContField>(m_exp[0]);
763 
764  tmp = MemoryManager<MultiRegions::DisContField>::
765  AllocateSharedPtr(m_session, m_graph, var);
766  }
767  else
768  {
769  MultiRegions::ExpListSharedPtr tmp2 =
770  std::dynamic_pointer_cast<
771  MultiRegions::ExpList>(m_exp[0]);
772 
773  tmp = MemoryManager<
774  MultiRegions::ExpList>::AllocateSharedPtr(*tmp2);
775  }
776  }
777  }
778  break;
779  case 2:
780  {
781  if (NumHomogeneousDir == 1)
782  {
783  if (m_declareExpansionAsContField)
784  {
785  if (NewField)
786  {
787  bool dealiasing = false;
788 
789  tmp = MemoryManager<
790  MultiRegions::ContField3DHomogeneous1D>::
791  AllocateSharedPtr(
792  m_session, m_exp[0]
793  ->GetHomogeneousBasis()
794  ->GetBasisKey(),
795  m_exp[0]->GetHomoLen(), m_useFFT,
796  dealiasing, m_graph, var);
797  }
798  else
799  {
800  MultiRegions::ContField3DHomogeneous1DSharedPtr
801  tmp2 = std::dynamic_pointer_cast<
802  MultiRegions::ContField3DHomogeneous1D>(
803  m_exp[0]);
804 
805  ASSERTL0(tmp2, "Failed to type cast m_exp[0]");
806  tmp = MemoryManager<
807  MultiRegions::ContField3DHomogeneous1D>::
808  AllocateSharedPtr(*tmp2, m_graph, var);
809  }
810  }
811  else if (m_declareExpansionAsDisContField)
812  {
813  if (NewField)
814  {
815  bool dealiasing = false;
816 
817  tmp = MemoryManager<
818  MultiRegions::DisContField3DHomogeneous1D>::
819  AllocateSharedPtr(
820  m_session, m_exp[0]
821  ->GetHomogeneousBasis()
822  ->GetBasisKey(),
823  m_exp[0]->GetHomoLen(), m_useFFT,
824  dealiasing, m_graph, var);
825  }
826  else
827  {
828  MultiRegions::DisContField3DHomogeneous1DSharedPtr
829  tmp2 = std::dynamic_pointer_cast<
830  MultiRegions::DisContField3DHomogeneous1D>(
831  m_exp[0]);
832  ASSERTL0(tmp2, "Failed to type cast m_exp[0]");
833 
834  tmp = MemoryManager<
835  MultiRegions::DisContField3DHomogeneous1D>::
836  AllocateSharedPtr(*tmp2);
837  }
838  }
839  else
840  {
841  if (NewField)
842  {
843  bool dealiasing = false;
844 
845  tmp = MemoryManager<
846  MultiRegions::ExpList3DHomogeneous1D>::
847  AllocateSharedPtr(
848  m_session, m_exp[0]
849  ->GetHomogeneousBasis()
850  ->GetBasisKey(),
851  m_exp[0]->GetHomoLen(), m_useFFT,
852  dealiasing, m_graph);
853  }
854  else
855  {
856  MultiRegions::ExpList3DHomogeneous1DSharedPtr tmp2 =
857  std::dynamic_pointer_cast<
858  MultiRegions::ExpList3DHomogeneous1D>(
859  m_exp[0]);
860  ASSERTL0(tmp2, "Failed to type cast m_exp[0]");
861 
862  tmp = MemoryManager<
863  MultiRegions::ExpList3DHomogeneous1D>::
864  AllocateSharedPtr(*tmp2);
865  }
866  }
867  }
868  else
869  {
870  if (m_declareExpansionAsContField)
871  {
872  if (NewField)
873  {
874  tmp = MemoryManager<MultiRegions::ContField>::
875  AllocateSharedPtr(m_session, m_graph, var);
876  }
877  else // call copy constructor
878  {
879 
880  MultiRegions::ContFieldSharedPtr tmp2 =
881  std::dynamic_pointer_cast<
882  MultiRegions::ContField>(m_exp[0]);
883 
884  tmp = MemoryManager<MultiRegions::ContField>::
