/[escript]/trunk/finley/src/CPPAdapter/MeshAdapter.cpp
ViewVC logotype

Diff of /trunk/finley/src/CPPAdapter/MeshAdapter.cpp

Parent Directory Parent Directory | Revision Log Revision Log | View Patch Patch

revision 532 by gross, Wed Feb 15 09:45:53 2006 UTC revision 1801 by ksteube, Fri Sep 19 01:37:09 2008 UTC
# Line 1  Line 1 
1  // $Id$  
2  /*  /* $Id$ */
3   ******************************************************************************  
4   *                                                                            *  /*******************************************************
5   *       COPYRIGHT  ACcESS 2004 -  All Rights Reserved                        *   *
6   *                                                                            *   *           Copyright 2003-2007 by ACceSS MNRF
7   * This software is the property of ACcESS. No part of this code              *   *       Copyright 2007 by University of Queensland
8   * may be copied in any form or by any means without the expressed written    *   *
9   * consent of ACcESS.  Copying, use or modification of this software          *   *                http://esscc.uq.edu.au
10   * by any unauthorised person is illegal unless that person has a software    *   *        Primary Business: Queensland, Australia
11   * license agreement with ACcESS.                                             *   *  Licensed under the Open Software License version 3.0
12   *                                                                            *   *     http://www.opensource.org/licenses/osl-3.0.php
13   ******************************************************************************   *
14  */   *******************************************************/
15    
16  #include "MeshAdapter.h"  #include "MeshAdapter.h"
17    #include "escript/Data.h"
18    #include "escript/DataFactory.h"
19    #ifdef USE_NETCDF
20    #include <netcdfcpp.h>
21    #endif
22    #ifdef PASO_MPI
23    #include <mpi.h>
24    #include "paso/Paso_MPI.h"
25    #endif
26    extern "C" {
27    #include "escript/blocktimer.h"
28    }
29    #include <vector>
30    
31  #include "Data.h"  #define IS_THERE_A_REASON_FOR_THIS_MAGIC_NAME_LENGTH  256
 #include "DataFactory.h"  
32    
33  using namespace std;  using namespace std;
34  using namespace escript;  using namespace escript;
# Line 29  MeshAdapter::FunctionSpaceNamesMapType M Line 41  MeshAdapter::FunctionSpaceNamesMapType M
41  const int MeshAdapter::DegreesOfFreedom=FINLEY_DEGREES_OF_FREEDOM;  const int MeshAdapter::DegreesOfFreedom=FINLEY_DEGREES_OF_FREEDOM;
42  const int MeshAdapter::ReducedDegreesOfFreedom=FINLEY_REDUCED_DEGREES_OF_FREEDOM;  const int MeshAdapter::ReducedDegreesOfFreedom=FINLEY_REDUCED_DEGREES_OF_FREEDOM;
43  const int MeshAdapter::Nodes=FINLEY_NODES;  const int MeshAdapter::Nodes=FINLEY_NODES;
44    const int MeshAdapter::ReducedNodes=FINLEY_REDUCED_NODES;
45  const int MeshAdapter::Elements=FINLEY_ELEMENTS;  const int MeshAdapter::Elements=FINLEY_ELEMENTS;
46    const int MeshAdapter::ReducedElements=FINLEY_REDUCED_ELEMENTS;
47  const int MeshAdapter::FaceElements=FINLEY_FACE_ELEMENTS;  const int MeshAdapter::FaceElements=FINLEY_FACE_ELEMENTS;
48    const int MeshAdapter::ReducedFaceElements=FINLEY_REDUCED_FACE_ELEMENTS;
49  const int MeshAdapter::Points=FINLEY_POINTS;  const int MeshAdapter::Points=FINLEY_POINTS;
50  const int MeshAdapter::ContactElementsZero=FINLEY_CONTACT_ELEMENTS_1;  const int MeshAdapter::ContactElementsZero=FINLEY_CONTACT_ELEMENTS_1;
51    const int MeshAdapter::ReducedContactElementsZero=FINLEY_REDUCED_CONTACT_ELEMENTS_1;
52  const int MeshAdapter::ContactElementsOne=FINLEY_CONTACT_ELEMENTS_2;  const int MeshAdapter::ContactElementsOne=FINLEY_CONTACT_ELEMENTS_2;
53    const int MeshAdapter::ReducedContactElementsOne=FINLEY_REDUCED_CONTACT_ELEMENTS_2;
54    
55  MeshAdapter::MeshAdapter(Finley_Mesh* finleyMesh)  MeshAdapter::MeshAdapter(Finley_Mesh* finleyMesh)
56  {  {
57    setFunctionSpaceTypeNames();     setFunctionSpaceTypeNames();
58    //     //
59    // 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
60    // for us.     // for us.
61    m_finleyMesh.reset(finleyMesh,null_deleter());     m_finleyMesh.reset(finleyMesh,null_deleter());
62  }  }
63    
64  //  //
# Line 49  MeshAdapter::MeshAdapter(Finley_Mesh* fi Line 66  MeshAdapter::MeshAdapter(Finley_Mesh* fi
66  MeshAdapter::MeshAdapter(const MeshAdapter& in):  MeshAdapter::MeshAdapter(const MeshAdapter& in):
67  m_finleyMesh(in.m_finleyMesh)  m_finleyMesh(in.m_finleyMesh)
68  {  {
69    setFunctionSpaceTypeNames();     setFunctionSpaceTypeNames();
70  }  }
71    
72  MeshAdapter::~MeshAdapter()  MeshAdapter::~MeshAdapter()
73  {  {
74    //     //
75    // 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.
