/[escript]/branches/diaplayground/finley/src/CPPAdapter/MeshAdapter.cpp
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revision 1080 by gross, Wed Apr 11 06:07:30 2007 UTC revision 2987 by gross, Tue Mar 16 01:32:43 2010 UTC
# Line 1  Line 1 
 // $Id$  
 /*  
  ******************************************************************************  
  *                                                                            *  
  *       COPYRIGHT  ACcESS 2004 -  All Rights Reserved                        *  
  *                                                                            *  
  * This software is the property of ACcESS. No part of this code              *  
  * may be copied in any form or by any means without the expressed written    *  
  * consent of ACcESS.  Copying, use or modification of this software          *  
  * by any unauthorised person is illegal unless that person has a software    *  
  * license agreement with ACcESS.                                             *  
  *                                                                            *  
  ******************************************************************************  
 */  
1    
2  #ifdef PASO_MPI  /*******************************************************
3  #include <mpi.h>  *
4  #endif  * Copyright (c) 2003-2010 by University of Queensland
5  #include "MeshAdapter.h"  * Earth Systems Science Computational Center (ESSCC)
6    * http://www.uq.edu.au/esscc
7    *
8    * Primary Business: Queensland, Australia
9    * Licensed under the Open Software License version 3.0
10    * http://www.opensource.org/licenses/osl-3.0.php
11    *
12    *******************************************************/
13    
14    
15    #include "MeshAdapter.h"
16  #include "escript/Data.h"  #include "escript/Data.h"
17  #include "escript/DataFactory.h"  #include "escript/DataFactory.h"
18    #ifdef USE_NETCDF
19    #include <netcdfcpp.h>
20    #endif
21    #ifdef PASO_MPI
22    #include <mpi.h>
23    #include "paso/Paso_MPI.h"
24    #endif
25    extern "C" {
26    #include "esysUtils/blocktimer.h"
27    }
28    
29  using namespace std;  using namespace std;
30  using namespace escript;  using namespace escript;
# Line 45  const int MeshAdapter::ReducedContactEle Line 50  const int MeshAdapter::ReducedContactEle
50    
51  MeshAdapter::MeshAdapter(Finley_Mesh* finleyMesh)  MeshAdapter::MeshAdapter(Finley_Mesh* finleyMesh)
52  {  {
53    setFunctionSpaceTypeNames();     setFunctionSpaceTypeNames();
54    //     //
55    // need to use a null_deleter as Finley_Mesh_dealloc deletes the pointer     // need to use a null_deleter as Finley_Mesh_free deletes the pointer
56    // for us.     // for us.
57    m_finleyMesh.reset(finleyMesh,null_deleter());     m_finleyMesh.reset(finleyMesh,null_deleter());
58  }  }
59    
60  //  //
# Line 57  MeshAdapter::MeshAdapter(Finley_Mesh* fi Line 62  MeshAdapter::MeshAdapter(Finley_Mesh* fi
62  MeshAdapter::MeshAdapter(const MeshAdapter& in):  MeshAdapter::MeshAdapter(const MeshAdapter& in):
63  m_finleyMesh(in.m_finleyMesh)  m_finleyMesh(in.m_finleyMesh)
64  {  {
65    setFunctionSpaceTypeNames();     setFunctionSpaceTypeNames();
66  }  }
67    
68  MeshAdapter::~MeshAdapter()  MeshAdapter::~MeshAdapter()
69  {  {
70    //     //
71    // I hope the case for the pointer being zero has been taken care of.     // I hope the case for the pointer being zero has been taken care of.
72    //  cout << "In MeshAdapter destructor." << endl;     //  cout << "In MeshAdapter destructor." << endl;
73    if (m_finleyMesh.unique()) {     if (m_finleyMesh.unique()) {
74      //   cout << "Calling dealloc." << endl;        Finley_Mesh_free(m_finleyMesh.get());
75      Finley_Mesh_dealloc(m_finleyMesh.get());     }
76      //   cout << "Finished dealloc." << endl;  }
77    }  
78    int MeshAdapter::getMPISize() const
79    {
80       return m_finleyMesh.get()->MPIInfo->size;
81    }
82    int MeshAdapter::getMPIRank() const
83    {
84       return m_finleyMesh.get()->MPIInfo->rank;
85    }
86    void MeshAdapter::MPIBarrier() const
87    {
88    #ifdef PASO_MPI
89       MPI_Barrier(m_finleyMesh.get()->MPIInfo->comm);
90    #endif
91       return;
92    }
93    bool MeshAdapter::onMasterProcessor() const
94    {
95       return m_finleyMesh.get()->MPIInfo->rank == 0;
96    }
97    
98    
99    #ifdef PASO_MPI
100      MPI_Comm
101    #else
102      unsigned int
103    #endif
104    MeshAdapter::getMPIComm() const
105    {
106    #ifdef PASO_MPI
107        return m_finleyMesh->MPIInfo->comm;
108    #else
109        return 0;
110    #endif
111  }  }
112    
113    
114  Finley_Mesh* MeshAdapter::getFinley_Mesh() const {  Finley_Mesh* MeshAdapter::getFinley_Mesh() const {
115     return m_finleyMesh.get();     return m_finleyMesh.get();
116  }  }
117    
118  void MeshAdapter::write(const std::string& fileName) const  void MeshAdapter::write(const string& fileName) const
119    {
120       char *fName = (fileName.size()+1>0) ? TMPMEMALLOC(fileName.size()+1,char) : (char*)NULL;
121       strcpy(fName,fileName.c_str());
122       Finley_Mesh_write(m_finleyMesh.get(),fName);
123       checkFinleyError();
124       TMPMEMFREE(fName);
125    }
126    
127    void MeshAdapter::Print_Mesh_Info(const bool full) const
128  {  {
129    char *fName = (fileName.size()+1>0) ? TMPMEMALLOC(fileName.size()+1,char) : (char*)NULL;     Finley_PrintMesh_Info(m_finleyMesh.get(), full);
130    strcpy(fName,fileName.c_str());  }
131    Finley_Mesh_write(m_finleyMesh.get(),fName);  
132    checkFinleyError();  void MeshAdapter::dump(const string& fileName) const
133    TMPMEMFREE(fName);  {
134    #ifdef USE_NETCDF
135       const NcDim* ncdims[12] = {NULL,NULL,NULL,NULL,NULL,NULL,NULL,NULL,NULL,NULL,NULL,NULL};
136       NcVar *ids;
137       int *int_ptr;
138       Finley_Mesh *mesh = m_finleyMesh.get();
139       Finley_TagMap* tag_map;
140       int num_Tags = 0;
141       int mpi_size             = mesh->MPIInfo->size;
142       int mpi_rank             = mesh->MPIInfo->rank;
143       int numDim               = mesh->Nodes->numDim;
144       int numNodes             = mesh->Nodes->numNodes;
145       int num_Elements         = mesh->Elements->numElements;
146       int num_FaceElements         = mesh->FaceElements->numElements;
147       int num_ContactElements      = mesh->ContactElements->numElements;
148       int num_Points           = mesh->Points->numElements;
149       int num_Elements_numNodes        = mesh->Elements->numNodes;
150       int num_FaceElements_numNodes    = mesh->FaceElements->numNodes;
151       int num_ContactElements_numNodes = mesh->ContactElements->numNodes;
152    #ifdef PASO_MPI
153       MPI_Status status;
154    #endif
155    
156    /* Incoming token indicates it's my turn to write */
157    #ifdef PASO_MPI
158       if (mpi_rank>0) MPI_Recv(&num_Tags, 0, MPI_INT, mpi_rank-1, 81800, mesh->MPIInfo->comm, &status);
159    #endif
160    
161       char *newFileName = Paso_MPI_appendRankToFileName(fileName.c_str(),
162                                                         mpi_size, mpi_rank);
163    
164       /* Figure out how much storage is required for tags */
165       tag_map = mesh->TagMap;
166       num_Tags = 0;
167       while (tag_map) {
168          num_Tags++;
169          tag_map=tag_map->next;
170       }
171    
172       // NetCDF error handler
173       NcError err(NcError::verbose_nonfatal);
174       // Create the file.
175       NcFile dataFile(newFileName, NcFile::Replace);
176       string msgPrefix("Error in MeshAdapter::dump: NetCDF operation failed - ");
177       // check if writing was successful
178       if (!dataFile.is_valid())
179          throw DataException(msgPrefix+"Open file for output");
180    
181       // Define dimensions (num_Elements and dim_Elements are identical,
182       // dim_Elements only appears if > 0)
183       if (! (ncdims[0] = dataFile.add_dim("numNodes", numNodes)) )
184          throw DataException(msgPrefix+"add_dim(numNodes)");
185       if (! (ncdims[1] = dataFile.add_dim("numDim", numDim)) )
186          throw DataException(msgPrefix+"add_dim(numDim)");
187       if (! (ncdims[2] = dataFile.add_dim("mpi_size_plus_1", mpi_size+1)) )
188          throw DataException(msgPrefix+"add_dim(mpi_size)");
189       if (num_Elements>0)
190          if (! (ncdims[3] = dataFile.add_dim("dim_Elements", num_Elements)) )
191             throw DataException(msgPrefix+"add_dim(dim_Elements)");
192       if (num_FaceElements>0)
193          if (! (ncdims[4] = dataFile.add_dim("dim_FaceElements", num_FaceElements)) )
194             throw DataException(msgPrefix+"add_dim(dim_FaceElements)");
195       if (num_ContactElements>0)
196          if (! (ncdims[5] = dataFile.add_dim("dim_ContactElements", num_ContactElements)) )
197             throw DataException(msgPrefix+"add_dim(dim_ContactElements)");
198       if (num_Points>0)
199          if (! (ncdims[6] = dataFile.add_dim("dim_Points", num_Points)) )
200             throw DataException(msgPrefix+"add_dim(dim_Points)");
201       if (num_Elements>0)
202          if (! (ncdims[7] = dataFile.add_dim("dim_Elements_Nodes", num_Elements_numNodes)) )
203             throw DataException(msgPrefix+"add_dim(dim_Elements_Nodes)");
204       if (num_FaceElements>0)
205          if (! (ncdims[8] = dataFile.add_dim("dim_FaceElements_numNodes", num_FaceElements_numNodes)) )
206             throw DataException(msgPrefix+"add_dim(dim_FaceElements_numNodes)");
207       if (num_ContactElements>0)
208          if (! (ncdims[9] = dataFile.add_dim("dim_ContactElements_numNodes", num_ContactElements_numNodes)) )
209             throw DataException(msgPrefix+"add_dim(dim_ContactElements_numNodes)");
210       if (num_Tags>0)
211          if (! (ncdims[10] = dataFile.add_dim("dim_Tags", num_Tags)) )
212             throw DataException(msgPrefix+"add_dim(dim_Tags)");
213    
214       // Attributes: MPI size, MPI rank, Name, order, reduced_order
215       if (!dataFile.add_att("mpi_size", mpi_size) )
216          throw DataException(msgPrefix+"add_att(mpi_size)");
217       if (!dataFile.add_att("mpi_rank", mpi_rank) )
218          throw DataException(msgPrefix+"add_att(mpi_rank)");
219       if (!dataFile.add_att("Name",mesh->Name) )
220          throw DataException(msgPrefix+"add_att(Name)");
221       if (!dataFile.add_att("numDim",numDim) )
222          throw DataException(msgPrefix+"add_att(order)");
223       if (!dataFile.add_att("order",mesh->integrationOrder) )
224          throw DataException(msgPrefix+"add_att(order)");
225       if (!dataFile.add_att("reduced_order",mesh->reducedIntegrationOrder) )
226          throw DataException(msgPrefix+"add_att(reduced_order)");
227       if (!dataFile.add_att("numNodes",numNodes) )
228          throw DataException(msgPrefix+"add_att(numNodes)");
229       if (!dataFile.add_att("num_Elements",num_Elements) )
230          throw DataException(msgPrefix+"add_att(num_Elements)");
231       if (!dataFile.add_att("num_FaceElements",num_FaceElements) )
232          throw DataException(msgPrefix+"add_att(num_FaceElements)");
233       if (!dataFile.add_att("num_ContactElements",num_ContactElements) )
234          throw DataException(msgPrefix+"add_att(num_ContactElements)");
235       if (!dataFile.add_att("num_Points",num_Points) )
236          throw DataException(msgPrefix+"add_att(num_Points)");
237       if (!dataFile.add_att("num_Elements_numNodes",num_Elements_numNodes) )
238          throw DataException(msgPrefix+"add_att(num_Elements_numNodes)");
239       if (!dataFile.add_att("num_FaceElements_numNodes",num_FaceElements_numNodes) )
240          throw DataException(msgPrefix+"add_att(num_FaceElements_numNodes)");
241       if (!dataFile.add_att("num_ContactElements_numNodes",num_ContactElements_numNodes) )
242          throw DataException(msgPrefix+"add_att(num_ContactElements_numNodes)");
243       if (!dataFile.add_att("Elements_TypeId", mesh->Elements->referenceElementSet->referenceElement->Type->TypeId) )
244          throw DataException(msgPrefix+"add_att(Elements_TypeId)");
245       if (!dataFile.add_att("FaceElements_TypeId", mesh->FaceElements->referenceElementSet->referenceElement->Type->TypeId) )
246          throw DataException(msgPrefix+"add_att(FaceElements_TypeId)");
247       if (!dataFile.add_att("ContactElements_TypeId", mesh->ContactElements->referenceElementSet->referenceElement->Type->TypeId) )
248          throw DataException(msgPrefix+"add_att(ContactElements_TypeId)");
249       if (!dataFile.add_att("Points_TypeId", mesh->Points->referenceElementSet->referenceElement->Type->TypeId) )
250          throw DataException(msgPrefix+"add_att(Points_TypeId)");
251       if (!dataFile.add_att("num_Tags", num_Tags) )
252          throw DataException(msgPrefix+"add_att(num_Tags)");
253    
254       // // // // // Nodes // // // // //
255    
256       // Nodes nodeDistribution
257       if (! ( ids = dataFile.add_var("Nodes_NodeDistribution", ncInt, ncdims[2])) )
258          throw DataException(msgPrefix+"add_var(Nodes_NodeDistribution)");
259       int_ptr = &mesh->Nodes->nodesDistribution->first_component[0];
260       if (! (ids->put(int_ptr, mpi_size+1)) )
261          throw DataException(msgPrefix+"put(Nodes_NodeDistribution)");
262    
263       // Nodes degreesOfFreedomDistribution
264       if (! ( ids = dataFile.add_var("Nodes_DofDistribution", ncInt, ncdims[2])) )
265          throw DataException(msgPrefix+"add_var(Nodes_DofDistribution)");
266       int_ptr = &mesh->Nodes->degreesOfFreedomDistribution->first_component[0];
267       if (! (ids->put(int_ptr, mpi_size+1)) )
268          throw DataException(msgPrefix+"put(Nodes_DofDistribution)");
269    
270       // Only write nodes if non-empty because NetCDF doesn't like empty arrays
271       // (it treats them as NC_UNLIMITED)
272       if (numNodes>0) {
273    
274          // Nodes Id
275          if (! ( ids = dataFile.add_var("Nodes_Id", ncInt, ncdims[0])) )
276             throw DataException(msgPrefix+"add_var(Nodes_Id)");
277          int_ptr = &mesh->Nodes->Id[0];
278          if (! (ids->put(int_ptr, numNodes)) )
279             throw DataException(msgPrefix+"put(Nodes_Id)");
280    
281          // Nodes Tag
282          if (! ( ids = dataFile.add_var("Nodes_Tag", ncInt, ncdims[0])) )
283             throw DataException(msgPrefix+"add_var(Nodes_Tag)");
284          int_ptr = &mesh->Nodes->Tag[0];
285          if (! (ids->put(int_ptr, numNodes)) )
286             throw DataException(msgPrefix+"put(Nodes_Tag)");
287    
288          // Nodes gDOF
289          if (! ( ids = dataFile.add_var("Nodes_gDOF", ncInt, ncdims[0])) )
290             throw DataException(msgPrefix+"add_var(Nodes_gDOF)");
291          int_ptr = &mesh->Nodes->globalDegreesOfFreedom[0];
292          if (! (ids->put(int_ptr, numNodes)) )
293             throw DataException(msgPrefix+"put(Nodes_gDOF)");
294    
295          // Nodes global node index
296          if (! ( ids = dataFile.add_var("Nodes_gNI", ncInt, ncdims[0])) )
297             throw DataException(msgPrefix+"add_var(Nodes_gNI)");
298          int_ptr = &mesh->Nodes->globalNodesIndex[0];
299          if (! (ids->put(int_ptr, numNodes)) )
300             throw DataException(msgPrefix+"put(Nodes_gNI)");
301    
302          // Nodes grDof
303          if (! ( ids = dataFile.add_var("Nodes_grDfI", ncInt, ncdims[0])) )
304             throw DataException(msgPrefix+"add_var(Nodes_grDfI)");
305          int_ptr = &mesh->Nodes->globalReducedDOFIndex[0];
306          if (! (ids->put(int_ptr, numNodes)) )
307             throw DataException(msgPrefix+"put(Nodes_grDfI)");
308    
309          // Nodes grNI
310          if (! ( ids = dataFile.add_var("Nodes_grNI", ncInt, ncdims[0])) )
311             throw DataException(msgPrefix+"add_var(Nodes_grNI)");
312          int_ptr = &mesh->Nodes->globalReducedNodesIndex[0];
313          if (! (ids->put(int_ptr, numNodes)) )
314             throw DataException(msgPrefix+"put(Nodes_grNI)");
315    
316          // Nodes Coordinates
317          if (! ( ids = dataFile.add_var("Nodes_Coordinates", ncDouble, ncdims[0], ncdims[1]) ) )
318             throw DataException(msgPrefix+"add_var(Nodes_Coordinates)");
319          if (! (ids->put(&(mesh->Nodes->Coordinates[INDEX2(0,0,numDim)]), numNodes, numDim)) )
320             throw DataException(msgPrefix+"put(Nodes_Coordinates)");
321    
322       }
323    
324       // // // // // Elements // // // // //
325    
326       if (num_Elements>0) {
327    
328          // Elements_Id
329          if (! ( ids = dataFile.add_var("Elements_Id", ncInt, ncdims[3])) )
330             throw DataException(msgPrefix+"add_var(Elements_Id)");
331          int_ptr = &mesh->Elements->Id[0];
332          if (! (ids->put(int_ptr, num_Elements)) )
333             throw DataException(msgPrefix+"put(Elements_Id)");
334    
335          // Elements_Tag
336          if (! ( ids = dataFile.add_var("Elements_Tag", ncInt, ncdims[3])) )
337             throw DataException(msgPrefix+"add_var(Elements_Tag)");
338          int_ptr = &mesh->Elements->Tag[0];
339          if (! (ids->put(int_ptr, num_Elements)) )
340             throw DataException(msgPrefix+"put(Elements_Tag)");
341    
342          // Elements_Owner
343          if (! ( ids = dataFile.add_var("Elements_Owner", ncInt, ncdims[3])) )
344             throw DataException(msgPrefix+"add_var(Elements_Owner)");
345          int_ptr = &mesh->Elements->Owner[0];
346          if (! (ids->put(int_ptr, num_Elements)) )
347             throw DataException(msgPrefix+"put(Elements_Owner)");
348    
349          // Elements_Color
350          if (! ( ids = dataFile.add_var("Elements_Color", ncInt, ncdims[3])) )
351             throw DataException(msgPrefix+"add_var(Elements_Color)");
352          int_ptr = &mesh->Elements->Color[0];
353          if (! (ids->put(int_ptr, num_Elements)) )
354             throw DataException(msgPrefix+"put(Elements_Color)");
355    
356          // Elements_Nodes
357          if (! ( ids = dataFile.add_var("Elements_Nodes", ncInt, ncdims[3], ncdims[7]) ) )
358             throw DataException(msgPrefix+"add_var(Elements_Nodes)");
359          if (! (ids->put(&(mesh->Elements->Nodes[0]), num_Elements, num_Elements_numNodes)) )
360             throw DataException(msgPrefix+"put(Elements_Nodes)");
361    
362       }
363    
364       // // // // // Face_Elements // // // // //
365    
366       if (num_FaceElements>0) {
367    
368          // FaceElements_Id
369          if (! ( ids = dataFile.add_var("FaceElements_Id", ncInt, ncdims[4])) )
370             throw DataException(msgPrefix+"add_var(FaceElements_Id)");
371          int_ptr = &mesh->FaceElements->Id[0];
372          if (! (ids->put(int_ptr, num_FaceElements)) )
373             throw DataException(msgPrefix+"put(FaceElements_Id)");
374    
375          // FaceElements_Tag
376          if (! ( ids = dataFile.add_var("FaceElements_Tag", ncInt, ncdims[4])) )