885  AllocateSharedPtr(*tmp2, m_graph, var);
886  }
887  }
888  else if (m_declareExpansionAsDisContField)
889  {
890  if (NewField)
891  {
892  tmp = MemoryManager<MultiRegions::DisContField>::
893  AllocateSharedPtr(m_session, m_graph, var);
894  }
895  else // call copy constructor
896  {
897  MultiRegions::DisContFieldSharedPtr tmp2 =
898  std::dynamic_pointer_cast<
899  MultiRegions::DisContField>(m_exp[0]);
900 
901  tmp = MemoryManager<MultiRegions::DisContField>::
902  AllocateSharedPtr(*tmp2, m_graph, var);
903  }
904  }
905  else
906  {
907  MultiRegions::ExpListSharedPtr tmp2 =
908  std::dynamic_pointer_cast<
909  MultiRegions::ExpList>(m_exp[0]);
910 
911  tmp = MemoryManager<
912  MultiRegions::ExpList>::AllocateSharedPtr(*tmp2);
913  }
914  }
915  }
916  break;
917  case 3:
918  {
919  if (m_declareExpansionAsContField)
920  {
921  if (NewField)
922  {
923  tmp = MemoryManager<MultiRegions::ContField>::
924  AllocateSharedPtr(m_session, m_graph, var);
925  }
926  else
927  {
928  MultiRegions::ContFieldSharedPtr tmp2 =
929  std::dynamic_pointer_cast<
930  MultiRegions::ContField>(m_exp[0]);
931 
932  tmp = MemoryManager<MultiRegions::ContField>::
933  AllocateSharedPtr(*tmp2, m_graph, var);
934  }
935  }
936  else if (m_declareExpansionAsDisContField)
937  {
938  if (NewField)
939  {
940  tmp = MemoryManager<MultiRegions::DisContField>::
941  AllocateSharedPtr(m_session, m_graph, var);
942  }
943  else
944  {
945  MultiRegions::DisContFieldSharedPtr tmp2 =
946  std::dynamic_pointer_cast<
947  MultiRegions::DisContField>(m_exp[0]);
948 
949  tmp = MemoryManager<MultiRegions::DisContField>::
950  AllocateSharedPtr(*tmp2, m_graph, var);
951  }
952  }
953  else
954  {
955  MultiRegions::ExpListSharedPtr tmp2 =
956  std::dynamic_pointer_cast<MultiRegions::ExpList>(
957  m_exp[0]);
958 
959  tmp = MemoryManager<
960  MultiRegions::ExpList>::AllocateSharedPtr(*tmp2);
961  }
962  }
963  break;
964  default:
965  ASSERTL0(false, "Expansion dimension not recognised");
966  break;
967  }
968 
969  return tmp;
970  }
971 
972  FIELD_UTILS_EXPORT void ClearField()
973  {
974  m_session = LibUtilities::SessionReaderSharedPtr();
975  m_graph = SpatialDomains::MeshGraphSharedPtr();
976  m_fieldPts = LibUtilities::NullPtsField;
977  m_exp.clear();
978  m_fielddef = std::vector<LibUtilities::FieldDefinitionsSharedPtr>();
979  m_data = std::vector<std::vector<NekDouble> > ();
980  m_variables.clear();
981  }
982 
983 private:
984  /// Map to store FieldIO instances. Key is the reader type, value is the
985  /// FieldIO object.
986  std::map<std::string, LibUtilities::FieldIOSharedPtr> m_fld;
987 };
988 
989 typedef std::shared_ptr<Field> FieldSharedPtr;
990 }
991 }
992 
993 #endif
ASSERTL0
#define ASSERTL0(condition, msg)
Definition: ErrorUtil.hpp:216
FIELD_UTILS_EXPORT
#define FIELD_UTILS_EXPORT
Definition: FieldUtilsDeclspec.h:42
Nektar::LibUtilities::BasisKey
Describes the specification for a Basis.