76    //  cout << "In MeshAdapter destructor." << endl;     //  cout << "In MeshAdapter destructor." << endl;
77    if (m_finleyMesh.unique()) {     if (m_finleyMesh.unique()) {
78      //   cout << "Calling dealloc." << endl;        Finley_Mesh_free(m_finleyMesh.get());
79      Finley_Mesh_dealloc(m_finleyMesh.get());     }
80      //   cout << "Finished dealloc." << endl;  }
81    }  
82    int MeshAdapter::getMPISize() const
83    {
84       return m_finleyMesh.get()->MPIInfo->size;
85    }
86    int MeshAdapter::getMPIRank() const
87    {
88       return m_finleyMesh.get()->MPIInfo->rank;
89  }  }
90    
91    
92  Finley_Mesh* MeshAdapter::getFinley_Mesh() const {  Finley_Mesh* MeshAdapter::getFinley_Mesh() const {
93     return m_finleyMesh.get();     return m_finleyMesh.get();
94  }  }
95    
96  void MeshAdapter::write(const std::string& fileName) const  void MeshAdapter::write(const std::string& fileName) const
97  {  {
98    char fName[fileName.size()+1];     char *fName = (fileName.size()+1>0) ? TMPMEMALLOC(fileName.size()+1,char) : (char*)NULL;
99    strcpy(fName,fileName.c_str());     strcpy(fName,fileName.c_str());
100    Finley_Mesh_write(m_finleyMesh.get(),fName);     Finley_Mesh_write(m_finleyMesh.get(),fName);
101    checkFinleyError();     checkFinleyError();
102       TMPMEMFREE(fName);
103    }
104    
105    void MeshAdapter::Print_Mesh_Info(const bool full=false) const
106    {
107       Finley_PrintMesh_Info(m_finleyMesh.get(), full);
108  }  }
109    
110  // void MeshAdapter::getTagList(int functionSpaceType,  void MeshAdapter::dump(const std::string& fileName) const
111  //                  int* numTags) const  {
112  // {  #ifdef USE_NETCDF
113  //   Finley_Mesh_tagList(m_finleyMesh.get(),functionSpaceType,tagList,numTags);     const NcDim* ncdims[12];
114  //   return;     NcVar *ids;
115  // }     int *int_ptr;
116       Finley_Mesh *mesh = m_finleyMesh.get();
117       Finley_TagMap* tag_map;
118       int num_Tags = 0;
119       int mpi_size             = mesh->MPIInfo->size;
120       int mpi_rank             = mesh->MPIInfo->rank;
121       int numDim               = mesh->Nodes->numDim;
122       int numNodes             = mesh->Nodes->numNodes;
123       int num_Elements         = mesh->Elements->numElements;
124       int num_FaceElements         = mesh->FaceElements->numElements;
125       int num_ContactElements      = mesh->ContactElements->numElements;
126       int num_Points           = mesh->Points->numElements;
127       int num_Elements_numNodes        = mesh->Elements->numNodes;
128       int num_FaceElements_numNodes    = mesh->FaceElements->numNodes;
129       int num_ContactElements_numNodes = mesh->ContactElements->numNodes;
130    #ifdef PASO_MPI
131       MPI_Status status;
132    #endif
133    
134    /* Incoming token indicates it's my turn to write */
135    #ifdef PASO_MPI
136       if (mpi_rank>0) MPI_Recv(&num_Tags, 0, MPI_INT, mpi_rank-1, 81800, mesh->MPIInfo->comm, &status);
137    #endif
138    
139       char *newFileName = Paso_MPI_appendRankToFileName(fileName.c_str(),
140                                                         mpi_size, mpi_rank);
141    
142       /* Figure out how much storage is required for tags */
143       tag_map = mesh->TagMap;
144       num_Tags = 0;
145       if (tag_map) {
146          while (tag_map) {
147             num_Tags++;
148             tag_map=tag_map->next;
149          }
150       }
151    
152       // NetCDF error handler
153       NcError err(NcError::verbose_nonfatal);
154       // Create the file.
155       NcFile dataFile(newFileName, NcFile::Replace);
156       // check if writing was successful
157       if (!dataFile.is_valid())
158          throw DataException("Error - MeshAdapter::dump: opening of NetCDF file for output failed: " + *newFileName);
159    
160       // Define dimensions (num_Elements and dim_Elements are identical, dim_Elements only appears if > 0)
161       if (! (ncdims[0] = dataFile.add_dim("numNodes", numNodes)) )
162          throw DataException("Error - MeshAdapter::dump: appending dimension numNodes to netCDF file failed: " + *newFileName);
163       if (! (ncdims[1] = dataFile.add_dim("numDim", numDim)) )
164          throw DataException("Error - MeshAdapter::dump: appending dimension numDim to netCDF file failed: " + *newFileName);
165       if (! (ncdims[2] = dataFile.add_dim("mpi_size_plus_1", mpi_size+1)) )
166          throw DataException("Error - MeshAdapter::dump: appending dimension mpi_size to netCDF file failed: " + *newFileName);
167       if (num_Elements>0)
168          if (! (ncdims[3] = dataFile.add_dim("dim_Elements", num_Elements)) )
169             throw DataException("Error - MeshAdapter::dump: appending dimension dim_Elements to netCDF file failed: " + *newFileName);
170       if (num_FaceElements>0)
171          if (! (ncdims[4] = dataFile.add_dim("dim_FaceElements", num_FaceElements)) )
172             throw DataException("Error - MeshAdapter::dump: appending dimension dim_FaceElements to netCDF file failed: " + *newFileName);
173       if (num_ContactElements>0)
174          if (! (ncdims[5] = dataFile.add_dim("dim_ContactElements", num_ContactElements)) )
175             throw DataException("Error - MeshAdapter::dump: appending dimension dim_ContactElements to netCDF file failed: " + *newFileName);
176       if (num_Points>0)
177          if (! (ncdims[6] = dataFile.add_dim("dim_Points", num_Points)) )
178             throw DataException("Error - MeshAdapter::dump: appending dimension dim_Points to netCDF file failed: " + *newFileName);
179       if (num_Elements>0)
180          if (! (ncdims[7] = dataFile.add_dim("dim_Elements_Nodes", num_Elements_numNodes)) )
181             throw DataException("Error - MeshAdapter::dump: appending dimension dim_Elements_Nodes to netCDF file failed: " + *newFileName);