377             throw DataException(msgPrefix+"add_var(FaceElements_Tag)");
378          int_ptr = &mesh->FaceElements->Tag[0];
379          if (! (ids->put(int_ptr, num_FaceElements)) )
380             throw DataException(msgPrefix+"put(FaceElements_Tag)");
381    
382          // FaceElements_Owner
383          if (! ( ids = dataFile.add_var("FaceElements_Owner", ncInt, ncdims[4])) )
384             throw DataException(msgPrefix+"add_var(FaceElements_Owner)");
385          int_ptr = &mesh->FaceElements->Owner[0];
386          if (! (ids->put(int_ptr, num_FaceElements)) )
387             throw DataException(msgPrefix+"put(FaceElements_Owner)");
388    
389          // FaceElements_Color
390          if (! ( ids = dataFile.add_var("FaceElements_Color", ncInt, ncdims[4])) )
391             throw DataException(msgPrefix+"add_var(FaceElements_Color)");
392          int_ptr = &mesh->FaceElements->Color[0];
393          if (! (ids->put(int_ptr, num_FaceElements)) )
394             throw DataException(msgPrefix+"put(FaceElements_Color)");
395    
396          // FaceElements_Nodes
397          if (! ( ids = dataFile.add_var("FaceElements_Nodes", ncInt, ncdims[4], ncdims[8]) ) )
398             throw DataException(msgPrefix+"add_var(FaceElements_Nodes)");
399          if (! (ids->put(&(mesh->FaceElements->Nodes[0]), num_FaceElements, num_FaceElements_numNodes)) )
400             throw DataException(msgPrefix+"put(FaceElements_Nodes)");
401    
402       }
403    
404       // // // // // Contact_Elements // // // // //
405    
406       if (num_ContactElements>0) {
407    
408          // ContactElements_Id
409          if (! ( ids = dataFile.add_var("ContactElements_Id", ncInt, ncdims[5])) )
410             throw DataException(msgPrefix+"add_var(ContactElements_Id)");
411          int_ptr = &mesh->ContactElements->Id[0];
412          if (! (ids->put(int_ptr, num_ContactElements)) )
413             throw DataException(msgPrefix+"put(ContactElements_Id)");
414    
415          // ContactElements_Tag
416          if (! ( ids = dataFile.add_var("ContactElements_Tag", ncInt, ncdims[5])) )
417             throw DataException(msgPrefix+"add_var(ContactElements_Tag)");
418          int_ptr = &mesh->ContactElements->Tag[0];
419          if (! (ids->put(int_ptr, num_ContactElements)) )
420             throw DataException(msgPrefix+"put(ContactElements_Tag)");
421    
422          // ContactElements_Owner
423          if (! ( ids = dataFile.add_var("ContactElements_Owner", ncInt, ncdims[5])) )
424             throw DataException(msgPrefix+"add_var(ContactElements_Owner)");
425          int_ptr = &mesh->ContactElements->Owner[0];
426          if (! (ids->put(int_ptr, num_ContactElements)) )
427             throw DataException(msgPrefix+"put(ContactElements_Owner)");
428    
429          // ContactElements_Color
430          if (! ( ids = dataFile.add_var("ContactElements_Color", ncInt, ncdims[5])) )
431             throw DataException(msgPrefix+"add_var(ContactElements_Color)");
432          int_ptr = &mesh->ContactElements->Color[0];
433          if (! (ids->put(int_ptr, num_ContactElements)) )
434             throw DataException(msgPrefix+"put(ContactElements_Color)");
435    
436          // ContactElements_Nodes
437          if (! ( ids = dataFile.add_var("ContactElements_Nodes", ncInt, ncdims[5], ncdims[9]) ) )
438             throw DataException(msgPrefix+"add_var(ContactElements_Nodes)");
439          if (! (ids->put(&(mesh->ContactElements->Nodes[0]), num_ContactElements, num_ContactElements_numNodes)) )
440             throw DataException(msgPrefix+"put(ContactElements_Nodes)");
441    
442       }
443    
444       // // // // // Points // // // // //
445    
446       if (num_Points>0) {
447    
448          fprintf(stderr, "\n\n\nWARNING: MeshAdapter::dump has not been tested with Point elements\n\n\n");
449    
450          // Points_Id
451          if (! ( ids = dataFile.add_var("Points_Id", ncInt, ncdims[6])) )
452             throw DataException(msgPrefix+"add_var(Points_Id)");
453          int_ptr = &mesh->Points->Id[0];
454          if (! (ids->put(int_ptr, num_Points)) )
455             throw DataException(msgPrefix+"put(Points_Id)");
456    
457          // Points_Tag
458          if (! ( ids = dataFile.add_var("Points_Tag", ncInt, ncdims[6])) )
459             throw DataException(msgPrefix+"add_var(Points_Tag)");
460          int_ptr = &mesh->Points->Tag[0];
461          if (! (ids->put(int_ptr, num_Points)) )
462             throw DataException(msgPrefix+"put(Points_Tag)");
463    
464          // Points_Owner
465          if (! ( ids = dataFile.add_var("Points_Owner", ncInt, ncdims[6])) )
466             throw DataException(msgPrefix+"add_var(Points_Owner)");
467          int_ptr = &mesh->Points->Owner[0];
468          if (! (ids->put(int_ptr, num_Points)) )
469             throw DataException(msgPrefix+"put(Points_Owner)");
470    
471          // Points_Color
472          if (! ( ids = dataFile.add_var("Points_Color", ncInt, ncdims[6])) )
473             throw DataException(msgPrefix+"add_var(Points_Color)");
474          int_ptr = &mesh->Points->Color[0];
475          if (! (ids->put(int_ptr, num_Points)) )
476             throw DataException(msgPrefix+"put(Points_Color)");
477    
478          // Points_Nodes
479          // mesh->Nodes->Id[mesh->Points->Nodes[INDEX2(0,i,1)]]
480          if (! ( ids = dataFile.add_var("Points_Nodes", ncInt, ncdims[6]) ) )
481             throw DataException(msgPrefix+"add_var(Points_Nodes)");
482          if (! (ids->put(&(mesh->Points->Nodes[0]), num_Points)) )
483             throw DataException(msgPrefix+"put(Points_Nodes)");
484    
485       }
486    
487       // // // // // TagMap // // // // //
488    
489       if (num_Tags>0) {
490    
491          // Temp storage to gather node IDs
492          int *Tags_keys = TMPMEMALLOC(num_Tags, int);
493          char name_temp[4096];
494    
495          /* Copy tag data into temp arrays */
496          tag_map = mesh->TagMap;
497          if (tag_map) {
498             int i = 0;
499             while (tag_map) {
500                Tags_keys[i++] = tag_map->tag_key;
501                tag_map=tag_map->next;
502             }
503          }
504    
505          // Tags_keys
506          if (! ( ids = dataFile.add_var("Tags_keys", ncInt, ncdims[10])) )
507             throw DataException(msgPrefix+"add_var(Tags_keys)");
508          int_ptr = &Tags_keys[0];
509          if (! (ids->put(int_ptr, num_Tags)) )
510             throw DataException(msgPrefix+"put(Tags_keys)");
511    
512          // Tags_names_*
513          // This is an array of strings, it should be stored as an array but
514          // instead I have hacked in one attribute per string because the NetCDF
515          // manual doesn't tell how to do an array of strings
516          tag_map = mesh->TagMap;
517          if (tag_map) {
518             int i = 0;
519             while (tag_map) {
520                sprintf(name_temp, "Tags_name_%d", i);
521                if (!dataFile.add_att(name_temp, tag_map->name) )
522                   throw DataException(msgPrefix+"add_att(Tags_names_XX)");
523                tag_map=tag_map->next;
524                i++;
525             }
526          }
527    
528          TMPMEMFREE(Tags_keys);
529       }
530    
531    /* Send token to next MPI process so he can take his turn */
532    #ifdef PASO_MPI
533       if (mpi_rank<mpi_size-1) MPI_Send(&num_Tags, 0, MPI_INT, mpi_rank+1, 81800, mesh->MPIInfo->comm);
534    #endif
535    
536       // NetCDF file is closed by destructor of NcFile object
537    
538    #else
539       Finley_setError(IO_ERROR, "MeshAdapter::dump: not configured with NetCDF. Please contact your installation manager.");
540    #endif  /* USE_NETCDF */
541       checkFinleyError();
542  }  }
543    
544  string MeshAdapter::getDescription() const  string MeshAdapter::getDescription() const
545  {  {
546    return "FinleyMesh";     return "FinleyMesh";
547  }  }
548    
549  string MeshAdapter::functionSpaceTypeAsString(int functionSpaceType) const  string MeshAdapter::functionSpaceTypeAsString(int functionSpaceType) const
550  {  {
551    FunctionSpaceNamesMapType::iterator loc;     FunctionSpaceNamesMapType::iterator loc;
552    loc=m_functionSpaceTypeNames.find(functionSpaceType);     loc=m_functionSpaceTypeNames.find(functionSpaceType);
553    if (loc==m_functionSpaceTypeNames.end()) {     if (loc==m_functionSpaceTypeNames.end()) {
554      return "Invalid function space type code.";        return "Invalid function space type code.";
555    } else {     } else {
556      return loc->second;        return loc->second;
557    }     }
558  }  }
559    
560  bool MeshAdapter::isValidFunctionSpaceType(int functionSpaceType) const  bool MeshAdapter::isValidFunctionSpaceType(int functionSpaceType) const
561  {  {
562    FunctionSpaceNamesMapType::iterator loc;     FunctionSpaceNamesMapType::iterator loc;
563    loc=m_functionSpaceTypeNames.find(functionSpaceType);     loc=m_functionSpaceTypeNames.find(functionSpaceType);
564    return (loc!=m_functionSpaceTypeNames.end());     return (loc!=m_functionSpaceTypeNames.end());
565  }  }
566    
567  void MeshAdapter::setFunctionSpaceTypeNames()  void MeshAdapter::setFunctionSpaceTypeNames()
568  {  {
569    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
570      (FunctionSpaceNamesMapType::value_type(DegreesOfFreedom,"Finley_DegreesOfFreedom"));     (FunctionSpaceNamesMapType::value_type(DegreesOfFreedom,"Finley_DegreesOfFreedom"));
571    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
572      (FunctionSpaceNamesMapType::value_type(ReducedDegreesOfFreedom,"Finley_ReducedDegreesOfFreedom"));     (FunctionSpaceNamesMapType::value_type(ReducedDegreesOfFreedom,"Finley_ReducedDegreesOfFreedom"));
573    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
574      (FunctionSpaceNamesMapType::value_type(Nodes,"Finley_Nodes"));     (FunctionSpaceNamesMapType::value_type(Nodes,"Finley_Nodes"));
575    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
576      (FunctionSpaceNamesMapType::value_type(ReducedNodes,"Finley_Reduced_Nodes"));     (FunctionSpaceNamesMapType::value_type(ReducedNodes,"Finley_Reduced_Nodes"));
577    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
578      (FunctionSpaceNamesMapType::value_type(Elements,"Finley_Elements"));     (FunctionSpaceNamesMapType::value_type(Elements,"Finley_Elements"));
579    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
580      (FunctionSpaceNamesMapType::value_type(ReducedElements,"Finley_Reduced_Elements"));     (FunctionSpaceNamesMapType::value_type(ReducedElements,"Finley_Reduced_Elements"));
581    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
582      (FunctionSpaceNamesMapType::value_type(FaceElements,"Finley_Face_Elements"));     (FunctionSpaceNamesMapType::value_type(FaceElements,"Finley_Face_Elements"));
583    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
584      (FunctionSpaceNamesMapType::value_type(ReducedFaceElements,"Finley_Reduced_Face_Elements"));     (FunctionSpaceNamesMapType::value_type(ReducedFaceElements,"Finley_Reduced_Face_Elements"));
585    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
586      (FunctionSpaceNamesMapType::value_type(Points,"Finley_Points"));     (FunctionSpaceNamesMapType::value_type(Points,"Finley_Points"));
587    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
588      (FunctionSpaceNamesMapType::value_type(ContactElementsZero,"Finley_Contact_Elements_0"));     (FunctionSpaceNamesMapType::value_type(ContactElementsZero,"Finley_Contact_Elements_0"));
589    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
590      (FunctionSpaceNamesMapType::value_type(ReducedContactElementsZero,"Finley_Reduced_Contact_Elements_0"));     (FunctionSpaceNamesMapType::value_type(ReducedContactElementsZero,"Finley_Reduced_Contact_Elements_0"));
591    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
592      (FunctionSpaceNamesMapType::value_type(ContactElementsOne,"Finley_Contact_Elements_1"));     (FunctionSpaceNamesMapType::value_type(ContactElementsOne,"Finley_Contact_Elements_1"));
593    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
594      (FunctionSpaceNamesMapType::value_type(ReducedContactElementsOne,"Finley_Reduced_Contact_Elements_1"));     (FunctionSpaceNamesMapType::value_type(ReducedContactElementsOne,"Finley_Reduced_Contact_Elements_1"));
595  }  }
596    
597  int MeshAdapter::getContinuousFunctionCode() const  int MeshAdapter::getContinuousFunctionCode() const
598  {  {
599    return Nodes;     return Nodes;
600  }  }
601  int MeshAdapter::getReducedContinuousFunctionCode() const  int MeshAdapter::getReducedContinuousFunctionCode() const
602  {  {
603    return ReducedNodes;     return ReducedNodes;
604  }  }
605    
606  int MeshAdapter::getFunctionCode() const  int MeshAdapter::getFunctionCode() const
607  {  {
608    return Elements;     return Elements;
609  }  }
610  int MeshAdapter::getReducedFunctionCode() const  int MeshAdapter::getReducedFunctionCode() const
611  {  {
612    return ReducedElements;     return ReducedElements;
613  }  }
614    
615  int MeshAdapter::getFunctionOnBoundaryCode() const  int MeshAdapter::getFunctionOnBoundaryCode() const
616  {  {
617    return FaceElements;     return FaceElements;
618  }  }
619  int MeshAdapter::getReducedFunctionOnBoundaryCode() const  int MeshAdapter::getReducedFunctionOnBoundaryCode() const
620  {  {
621    return ReducedFaceElements;     return ReducedFaceElements;
622  }  }
623    
624  int MeshAdapter::getFunctionOnContactZeroCode() const  int MeshAdapter::getFunctionOnContactZeroCode() const
625  {  {
626    return ContactElementsZero;     return ContactElementsZero;
627  }  }
628  int MeshAdapter::getReducedFunctionOnContactZeroCode() const  int MeshAdapter::getReducedFunctionOnContactZeroCode() const
629  {  {
630    return ReducedContactElementsZero;     return ReducedContactElementsZero;
631  }  }
632    
633  int MeshAdapter::getFunctionOnContactOneCode() const  int MeshAdapter::getFunctionOnContactOneCode() const
634  {  {
635    return ContactElementsOne;     return ContactElementsOne;
636  }  }
637  int MeshAdapter::getReducedFunctionOnContactOneCode() const  int MeshAdapter::getReducedFunctionOnContactOneCode() const
638  {  {
639    return ReducedContactElementsOne;     return ReducedContactElementsOne;
640  }  }
641    
642  int MeshAdapter::getSolutionCode() const  int MeshAdapter::getSolutionCode() const
643  {  {
644    return DegreesOfFreedom;     return DegreesOfFreedom;
645  }  }
646    
647  int MeshAdapter::getReducedSolutionCode() const  int MeshAdapter::getReducedSolutionCode() const
648  {  {
649    return ReducedDegreesOfFreedom;     return ReducedDegreesOfFreedom;
650  }  }
651    
652  int MeshAdapter::getDiracDeltaFunctionCode() const  int MeshAdapter::getDiracDeltaFunctionCode() const
653  {  {
654    return Points;     return Points;
655  }  }
656    
657  //  //
# Line 203  int MeshAdapter::getDiracDeltaFunctionCo Line 659  int MeshAdapter::getDiracDeltaFunctionCo
659  //  //
660  int MeshAdapter::getDim() const  int MeshAdapter::getDim() const
661  {  {
662    int numDim=Finley_Mesh_getDim(m_finleyMesh.get());     Finley_Mesh* mesh=m_finleyMesh.get();
663    checkFinleyError();     int numDim=Finley_Mesh_getDim(mesh);
664    return numDim;     checkFinleyError();
665       return numDim;
666    }
667    
668    //
669    // Return the number of data points summed across all MPI processes
670    //
671    int MeshAdapter::getNumDataPointsGlobal() const
672    {
673       return Finley_NodeFile_getGlobalNumNodes(m_finleyMesh.get()->Nodes);
674  }  }
675    
676  //  //
# Line 218  pair<int,int> MeshAdapter::getDataShape( Line 683  pair<int,int> MeshAdapter::getDataShape(
683     int numSamples=0;     int numSamples=0;
684     Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
685     switch (functionSpaceCode) {     switch (functionSpaceCode) {
686        case(Nodes):     case(Nodes):
687             numDataPointsPerSample=1;     numDataPointsPerSample=1;
688             if (mesh->Nodes!=NULL) numSamples=mesh->Nodes->numNodes;     numSamples=Finley_NodeFile_getNumNodes(mesh->Nodes);
689             break;     break;
690        case(ReducedNodes):     case(ReducedNodes):
691             /* TODO: add ReducedNodes */     numDataPointsPerSample=1;
692             numDataPointsPerSample=1;     numSamples=Finley_NodeFile_getNumReducedNodes(mesh->Nodes);
693             if (mesh->Nodes!=NULL) numSamples=mesh->Nodes->numNodes;     break;
694             throw FinleyAdapterException("Error - ReducedNodes is not supported yet.");     case(Elements):
695             break;     if (mesh->Elements!=NULL) {
696        case(Elements):        numSamples=mesh->Elements->numElements;
697             if (mesh->Elements!=NULL) {        numDataPointsPerSample=mesh->Elements->referenceElementSet->referenceElement->Parametrization->numQuadNodes;
698               numSamples=mesh->Elements->numElements;     }
699               numDataPointsPerSample=mesh->Elements->ReferenceElement->numQuadNodes;     break;
700             }     case(ReducedElements):
701             break;     if (mesh->Elements!=NULL) {
702        case(ReducedElements):        numSamples=mesh->Elements->numElements;
703             if (mesh->Elements!=NULL) {        numDataPointsPerSample=mesh->Elements->referenceElementSet->referenceElementReducedQuadrature->Parametrization->numQuadNodes;
704               numSamples=mesh->Elements->numElements;     }
705               numDataPointsPerSample=mesh->Elements->ReferenceElementReducedOrder->numQuadNodes;     break;
706             }     case(FaceElements):
707             break;     if (mesh->FaceElements!=NULL) {
708        case(FaceElements):        numDataPointsPerSample=mesh->FaceElements->referenceElementSet->referenceElement->Parametrization->numQuadNodes;
709             if (mesh->FaceElements!=NULL) {        numSamples=mesh->FaceElements->numElements;
710                  numDataPointsPerSample=mesh->FaceElements->ReferenceElement->numQuadNodes;     }
711                  numSamples=mesh->FaceElements->numElements;     break;
712             }     case(ReducedFaceElements):
713             break;     if (mesh->FaceElements!=NULL) {
714        case(ReducedFaceElements):        numDataPointsPerSample=mesh->FaceElements->referenceElementSet->referenceElementReducedQuadrature->Parametrization->numQuadNodes;
715             if (mesh->FaceElements!=NULL) {        numSamples=mesh->FaceElements->numElements;
716                  numDataPointsPerSample=mesh->FaceElements->ReferenceElementReducedOrder->numQuadNodes;     }
717                  numSamples=mesh->FaceElements->numElements;     break;
718             }     case(Points):
719             break;     if (mesh->Points!=NULL) {