Definition: Basis.h:50
Nektar::LibUtilities::FieldIO::GetFileType
static const std::string GetFileType(const std::string &filename, CommSharedPtr comm)
Determine file type of given input file.
Definition: FieldIO.cpp:97
Nektar::LibUtilities::NekFactory::CreateInstance
tBaseSharedPtr CreateInstance(tKey idKey, tParam... args)
Create an instance of the class referred to by idKey.
Definition: NekFactory.hpp:145
Nektar::LibUtilities::PointsKey
Defines a specification for a set of points.
Definition: Points.h:60
Nektar::LibUtilities::Timer::TimePerTest
NekDouble TimePerTest(unsigned int n)
Returns amount of seconds per iteration in a test with n iterations.
Definition: Timer.cpp:62
Nektar::MemoryManager
General purpose memory allocation routines with the ability to allocate from thread specific memory p...
Definition: NekMemoryManager.hpp:84
Nektar::MemoryManager::AllocateSharedPtr
static std::shared_ptr< DataType > AllocateSharedPtr(const Args &...args)
Allocate a shared pointer from the memory pool.
Definition: NekMemoryManager.hpp:171
Nektar::MultiRegions::ContField
This class is the abstraction of a global continuous two- dimensional spectral/hp element expansion w...
Definition: ContField.h:56
Nektar::MultiRegions::DisContField
This class is the abstractio n of a global discontinuous two- dimensional spectral/hp element expansi...
Definition: DisContField.h:56
Nektar::MultiRegions::ExpList2DHomogeneous1D
Abstraction of a two-dimensional multi-elemental expansion which is merely a collection of local expa...
Definition: ExpList2DHomogeneous1D.h:61
Nektar::MultiRegions::ExpList3DHomogeneous1D
Abstraction of a two-dimensional multi-elemental expansion which is merely a collection of local expa...
Definition: ExpList3DHomogeneous1D.h:61
Nektar::MultiRegions::ExpList3DHomogeneous2D
Abstraction of a one-dimensional multi-elemental expansion which is merely a collection of local expa...
Definition: ExpList3DHomogeneous2D.h:59
Nektar::MultiRegions::ExpList
Base class for all multi-elemental spectral/hp expansions.
Definition: ExpList.h:107
Nektar::FieldUtils::FieldSharedPtr
std::shared_ptr< Field > FieldSharedPtr
Definition: Field.hpp:989
Nektar::LibUtilities::FieldIOSharedPtr
std::shared_ptr< FieldIO > FieldIOSharedPtr
Definition: FieldIO.h:306
Nektar::LibUtilities::FieldMetaDataMap
std::map< std::string, std::string > FieldMetaDataMap
Definition: FieldIO.h:52
Nektar::LibUtilities::SessionReaderSharedPtr
std::shared_ptr< SessionReader > SessionReaderSharedPtr
Definition: SessionReader.h:120
Nektar::LibUtilities::PtsFieldSharedPtr
std::shared_ptr< PtsField > PtsFieldSharedPtr
Definition: PtsField.h:182
Nektar::LibUtilities::NullPtsField
static PtsFieldSharedPtr NullPtsField
Definition: PtsField.h:183
Nektar::LibUtilities::GetFieldIOFactory
FieldIOFactory & GetFieldIOFactory()
Returns the FieldIO factory.
Definition: FieldIO.cpp:72
Nektar::LibUtilities::eFourierEvenlySpaced
@ eFourierEvenlySpaced
1D Evenly-spaced points using Fourier Fit
Definition: PointsType.h:65
Nektar::LibUtilities::ePolyEvenlySpaced
@ ePolyEvenlySpaced
1D Evenly-spaced points using Lagrange polynomial
Definition: PointsType.h:64
Nektar::LibUtilities::CommSharedPtr
std::shared_ptr< Comm > CommSharedPtr
Pointer to a Communicator object.