182       if (num_FaceElements>0)
183          if (! (ncdims[8] = dataFile.add_dim("dim_FaceElements_numNodes", num_FaceElements_numNodes)) )
184             throw DataException("Error - MeshAdapter::dump: appending dimension dim_FaceElements_numNodes to netCDF file failed: " + *newFileName);
185       if (num_ContactElements>0)
186          if (! (ncdims[9] = dataFile.add_dim("dim_ContactElements_numNodes", num_ContactElements_numNodes)) )
187             throw DataException("Error - MeshAdapter::dump: appending dimension dim_ContactElements_numNodes to netCDF file failed: " + *newFileName);
188       if (num_Tags>0)
189          if (! (ncdims[10] = dataFile.add_dim("dim_Tags", num_Tags)) )
190             throw DataException("Error - MeshAdapter::dump: appending dimension dim_Tags to netCDF file failed: " + *newFileName);
191    
192       // Attributes: MPI size, MPI rank, Name, order, reduced_order
193       if (!dataFile.add_att("mpi_size", mpi_size) )
194          throw DataException("Error - MeshAdapter::dump: appending mpi_size to NetCDF file failed: " + *newFileName);
195       if (!dataFile.add_att("mpi_rank", mpi_rank) )
196          throw DataException("Error - MeshAdapter::dump: appending mpi_rank to NetCDF file failed: " + *newFileName);
197       if (!dataFile.add_att("Name",mesh->Name) )
198          throw DataException("Error - MeshAdapter::dump: appending Name to NetCDF file failed: " + *newFileName);
199       if (!dataFile.add_att("numDim",numDim) )
200          throw DataException("Error - MeshAdapter::dump: appending order to NetCDF file failed: " + *newFileName);
201       if (!dataFile.add_att("order",mesh->order) )
202          throw DataException("Error - MeshAdapter::dump: appending order to NetCDF file failed: " + *newFileName);
203       if (!dataFile.add_att("reduced_order",mesh->reduced_order) )
204          throw DataException("Error - MeshAdapter::dump: appending reduced_order to NetCDF file failed: " + *newFileName);
205       if (!dataFile.add_att("numNodes",numNodes) )
206          throw DataException("Error - MeshAdapter::dump: appending numNodes to NetCDF file failed: " + *newFileName);
207       if (!dataFile.add_att("num_Elements",num_Elements) )
208          throw DataException("Error - MeshAdapter::dump: appending num_Elements to NetCDF file failed: " + *newFileName);
209       if (!dataFile.add_att("num_FaceElements",num_FaceElements) )
210          throw DataException("Error - MeshAdapter::dump: appending num_FaceElements to NetCDF file failed: " + *newFileName);
211       if (!dataFile.add_att("num_ContactElements",num_ContactElements) )
212          throw DataException("Error - MeshAdapter::dump: appending num_ContactElements to NetCDF file failed: " + *newFileName);
213       if (!dataFile.add_att("num_Points",num_Points) )
214          throw DataException("Error - MeshAdapter::dump: appending num_Points to NetCDF file failed: " + *newFileName);
215       if (!dataFile.add_att("num_Elements_numNodes",num_Elements_numNodes) )
216          throw DataException("Error - MeshAdapter::dump: appending num_Elements_numNodes to NetCDF file failed: " + *newFileName);
217       if (!dataFile.add_att("num_FaceElements_numNodes",num_FaceElements_numNodes) )
218          throw DataException("Error - MeshAdapter::dump: appending num_FaceElements_numNodes to NetCDF file failed: " + *newFileName);
219       if (!dataFile.add_att("num_ContactElements_numNodes",num_ContactElements_numNodes) )
220          throw DataException("Error - MeshAdapter::dump: appending num_ContactElements_numNodes to NetCDF file failed: " + *newFileName);
221       if (!dataFile.add_att("Elements_TypeId", mesh->Elements->ReferenceElement->Type->TypeId) )
222          throw DataException("Error - MeshAdapter::dump: appending Elements_TypeId to NetCDF file failed: " + *newFileName);
223       if (!dataFile.add_att("FaceElements_TypeId", mesh->FaceElements->ReferenceElement->Type->TypeId) )
224          throw DataException("Error - MeshAdapter::dump: appending FaceElements_TypeId to NetCDF file failed: " + *newFileName);
225       if (!dataFile.add_att("ContactElements_TypeId", mesh->ContactElements->ReferenceElement->Type->TypeId) )
226          throw DataException("Error - MeshAdapter::dump: appending ContactElements_TypeId to NetCDF file failed: " + *newFileName);
227       if (!dataFile.add_att("Points_TypeId", mesh->Points->ReferenceElement->Type->TypeId) )
228          throw DataException("Error - MeshAdapter::dump: appending Points_TypeId to NetCDF file failed: " + *newFileName);
229       if (!dataFile.add_att("num_Tags", num_Tags) )
230          throw DataException("Error - MeshAdapter::dump: appending num_Tags to NetCDF file failed: " + *newFileName);
231    
232       // // // // // Nodes // // // // //
233    
234       // Only write nodes if non-empty because NetCDF doesn't like empty arrays (it treats them as NC_UNLIMITED)
235       if (numNodes>0) {
236    
237          // Nodes Id
238          if (! ( ids = dataFile.add_var("Nodes_Id", ncInt, ncdims[0])) )
239             throw DataException("Error - MeshAdapter::dump: appending Nodes_Id to netCDF file failed: " + *newFileName);
240          int_ptr = &mesh->Nodes->Id[0];
241          if (! (ids->put(int_ptr, numNodes)) )
242             throw DataException("Error - MeshAdapter::dump: copy Nodes_Id to netCDF buffer failed: " + *newFileName);
243    
244          // Nodes Tag
245          if (! ( ids = dataFile.add_var("Nodes_Tag", ncInt, ncdims[0])) )
246             throw DataException("Error - MeshAdapter::dump: appending Nodes_Tag to netCDF file failed: " + *newFileName);
247          int_ptr = &mesh->Nodes->Tag[0];
248          if (! (ids->put(int_ptr, numNodes)) )
249             throw DataException("Error - MeshAdapter::dump: copy Nodes_Tag to netCDF buffer failed: " + *newFileName);