720        case(Points):        numDataPointsPerSample=1;
721             if (mesh->Points!=NULL) {        numSamples=mesh->Points->numElements;
722               numDataPointsPerSample=1;     }
723               numSamples=mesh->Points->numElements;     break;
724             }     case(ContactElementsZero):
725             break;     if (mesh->ContactElements!=NULL) {
726        case(ContactElementsZero):        numDataPointsPerSample=mesh->ContactElements->referenceElementSet->referenceElement->Parametrization->numQuadNodes;
727             if (mesh->ContactElements!=NULL) {        numSamples=mesh->ContactElements->numElements;
728               numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;     }
729               numSamples=mesh->ContactElements->numElements;     break;
730             }     case(ReducedContactElementsZero):
731             break;     if (mesh->ContactElements!=NULL) {
732        case(ReducedContactElementsZero):        numDataPointsPerSample=mesh->ContactElements->referenceElementSet->referenceElementReducedQuadrature->Parametrization->numQuadNodes;
733             if (mesh->ContactElements!=NULL) {        numSamples=mesh->ContactElements->numElements;
734               numDataPointsPerSample=mesh->ContactElements->ReferenceElementReducedOrder->numQuadNodes;     }
735               numSamples=mesh->ContactElements->numElements;     break;
736             }     case(ContactElementsOne):
737             break;     if (mesh->ContactElements!=NULL) {
738        case(ContactElementsOne):        numDataPointsPerSample=mesh->ContactElements->referenceElementSet->referenceElement->Parametrization->numQuadNodes;
739             if (mesh->ContactElements!=NULL) {        numSamples=mesh->ContactElements->numElements;
740               numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;     }
741               numSamples=mesh->ContactElements->numElements;     break;
742             }     case(ReducedContactElementsOne):
743             break;     if (mesh->ContactElements!=NULL) {
744        case(ReducedContactElementsOne):        numDataPointsPerSample=mesh->ContactElements->referenceElementSet->referenceElementReducedQuadrature->Parametrization->numQuadNodes;
745             if (mesh->ContactElements!=NULL) {        numSamples=mesh->ContactElements->numElements;
746               numDataPointsPerSample=mesh->ContactElements->ReferenceElementReducedOrder->numQuadNodes;     }
747               numSamples=mesh->ContactElements->numElements;     break;
748             }     case(DegreesOfFreedom):
749             break;     if (mesh->Nodes!=NULL) {
750        case(DegreesOfFreedom):        numDataPointsPerSample=1;
751             if (mesh->Nodes!=NULL) {        numSamples=Finley_NodeFile_getNumDegreesOfFreedom(mesh->Nodes);
752               numDataPointsPerSample=1;     }
753  #ifndef PASO_MPI     break;
754               numSamples=mesh->Nodes->numDegreesOfFreedom;     case(ReducedDegreesOfFreedom):
755  #else     if (mesh->Nodes!=NULL) {
756               numSamples=mesh->Nodes->degreeOfFreedomDistribution->numLocal;        numDataPointsPerSample=1;
757  #endif        numSamples=Finley_NodeFile_getNumReducedDegreesOfFreedom(mesh->Nodes);
758             }     }
759             break;     break;
760        case(ReducedDegreesOfFreedom):     default:
761             if (mesh->Nodes!=NULL) {        stringstream temp;
762               numDataPointsPerSample=1;        temp << "Error - Invalid function space type: " << functionSpaceCode << " for domain: " << getDescription();
763  #ifndef PASO_MPI        throw FinleyAdapterException(temp.str());
764               numSamples=mesh->Nodes->reducedNumDegreesOfFreedom;        break;
765  #else     }
766               numSamples=mesh->Nodes->reducedDegreeOfFreedomDistribution->numLocal;     return pair<int,int>(numDataPointsPerSample,numSamples);
 #endif  
            }  
            break;  
       default:  
         stringstream temp;  
         temp << "Error - Invalid function space type: " << functionSpaceCode << " for domain: " << getDescription();  
         throw FinleyAdapterException(temp.str());  
         break;  
       }  
       return pair<int,int>(numDataPointsPerSample,numSamples);  
767  }  }
768    
769  //  //
770  // adds linear PDE of second order into a given stiffness matrix and right hand side:  // adds linear PDE of second order into a given stiffness matrix and right hand side:
771  //  //
772  void MeshAdapter::addPDEToSystem(  void MeshAdapter::addPDEToSystem(
773                       SystemMatrixAdapter& mat, escript::Data& rhs,                                   SystemMatrixAdapter& mat, escript::Data& rhs,
774                       const escript::Data& A, const escript::Data& B, const escript::Data& C,const  escript::Data& D,const  escript::Data& X,const  escript::Data& Y,                                   const escript::Data& A, const escript::Data& B, const escript::Data& C,const  escript::Data& D,const  escript::Data& X,const  escript::Data& Y,
775                       const escript::Data& d, const escript::Data& y,                                   const escript::Data& d, const escript::Data& y,
776                       const escript::Data& d_contact,const escript::Data& y_contact) const                                   const escript::Data& d_contact,const escript::Data& y_contact) const
777  {  {
778     escriptDataC _rhs=rhs.getDataC();     escriptDataC _rhs=rhs.getDataC();
779     escriptDataC _A  =A.getDataC();     escriptDataC _A  =A.getDataC();
# Line 344  void MeshAdapter::addPDEToSystem( Line 799  void MeshAdapter::addPDEToSystem(
799     checkFinleyError();     checkFinleyError();
800  }  }
801    
802    void  MeshAdapter::addPDEToLumpedSystem(
803                                            escript::Data& mat,
804                                            const escript::Data& D,
805                                            const escript::Data& d) const
806    {
807       escriptDataC _mat=mat.getDataC();
808       escriptDataC _D=D.getDataC();
809       escriptDataC _d=d.getDataC();
810    
811       Finley_Mesh* mesh=m_finleyMesh.get();
812    
813       Finley_Assemble_LumpedSystem(mesh->Nodes,mesh->Elements,&_mat, &_D);
814       Finley_Assemble_LumpedSystem(mesh->Nodes,mesh->FaceElements,&_mat, &_d);
815    
816       checkFinleyError();
817    }
818    
819    
820  //  //
821  // adds linear PDE of second order into the right hand side only  // adds linear PDE of second order into the right hand side only
822  //  //
# Line 366  void MeshAdapter::addPDEToRHS( escript:: Line 839  void MeshAdapter::addPDEToRHS( escript::
839     Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, 0, &_rhs , 0, 0, 0, 0, 0, &_y_contact );     Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, 0, &_rhs , 0, 0, 0, 0, 0, &_y_contact );
840     checkFinleyError();     checkFinleyError();
841  }  }
842    //
843    // adds PDE of second order into a transport problem
844    //
845    void MeshAdapter::addPDEToTransportProblem(
846                                               TransportProblemAdapter& tp, escript::Data& source, const escript::Data& M,
847                                               const escript::Data& A, const escript::Data& B, const escript::Data& C,
848                                               const  escript::Data& D,const  escript::Data& X,const  escript::Data& Y,
849                                               const escript::Data& d, const escript::Data& y,
850                                               const escript::Data& d_contact,const escript::Data& y_contact) const
851    {
852       DataTypes::ShapeType shape;
853       source.expand();
854       escriptDataC _source=source.getDataC();
855       escriptDataC _M=M.getDataC();
856       escriptDataC _A=A.getDataC();
857       escriptDataC _B=B.getDataC();
858       escriptDataC _C=C.getDataC();
859       escriptDataC _D=D.getDataC();
860       escriptDataC _X=X.getDataC();
861       escriptDataC _Y=Y.getDataC();
862       escriptDataC _d=d.getDataC();
863       escriptDataC _y=y.getDataC();
864       escriptDataC _d_contact=d_contact.getDataC();
865       escriptDataC _y_contact=y_contact.getDataC();
866    
867       Finley_Mesh* mesh=m_finleyMesh.get();
868       Paso_TransportProblem* _tp = tp.getPaso_TransportProblem();
869    
870       Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,_tp->mass_matrix, &_source, 0, 0, 0, &_M, 0, 0 );
871       checkFinleyError();
872    
873       Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,_tp->transport_matrix, &_source, &_A, &_B, &_C, &_D, &_X, &_Y );
874       checkFinleyError();
875    
876       Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, _tp->transport_matrix, &_source, 0, 0, 0, &_d, 0, &_y );
877       checkFinleyError();
878    
879       Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, _tp->transport_matrix, &_source , 0, 0, 0, &_d_contact, 0, &_y_contact );
880       checkFinleyError();
881    }
882    
883  //  //
884  // interpolates data between different function spaces:  // interpolates data between different function spaces:
885  //  //
886  void MeshAdapter::interpolateOnDomain(escript::Data& target,const escript::Data& in) const  void MeshAdapter::interpolateOnDomain(escript::Data& target,const escript::Data& in) const
887  {  {
888    const MeshAdapter& inDomain=dynamic_cast<const MeshAdapter&>(in.getFunctionSpace().getDomain());     const MeshAdapter& inDomain=dynamic_cast<const MeshAdapter&>(*(in.getFunctionSpace().getDomain()));
889    const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());     const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(*(target.getFunctionSpace().getDomain()));
890    if (inDomain!=*this)       if (inDomain!=*this)  
891      throw FinleyAdapterException("Error - Illegal domain of interpolant.");        throw FinleyAdapterException("Error - Illegal domain of interpolant.");
892    if (targetDomain!=*this)     if (targetDomain!=*this)
893      throw FinleyAdapterException("Error - Illegal domain of interpolation target.");        throw FinleyAdapterException("Error - Illegal domain of interpolation target.");
894    
895    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
896    escriptDataC _target=target.getDataC();     escriptDataC _target=target.getDataC();
897    escriptDataC _in=in.getDataC();     escriptDataC _in=in.getDataC();
898    switch(in.getFunctionSpace().getTypeCode()) {     switch(in.getFunctionSpace().getTypeCode()) {
899       case(Nodes):     case(Nodes):
900          switch(target.getFunctionSpace().getTypeCode()) {        switch(target.getFunctionSpace().getTypeCode()) {
901             case(Nodes):        case(Nodes):
902             case(ReducedNodes):        case(ReducedNodes):
903             case(DegreesOfFreedom):        case(DegreesOfFreedom):
904             case(ReducedDegreesOfFreedom):        case(ReducedDegreesOfFreedom):
905                 Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);        Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
906                 break;        break;
907             case(Elements):        case(Elements):
908             case(ReducedElements):        case(ReducedElements):
909                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);        Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
910                 break;        break;
911             case(FaceElements):        case(FaceElements):
912             case(ReducedFaceElements):        case(ReducedFaceElements):
913                 Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);        Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
914                 break;        break;
915             case(Points):        case(Points):
916                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);        Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
917                 break;        break;
918             case(ContactElementsZero):        case(ContactElementsZero):
919             case(ReducedContactElementsZero):        case(ReducedContactElementsZero):
920                 Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);        Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
921                 break;        break;
922             case(ContactElementsOne):        case(ContactElementsOne):
923             case(ReducedContactElementsOne):        case(ReducedContactElementsOne):
924                 Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);        Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
925                 break;        break;
926             default:        default:
927                 stringstream temp;           stringstream temp;
928                 temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();           temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
929                 throw FinleyAdapterException(temp.str());           throw FinleyAdapterException(temp.str());
930                 break;           break;
931          }        }
932          break;        break;
933       case(ReducedNodes):     case(ReducedNodes):
934          switch(target.getFunctionSpace().getTypeCode()) {        switch(target.getFunctionSpace().getTypeCode()) {
935             case(Nodes):        case(Nodes):
936             case(ReducedNodes):        case(ReducedNodes):
937             case(DegreesOfFreedom):        case(DegreesOfFreedom):
938             case(ReducedDegreesOfFreedom):        case(ReducedDegreesOfFreedom):
939                 Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);        Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
940                 break;        break;
941             case(Elements):        case(Elements):
942             case(ReducedElements):        case(ReducedElements):
943                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);        Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
944                 break;        break;
945             case(FaceElements):        case(FaceElements):
946             case(ReducedFaceElements):        case(ReducedFaceElements):
947                 Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);        Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
948                 break;        break;
949             case(Points):        case(Points):
950                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);        Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
951                 break;        break;
952             case(ContactElementsZero):        case(ContactElementsZero):
953             case(ReducedContactElementsZero):        case(ReducedContactElementsZero):
954                 Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);        Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
955                 break;        break;
956             case(ContactElementsOne):        case(ContactElementsOne):
957             case(ReducedContactElementsOne):        case(ReducedContactElementsOne):
958                 Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);        Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
959                 break;        break;
960             default:        default:
961                 stringstream temp;           stringstream temp;
962                 temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();           temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
963                 throw FinleyAdapterException(temp.str());           throw FinleyAdapterException(temp.str());
964                 break;           break;
965          }        }
966          break;        break;
967       case(Elements):     case(Elements):
968          if (target.getFunctionSpace().getTypeCode()==Elements) {        if (target.getFunctionSpace().getTypeCode()==Elements) {
969             Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);           Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);
970          } else {        } else if (target.getFunctionSpace().getTypeCode()==ReducedElements) {
971             throw FinleyAdapterException("Error - No interpolation with data on elements possible.");           Finley_Assemble_AverageElementData(mesh->Elements,&_target,&_in);
972          }        } else {
973          break;           throw FinleyAdapterException("Error - No interpolation with data on elements possible.");
974       case(ReducedElements):        }
975          if (target.getFunctionSpace().getTypeCode()==ReducedElements) {        break;
976             Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);     case(ReducedElements):
977          } else {        if (target.getFunctionSpace().getTypeCode()==ReducedElements) {
978             throw FinleyAdapterException("Error - No interpolation with data on elements with reduced integration order possible.");           Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);
979          }        } else {
980          break;           throw FinleyAdapterException("Error - No interpolation with data on elements with reduced integration order possible.");
981       case(FaceElements):        }
982          if (target.getFunctionSpace().getTypeCode()==FaceElements) {        break;
983             Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);     case(FaceElements):
984          } else {        if (target.getFunctionSpace().getTypeCode()==FaceElements) {
985             throw FinleyAdapterException("Error - No interpolation with data on face elements possible.");           Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);
986         }        } else if (target.getFunctionSpace().getTypeCode()==ReducedFaceElements) {
987         break;           Finley_Assemble_AverageElementData(mesh->FaceElements,&_target,&_in);
988       case(ReducedFaceElements):        } else {
989          if (target.getFunctionSpace().getTypeCode()==FaceElements) {           throw FinleyAdapterException("Error - No interpolation with data on face elements possible.");
990             Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);        }
991          } else {        break;
992             throw FinleyAdapterException("Error - No interpolation with data on face elements with reduced integration order possible.");     case(ReducedFaceElements):
993         }        if (target.getFunctionSpace().getTypeCode()==ReducedFaceElements) {
994         break;           Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);
995       case(Points):        } else {
996          if (target.getFunctionSpace().getTypeCode()==Points) {           throw FinleyAdapterException("Error - No interpolation with data on face elements with reduced integration order possible.");
997             Finley_Assemble_CopyElementData(mesh->Points,&_target,&_in);        }
998          } else {        break;