Definition: Comm.h:54
Nektar::LibUtilities::eFourierSingleMode
@ eFourierSingleMode
Fourier ModifiedExpansion with just the first mode .
Definition: BasisType.h:59
Nektar::LibUtilities::eFourierHalfModeRe
@ eFourierHalfModeRe
Fourier Modified expansions with just the real part of the first mode
Definition: BasisType.h:60
Nektar::LibUtilities::eFourier
@ eFourier
Fourier Expansion .
Definition: BasisType.h:53
Nektar::MultiRegions::DisContField3DHomogeneous2DSharedPtr
std::shared_ptr< DisContField3DHomogeneous2D > DisContField3DHomogeneous2DSharedPtr
Definition: DisContField3DHomogeneous2D.h:167
Nektar::MultiRegions::DisContField3DHomogeneous1DSharedPtr
std::shared_ptr< DisContField3DHomogeneous1D > DisContField3DHomogeneous1DSharedPtr
Definition: DisContField3DHomogeneous1D.h:306
Nektar::MultiRegions::DisContFieldSharedPtr
std::shared_ptr< DisContField > DisContFieldSharedPtr
Definition: DisContField.h:385
Nektar::MultiRegions::ContField3DHomogeneous2DSharedPtr
std::shared_ptr< ContField3DHomogeneous2D > ContField3DHomogeneous2DSharedPtr
Definition: ContField3DHomogeneous2D.h:102
Nektar::MultiRegions::ContField3DHomogeneous1DSharedPtr
std::shared_ptr< ContField3DHomogeneous1D > ContField3DHomogeneous1DSharedPtr
Definition: ContField3DHomogeneous1D.h:107
Nektar::MultiRegions::ExpListSharedPtr
std::shared_ptr< ExpList > ExpListSharedPtr
Shared pointer to an ExpList object.
Definition: LocTraceToTraceMap.h:55
Nektar::MultiRegions::ExpList2DHomogeneous1DSharedPtr
std::shared_ptr< ExpList2DHomogeneous1D > ExpList2DHomogeneous1DSharedPtr
Shared pointer to an ExpList2DHomogeneous1D object.
Definition: ExpList2DHomogeneous1D.h:49
Nektar::MultiRegions::ExpList3DHomogeneous2DSharedPtr
std::shared_ptr< ExpList3DHomogeneous2D > ExpList3DHomogeneous2DSharedPtr
Shared pointer to an ExpList3DHomogeneous2D object.
Definition: ExpList3DHomogeneous2D.h:49
Nektar::MultiRegions::ExpList3DHomogeneous1DSharedPtr
std::shared_ptr< ExpList3DHomogeneous1D > ExpList3DHomogeneous1DSharedPtr
Shared pointer to an ExpList3DHomogeneous1D object.
Definition: ExpList3DHomogeneous1D.h:51
Nektar::MultiRegions::ContFieldSharedPtr
std::shared_ptr< ContField > ContFieldSharedPtr
Definition: ContField.h:292
Nektar::SpatialDomains::MeshGraphSharedPtr
std::shared_ptr< MeshGraph > MeshGraphSharedPtr
Definition: MeshGraph.h:174
Nektar::StdRegions::find
InputIterator find(InputIterator first, InputIterator last, InputIterator startingpoint, const EqualityComparable &value)
Definition: StdRegions.hpp:362
Nektar
The above copyright notice and this permission notice shall be included.