250    
251          // Nodes gDOF
252          if (! ( ids = dataFile.add_var("Nodes_gDOF", ncInt, ncdims[0])) )
253             throw DataException("Error - MeshAdapter::dump: appending Nodes_gDOF to netCDF file failed: " + *newFileName);
254          int_ptr = &mesh->Nodes->globalDegreesOfFreedom[0];
255          if (! (ids->put(int_ptr, numNodes)) )
256             throw DataException("Error - MeshAdapter::dump: copy Nodes_gDOF to netCDF buffer failed: " + *newFileName);
257    
258          // Nodes global node index
259          if (! ( ids = dataFile.add_var("Nodes_gNI", ncInt, ncdims[0])) )
260             throw DataException("Error - MeshAdapter::dump: appending Nodes_gNI to netCDF file failed: " + *newFileName);
261          int_ptr = &mesh->Nodes->globalNodesIndex[0];
262          if (! (ids->put(int_ptr, numNodes)) )
263             throw DataException("Error - MeshAdapter::dump: copy Nodes_gNI to netCDF buffer failed: " + *newFileName);
264    
265          // Nodes grDof
266          if (! ( ids = dataFile.add_var("Nodes_grDfI", ncInt, ncdims[0])) )
267             throw DataException("Error - MeshAdapter::dump: appending Nodes_grDfI to netCDF file failed: " + *newFileName);
268          int_ptr = &mesh->Nodes->globalReducedDOFIndex[0];
269          if (! (ids->put(int_ptr, numNodes)) )
270             throw DataException("Error - MeshAdapter::dump: copy Nodes_grDfI to netCDF buffer failed: " + *newFileName);
271    
272          // Nodes grNI
273          if (! ( ids = dataFile.add_var("Nodes_grNI", ncInt, ncdims[0])) )
274             throw DataException("Error - MeshAdapter::dump: appending Nodes_grNI to netCDF file failed: " + *newFileName);
275          int_ptr = &mesh->Nodes->globalReducedNodesIndex[0];
276          if (! (ids->put(int_ptr, numNodes)) )
277             throw DataException("Error - MeshAdapter::dump: copy Nodes_grNI to netCDF buffer failed: " + *newFileName);
278    
279          // Nodes Coordinates
280          if (! ( ids = dataFile.add_var("Nodes_Coordinates", ncDouble, ncdims[0], ncdims[1]) ) )
281             throw DataException("Error - MeshAdapter::dump: appending Nodes_Coordinates to netCDF file failed: " + *newFileName);
282          if (! (ids->put(&(mesh->Nodes->Coordinates[INDEX2(0,0,numDim)]), numNodes, numDim)) )
283             throw DataException("Error - MeshAdapter::dump: copy Nodes_Coordinates to netCDF buffer failed: " + *newFileName);
284    
285          // Nodes degreesOfFreedomDistribution
286          if (! ( ids = dataFile.add_var("Nodes_DofDistribution", ncInt, ncdims[2])) )
287             throw DataException("Error - MeshAdapter::dump: appending Nodes_DofDistribution to netCDF file failed: " + *newFileName);
288          int_ptr = &mesh->Nodes->degreesOfFreedomDistribution->first_component[0];
289          if (! (ids->put(int_ptr, mpi_size+1)) )
290             throw DataException("Error - MeshAdapter::dump: copy Nodes_DofDistribution to netCDF buffer failed: " + *newFileName);
291    
292          // Nodes nodeDistribution
293          if (! ( ids = dataFile.add_var("Nodes_NodeDistribution", ncInt, ncdims[2])) )
294             throw DataException("Error - MeshAdapter::dump: appending Nodes_NodeDistribution to netCDF file failed: " + *newFileName);
295          int_ptr = &mesh->Nodes->nodesDistribution->first_component[0];
296          if (! (ids->put(int_ptr, mpi_size+1)) )
297             throw DataException("Error - MeshAdapter::dump: copy Nodes_NodeDistribution to netCDF buffer failed: " + *newFileName);
298    
299       }
300    
301       // // // // // Elements // // // // //
302    
303       if (num_Elements>0) {
304    
305          // Elements_Id
306          if (! ( ids = dataFile.add_var("Elements_Id", ncInt, ncdims[3])) )
307             throw DataException("Error - MeshAdapter::dump: appending Elements_Id to netCDF file failed: " + *newFileName);
308          int_ptr = &mesh->Elements->Id[0];
309          if (! (ids->put(int_ptr, num_Elements)) )
310             throw DataException("Error - MeshAdapter::dump: copy Elements_Id to netCDF buffer failed: " + *newFileName);
311    
312          // Elements_Tag
313          if (! ( ids = dataFile.add_var("Elements_Tag", ncInt, ncdims[3])) )
314             throw DataException("Error - MeshAdapter::dump: appending Elements_Tag to netCDF file failed: " + *newFileName);
315          int_ptr = &mesh->Elements->Tag[0];
316          if (! (ids->put(int_ptr, num_Elements)) )
317             throw DataException("Error - MeshAdapter::dump: copy Elements_Tag to netCDF buffer failed: " + *newFileName);
318    
319          // Elements_Owner
320          if (! ( ids = dataFile.add_var("Elements_Owner", ncInt, ncdims[3])) )
321             throw DataException("Error - MeshAdapter::dump: appending Elements_Owner to netCDF file failed: " + *newFileName);
322          int_ptr = &mesh->Elements->Owner[0];
323          if (! (ids->put(int_ptr, num_Elements)) )
324             throw DataException("Error - MeshAdapter::dump: copy Elements_Owner to netCDF buffer failed: " + *newFileName);
325    
326          // Elements_Color
327          if (! ( ids = dataFile.add_var("Elements_Color", ncInt, ncdims[3])) )
328             throw DataException("Error - MeshAdapter::dump: appending Elements_Color to netCDF file failed: " + *newFileName);
329          int_ptr = &mesh->Elements->Color[0];
330          if (! (ids->put(int_ptr, num_Elements)) )
331             throw DataException("Error - MeshAdapter::dump: copy Elements_Color to netCDF buffer failed: " + *newFileName);
332    
333          // Elements_Nodes
334          if (! ( ids = dataFile.add_var("Elements_Nodes", ncInt, ncdims[3], ncdims[7]) ) )
335             throw DataException("Error - MeshAdapter::dump: appending Elements_Nodes to netCDF file failed: " + *newFileName);