999             throw FinleyAdapterException("Error - No interpolation with data on points possible.");     case(Points):
1000          }        if (target.getFunctionSpace().getTypeCode()==Points) {
1001          break;           Finley_Assemble_CopyElementData(mesh->Points,&_target,&_in);
1002       case(ContactElementsZero):        } else {
1003       case(ContactElementsOne):           throw FinleyAdapterException("Error - No interpolation with data on points possible.");
1004          if (target.getFunctionSpace().getTypeCode()==ContactElementsZero || target.getFunctionSpace().getTypeCode()==ContactElementsOne) {        }
1005             Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);        break;
1006          } else {     case(ContactElementsZero):
1007             throw FinleyAdapterException("Error - No interpolation with data on contact elements possible.");     case(ContactElementsOne):
1008             break;        if (target.getFunctionSpace().getTypeCode()==ContactElementsZero || target.getFunctionSpace().getTypeCode()==ContactElementsOne) {
1009          }           Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);
1010          break;        } else if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {
1011       case(ReducedContactElementsZero):           Finley_Assemble_AverageElementData(mesh->ContactElements,&_target,&_in);
1012       case(ReducedContactElementsOne):        } else {
1013          if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {           throw FinleyAdapterException("Error - No interpolation with data on contact elements possible.");
1014             Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);        }
1015          } else {        break;
1016             throw FinleyAdapterException("Error - No interpolation with data on contact elements with reduced integration order possible.");     case(ReducedContactElementsZero):
1017             break;     case(ReducedContactElementsOne):
1018          }        if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {
1019          break;           Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);
1020       case(DegreesOfFreedom):              } else {
1021          switch(target.getFunctionSpace().getTypeCode()) {           throw FinleyAdapterException("Error - No interpolation with data on contact elements with reduced integration order possible.");
1022             case(ReducedDegreesOfFreedom):        }
1023             case(DegreesOfFreedom):        break;
1024             case(Nodes):     case(DegreesOfFreedom):      
1025             case(ReducedNodes):        switch(target.getFunctionSpace().getTypeCode()) {
1026                Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);        case(ReducedDegreesOfFreedom):
1027                break;        case(DegreesOfFreedom):
1028  #ifndef PASO_MPI        Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1029             case(Elements):        break;
1030             case(ReducedElements):    
1031                Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);        case(Nodes):
1032                break;        case(ReducedNodes):
1033             case(FaceElements):        if (getMPISize()>1) {
1034             case(ReducedFaceElements):           escript::Data temp=escript::Data(in);
1035                Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);           temp.expand();
1036                break;           escriptDataC _in2 = temp.getDataC();
1037             case(Points):           Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in2);
1038                Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);        } else {
1039                break;           Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1040             case(ContactElementsZero):        }
1041             case(ContactElementsOne):        break;
1042             case(ReducedContactElementsZero):        case(Elements):
1043             case(ReducedContactElementsOne):        case(ReducedElements):
1044                Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);        if (getMPISize()>1) {
1045               break;           escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1046  #else           escriptDataC _in2 = temp.getDataC();
1047             /* need to copy Degrees of freedom data to nodal data so that the external values are available */           Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in2,&_target);
1048             case(Elements):        } else {
1049             case(ReducedElements):           Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
1050                escript::Data nodeTemp( in, continuousFunction(asAbstractContinuousDomain()) );        }
1051                Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&(nodeTemp.getDataC()),&_target);        break;
1052                break;        case(FaceElements):
1053             case(FaceElements):        case(ReducedFaceElements):
1054             case(ReducedFaceElements):        if (getMPISize()>1) {
1055                escript::Data nodeTemp( in, continuousFunction(asAbstractContinuousDomain()) );           escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1056                Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&(nodeTemp.getDataC()),&_target);           escriptDataC _in2 = temp.getDataC();
1057                break;           Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in2,&_target);
1058             case(Points):    
1059                escript::Data nodeTemp( in, continuousFunction(asAbstractContinuousDomain()) );        } else {
1060                Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&(nodeTemp.getDataC()),&_target);           Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
1061                break;        }
1062             case(ContactElementsZero):        break;
1063             case(ContactElementsOne):        case(Points):
1064             case(ReducedContactElementsZero):        if (getMPISize()>1) {
1065             case(ReducedContactElementsOne):           escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1066                escript::Data nodeTemp( in, continuousFunction(asAbstractContinuousDomain()) );           escriptDataC _in2 = temp.getDataC();
1067                Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(nodeTemp.getDataC()),&_target);        } else {
1068               break;           Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
1069  #endif        }
1070             default:        break;
1071               stringstream temp;        case(ContactElementsZero):
1072               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();        case(ContactElementsOne):
1073               throw FinleyAdapterException(temp.str());        case(ReducedContactElementsZero):
1074               break;        case(ReducedContactElementsOne):
1075          }        if (getMPISize()>1) {
1076          break;           escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1077       case(ReducedDegreesOfFreedom):           escriptDataC _in2 = temp.getDataC();
1078         switch(target.getFunctionSpace().getTypeCode()) {           Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in2,&_target);
1079            case(Nodes):        } else {
1080               throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to mesh nodes.");           Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
1081               break;        }
1082            case(ReducedNodes):        break;
1083               Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);        default:
1084               break;           stringstream temp;
1085            case(DegreesOfFreedom):           temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
1086               throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to degrees of freedom");           throw FinleyAdapterException(temp.str());
1087               break;           break;
1088            case(ReducedDegreesOfFreedom):        }
1089               Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);        break;
1090               break;     case(ReducedDegreesOfFreedom):
1091            case(Elements):        switch(target.getFunctionSpace().getTypeCode()) {
1092            case(ReducedElements):        case(Nodes):
1093               Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);        throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to mesh nodes.");
1094               break;        break;
1095            case(FaceElements):        case(ReducedNodes):
1096            case(ReducedFaceElements):        if (getMPISize()>1) {
1097               Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);           escript::Data temp=escript::Data(in);
1098               break;           temp.expand();
1099            case(Points):           escriptDataC _in2 = temp.getDataC();
1100               Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);           Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in2);
1101               break;        } else {
1102            case(ContactElementsZero):           Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1103            case(ContactElementsOne):        }
1104            case(ReducedContactElementsZero):        break;
1105            case(ReducedContactElementsOne):        case(DegreesOfFreedom):
1106               Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);        throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to degrees of freedom");
1107               break;        break;
1108            default:        case(ReducedDegreesOfFreedom):
1109               stringstream temp;        Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1110               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();        break;
1111               throw FinleyAdapterException(temp.str());        case(Elements):
1112               break;        case(ReducedElements):
1113         }        if (getMPISize()>1) {
1114         break;           escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1115       default:           escriptDataC _in2 = temp.getDataC();
1116          stringstream temp;           Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in2,&_target);
1117          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type %d" << in.getFunctionSpace().getTypeCode();        } else {
1118          throw FinleyAdapterException(temp.str());           Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
1119          break;        }
1120    }        break;
1121    checkFinleyError();        case(FaceElements):
1122          case(ReducedFaceElements):
1123          if (getMPISize()>1) {
1124             escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1125             escriptDataC _in2 = temp.getDataC();
1126             Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in2,&_target);
1127          } else {
1128             Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
1129          }
1130          break;
1131          case(Points):
1132          if (getMPISize()>1) {
1133             escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1134             escriptDataC _in2 = temp.getDataC();
1135             Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in2,&_target);
1136          } else {
1137             Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
1138          }
1139          break;
1140          case(ContactElementsZero):
1141          case(ContactElementsOne):
1142          case(ReducedContactElementsZero):
1143          case(ReducedContactElementsOne):
1144          if (getMPISize()>1) {
1145             escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1146             escriptDataC _in2 = temp.getDataC();
1147             Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in2,&_target);
1148          } else {
1149             Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
1150          }
1151          break;
1152          default:
1153             stringstream temp;
1154             temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
1155             throw FinleyAdapterException(temp.str());
1156             break;
1157          }
1158          break;
1159       default:
1160          stringstream temp;
1161          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type %d" << in.getFunctionSpace().getTypeCode();
1162          throw FinleyAdapterException(temp.str());
1163          break;
1164       }
1165       checkFinleyError();
1166  }  }
1167    
1168  //  //
# Line 613  void MeshAdapter::interpolateOnDomain(es Line 1170  void MeshAdapter::interpolateOnDomain(es
1170  //  //
1171  void MeshAdapter::setToX(escript::Data& arg) const  void MeshAdapter::setToX(escript::Data& arg) const
1172  {  {
1173    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());     const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(*(arg.getFunctionSpace().getDomain()));
1174    if (argDomain!=*this)     if (argDomain!=*this)
1175       throw FinleyAdapterException("Error - Illegal domain of data point locations");        throw FinleyAdapterException("Error - Illegal domain of data point locations");
1176    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
1177    // in case of values node coordinates we can do the job directly:     // in case of values node coordinates we can do the job directly:
1178    if (arg.getFunctionSpace().getTypeCode()==Nodes) {     if (arg.getFunctionSpace().getTypeCode()==Nodes) {
1179       escriptDataC _arg=arg.getDataC();        escriptDataC _arg=arg.getDataC();
1180       Finley_Assemble_NodeCoordinates(mesh->Nodes,&_arg);        Finley_Assemble_NodeCoordinates(mesh->Nodes,&_arg);
1181    } else {     } else {
1182       escript::Data tmp_data=Vector(0.0,continuousFunction(asAbstractContinuousDomain()),true);        escript::Data tmp_data=Vector(0.0,continuousFunction(asAbstractContinuousDomain()),true);
1183       escriptDataC _tmp_data=tmp_data.getDataC();        escriptDataC _tmp_data=tmp_data.getDataC();
1184       Finley_Assemble_NodeCoordinates(mesh->Nodes,&_tmp_data);        Finley_Assemble_NodeCoordinates(mesh->Nodes,&_tmp_data);
1185       // this is then interpolated onto arg:        // this is then interpolated onto arg:
1186       interpolateOnDomain(arg,tmp_data);        interpolateOnDomain(arg,tmp_data);
1187    }     }
1188    checkFinleyError();     checkFinleyError();
1189  }  }
1190    
1191  //  //
# Line 636  void MeshAdapter::setToX(escript::Data& Line 1193  void MeshAdapter::setToX(escript::Data&
1193  //  //
1194  void MeshAdapter::setToNormal(escript::Data& normal) const  void MeshAdapter::setToNormal(escript::Data& normal) const
1195  {  {
1196    const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(normal.getFunctionSpace().getDomain());  /*   const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(normal.getFunctionSpace().getDomain());*/
1197    if (normalDomain!=*this)     const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(*(normal.getFunctionSpace().getDomain()));
1198       throw FinleyAdapterException("Error - Illegal domain of normal locations");     if (normalDomain!=*this)
1199    Finley_Mesh* mesh=m_finleyMesh.get();        throw FinleyAdapterException("Error - Illegal domain of normal locations");
1200    escriptDataC _normal=normal.getDataC();     Finley_Mesh* mesh=m_finleyMesh.get();
1201    switch(normal.getFunctionSpace().getTypeCode()) {     escriptDataC _normal=normal.getDataC();
1202      case(Nodes):     switch(normal.getFunctionSpace().getTypeCode()) {
1203        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for nodes");     case(Nodes):
1204        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for nodes");
1205      case(ReducedNodes):     break;
1206        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced nodes");     case(ReducedNodes):
1207        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced nodes");
1208      case(Elements):     break;
1209        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements");     case(Elements):
1210        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements");
1211      case(ReducedElements):     break;
1212        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements with reduced integration order");     case(ReducedElements):
1213        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements with reduced integration order");
1214      case (FaceElements):     break;
1215        Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);     case (FaceElements):
1216        break;     Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);
1217      case (ReducedFaceElements):     break;
1218        Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);     case (ReducedFaceElements):
1219        break;     Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);
1220      case(Points):     break;
1221        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for point elements");     case(Points):
1222        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for point elements");
1223      case (ContactElementsOne):     break;
1224      case (ContactElementsZero):     case (ContactElementsOne):
1225        Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);     case (ContactElementsZero):
1226        break;     Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);
1227      case (ReducedContactElementsOne):     break;
1228      case (ReducedContactElementsZero):     case (ReducedContactElementsOne):
1229        Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);     case (ReducedContactElementsZero):
1230        break;     Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);
1231      case(DegreesOfFreedom):     break;
1232        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for degrees of freedom.");     case(DegreesOfFreedom):
1233        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for degrees of freedom.");
1234      case(ReducedDegreesOfFreedom):     break;
1235        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced degrees of freedom.");     case(ReducedDegreesOfFreedom):
1236        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced degrees of freedom.");
1237      default:     break;
1238       default:
1239        stringstream temp;        stringstream temp;
1240        temp << "Error - Normal Vectors: Finley does not know anything about function space type " << normal.getFunctionSpace().getTypeCode();        temp << "Error - Normal Vectors: Finley does not know anything about function space type " << normal.getFunctionSpace().getTypeCode();
1241        throw FinleyAdapterException(temp.str());        throw FinleyAdapterException(temp.str());
1242        break;        break;
1243    }     }
1244    checkFinleyError();     checkFinleyError();