Definition: CoupledSolver.h:1
Nektar::NekDouble
double NekDouble
Definition: NektarUnivTypeDefs.hpp:43
Nektar::FieldUtils::Field::m_partComm
LibUtilities::CommSharedPtr m_partComm
Definition: Field.hpp:96
Nektar::FieldUtils::Field::SetUpFirstExpList
FIELD_UTILS_EXPORT MultiRegions::ExpListSharedPtr SetUpFirstExpList(int NumHomogeneousDir, bool fldfilegiven=false)
Definition: Field.hpp:328
Nektar::FieldUtils::Field::AppendExpList
FIELD_UTILS_EXPORT MultiRegions::ExpListSharedPtr AppendExpList(int NumHomogeneousDir, std::string var="DefaultVar", bool NewField=false)
Definition: Field.hpp:680
Nektar::FieldUtils::Field::m_declareExpansionAsDisContField
bool m_declareExpansionAsDisContField
Definition: Field.hpp:88
Nektar::FieldUtils::Field::m_vm
po::variables_map m_vm
Definition: Field.hpp:98
Nektar::FieldUtils::Field::m_graph
SpatialDomains::MeshGraphSharedPtr m_graph
Definition: Field.hpp:101
Nektar::FieldUtils::Field::m_variables
std::vector< std::string > m_variables
Definition: Field.hpp:83
Nektar::FieldUtils::Field::m_bndRegionsToWrite
std::vector< unsigned int > m_bndRegionsToWrite
Definition: Field.hpp:105
Nektar::FieldUtils::Field::m_session
LibUtilities::SessionReaderSharedPtr m_session
Definition: Field.hpp:100
Nektar::FieldUtils::Field::m_fld
std::map< std::string, LibUtilities::FieldIOSharedPtr > m_fld
Map to store FieldIO instances. Key is the reader type, value is the FieldIO object.
Definition: Field.hpp:986
Nektar::FieldUtils::Field::m_inputfiles
std::map< std::string, std::vector< std::string > > m_inputfiles
Definition: Field.hpp:102
Nektar::FieldUtils::Field::Field
FIELD_UTILS_EXPORT Field()
Definition: Field.hpp:64
Nektar::FieldUtils::Field::m_declareExpansionAsContField
bool m_declareExpansionAsContField
Definition: Field.hpp:87
Nektar::FieldUtils::Field::ClearField
FIELD_UTILS_EXPORT void ClearField()
Definition: Field.hpp:972
Nektar::FieldUtils::Field::m_fielddef
std::vector< LibUtilities::FieldDefinitionsSharedPtr > m_fielddef
Definition: Field.hpp:80
Nektar::FieldUtils::Field::SetUpExp
FIELD_UTILS_EXPORT void SetUpExp(boost::program_options::variables_map &vm)
Definition: Field.hpp:112
Nektar::FieldUtils::Field::m_fieldPts
LibUtilities::PtsFieldSharedPtr m_fieldPts
Definition: Field.hpp:108
Nektar::FieldUtils::Field::~Field
FIELD_UTILS_EXPORT ~Field()
Definition: Field.hpp:72
Nektar::FieldUtils::Field::m_data
std::vector< std::vector< double > > m_data
Definition: Field.hpp:81
Nektar::FieldUtils::Field::m_exp
std::vector< MultiRegions::ExpListSharedPtr > m_exp
Definition: Field.hpp:82
Nektar::FieldUtils::Field::m_comm
LibUtilities::CommSharedPtr m_comm
Definition: Field.hpp:94
Nektar::FieldUtils::Field::m_defComm
LibUtilities::CommSharedPtr m_defComm
Definition: Field.hpp:95
Nektar::FieldUtils::Field::CreateExp
FIELD_UTILS_EXPORT void CreateExp(boost::program_options::variables_map &vm, bool newExp)
Definition: Field.hpp:124
Nektar::FieldUtils::Field::FieldIOForFile
FIELD_UTILS_EXPORT LibUtilities::FieldIOSharedPtr FieldIOForFile(std::string filename)
Construct a FieldIO object for the file filename.
Definition: Field.hpp:659
Nektar::FieldUtils::Field::m_fieldMetaDataMap
LibUtilities::FieldMetaDataMap m_fieldMetaDataMap
Definition: Field.hpp:110
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