336          if (! (ids->put(&(mesh->Elements->Nodes[0]), num_Elements, num_Elements_numNodes)) )
337             throw DataException("Error - MeshAdapter::dump: copy Elements_Nodes to netCDF buffer failed: " + *newFileName);
338    
339       }
340    
341       // // // // // Face_Elements // // // // //
342    
343       if (num_FaceElements>0) {
344    
345          // FaceElements_Id
346          if (! ( ids = dataFile.add_var("FaceElements_Id", ncInt, ncdims[4])) )
347             throw DataException("Error - MeshAdapter::dump: appending FaceElements_Id to netCDF file failed: " + *newFileName);
348          int_ptr = &mesh->FaceElements->Id[0];
349          if (! (ids->put(int_ptr, num_FaceElements)) )
350             throw DataException("Error - MeshAdapter::dump: copy FaceElements_Id to netCDF buffer failed: " + *newFileName);
351    
352          // FaceElements_Tag
353          if (! ( ids = dataFile.add_var("FaceElements_Tag", ncInt, ncdims[4])) )
354             throw DataException("Error - MeshAdapter::dump: appending FaceElements_Tag to netCDF file failed: " + *newFileName);
355          int_ptr = &mesh->FaceElements->Tag[0];
356          if (! (ids->put(int_ptr, num_FaceElements)) )
357             throw DataException("Error - MeshAdapter::dump: copy FaceElements_Tag to netCDF buffer failed: " + *newFileName);
358    
359          // FaceElements_Owner
360          if (! ( ids = dataFile.add_var("FaceElements_Owner", ncInt, ncdims[4])) )
361             throw DataException("Error - MeshAdapter::dump: appending FaceElements_Owner to netCDF file failed: " + *newFileName);
362          int_ptr = &mesh->FaceElements->Owner[0];
363          if (! (ids->put(int_ptr, num_FaceElements)) )
364             throw DataException("Error - MeshAdapter::dump: copy FaceElements_Owner to netCDF buffer failed: " + *newFileName);
365    
366          // FaceElements_Color
367          if (! ( ids = dataFile.add_var("FaceElements_Color", ncInt, ncdims[4])) )
368             throw DataException("Error - MeshAdapter::dump: appending FaceElements_Color to netCDF file failed: " + *newFileName);
369          int_ptr = &mesh->FaceElements->Color[0];
370          if (! (ids->put(int_ptr, num_FaceElements)) )
371             throw DataException("Error - MeshAdapter::dump: copy FaceElements_Color to netCDF buffer failed: " + *newFileName);
372    
373          // FaceElements_Nodes
374          if (! ( ids = dataFile.add_var("FaceElements_Nodes", ncInt, ncdims[4], ncdims[8]) ) )
375             throw DataException("Error - MeshAdapter::dump: appending FaceElements_Nodes to netCDF file failed: " + *newFileName);
376          if (! (ids->put(&(mesh->FaceElements->Nodes[0]), num_FaceElements, num_FaceElements_numNodes)) )
377             throw DataException("Error - MeshAdapter::dump: copy FaceElements_Nodes to netCDF buffer failed: " + *newFileName);
378    
379       }
380    
381       // // // // // Contact_Elements // // // // //
382    
383       if (num_ContactElements>0) {
384    
385          // ContactElements_Id
386          if (! ( ids = dataFile.add_var("ContactElements_Id", ncInt, ncdims[5])) )
387             throw DataException("Error - MeshAdapter::dump: appending ContactElements_Id to netCDF file failed: " + *newFileName);
388          int_ptr = &mesh->ContactElements->Id[0];
389          if (! (ids->put(int_ptr, num_ContactElements)) )
390             throw DataException("Error - MeshAdapter::dump: copy ContactElements_Id to netCDF buffer failed: " + *newFileName);
391    
392          // ContactElements_Tag
393          if (! ( ids = dataFile.add_var("ContactElements_Tag", ncInt, ncdims[5])) )
394             throw DataException("Error - MeshAdapter::dump: appending ContactElements_Tag to netCDF file failed: " + *newFileName);
395          int_ptr = &mesh->ContactElements->Tag[0];
396          if (! (ids->put(int_ptr, num_ContactElements)) )
397             throw DataException("Error - MeshAdapter::dump: copy ContactElements_Tag to netCDF buffer failed: " + *newFileName);
398    
399          // ContactElements_Owner
400          if (! ( ids = dataFile.add_var("ContactElements_Owner", ncInt, ncdims[5])) )
401             throw DataException("Error - MeshAdapter::dump: appending ContactElements_Owner to netCDF file failed: " + *newFileName);
402          int_ptr = &mesh->ContactElements->Owner[0];
403          if (! (ids->put(int_ptr, num_ContactElements)) )
404             throw DataException("Error - MeshAdapter::dump: copy ContactElements_Owner to netCDF buffer failed: " + *newFileName);
405    
406          // ContactElements_Color
407          if (! ( ids = dataFile.add_var("ContactElements_Color", ncInt, ncdims[5])) )
408             throw DataException("Error - MeshAdapter::dump: appending ContactElements_Color to netCDF file failed: " + *newFileName);
409          int_ptr = &mesh->ContactElements->Color[0];
410          if (! (ids->put(int_ptr, num_ContactElements)) )
411             throw DataException("Error - MeshAdapter::dump: copy ContactElements_Color to netCDF buffer failed: " + *newFileName);
412    
413          // ContactElements_Nodes
414          if (! ( ids = dataFile.add_var("ContactElements_Nodes", ncInt, ncdims[5], ncdims[9]) ) )
415             throw DataException("Error - MeshAdapter::dump: appending ContactElements_Nodes to netCDF file failed: " + *newFileName);
416          if (! (ids->put(&(mesh->ContactElements->Nodes[0]), num_ContactElements, num_ContactElements_numNodes)) )
417             throw DataException("Error - MeshAdapter::dump: copy ContactElements_Nodes to netCDF buffer failed: " + *newFileName);
418    
419       }
420    
421       // // // // // Points // // // // //
422    
423       if (num_Points>0) {
424    