1245  }  }
1246    
1247  //  //
# Line 691  void MeshAdapter::setToNormal(escript::D Line 1249  void MeshAdapter::setToNormal(escript::D
1249  //  //
1250  void MeshAdapter::interpolateACross(escript::Data& target,const escript::Data& source) const  void MeshAdapter::interpolateACross(escript::Data& target,const escript::Data& source) const
1251  {  {
1252    const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());     const_Domain_ptr targetDomain_p=target.getFunctionSpace().getDomain();
1253    if (targetDomain!=*this)     const MeshAdapter* targetDomain=dynamic_cast<const MeshAdapter*>(targetDomain_p.get());
1254       throw FinleyAdapterException("Error - Illegal domain of interpolation target");     if (targetDomain!=this)
1255          throw FinleyAdapterException("Error - Illegal domain of interpolation target");
1256    
1257    throw FinleyAdapterException("Error - Finley does not allow interpolation across domains yet.");     throw FinleyAdapterException("Error - Finley does not allow interpolation across domains yet.");
1258  }  }
1259    
1260  //  //
1261  // calculates the integral of a function defined of arg:  // calculates the integral of a function defined of arg:
1262  //  //
1263  void MeshAdapter::setToIntegrals(std::vector<double>& integrals,const escript::Data& arg) const  void MeshAdapter::setToIntegrals(vector<double>& integrals,const escript::Data& arg) const
1264  {  {
1265    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());     const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(*(arg.getFunctionSpace().getDomain()));
1266    if (argDomain!=*this)     if (argDomain!=*this)
1267       throw FinleyAdapterException("Error - Illegal domain of integration kernel");        throw FinleyAdapterException("Error - Illegal domain of integration kernel");
1268    
1269    Finley_Mesh* mesh=m_finleyMesh.get();     double blocktimer_start = blocktimer_time();
1270    escriptDataC _arg=arg.getDataC();     Finley_Mesh* mesh=m_finleyMesh.get();
1271    switch(arg.getFunctionSpace().getTypeCode()) {     escriptDataC _temp;
1272       case(Nodes):     escript::Data temp;
1273          /* TODO */     escriptDataC _arg=arg.getDataC();
1274          throw FinleyAdapterException("Error - Integral of data on nodes is not supported.");     switch(arg.getFunctionSpace().getTypeCode()) {
1275          break;     case(Nodes):
1276       case(ReducedNodes):     temp=escript::Data( arg, escript::function(asAbstractContinuousDomain()) );
1277          /* TODO */     _temp=temp.getDataC();
1278          throw FinleyAdapterException("Error - Integral of data on reduced nodes is not supported.");     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1279          break;     break;
1280       case(Elements):     case(ReducedNodes):
1281          Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);     temp=escript::Data( arg, escript::function(asAbstractContinuousDomain()) );
1282          break;     _temp=temp.getDataC();
1283       case(ReducedElements):     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1284          Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);     break;
1285          break;     case(Elements):
1286       case(FaceElements):     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);
1287          Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);     break;
1288          break;     case(ReducedElements):
1289       case(ReducedFaceElements):     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);
1290          Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);     break;
1291          break;     case(FaceElements):
1292       case(Points):     Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);
1293          throw FinleyAdapterException("Error - Integral of data on points is not supported.");     break;
1294          break;     case(ReducedFaceElements):
1295       case(ContactElementsZero):     Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);
1296          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);     break;
1297          break;     case(Points):
1298       case(ReducedContactElementsZero):     throw FinleyAdapterException("Error - Integral of data on points is not supported.");
1299          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);     break;
1300          break;     case(ContactElementsZero):
1301       case(ContactElementsOne):     Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1302          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);     break;
1303          break;     case(ReducedContactElementsZero):
1304       case(ReducedContactElementsOne):     Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1305          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);     break;
1306          break;     case(ContactElementsOne):
1307       case(DegreesOfFreedom):     Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1308          throw FinleyAdapterException("Error - Integral of data on degrees of freedom is not supported.");     break;
1309          break;     case(ReducedContactElementsOne):
1310       case(ReducedDegreesOfFreedom):     Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1311          throw FinleyAdapterException("Error - Integral of data on reduced degrees of freedom is not supported.");     break;
1312          break;     case(DegreesOfFreedom):
1313       default:     temp=escript::Data( arg, escript::function(asAbstractContinuousDomain()) );
1314          stringstream temp;     _temp=temp.getDataC();
1315          temp << "Error - Integrals: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1316          throw FinleyAdapterException(temp.str());     break;
1317          break;     case(ReducedDegreesOfFreedom):
1318    }     temp=escript::Data( arg, escript::function(asAbstractContinuousDomain()) );
1319    checkFinleyError();     _temp=temp.getDataC();
1320       Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1321       break;
1322       default:
1323          stringstream temp;
1324          temp << "Error - Integrals: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();
1325          throw FinleyAdapterException(temp.str());
1326          break;
1327       }
1328       checkFinleyError();
1329       blocktimer_increment("integrate()", blocktimer_start);
1330  }  }
1331    
1332  //  //
# Line 765  void MeshAdapter::setToIntegrals(std::ve Line 1334  void MeshAdapter::setToIntegrals(std::ve
1334  //  //
1335  void MeshAdapter::setToGradient(escript::Data& grad,const escript::Data& arg) const  void MeshAdapter::setToGradient(escript::Data& grad,const escript::Data& arg) const
1336  {  {
1337    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());     const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(*(arg.getFunctionSpace().getDomain()));
1338    if (argDomain!=*this)     if (argDomain!=*this)
1339      throw FinleyAdapterException("Error - Illegal domain of gradient argument");        throw FinleyAdapterException("Error - Illegal domain of gradient argument");
1340    const MeshAdapter& gradDomain=dynamic_cast<const MeshAdapter&>(grad.getFunctionSpace().getDomain());     const MeshAdapter& gradDomain=dynamic_cast<const MeshAdapter&>(*(grad.getFunctionSpace().getDomain()));
1341    if (gradDomain!=*this)     if (gradDomain!=*this)
1342       throw FinleyAdapterException("Error - Illegal domain of gradient");        throw FinleyAdapterException("Error - Illegal domain of gradient");
1343    
1344    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
1345    escriptDataC _grad=grad.getDataC();     escriptDataC _grad=grad.getDataC();
1346    escriptDataC nodeDataC;     escriptDataC nodeDataC;
1347  #ifdef PASO_MPI     escript::Data temp;
1348    escript::Data nodeTemp( arg, continuousFunction(asAbstractContinuousDomain()) );     if (getMPISize()>1) {
1349    if( arg.getFunctionSpace().getTypeCode() != Nodes )        if( arg.getFunctionSpace().getTypeCode() == DegreesOfFreedom ) {
1350    {           temp=escript::Data( arg,  continuousFunction(asAbstractContinuousDomain()) );
1351      Finley_Assemble_CopyNodalData(mesh->Nodes,&(nodeTemp.getDataC()),&(arg.getDataC()));           nodeDataC = temp.getDataC();
1352      nodeDataC = nodeTemp.getDataC();        } else if( arg.getFunctionSpace().getTypeCode() == ReducedDegreesOfFreedom ) {
1353    }           temp=escript::Data( arg,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1354    else           nodeDataC = temp.getDataC();
1355      nodeDataC = arg.getDataC();        } else {
1356  #else           nodeDataC = arg.getDataC();
1357    nodeDataC = arg.getDataC();        }
1358  #endif     } else {
1359    switch(grad.getFunctionSpace().getTypeCode()) {        nodeDataC = arg.getDataC();
1360         case(Nodes):     }
1361            throw FinleyAdapterException("Error - Gradient at nodes is not supported.");     switch(grad.getFunctionSpace().getTypeCode()) {
1362            break;     case(Nodes):
1363         case(ReducedNodes):     throw FinleyAdapterException("Error - Gradient at nodes is not supported.");
1364            throw FinleyAdapterException("Error - Gradient at reduced nodes is not supported.");     break;
1365            break;     case(ReducedNodes):
1366         case(Elements):     throw FinleyAdapterException("Error - Gradient at reduced nodes is not supported.");
1367            Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);     break;
1368            break;     case(Elements):
1369         case(ReducedElements):     Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);
1370            Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);     break;
1371            break;     case(ReducedElements):
1372         case(FaceElements):     Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);
1373            Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);     break;
1374            break;     case(FaceElements):
1375         case(ReducedFaceElements):     Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);
1376            Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);     break;
1377            break;     case(ReducedFaceElements):
1378         case(Points):     Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);
1379            throw FinleyAdapterException("Error - Gradient at points is not supported.");     break;
1380            break;     case(Points):
1381         case(ContactElementsZero):     throw FinleyAdapterException("Error - Gradient at points is not supported.");
1382            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);     break;
1383            break;     case(ContactElementsZero):
1384         case(ReducedContactElementsZero):     Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1385            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);     break;
1386            break;     case(ReducedContactElementsZero):
1387         case(ContactElementsOne):     Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1388            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);     break;
1389            break;     case(ContactElementsOne):
1390         case(ReducedContactElementsOne):     Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1391            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);     break;
1392            break;     case(ReducedContactElementsOne):
1393         case(DegreesOfFreedom):     Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1394            throw FinleyAdapterException("Error - Gradient at degrees of freedom is not supported.");     break;
1395            break;     case(DegreesOfFreedom):
1396         case(ReducedDegreesOfFreedom):     throw FinleyAdapterException("Error - Gradient at degrees of freedom is not supported.");
1397            throw FinleyAdapterException("Error - Gradient at reduced degrees of freedom is not supported.");     break;
1398            break;     case(ReducedDegreesOfFreedom):
1399         default:     throw FinleyAdapterException("Error - Gradient at reduced degrees of freedom is not supported.");
1400            stringstream temp;     break;
1401            temp << "Error - Gradient: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();     default:
1402            throw FinleyAdapterException(temp.str());        stringstream temp;
1403            break;        temp << "Error - Gradient: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();
1404    }        throw FinleyAdapterException(temp.str());
1405    checkFinleyError();        break;
1406       }
1407       checkFinleyError();
1408  }  }
1409    
1410  //  //
# Line 841  void MeshAdapter::setToGradient(escript: Line 1412  void MeshAdapter::setToGradient(escript:
1412  //  //
1413  void MeshAdapter::setToSize(escript::Data& size) const  void MeshAdapter::setToSize(escript::Data& size) const
1414  {  {
1415    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
1416    escriptDataC tmp=size.getDataC();     escriptDataC tmp=size.getDataC();
1417    switch(size.getFunctionSpace().getTypeCode()) {     switch(size.getFunctionSpace().getTypeCode()) {
1418         case(Nodes):     case(Nodes):
1419            throw FinleyAdapterException("Error - Size of nodes is not supported.");     throw FinleyAdapterException("Error - Size of nodes is not supported.");
1420            break;     break;
1421         case(ReducedNodes):     case(ReducedNodes):
1422            throw FinleyAdapterException("Error - Size of reduced nodes is not supported.");     throw FinleyAdapterException("Error - Size of reduced nodes is not supported.");
1423            break;     break;
1424         case(Elements):     case(Elements):
1425            Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);     Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);
1426            break;     break;
1427         case(ReducedElements):     case(ReducedElements):
1428            Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);     Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);
1429            break;     break;
1430         case(FaceElements):     case(FaceElements):
1431            Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);     Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);
1432            break;     break;
1433         case(ReducedFaceElements):     case(ReducedFaceElements):
1434            Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);     Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);
1435            break;     break;
1436         case(Points):     case(Points):
1437            throw FinleyAdapterException("Error - Size of point elements is not supported.");     throw FinleyAdapterException("Error - Size of point elements is not supported.");
1438            break;     break;
1439         case(ContactElementsZero):     case(ContactElementsZero):
1440         case(ContactElementsOne):     case(ContactElementsOne):
1441            Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);     Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);
1442            break;     break;
1443         case(ReducedContactElementsZero):     case(ReducedContactElementsZero):
1444         case(ReducedContactElementsOne):     case(ReducedContactElementsOne):
1445            Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);     Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);
1446            break;     break;
1447         case(DegreesOfFreedom):     case(DegreesOfFreedom):
1448            throw FinleyAdapterException("Error - Size of degrees of freedom is not supported.");     throw FinleyAdapterException("Error - Size of degrees of freedom is not supported.");
1449            break;     break;
1450         case(ReducedDegreesOfFreedom):     case(ReducedDegreesOfFreedom):
1451            throw FinleyAdapterException("Error - Size of reduced degrees of freedom is not supported.");     throw FinleyAdapterException("Error - Size of reduced degrees of freedom is not supported.");
1452            break;     break;
1453         default:     default:
1454            stringstream temp;        stringstream temp;
1455            temp << "Error - Element size: Finley does not know anything about function space type " << size.getFunctionSpace().getTypeCode();        temp << "Error - Element size: Finley does not know anything about function space type " << size.getFunctionSpace().getTypeCode();
1456            throw FinleyAdapterException(temp.str());        throw FinleyAdapterException(temp.str());
1457            break;        break;
1458    }     }
1459    checkFinleyError();     checkFinleyError();
1460  }  }
1461    
1462  // sets the location of nodes:  //
1463    // sets the location of nodes
1464    //
1465  void MeshAdapter::setNewX(const escript::Data& new_x)  void MeshAdapter::setNewX(const escript::Data& new_x)
1466  {  {
1467    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
1468    escriptDataC tmp;     escriptDataC tmp;
1469    const MeshAdapter& newDomain=dynamic_cast<const MeshAdapter&>(new_x.getFunctionSpace().getDomain());     const MeshAdapter& newDomain=dynamic_cast<const MeshAdapter&>(*(new_x.getFunctionSpace().getDomain()));
1470    if (newDomain!=*this)     if (newDomain!=*this)
1471       throw FinleyAdapterException("Error - Illegal domain of new point locations");        throw FinleyAdapterException("Error - Illegal domain of new point locations");
1472    tmp = new_x.getDataC();     if ( new_x.getFunctionSpace() == continuousFunction(asAbstractContinuousDomain()) ) {
1473    Finley_Mesh_setCoordinates(mesh,&tmp);         tmp = new_x.getDataC();
1474    checkFinleyError();         Finley_Mesh_setCoordinates(mesh,&tmp);
1475  }     } else {
1476           escript::Data new_x_inter=escript::Data( new_x,  continuousFunction(asAbstractContinuousDomain()) );
1477  // saves a data array in openDX format:         tmp = new_x_inter.getDataC();
1478  void MeshAdapter::saveDX(const std::string& filename,const boost::python::dict& arg) const         Finley_Mesh_setCoordinates(mesh,&tmp);
1479  {     }
1480      int MAX_namelength=256;     checkFinleyError();
1481      const int num_data=boost::python::extract<int>(arg.attr("__len__")());  }
   /* win32 refactor */  
   char* *names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;  
   for(int i=0;i<num_data;i++)  
   {  
     names[i] = (MAX_namelength>0) ? TMPMEMALLOC(MAX_namelength,char) : (char*)NULL;  
   }  
1482    
1483    char* *c_names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;  //
1484    escriptDataC *data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC) : (escriptDataC*)NULL;  // Helper for the save* methods. Extracts optional data variable names and the
1485    escriptDataC* *ptr_data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC*) : (escriptDataC**)NULL;  // corresponding pointers from python dictionary. Caller must free arrays.
1486    //
1487      boost::python::list keys=arg.keys();  void MeshAdapter::extractArgsFromDict(const boost::python::dict& arg, int& numData, char**& names, escriptDataC*& data, escriptDataC**& dataPtr) const
1488      for (int i=0;i<num_data;++i) {  {
1489           escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);     numData = boost::python::extract<int>(arg.attr("__len__")());
1490           if (dynamic_cast<const MeshAdapter&>(d.getFunctionSpace().getDomain()) !=*this)     /* win32 refactor */
1491               throw FinleyAdapterException("Error  in saveDX: Data must be defined on same Domain");     names = (numData>0) ? TMPMEMALLOC(numData, char*) : (char**)NULL;
1492           data[i]=d.getDataC();     data = (numData>0) ? TMPMEMALLOC(numData,escriptDataC) : (escriptDataC*)NULL;
1493           ptr_data[i]=&(data[i]);     dataPtr = (numData>0) ? TMPMEMALLOC(numData,escriptDataC*) : (escriptDataC**)NULL;
1494           std::string n=boost::python::extract<std::string>(keys[i]);  
1495           c_names[i]=&(names[i][0]);     boost::python::list keys=arg.keys();
1496           if (n.length()>MAX_namelength-1) {     for (int i=0; i<numData; ++i) {
1497              strncpy(c_names[i],n.c_str(),MAX_namelength-1);        string n=boost::python::extract<string>(keys[i]);
1498              c_names[i][MAX_namelength-1]='\0';        escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);
1499           } else {        if (dynamic_cast<const MeshAdapter&>(*(d.getFunctionSpace().getDomain())) !=*this)
1500              strcpy(c_names[i],n.c_str());           throw FinleyAdapterException("Error: Data must be defined on same Domain");
1501           }        data[i] = d.getDataC();
1502      }        dataPtr[i] = &(data[i]);
1503      Finley_Mesh_saveDX(filename.c_str(),m_finleyMesh.get(),num_data,c_names,ptr_data);        names[i] = TMPMEMALLOC(n.length()+1, char);
1504      checkFinleyError();        strcpy(names[i], n.c_str());
1505           }
1506        /* win32 refactor */  }
1507    TMPMEMFREE(c_names);  
1508    TMPMEMFREE(data);  //
1509    TMPMEMFREE(ptr_data);  // saves mesh and optionally data arrays in openDX format
1510    for(int i=0;i<num_data;i++)  //
1511    {  void MeshAdapter::saveDX(const string& filename,const boost::python::dict& arg) const
1512      TMPMEMFREE(names[i]);  {
1513    }     int num_data;
1514    TMPMEMFREE(names);     char **names;
1515       escriptDataC *data;
1516       escriptDataC **ptr_data;
1517    
1518       extractArgsFromDict(arg, num_data, names, data, ptr_data);
1519       Finley_Mesh_saveDX(filename.c_str(), m_finleyMesh.get(), num_data, names, ptr_data);
1520       checkFinleyError();
1521    
1522       /* win32 refactor */
1523       TMPMEMFREE(data);
1524       TMPMEMFREE(ptr_data);
1525       for(int i=0; i<num_data; i++)
1526       {
1527          TMPMEMFREE(names[i]);
1528       }
1529       TMPMEMFREE(names);
1530    
1531      return;     return;
1532  }  }
1533    
1534  // saves a data array in openVTK format:  //
1535  void MeshAdapter::saveVTK(const std::string& filename,const boost::python::dict& arg) const  // saves mesh and optionally data arrays in VTK format
1536    //
1537    void MeshAdapter::saveVTK(const string& filename,const boost::python::dict& arg,  const string& metadata, const string& metadata_schema) const
1538  {  {
1539      int MAX_namelength=256;     int num_data;
1540      const int num_data=boost::python::extract<int>(arg.attr("__len__")());     char **names;
1541    /* win32 refactor */     escriptDataC *data;
1542    char* *names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;     escriptDataC **ptr_data;
   for(int i=0;i<num_data;i++)  
   {  
     names[i] = (MAX_namelength>0) ? TMPMEMALLOC(MAX_namelength,char) : (char*)NULL;  
   }  
1543    
1544    char* *c_names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;     extractArgsFromDict(arg, num_data, names, data, ptr_data);
1545    escriptDataC *data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC) : (escriptDataC*)NULL;     Finley_Mesh_saveVTK(filename.c_str(), m_finleyMesh.get(), num_data, names, ptr_data, metadata.c_str(), metadata_schema.c_str());
1546    escriptDataC* *ptr_data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC*) : (escriptDataC**)NULL;     checkFinleyError();
1547    
1548      boost::python::list keys=arg.keys();     /* win32 refactor */
1549      for (int i=0;i<num_data;++i) {     TMPMEMFREE(data);
1550           escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);     TMPMEMFREE(ptr_data);
1551           if (dynamic_cast<const MeshAdapter&>(d.getFunctionSpace().getDomain()) !=*this)     for(int i=0; i<num_data; i++)
1552               throw FinleyAdapterException("Error  in saveVTK: Data must be defined on same Domain");     {
1553           data[i]=d.getDataC();        TMPMEMFREE(names[i]);
1554           ptr_data[i]=&(data[i]);     }
1555           std::string n=boost::python::extract<std::string>(keys[i]);     TMPMEMFREE(names);
1556           c_names[i]=&(names[i][0]);  }
1557           if (n.length()>MAX_namelength-1) {  
1558              strncpy(c_names[i],n.c_str(),MAX_namelength-1);  bool MeshAdapter::ownSample(int fs_code, index_t id) const
1559              c_names[i][MAX_namelength-1]='\0';  {
1560           } else {  #ifdef PASO_MPI
1561              strcpy(c_names[i],n.c_str());      index_t myFirstNode=0, myLastNode=0, k=0;
1562           }      index_t* globalNodeIndex=0;
1563        Finley_Mesh* mesh_p=m_finleyMesh.get();
1564        if (fs_code == FINLEY_REDUCED_NODES)
1565        {
1566        myFirstNode = Finley_NodeFile_getFirstReducedNode(mesh_p->Nodes);
1567        myLastNode = Finley_NodeFile_getLastReducedNode(mesh_p->Nodes);
1568        globalNodeIndex = Finley_NodeFile_borrowGlobalReducedNodesIndex(mesh_p->Nodes);
1569      }      }
1570  #ifndef PASO_MPI          else
1571      Finley_Mesh_saveVTK(filename.c_str(),m_finleyMesh.get(),num_data,c_names,ptr_data);      {
1572  #else      myFirstNode = Finley_NodeFile_getFirstNode(mesh_p->Nodes);
1573      Finley_Mesh_saveVTK_MPIO(filename.c_str(),m_finleyMesh.get(),num_data,c_names,ptr_data);      myLastNode = Finley_NodeFile_getLastNode(mesh_p->Nodes);
1574        globalNodeIndex = Finley_NodeFile_borrowGlobalNodesIndex(mesh_p->Nodes);
1575        }
1576        k=globalNodeIndex[id];
1577        return static_cast<bool>( (myFirstNode <= k) && (k < myLastNode) );
1578  #endif  #endif
1579        return true;
1580    }
1581    
 checkFinleyError();  
   /* win32 refactor */  
   TMPMEMFREE(c_names);  
   TMPMEMFREE(data);  
   TMPMEMFREE(ptr_data);  
   for(int i=0;i<num_data;i++)  
   {  
     TMPMEMFREE(names[i]);  
   }  
   TMPMEMFREE(names);  
1582    
1583      return;  
1584  }  //
1585                                                                                                                                                                            // creates a SystemMatrixAdapter stiffness matrix an initializes it with zeros
1586                                                                                                                                                                            //
 // creates a SystemMatrixAdapter stiffness matrix an initializes it with zeros:  
1587  SystemMatrixAdapter MeshAdapter::newSystemMatrix(  SystemMatrixAdapter MeshAdapter::newSystemMatrix(
1588                        const int row_blocksize,                                                   const int row_blocksize,
1589                        const escript::FunctionSpace& row_functionspace,                                                   const escript::FunctionSpace& row_functionspace,
1590                        const int column_blocksize,                                                   const int column_blocksize,
1591                        const escript::FunctionSpace& column_functionspace,                                                   const escript::FunctionSpace& column_functionspace,
1592                        const int type) const                                                   const int type) const
1593  {  {
1594      int reduceRowOrder=0;     int reduceRowOrder=0;
1595      int reduceColOrder=0;     int reduceColOrder=0;
1596      // is the domain right?     // is the domain right?
1597      const MeshAdapter& row_domain=dynamic_cast<const MeshAdapter&>(row_functionspace.getDomain());     const MeshAdapter& row_domain=dynamic_cast<const MeshAdapter&>(*(row_functionspace.getDomain()));
1598      if (row_domain!=*this)     if (row_domain!=*this)
1599            throw FinleyAdapterException("Error - domain of row function space does not match the domain of matrix generator.");        throw FinleyAdapterException("Error - domain of row function space does not match the domain of matrix generator.");
1600      const MeshAdapter& col_domain=dynamic_cast<const MeshAdapter&>(column_functionspace.getDomain());     const MeshAdapter& col_domain=dynamic_cast<const MeshAdapter&>(*(column_functionspace.getDomain()));
1601      if (col_domain!=*this)     if (col_domain!=*this)
1602            throw FinleyAdapterException("Error - domain of columnn function space does not match the domain of matrix generator.");        throw FinleyAdapterException("Error - domain of columnn function space does not match the domain of matrix generator.");
1603      // is the function space type right     // is the function space type right
1604      if (row_functionspace.getTypeCode()==DegreesOfFreedom) {     if (row_functionspace.getTypeCode()==DegreesOfFreedom) {
1605          reduceRowOrder=0;        reduceRowOrder=0;
1606      } else if (row_functionspace.getTypeCode()==ReducedDegreesOfFreedom) {     } else if (row_functionspace.getTypeCode()==ReducedDegreesOfFreedom) {
1607          reduceRowOrder=1;        reduceRowOrder=1;
1608      } else {     } else {
1609          throw FinleyAdapterException("Error - illegal function space type for system matrix rows.");        throw FinleyAdapterException("Error - illegal function space type for system matrix rows.");
1610      }     }
1611      if (column_functionspace.getTypeCode()==DegreesOfFreedom) {     if (column_functionspace.getTypeCode()==DegreesOfFreedom) {
1612          reduceColOrder=0;        reduceColOrder=0;
1613      } else if (column_functionspace.getTypeCode()==ReducedDegreesOfFreedom) {     } else if (column_functionspace.getTypeCode()==ReducedDegreesOfFreedom) {
1614          reduceColOrder=1;        reduceColOrder=1;
1615      } else {     } else {
1616          throw FinleyAdapterException("Error - illegal function space type for system matrix columns.");        throw FinleyAdapterException("Error - illegal function space type for system matrix columns.");
1617      }     }
1618      // generate matrix:     // generate matrix:
1619        
1620      Paso_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceRowOrder,reduceColOrder);     Paso_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceRowOrder,reduceColOrder);
1621      checkFinleyError();     checkFinleyError();
1622      Paso_SystemMatrix* fsystemMatrix=Paso_SystemMatrix_alloc(type,fsystemMatrixPattern,row_blocksize,column_blocksize);     Paso_SystemMatrix* fsystemMatrix;
1623      checkPasoError();     int trilinos = 0;
1624      Paso_SystemMatrixPattern_dealloc(fsystemMatrixPattern);     if (trilinos) {
1625      return SystemMatrixAdapter(fsystemMatrix,row_blocksize,row_functionspace,column_blocksize,column_functionspace);  #ifdef TRILINOS
1626          /* Allocation Epetra_VrbMatrix here */
1627    #endif
1628       }
1629       else {
1630          fsystemMatrix=Paso_SystemMatrix_alloc(type,fsystemMatrixPattern,row_blocksize,column_blocksize,FALSE);
1631       }
1632       checkPasoError();
1633       Paso_SystemMatrixPattern_free(fsystemMatrixPattern);
1634       return SystemMatrixAdapter(fsystemMatrix,row_blocksize,row_functionspace,column_blocksize,column_functionspace);
1635    }
1636    
1637    //
1638    // creates a TransportProblemAdapter
1639    //
1640    TransportProblemAdapter MeshAdapter::newTransportProblem(
1641                                                             const bool useBackwardEuler,
1642                                                             const int blocksize,
1643                                                             const escript::FunctionSpace& functionspace,
1644                                                             const int type) const
1645    {
1646       int reduceOrder=0;
1647       // is the domain right?
1648       const MeshAdapter& domain=dynamic_cast<const MeshAdapter&>(*(functionspace.getDomain()));
1649       if (domain!=*this)
1650          throw FinleyAdapterException("Error - domain of function space does not match the domain of transport problem generator.");
1651       // is the function space type right
1652       if (functionspace.getTypeCode()==DegreesOfFreedom) {
1653          reduceOrder=0;
1654       } else if (functionspace.getTypeCode()==ReducedDegreesOfFreedom) {
1655          reduceOrder=1;
1656       } else {
1657          throw FinleyAdapterException("Error - illegal function space type for system matrix rows.");
1658       }
1659       // generate matrix:
1660    
1661       Paso_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceOrder,reduceOrder);
1662       checkFinleyError();
1663       Paso_TransportProblem* transportProblem;
1664       transportProblem=Paso_TransportProblem_alloc(useBackwardEuler,fsystemMatrixPattern,blocksize);
1665       checkPasoError();
1666       Paso_SystemMatrixPattern_free(fsystemMatrixPattern);
1667       return TransportProblemAdapter(transportProblem,useBackwardEuler,blocksize,functionspace);
1668  }  }
1669    
1670  //  //
# Line 1053  SystemMatrixAdapter MeshAdapter::newSyst Line 1676  SystemMatrixAdapter MeshAdapter::newSyst
1676  // returns true if data at the atom_type is considered as being cell centered:  // returns true if data at the atom_type is considered as being cell centered:
1677  bool MeshAdapter::isCellOriented(int functionSpaceCode) const  bool MeshAdapter::isCellOriented(int functionSpaceCode) const
1678  {  {
1679    switch(functionSpaceCode) {     switch(functionSpaceCode) {
1680         case(Nodes):     case(Nodes):
1681         case(DegreesOfFreedom):     case(DegreesOfFreedom):
1682         case(ReducedDegreesOfFreedom):     case(ReducedDegreesOfFreedom):
1683            return false;     return false;
1684            break;     break;
1685         case(Elements):     case(Elements):
1686         case(FaceElements):     case(FaceElements):
1687         case(Points):     case(Points):
1688         case(ContactElementsZero):     case(ContactElementsZero):
1689         case(ContactElementsOne):     case(ContactElementsOne):
1690         case(ReducedElements):     case(ReducedElements):
1691         case(ReducedFaceElements):     case(ReducedFaceElements):
1692         case(ReducedContactElementsZero):     case(ReducedContactElementsZero):
1693         case(ReducedContactElementsOne):     case(ReducedContactElementsOne):
1694            return true;     return true;
1695            break;     break;
1696         default:     default:
1697            stringstream temp;        stringstream temp;
1698            temp << "Error - Cell: Finley does not know anything about function space type " << functionSpaceCode;        temp << "Error - Cell: Finley does not know anything about function space type " << functionSpaceCode;
1699            throw FinleyAdapterException(temp.str());        throw FinleyAdapterException(temp.str());
1700            break;        break;
1701    }     }
1702    checkFinleyError();     checkFinleyError();
1703    return false;     return false;
1704    }
1705    
1706    bool
1707    MeshAdapter::commonFunctionSpace(const vector<int>& fs, int& resultcode) const
1708    {
1709       /* The idea is to use equivalence classes. [Types which can be interpolated back and forth]
1710        class 1: DOF <-> Nodes
1711        class 2: ReducedDOF <-> ReducedNodes
1712        class 3: Points
1713        class 4: Elements
1714        class 5: ReducedElements
1715        class 6: FaceElements
1716        class 7: ReducedFaceElements
1717        class 8: ContactElementZero <-> ContactElementOne
1718        class 9: ReducedContactElementZero <-> ReducedContactElementOne
1719    
1720       There is also a set of lines. Interpolation is possible down a line but not between lines.
1721       class 1 and 2 belong to all lines so aren't considered.