425          fprintf(stderr, "\n\n\nWARNING: MeshAdapter::dump has not been tested with Point elements\n\n\n");
426    
427          // Points_Id
428          if (! ( ids = dataFile.add_var("Points_Id", ncInt, ncdims[6])) )
429             throw DataException("Error - MeshAdapter::dump: appending Points_Id to netCDF file failed: " + *newFileName);
430          int_ptr = &mesh->Points->Id[0];
431          if (! (ids->put(int_ptr, num_Points)) )
432             throw DataException("Error - MeshAdapter::dump: copy Points_Id to netCDF buffer failed: " + *newFileName);
433    
434          // Points_Tag
435          if (! ( ids = dataFile.add_var("Points_Tag", ncInt, ncdims[6])) )
436             throw DataException("Error - MeshAdapter::dump: appending Points_Tag to netCDF file failed: " + *newFileName);
437          int_ptr = &mesh->Points->Tag[0];
438          if (! (ids->put(int_ptr, num_Points)) )
439             throw DataException("Error - MeshAdapter::dump: copy Points_Tag to netCDF buffer failed: " + *newFileName);
440    
441          // Points_Owner
442          if (! ( ids = dataFile.add_var("Points_Owner", ncInt, ncdims[6])) )
443             throw DataException("Error - MeshAdapter::dump: appending Points_Owner to netCDF file failed: " + *newFileName);
444          int_ptr = &mesh->Points->Owner[0];
445          if (! (ids->put(int_ptr, num_Points)) )
446             throw DataException("Error - MeshAdapter::dump: copy Points_Owner to netCDF buffer failed: " + *newFileName);
447    
448          // Points_Color
449          if (! ( ids = dataFile.add_var("Points_Color", ncInt, ncdims[6])) )
450             throw DataException("Error - MeshAdapter::dump: appending Points_Color to netCDF file failed: " + *newFileName);
451          int_ptr = &mesh->Points->Color[0];
452          if (! (ids->put(int_ptr, num_Points)) )
453             throw DataException("Error - MeshAdapter::dump: copy Points_Color to netCDF buffer failed: " + *newFileName);
454    
455          // Points_Nodes
456          // mesh->Nodes->Id[mesh->Points->Nodes[INDEX2(0,i,1)]]
457          if (! ( ids = dataFile.add_var("Points_Nodes", ncInt, ncdims[6]) ) )
458             throw DataException("Error - MeshAdapter::dump: appending Points_Nodes to netCDF file failed: " + *newFileName);
459          if (! (ids->put(&(mesh->Points->Nodes[0]), num_Points)) )
460             throw DataException("Error - MeshAdapter::dump: copy Points_Nodes to netCDF buffer failed: " + *newFileName);
461    
462       }
463    
464       // // // // // TagMap // // // // //
465    
466       if (num_Tags>0) {
467    
468          // Temp storage to gather node IDs
469          int *Tags_keys = TMPMEMALLOC(num_Tags, int);
470          char name_temp[4096];
471    
472          /* Copy tag data into temp arrays */
473          tag_map = mesh->TagMap;
474          if (tag_map) {
475             int i = 0;
476             while (tag_map) {
477                Tags_keys[i++] = tag_map->tag_key;
478                tag_map=tag_map->next;
479             }
480          }
481    
482          // Tags_keys
483          if (! ( ids = dataFile.add_var("Tags_keys", ncInt, ncdims[10])) )
484             throw DataException("Error - MeshAdapter::dump: appending Tags_keys to netCDF file failed: " + *newFileName);
485          int_ptr = &Tags_keys[0];
486          if (! (ids->put(int_ptr, num_Tags)) )
487             throw DataException("Error - MeshAdapter::dump: copy Tags_keys to netCDF buffer failed: " + *newFileName);
488    
489          // Tags_names_*
490          // This is an array of strings, it should be stored as an array but instead I have hacked in one attribute per string
491          // because the NetCDF manual doesn't tell how to do an array of strings
492          tag_map = mesh->TagMap;
493          if (tag_map) {
494             int i = 0;
495             while (tag_map) {
496                sprintf(name_temp, "Tags_name_%d", i);
497                if (!dataFile.add_att(name_temp, tag_map->name) )
498                   throw DataException("Error - MeshAdapter::dump: appending Tags_names_ to NetCDF file failed: " + *newFileName);
499                tag_map=tag_map->next;
500                i++;
501             }
502          }
503    
504          TMPMEMFREE(Tags_keys);
505    
506       }
507    
508    /* Send token to next MPI process so he can take his turn */
509    #ifdef PASO_MPI
510       if (mpi_rank<mpi_size-1) MPI_Send(&num_Tags, 0, MPI_INT, mpi_rank+1, 81800, mesh->MPIInfo->comm);
511    #endif
512    
513       // NetCDF file is closed by destructor of NcFile object
514    
515    #else
516       Finley_setError(IO_ERROR, "MeshAdapter::dump: not configured with NetCDF. Please contact your installation manager.");
517    #endif  /* USE_NETCDF */
518       checkFinleyError();
519    }
520    
521  string MeshAdapter::getDescription() const  string MeshAdapter::getDescription() const
522  {  {
523    return "FinleyMesh";     return "FinleyMesh";
524  }  }
525    
526  string MeshAdapter::functionSpaceTypeAsString(int functionSpaceType) const  string MeshAdapter::functionSpaceTypeAsString(int functionSpaceType) const
527  {  {
528    FunctionSpaceNamesMapType::iterator loc;     FunctionSpaceNamesMapType::iterator loc;
529    loc=m_functionSpaceTypeNames.find(functionSpaceType);     loc=m_functionSpaceTypeNames.find(functionSpaceType);
530    if (loc==m_functionSpaceTypeNames.end()) {     if (loc==m_functionSpaceTypeNames.end()) {
531      return "Invalid function space type code.";        return "Invalid function space type code.";
532    } else {     } else {
533      return loc->second;        return loc->second;
534    }     }
535  }  }
536    
537  bool MeshAdapter::isValidFunctionSpaceType(int functionSpaceType) const  bool MeshAdapter::isValidFunctionSpaceType(int functionSpaceType) const
538  {  {