1722        line 0: class 3
1723        line 1: class 4,5
1724        line 2: class 6,7
1725        line 3: class 8,9
1726    
1727       For classes with multiple members (eg class 2) we have vars to record if there is at least one instance.
1728       eg hasnodes is true if we have at least one instance of Nodes.
1729       */
1730        if (fs.empty())
1731        {
1732            return false;
1733        }
1734        vector<int> hasclass(10);
1735        vector<int> hasline(4);
1736        bool hasnodes=false;
1737        bool hasrednodes=false;
1738        bool hascez=false;
1739        bool hasrcez=false;
1740        for (int i=0;i<fs.size();++i)
1741        {
1742        switch(fs[i])
1743        {
1744        case(Nodes):   hasnodes=true;   // no break is deliberate
1745        case(DegreesOfFreedom):
1746            hasclass[1]=1;
1747            break;
1748        case(ReducedNodes):    hasrednodes=true;    // no break is deliberate
1749        case(ReducedDegreesOfFreedom):
1750            hasclass[2]=1;
1751            break;
1752        case(Points):
1753            hasline[0]=1;
1754            hasclass[3]=1;
1755            break;
1756        case(Elements):
1757            hasclass[4]=1;
1758            hasline[1]=1;
1759            break;
1760        case(ReducedElements):
1761            hasclass[5]=1;
1762            hasline[1]=1;
1763            break;
1764        case(FaceElements):
1765            hasclass[6]=1;
1766            hasline[2]=1;
1767            break;
1768        case(ReducedFaceElements):
1769            hasclass[7]=1;
1770            hasline[2]=1;
1771            break;
1772        case(ContactElementsZero):  hascez=true;    // no break is deliberate
1773        case(ContactElementsOne):
1774            hasclass[8]=1;
1775            hasline[3]=1;
1776            break;
1777        case(ReducedContactElementsZero):   hasrcez=true;   // no break is deliberate
1778        case(ReducedContactElementsOne):
1779            hasclass[9]=1;
1780            hasline[3]=1;
1781            break;
1782        default:
1783            return false;
1784        }
1785        }
1786        int totlines=hasline[0]+hasline[1]+hasline[2]+hasline[3];
1787        // fail if we have more than one leaf group
1788    
1789        if (totlines>1)
1790        {
1791        return false;   // there are at least two branches we can't interpolate between
1792        }
1793        else if (totlines==1)
1794        {
1795        if (hasline[0]==1)      // we have points
1796        {
1797            resultcode=Points;
1798        }
1799        else if (hasline[1]==1)
1800        {
1801            if (hasclass[5]==1)
1802            {
1803            resultcode=ReducedElements;
1804            }
1805            else
1806            {
1807            resultcode=Elements;
1808            }
1809        }
1810        else if (hasline[2]==1)
1811        {
1812            if (hasclass[7]==1)
1813            {
1814            resultcode=ReducedFaceElements;
1815            }
1816            else
1817            {
1818            resultcode=FaceElements;
1819            }
1820        }
1821        else    // so we must be in line3
1822        {
1823            if (hasclass[9]==1)
1824            {
1825            // need something from class 9
1826            resultcode=(hasrcez?ReducedContactElementsZero:ReducedContactElementsOne);
1827            }
1828            else
1829            {
1830            // something from class 8
1831            resultcode=(hascez?ContactElementsZero:ContactElementsOne);
1832            }
1833        }
1834        }
1835        else    // totlines==0
1836        {
1837        if (hasclass[2]==1)
1838        {
1839            // something from class 2
1840            resultcode=(hasrednodes?ReducedNodes:ReducedDegreesOfFreedom);
1841        }
1842        else
1843        {   // something from class 1
1844            resultcode=(hasnodes?Nodes:DegreesOfFreedom);
1845        }
1846        }
1847        return true;
1848  }  }
1849    
1850  bool MeshAdapter::probeInterpolationOnDomain(int functionSpaceType_source,int functionSpaceType_target) const  bool MeshAdapter::probeInterpolationOnDomain(int functionSpaceType_source,int functionSpaceType_target) const
1851  {  {
1852    switch(functionSpaceType_source) {     switch(functionSpaceType_source) {
1853       case(Nodes):     case(Nodes):
1854          switch(functionSpaceType_target) {      switch(functionSpaceType_target) {
1855             case(Nodes):      case(Nodes):
1856             case(ReducedNodes):      case(ReducedNodes):
1857             case(ReducedDegreesOfFreedom):      case(ReducedDegreesOfFreedom):
1858             case(DegreesOfFreedom):      case(DegreesOfFreedom):
1859             case(Elements):      case(Elements):
1860             case(ReducedElements):      case(ReducedElements):
1861             case(FaceElements):      case(FaceElements):
1862             case(ReducedFaceElements):      case(ReducedFaceElements):
1863             case(Points):      case(Points):
1864             case(ContactElementsZero):      case(ContactElementsZero):
1865             case(ReducedContactElementsZero):      case(ReducedContactElementsZero):
1866             case(ContactElementsOne):      case(ContactElementsOne):
1867             case(ReducedContactElementsOne):      case(ReducedContactElementsOne):
1868                 return true;      return true;
1869             default:      default:
1870                 stringstream temp;            stringstream temp;
1871                 temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;            temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1872                 throw FinleyAdapterException(temp.str());            throw FinleyAdapterException(temp.str());
1873          }     }
1874          break;     break;
1875       case(ReducedNodes):     case(ReducedNodes):
1876          switch(functionSpaceType_target) {      switch(functionSpaceType_target) {
1877             case(ReducedNodes):      case(ReducedNodes):
1878             case(ReducedDegreesOfFreedom):      case(ReducedDegreesOfFreedom):
1879             case(Elements):      case(Elements):
1880             case(ReducedElements):      case(ReducedElements):
1881             case(FaceElements):      case(FaceElements):
1882             case(ReducedFaceElements):      case(ReducedFaceElements):
1883             case(Points):      case(Points):
1884             case(ContactElementsZero):      case(ContactElementsZero):
1885             case(ReducedContactElementsZero):      case(ReducedContactElementsZero):
1886             case(ContactElementsOne):      case(ContactElementsOne):
1887             case(ReducedContactElementsOne):      case(ReducedContactElementsOne):
1888                 return true;      return true;
1889            case(Nodes):      case(Nodes):
1890            case(DegreesOfFreedom):      case(DegreesOfFreedom):
1891               return false;      return false;
1892             default:      default:
1893                 stringstream temp;          stringstream temp;
1894                 temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1895                 throw FinleyAdapterException(temp.str());          throw FinleyAdapterException(temp.str());
1896          }     }
1897          break;     break;
1898       case(Elements):     case(Elements):
1899          if (functionSpaceType_target==Elements) {      if (functionSpaceType_target==Elements) {
1900             return true;        return true;
1901          } else {      } else if (functionSpaceType_target==ReducedElements) {
1902             return false;        return true;
         }  
      case(ReducedElements):  
         if (functionSpaceType_target==ReducedElements) {  
            return true;  
         } else {  
            return false;  
         }  
      case(FaceElements):  
         if (functionSpaceType_target==FaceElements) {  
            return true;  
         } else {  
            return false;  
         }  
      case(ReducedFaceElements):  
         if (functionSpaceType_target==ReducedFaceElements) {  
            return true;  
1903          } else {          } else {
1904             return false;            return false;
         }  
      case(Points):  
         if (functionSpaceType_target==Points) {  
            return true;  
         } else {  
            return false;  
         }  
      case(ContactElementsZero):  
      case(ContactElementsOne):  
         if (functionSpaceType_target==ContactElementsZero || functionSpaceType_target==ContactElementsOne) {  
            return true;  
         } else {  
            return false;  
         }  
      case(ReducedContactElementsZero):  
      case(ReducedContactElementsOne):  
         if (functionSpaceType_target==ReducedContactElementsZero || functionSpaceType_target==ReducedContactElementsOne) {  
            return true;  
         } else {  
            return false;  
         }  
      case(DegreesOfFreedom):  
         switch(functionSpaceType_target) {  
            case(ReducedDegreesOfFreedom):  
            case(DegreesOfFreedom):  
            case(Nodes):  
            case(ReducedNodes):  
            case(Elements):  
            case(ReducedElements):  
            case(Points):  
            case(FaceElements):  
            case(ReducedFaceElements):  
            case(ContactElementsZero):  
            case(ReducedContactElementsZero):  
            case(ContactElementsOne):  
            case(ReducedContactElementsOne):  
               return true;  
            default:  
              stringstream temp;  
              temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;  
              throw FinleyAdapterException(temp.str());  
1905          }          }
1906          break;     case(ReducedElements):
1907       case(ReducedDegreesOfFreedom):      if (functionSpaceType_target==ReducedElements) {
1908         switch(functionSpaceType_target) {        return true;
1909            case(ReducedDegreesOfFreedom):      } else {
1910            case(ReducedNodes):            return false;
1911            case(Elements):      }
1912            case(ReducedElements):     case(FaceElements):
1913            case(FaceElements):      if (functionSpaceType_target==FaceElements) {
1914            case(ReducedFaceElements):              return true;
1915            case(Points):      } else if (functionSpaceType_target==ReducedFaceElements) {
1916            case(ContactElementsZero):              return true;
1917            case(ReducedContactElementsZero):      } else {
1918            case(ContactElementsOne):              return false;
1919            case(ReducedContactElementsOne):      }
1920                return true;     case(ReducedFaceElements):
1921            case(Nodes):      if (functionSpaceType_target==ReducedFaceElements) {
1922            case(DegreesOfFreedom):              return true;
1923               return false;      } else {
1924            default:          return false;
1925               stringstream temp;      }
1926               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;     case(Points):
1927               throw FinleyAdapterException(temp.str());      if (functionSpaceType_target==Points) {
1928         }              return true;
1929         break;      } else {
1930       default:              return false;
1931          stringstream temp;      }
1932          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_source;     case(ContactElementsZero):
1933          throw FinleyAdapterException(temp.str());     case(ContactElementsOne):
1934          break;      if (functionSpaceType_target==ContactElementsZero || functionSpaceType_target==ContactElementsOne) {
1935    }              return true;
1936    checkFinleyError();      } else if (functionSpaceType_target==ReducedContactElementsZero || functionSpaceType_target==ReducedContactElementsOne) {
1937    return false;              return true;
1938        } else {
1939                return false;
1940        }
1941       case(ReducedContactElementsZero):
1942       case(ReducedContactElementsOne):
1943        if (functionSpaceType_target==ReducedContactElementsZero || functionSpaceType_target==ReducedContactElementsOne) {
1944                return true;
1945        } else {
1946                return false;
1947        }
1948       case(DegreesOfFreedom):
1949        switch(functionSpaceType_target) {
1950        case(ReducedDegreesOfFreedom):
1951        case(DegreesOfFreedom):
1952        case(Nodes):
1953        case(ReducedNodes):
1954        case(Elements):
1955        case(ReducedElements):
1956        case(Points):
1957        case(FaceElements):
1958        case(ReducedFaceElements):
1959        case(ContactElementsZero):
1960        case(ReducedContactElementsZero):
1961        case(ContactElementsOne):
1962        case(ReducedContactElementsOne):
1963        return true;
1964        default:
1965            stringstream temp;
1966            temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1967            throw FinleyAdapterException(temp.str());
1968        }
1969        break;
1970       case(ReducedDegreesOfFreedom):
1971       switch(functionSpaceType_target) {
1972        case(ReducedDegreesOfFreedom):
1973        case(ReducedNodes):
1974        case(Elements):
1975        case(ReducedElements):
1976        case(FaceElements):
1977        case(ReducedFaceElements):
1978        case(Points):
1979        case(ContactElementsZero):
1980        case(ReducedContactElementsZero):
1981        case(ContactElementsOne):
1982        case(ReducedContactElementsOne):
1983        return true;
1984        case(Nodes):
1985        case(DegreesOfFreedom):
1986        return false;
1987        default:
1988            stringstream temp;
1989            temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1990            throw FinleyAdapterException(temp.str());
1991        }
1992        break;
1993       default:
1994          stringstream temp;
1995          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_source;
1996          throw FinleyAdapterException(temp.str());
1997          break;
1998       }
1999       checkFinleyError();
2000       return false;
2001  }  }
2002    
2003  bool MeshAdapter::probeInterpolationACross(int functionSpaceType_source,const AbstractDomain& targetDomain, int functionSpaceType_target) const  bool MeshAdapter::probeInterpolationACross(int functionSpaceType_source,const AbstractDomain& targetDomain, int functionSpaceType_target) const
2004  {  {
2005      return false;     return false;
2006  }  }
2007    
2008  bool MeshAdapter::operator==(const AbstractDomain& other) const  bool MeshAdapter::operator==(const AbstractDomain& other) const
2009  {  {
2010    const MeshAdapter* temp=dynamic_cast<const MeshAdapter*>(&other);     const MeshAdapter* temp=dynamic_cast<const MeshAdapter*>(&other);
2011    if (temp!=0) {     if (temp!=0) {
2012      return (m_finleyMesh==temp->m_finleyMesh);        return (m_finleyMesh==temp->m_finleyMesh);
2013    } else {     } else {
2014      return false;        return false;
2015    }     }
2016  }  }
2017    
2018  bool MeshAdapter::operator!=(const AbstractDomain& other) const  bool MeshAdapter::operator!=(const AbstractDomain& other) const
2019  {  {
2020    return !(operator==(other));     return !(operator==(other));
2021  }  }
2022    
2023  int MeshAdapter::getSystemMatrixTypeId(const int solver, const int package, const bool symmetry) const  int MeshAdapter::getSystemMatrixTypeId(const int solver, const int preconditioner, const int package, const bool symmetry) const
2024    {
2025       Finley_Mesh* mesh=m_finleyMesh.get();
2026       int out=Paso_SystemMatrix_getSystemMatrixTypeId(SystemMatrixAdapter::mapOptionToPaso(solver),SystemMatrixAdapter::mapOptionToPaso(preconditioner), SystemMatrixAdapter::mapOptionToPaso(package),symmetry?1:0, mesh->MPIInfo);
2027       checkPasoError();
2028       return out;
2029    }
2030    int MeshAdapter::getTransportTypeId(const int solver, const int preconditioner, const int package, const bool symmetry) const
2031  {  {
2032     int out=Paso_SystemMatrix_getSystemMatrixTypeId(SystemMatrixAdapter::mapOptionToPaso(solver),SystemMatrixAdapter::mapOptionToPaso(package),symmetry?1:0);     Finley_Mesh* mesh=m_finleyMesh.get();
2033       int out=Paso_TransportProblem_getTypeId(SystemMatrixAdapter::mapOptionToPaso(solver),SystemMatrixAdapter::mapOptionToPaso(preconditioner), SystemMatrixAdapter::mapOptionToPaso(package),symmetry?1:0, mesh->MPIInfo);
2034     checkPasoError();     checkPasoError();
2035     return out;     return out;
2036  }  }
2037    
2038  escript::Data MeshAdapter::getX() const  escript::Data MeshAdapter::getX() const
2039  {  {
2040    return continuousFunction(asAbstractContinuousDomain()).getX();     return continuousFunction(asAbstractContinuousDomain()).getX();
2041  }  }
2042    
2043  escript::Data MeshAdapter::getNormal() const  escript::Data MeshAdapter::getNormal() const
2044  {  {
2045    return functionOnBoundary(asAbstractContinuousDomain()).getNormal();     return functionOnBoundary(asAbstractContinuousDomain()).getNormal();
2046  }  }
2047    
2048  escript::Data MeshAdapter::getSize() const  escript::Data MeshAdapter::getSize() const
2049  {  {
2050    return function(asAbstractContinuousDomain()).getSize();     return escript::function(asAbstractContinuousDomain()).getSize();
2051  }  }
2052    
2053  int* MeshAdapter::borrowSampleReferenceIDs(int functionSpaceType) const  const int* MeshAdapter::borrowSampleReferenceIDs(int functionSpaceType) const
2054  {  {
2055    int *out=0,i;     int *out = NULL;
2056    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
2057    switch (functionSpaceType) {     switch (functionSpaceType) {
2058      case(Nodes):     case(Nodes):
2059        if (mesh->Nodes!=NULL) {     out=mesh->Nodes->Id;
2060          out=mesh->Nodes->Id;     break;