539    FunctionSpaceNamesMapType::iterator loc;     FunctionSpaceNamesMapType::iterator loc;
540    loc=m_functionSpaceTypeNames.find(functionSpaceType);     loc=m_functionSpaceTypeNames.find(functionSpaceType);
541    return (loc!=m_functionSpaceTypeNames.end());     return (loc!=m_functionSpaceTypeNames.end());
542  }  }
543    
544  void MeshAdapter::setFunctionSpaceTypeNames()  void MeshAdapter::setFunctionSpaceTypeNames()
545  {  {
546    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
547      (FunctionSpaceNamesMapType::value_type(DegreesOfFreedom,"Finley_DegreesOfFreedom"));     (FunctionSpaceNamesMapType::value_type(DegreesOfFreedom,"Finley_DegreesOfFreedom"));
548    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
549      (FunctionSpaceNamesMapType::value_type(ReducedDegreesOfFreedom,"Finley_ReducedDegreesOfFreedom"));     (FunctionSpaceNamesMapType::value_type(ReducedDegreesOfFreedom,"Finley_ReducedDegreesOfFreedom"));
550    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
551      (FunctionSpaceNamesMapType::value_type(Nodes,"Finley_Nodes"));     (FunctionSpaceNamesMapType::value_type(Nodes,"Finley_Nodes"));
552    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
553      (FunctionSpaceNamesMapType::value_type(Elements,"Finley_Elements"));     (FunctionSpaceNamesMapType::value_type(ReducedNodes,"Finley_Reduced_Nodes"));
554    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
555      (FunctionSpaceNamesMapType::value_type(FaceElements,"Finley_Face_Elements"));     (FunctionSpaceNamesMapType::value_type(Elements,"Finley_Elements"));
556    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
557      (FunctionSpaceNamesMapType::value_type(Points,"Finley_Points"));     (FunctionSpaceNamesMapType::value_type(ReducedElements,"Finley_Reduced_Elements"));
558    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
559      (FunctionSpaceNamesMapType::value_type(ContactElementsZero,"Finley_Contact_Elements_0"));     (FunctionSpaceNamesMapType::value_type(FaceElements,"Finley_Face_Elements"));
560    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
561      (FunctionSpaceNamesMapType::value_type(ContactElementsOne,"Finley_Contact_Elements_1"));     (FunctionSpaceNamesMapType::value_type(ReducedFaceElements,"Finley_Reduced_Face_Elements"));
562       m_functionSpaceTypeNames.insert
563       (FunctionSpaceNamesMapType::value_type(Points,"Finley_Points"));
564       m_functionSpaceTypeNames.insert
565       (FunctionSpaceNamesMapType::value_type(ContactElementsZero,"Finley_Contact_Elements_0"));
566       m_functionSpaceTypeNames.insert
567       (FunctionSpaceNamesMapType::value_type(ReducedContactElementsZero,"Finley_Reduced_Contact_Elements_0"));
568       m_functionSpaceTypeNames.insert
569       (FunctionSpaceNamesMapType::value_type(ContactElementsOne,"Finley_Contact_Elements_1"));
570       m_functionSpaceTypeNames.insert
571       (FunctionSpaceNamesMapType::value_type(ReducedContactElementsOne,"Finley_Reduced_Contact_Elements_1"));
572  }  }
573    
574  int MeshAdapter::getContinuousFunctionCode() const  int MeshAdapter::getContinuousFunctionCode() const
575  {  {
576    return Nodes;     return Nodes;
577    }
578    int MeshAdapter::getReducedContinuousFunctionCode() const
579    {
580       return ReducedNodes;
581  }  }
582    
583  int MeshAdapter::getFunctionCode() const  int MeshAdapter::getFunctionCode() const
584  {  {
585    return Elements;     return Elements;
586    }
587    int MeshAdapter::getReducedFunctionCode() const
588    {
589       return ReducedElements;
590  }  }
591    
592  int MeshAdapter::getFunctionOnBoundaryCode() const  int MeshAdapter::getFunctionOnBoundaryCode() const
593  {  {
594    return FaceElements;     return FaceElements;
595    }
596    int MeshAdapter::getReducedFunctionOnBoundaryCode() const
597    {
598       return ReducedFaceElements;
599  }  }
600    
601  int MeshAdapter::getFunctionOnContactZeroCode() const  int MeshAdapter::getFunctionOnContactZeroCode() const
602  {  {
603    return ContactElementsZero;     return ContactElementsZero;
604    }
605    int MeshAdapter::getReducedFunctionOnContactZeroCode() const
606    {
607       return ReducedContactElementsZero;
608  }  }
609    
610  int MeshAdapter::getFunctionOnContactOneCode() const  int MeshAdapter::getFunctionOnContactOneCode() const
611  {  {
612    return ContactElementsOne;     return ContactElementsOne;
613    }
614    int MeshAdapter::getReducedFunctionOnContactOneCode() const
615    {
616       return ReducedContactElementsOne;
617  }  }
618    
619  int MeshAdapter::getSolutionCode() const  int MeshAdapter::getSolutionCode() const
620  {  {
621    return DegreesOfFreedom;     return DegreesOfFreedom;
622  }  }
623    
624  int MeshAdapter::getReducedSolutionCode() const  int MeshAdapter::getReducedSolutionCode() const
625  {  {
626    return ReducedDegreesOfFreedom;     return ReducedDegreesOfFreedom;
627  }  }
628    
629  int MeshAdapter::getDiracDeltaFunctionCode() const  int MeshAdapter::getDiracDeltaFunctionCode() const
630  {  {
631    return Points;     return Points;
632  }  }
633    
634  //  //
635  // returns a pointer to the tag list of samples of functionSpaceType  // return the spatial dimension of the Mesh:
 //  
 void MeshAdapter::getTagList(int functionSpaceType, int** tagList,  
                  int* numTags) const  
 {  
   *tagList=NULL;  
   *numTags=0;  
   Finley_Mesh* mesh=m_finleyMesh.get();  
   switch (functionSpaceType) {  
   case(Nodes):  
     if (mesh->Nodes!=NULL) {  
       *tagList=mesh->Nodes->Tag;  
       *numTags=mesh->Nodes->numNodes;  
     }  
     break;  
   case(Elements):  
     if (mesh->Elements!=NULL) {  
       *tagList=mesh->Elements->Tag;  
       *numTags=mesh->Elements->numElements;  
     }  
     break;  
   case(FaceElements):  