2061          break;     case(ReducedNodes):
2062        }     out=mesh->Nodes->reducedNodesId;
2063      case(ReducedNodes):     break;
2064        throw FinleyAdapterException("Error -  ReducedNodes not supported yet.");     case(Elements):
2065        break;     out=mesh->Elements->Id;
2066      case(Elements):     break;
2067        out=mesh->Elements->Id;     case(ReducedElements):
2068        break;     out=mesh->Elements->Id;
2069      case(ReducedElements):     break;
2070        out=mesh->Elements->Id;     case(FaceElements):
2071        break;     out=mesh->FaceElements->Id;
2072      case(FaceElements):     break;
2073        out=mesh->FaceElements->Id;     case(ReducedFaceElements):
2074        break;     out=mesh->FaceElements->Id;
2075      case(ReducedFaceElements):     break;
2076        out=mesh->FaceElements->Id;     case(Points):
2077        break;     out=mesh->Points->Id;
2078      case(Points):     break;
2079        out=mesh->Points->Id;     case(ContactElementsZero):
2080        break;     out=mesh->ContactElements->Id;
2081      case(ContactElementsZero):     break;
2082        out=mesh->ContactElements->Id;     case(ReducedContactElementsZero):
2083        break;     out=mesh->ContactElements->Id;
2084      case(ReducedContactElementsZero):     break;
2085        out=mesh->ContactElements->Id;     case(ContactElementsOne):
2086        break;     out=mesh->ContactElements->Id;
2087      case(ContactElementsOne):     break;
2088        out=mesh->ContactElements->Id;     case(ReducedContactElementsOne):
2089        break;     out=mesh->ContactElements->Id;
2090      case(ReducedContactElementsOne):     break;
2091        out=mesh->ContactElements->Id;     case(DegreesOfFreedom):
2092        break;     out=mesh->Nodes->degreesOfFreedomId;
2093      case(DegreesOfFreedom):     break;
2094        out=mesh->Nodes->degreeOfFreedomId;     case(ReducedDegreesOfFreedom):
2095        break;     out=mesh->Nodes->reducedDegreesOfFreedomId;
2096      case(ReducedDegreesOfFreedom):     break;
2097        out=mesh->Nodes->reducedDegreeOfFreedomId;     default:
       break;  
     default:  
2098        stringstream temp;        stringstream temp;
2099        temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();        temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();
2100        throw FinleyAdapterException(temp.str());        throw FinleyAdapterException(temp.str());
2101        break;        break;
2102    }     }
2103    return out;     return out;
2104  }  }
2105  int MeshAdapter::getTagFromSampleNo(int functionSpaceType, int sampleNo) const  int MeshAdapter::getTagFromSampleNo(int functionSpaceType, int sampleNo) const
2106  {  {
2107    int out=0;     int out=0;
2108    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
2109    switch (functionSpaceType) {     switch (functionSpaceType) {
2110    case(Nodes):     case(Nodes):
2111      out=mesh->Nodes->Tag[sampleNo];     out=mesh->Nodes->Tag[sampleNo];
2112      break;     break;
2113    case(ReducedNodes):     case(ReducedNodes):
2114      throw FinleyAdapterException(" Error - ReducedNodes does not support tags.");     throw FinleyAdapterException(" Error - ReducedNodes does not support tags.");
2115      break;     break;
2116    case(Elements):     case(Elements):
2117      out=mesh->Elements->Tag[sampleNo];     out=mesh->Elements->Tag[sampleNo];
2118      break;     break;
2119    case(ReducedElements):     case(ReducedElements):
2120      out=mesh->Elements->Tag[sampleNo];     out=mesh->Elements->Tag[sampleNo];
2121      break;     break;
2122    case(FaceElements):     case(FaceElements):
2123      out=mesh->FaceElements->Tag[sampleNo];     out=mesh->FaceElements->Tag[sampleNo];
2124      break;     break;
2125    case(ReducedFaceElements):     case(ReducedFaceElements):
2126      out=mesh->FaceElements->Tag[sampleNo];     out=mesh->FaceElements->Tag[sampleNo];
2127      break;     break;
2128    case(Points):     case(Points):
2129      out=mesh->Points->Tag[sampleNo];     out=mesh->Points->Tag[sampleNo];
2130      break;     break;
2131    case(ContactElementsZero):     case(ContactElementsZero):
2132      out=mesh->ContactElements->Tag[sampleNo];     out=mesh->ContactElements->Tag[sampleNo];
2133      break;     break;
2134    case(ReducedContactElementsZero):     case(ReducedContactElementsZero):
2135      out=mesh->ContactElements->Tag[sampleNo];     out=mesh->ContactElements->Tag[sampleNo];
2136      break;     break;
2137    case(ContactElementsOne):     case(ContactElementsOne):
2138      out=mesh->ContactElements->Tag[sampleNo];     out=mesh->ContactElements->Tag[sampleNo];
2139      break;     break;
2140    case(ReducedContactElementsOne):     case(ReducedContactElementsOne):
2141      out=mesh->ContactElements->Tag[sampleNo];     out=mesh->ContactElements->Tag[sampleNo];
2142      break;     break;
2143    case(DegreesOfFreedom):     case(DegreesOfFreedom):
2144      throw FinleyAdapterException(" Error - DegreesOfFreedom does not support tags.");     throw FinleyAdapterException(" Error - DegreesOfFreedom does not support tags.");
2145      break;     break;
2146    case(ReducedDegreesOfFreedom):     case(ReducedDegreesOfFreedom):
2147      throw FinleyAdapterException(" Error - ReducedDegreesOfFreedom does not support tags.");     throw FinleyAdapterException(" Error - ReducedDegreesOfFreedom does not support tags.");
2148      break;     break;
2149    default:     default:
2150      stringstream temp;        stringstream temp;
2151      temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();        temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();
2152      throw FinleyAdapterException(temp.str());        throw FinleyAdapterException(temp.str());
2153      break;        break;
2154    }     }
2155    return out;     return out;
2156  }  }
2157    
2158    
2159  void MeshAdapter::setTags(const int functionSpaceType, const int newTag, const escript::Data& mask) const  void MeshAdapter::setTags(const int functionSpaceType, const int newTag, const escript::Data& mask) const
2160  {  {
2161       Finley_Mesh* mesh=m_finleyMesh.get();
2162       escriptDataC tmp=mask.getDataC();
2163       switch(functionSpaceType) {
2164       case(Nodes):
2165       Finley_NodeFile_setTags(mesh->Nodes,newTag,&tmp);
2166       break;
2167       case(ReducedNodes):
2168       throw FinleyAdapterException("Error - ReducedNodes does not support tags");
2169       break;
2170       case(DegreesOfFreedom):
2171       throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
2172       break;
2173       case(ReducedDegreesOfFreedom):
2174       throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
2175       break;
2176       case(Elements):
2177       Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);
2178       break;
2179       case(ReducedElements):
2180       Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);
2181       break;
2182       case(FaceElements):
2183       Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);
2184       break;
2185       case(ReducedFaceElements):
2186       Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);
2187       break;
2188       case(Points):
2189       Finley_ElementFile_setTags(mesh->Points,newTag,&tmp);
2190       break;
2191       case(ContactElementsZero):
2192       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
2193       break;
2194       case(ReducedContactElementsZero):
2195       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
2196       break;
2197       case(ContactElementsOne):
2198       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
2199       break;
2200       case(ReducedContactElementsOne):
2201       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
2202       break;
2203       default:
2204          stringstream temp;
2205          temp << "Error - Finley does not know anything about function space type " << functionSpaceType;
2206          throw FinleyAdapterException(temp.str());
2207       }
2208       checkFinleyError();
2209       return;
2210    }
2211    
2212    void MeshAdapter::setTagMap(const string& name,  int tag)
2213    {
2214       Finley_Mesh* mesh=m_finleyMesh.get();
2215       Finley_Mesh_addTagMap(mesh, name.c_str(),tag);
2216       checkPasoError();
2217       // throwStandardException("MeshAdapter::set TagMap is not implemented.");
2218    }
2219    
2220    int MeshAdapter::getTag(const string& name) const
2221    {
2222       Finley_Mesh* mesh=m_finleyMesh.get();
2223       int tag=0;
2224       tag=Finley_Mesh_getTag(mesh, name.c_str());
2225       checkPasoError();
2226       // throwStandardException("MeshAdapter::getTag is not implemented.");
2227       return tag;
2228    }
2229    
2230    bool MeshAdapter::isValidTagName(const string& name) const
2231    {
2232       Finley_Mesh* mesh=m_finleyMesh.get();
2233       return Finley_Mesh_isValidTagName(mesh,name.c_str());
2234    }
2235    
2236    string MeshAdapter::showTagNames() const
2237    {
2238       stringstream temp;
2239       Finley_Mesh* mesh=m_finleyMesh.get();
2240       Finley_TagMap* tag_map=mesh->TagMap;
2241       while (tag_map) {
2242          temp << tag_map->name;
2243          tag_map=tag_map->next;
2244          if (tag_map) temp << ", ";
2245       }
2246       return temp.str();
2247    }
2248    
2249    int MeshAdapter::getNumberOfTagsInUse(int functionSpaceCode) const
2250    {
2251    Finley_Mesh* mesh=m_finleyMesh.get();    Finley_Mesh* mesh=m_finleyMesh.get();
2252    escriptDataC tmp=mask.getDataC();    dim_t numTags=0;
2253    switch(functionSpaceType) {    switch(functionSpaceCode) {
2254         case(Nodes):     case(Nodes):
2255            Finley_NodeFile_setTags(mesh->Nodes,newTag,&tmp);            numTags=mesh->Nodes->numTagsInUse;
2256            break;            break;
2257         case(ReducedNodes):     case(ReducedNodes):
2258            throw FinleyAdapterException("Error - ReducedNodes does not support tags");            throw FinleyAdapterException("Error - ReducedNodes does not support tags");
2259            break;            break;
2260         case(DegreesOfFreedom):     case(DegreesOfFreedom):
2261            throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");            throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
2262            break;            break;
2263         case(ReducedDegreesOfFreedom):     case(ReducedDegreesOfFreedom):
2264            throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");            throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
2265            break;            break;
2266         case(Elements):     case(Elements):
2267            Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);     case(ReducedElements):
2268              numTags=mesh->Elements->numTagsInUse;
2269              break;
2270       case(FaceElements):
2271       case(ReducedFaceElements):
2272              numTags=mesh->FaceElements->numTagsInUse;
2273              break;
2274       case(Points):
2275              numTags=mesh->Points->numTagsInUse;
2276              break;
2277       case(ContactElementsZero):
2278       case(ReducedContactElementsZero):
2279       case(ContactElementsOne):
2280       case(ReducedContactElementsOne):
2281              numTags=mesh->ContactElements->numTagsInUse;
2282            break;            break;
2283         case(ReducedElements):     default:
2284            Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);        stringstream temp;
2285            break;        temp << "Error - Finley does not know anything about function space type " << functionSpaceCode;
2286         case(FaceElements):        throw FinleyAdapterException(temp.str());
2287            Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);    }
2288            break;    return numTags;
2289         case(ReducedFaceElements):  }
2290            Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);  
2291            break;  const int* MeshAdapter::borrowListOfTagsInUse(int functionSpaceCode) const
2292         case(Points):  {
2293            Finley_ElementFile_setTags(mesh->Points,newTag,&tmp);    Finley_Mesh* mesh=m_finleyMesh.get();
2294      index_t* tags=NULL;
2295      switch(functionSpaceCode) {
2296       case(Nodes):
2297              tags=mesh->Nodes->tagsInUse;
2298            break;            break;
2299         case(ContactElementsZero):     case(ReducedNodes):
2300            Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);            throw FinleyAdapterException("Error - ReducedNodes does not support tags");
2301            break;            break;
2302         case(ReducedContactElementsZero):     case(DegreesOfFreedom):
2303            Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);            throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
2304            break;            break;
2305         case(ContactElementsOne):     case(ReducedDegreesOfFreedom):
2306            Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);            throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
2307            break;            break;
2308         case(ReducedContactElementsOne):     case(Elements):
2309            Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);     case(ReducedElements):
2310              tags=mesh->Elements->tagsInUse;
2311              break;
2312       case(FaceElements):
2313       case(ReducedFaceElements):
2314              tags=mesh->FaceElements->tagsInUse;
2315              break;
2316       case(Points):
2317              tags=mesh->Points->tagsInUse;
2318              break;
2319       case(ContactElementsZero):
2320       case(ReducedContactElementsZero):
2321       case(ContactElementsOne):
2322       case(ReducedContactElementsOne):
2323              tags=mesh->ContactElements->tagsInUse;
2324            break;            break;
2325         default:     default:
2326            stringstream temp;        stringstream temp;
2327            temp << "Error - Finley does not know anything about function space type " << functionSpaceType;        temp << "Error - Finley does not know anything about function space type " << functionSpaceCode;
2328            throw FinleyAdapterException(temp.str());        throw FinleyAdapterException(temp.str());
2329    }    }
2330    checkFinleyError();    return tags;
   return;  
2331  }  }
2332    
2333  void MeshAdapter::setTagMap(const std::string& name,  int tag)  
2334    bool MeshAdapter::canTag(int functionSpaceCode) const
2335  {  {
2336    Finley_Mesh* mesh=m_finleyMesh.get();    switch(functionSpaceCode) {
2337    Finley_Mesh_addTagMap(mesh, name.c_str(),tag);     case(Nodes):
2338    checkPasoError();     case(Elements):
2339    // throwStandardException("MeshAdapter::set TagMap is not implemented.");     case(ReducedElements):
2340       case(FaceElements):
2341       case(ReducedFaceElements):
2342       case(Points):
2343       case(ContactElementsZero):
2344       case(ReducedContactElementsZero):
2345       case(ContactElementsOne):
2346       case(ReducedContactElementsOne):
2347              return true;
2348       case(ReducedNodes):
2349       case(DegreesOfFreedom):
2350       case(ReducedDegreesOfFreedom):
2351          return false;
2352       default:
2353        return false;
2354      }
2355  }  }
2356    
2357  int MeshAdapter::getTag(const std::string& name) const  AbstractDomain::StatusType MeshAdapter::getStatus() const
2358  {  {
2359    Finley_Mesh* mesh=m_finleyMesh.get();    Finley_Mesh* mesh=m_finleyMesh.get();
2360    int tag=0;    return Finley_Mesh_getStatus(mesh);
   tag=Finley_Mesh_getTag(mesh, name.c_str());  
   checkPasoError();  
   // throwStandardException("MeshAdapter::getTag is not implemented.");  
   return tag;  
2361  }  }
2362    
2363  bool MeshAdapter::isValidTagName(const std::string& name) const  int MeshAdapter::getApproximationOrder(const int functionSpaceCode) const
2364  {  {
2365      
2366    Finley_Mesh* mesh=m_finleyMesh.get();    Finley_Mesh* mesh=m_finleyMesh.get();
2367    return Finley_Mesh_isValidTagName(mesh,name.c_str());    int order =-1;
2368      switch(functionSpaceCode) {
2369       case(Nodes):
2370       case(DegreesOfFreedom):
2371              order=mesh->approximationOrder;
2372              break;
2373       case(ReducedNodes):
2374       case(ReducedDegreesOfFreedom):
2375              order=mesh->reducedApproximationOrder;
2376              break;
2377       case(Elements):
2378       case(FaceElements):
2379       case(Points):
2380       case(ContactElementsZero):
2381       case(ContactElementsOne):
2382              order=mesh->integrationOrder;
2383              break;
2384       case(ReducedElements):
2385       case(ReducedFaceElements):
2386       case(ReducedContactElementsZero):
2387       case(ReducedContactElementsOne):
2388              order=mesh->reducedIntegrationOrder;
2389              break;
2390       default:
2391          stringstream temp;
2392          temp << "Error - Finley does not know anything about function space type " << functionSpaceCode;
2393          throw FinleyAdapterException(temp.str());
2394      }
2395      return order;
2396  }  }
2397    
2398  std::string MeshAdapter::showTagNames() const  ReferenceElementSetWrapper::ReferenceElementSetWrapper(ElementTypeId id, index_t order, index_t reducedOrder)
2399  {  {
2400    stringstream temp;    m_refSet = Finley_ReferenceElementSet_alloc(id, order, reducedOrder);
2401    Finley_Mesh* mesh=m_finleyMesh.get();  }
2402    Finley_TagMap* tag_map=mesh->TagMap;  
2403    while (tag_map) {  ReferenceElementSetWrapper::~ReferenceElementSetWrapper()
2404       temp << tag_map->name;  {
2405       tag_map=tag_map->next;    Finley_ReferenceElementSet_dealloc(m_refSet);
      if (tag_map) temp << ", ";  
   }  
   return temp.str();  
2406  }  }
2407    
2408  }  // end of namespace  }  // end of namespace

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