     if (mesh->FaceElements!=NULL) {  
       *tagList=mesh->FaceElements->Tag;  
       *numTags=mesh->FaceElements->numElements;  
     }  
     break;  
   case(Points):  
     if (mesh->Points!=NULL) {  
       *tagList=mesh->Points->Tag;  
       *numTags=mesh->Points->numElements;  
     }  
     break;  
   case(ContactElementsZero):  
     if (mesh->ContactElements!=NULL) {  
       *tagList=mesh->ContactElements->Tag;  
       *numTags=mesh->ContactElements->numElements;  
     }  
     break;  
   case(ContactElementsOne):  
     if (mesh->ContactElements!=NULL) {  
       *tagList=mesh->ContactElements->Tag;  
       *numTags=mesh->ContactElements->numElements;  
     }  
     break;  
   case(DegreesOfFreedom):  
     if (mesh->Nodes!=NULL) {  
       *tagList=NULL;  
       *numTags=0;  
     }  
     break;  
   case(ReducedDegreesOfFreedom):  
     if (mesh->Nodes!=NULL) {  
       *tagList=NULL;  
       *numTags=0;  
     }  
     break;  
   default:  
     stringstream temp;  
     temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();  
     throw FinleyAdapterException(temp.str());  
     break;  
   }  
   if (*tagList==NULL) {  
     stringstream temp;  
     temp << "Error - no tags available for " << functionSpaceType << " for domain: " << getDescription();  
     throw FinleyAdapterException(temp.str());  
   }  
   return;  
 }  
   
 //  
 // returns a pointer to the reference no list of samples of functionSpaceType  
636  //  //
637  void MeshAdapter::getReferenceNoList(int functionSpaceType, int** referenceNoList,  int MeshAdapter::getDim() const
                  int* numReferenceNo) const  
638  {  {
639    *referenceNoList=NULL;     int numDim=Finley_Mesh_getDim(m_finleyMesh.get());
640    *numReferenceNo=0;     checkFinleyError();
641    Finley_Mesh* mesh=m_finleyMesh.get();     return numDim;
   switch (functionSpaceType) {  
   case(Nodes):  
     if (mesh->Nodes!=NULL) {  
       *referenceNoList=mesh->Nodes->Id;  
       *numReferenceNo=mesh->Nodes->numNodes;  
     }  
     break;  
   case(Elements):  
     if (mesh->Elements!=NULL) {  
       *referenceNoList=mesh->Elements->Id;  
       *numReferenceNo=mesh->Elements->numElements;  
     }  
     break;  
   case(FaceElements):  
     if (mesh->FaceElements!=NULL) {  
       *referenceNoList=mesh->FaceElements->Id;  
       *numReferenceNo=mesh->FaceElements->numElements;  
     }  
     break;  
   case(Points):  
     if (mesh->Points!=NULL) {  
       *referenceNoList=mesh->Points->Id;  
       *numReferenceNo=mesh->Points->numElements;  
     }  
     break;  
   case(ContactElementsZero):  
     if (mesh->ContactElements!=NULL) {  
       *referenceNoList=mesh->ContactElements->Id;  
       *numReferenceNo=mesh->ContactElements->numElements;  
     }  
     break;  
   case(ContactElementsOne):  
     if (mesh->ContactElements!=NULL) {  
       *referenceNoList=mesh->ContactElements->Id;  
       *numReferenceNo=mesh->ContactElements->numElements;  
     }  
     break;  
   case(DegreesOfFreedom):  
     if (mesh->Nodes!=NULL) {  
       *referenceNoList=NULL;  
       *numReferenceNo=0;  
     }  
     break;  
   case(ReducedDegreesOfFreedom):  
     if (mesh->Nodes!=NULL) {  
       *referenceNoList=NULL;  
       *numReferenceNo=0;  
     }  
     break;  
   default:  
     stringstream temp;  
     temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();  
     throw FinleyAdapterException(temp.str());  
     break;  
   }  
   if (*referenceNoList==NULL) {  
     stringstream temp;  
     temp << "Error - reference number list available for " << functionSpaceType << " for domain: " << getDescription();  
     throw FinleyAdapterException(temp.str());  
   }  
   return;  
642  }  }
643    
644  //  //
645  // return the spatial dimension of the Mesh:  // Return the number of data points summed across all MPI processes
646  //  //
647  int MeshAdapter::getDim() const  int MeshAdapter::getNumDataPointsGlobal() const
648  {  {
649    int numDim=Finley_Mesh_getDim(m_finleyMesh.get());     return Finley_NodeFile_getGlobalNumNodes(m_finleyMesh.get()->Nodes);
   checkFinleyError();  
   return numDim;  
650  }  }
651    
652  //  //
# Line 330  pair<int,int> MeshAdapter::getDataShape( Line 659  pair<int,int> MeshAdapter::getDataShape(
659     int numSamples=0;     int numSamples=0;
660     Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
661     switch (functionSpaceCode) {     switch (functionSpaceCode) {
662        case(Nodes):     case(Nodes):
663             numDataPointsPerSample=1;     numDataPointsPerSample=1;
664             if (mesh->Nodes!=NULL) numSamples=mesh->Nodes->numNodes;     numSamples=Finley_NodeFile_getNumNodes(mesh->Nodes);
665             break;     break;
666        case(Elements):     case(ReducedNodes):
667             if (mesh->Elements!=NULL) {     numDataPointsPerSample=1;
668               numSamples=mesh->Elements->numElements;     numSamples=Finley_NodeFile_getNumReducedNodes(mesh->Nodes);
669               numDataPointsPerSample=mesh->Elements->ReferenceElement->numQuadNodes;     break;
670             }     case(Elements):
671             break;     if (mesh->Elements!=NULL) {
672        case(FaceElements):        numSamples=mesh->Elements->numElements;
673             if (mesh->FaceElements!=NULL) {        numDataPointsPerSample=mesh->Elements->ReferenceElement->numQuadNodes;
674                  numDataPointsPerSample=mesh->FaceElements->ReferenceElement->numQuadNodes;     }
675                  numSamples=mesh->FaceElements->numElements;     break;
676             }     case(ReducedElements):
677             break;     if (mesh->Elements!=NULL) {
678        case(Points):        numSamples=mesh->Elements->numElements;
679             if (mesh->Points!=NULL) {        numDataPointsPerSample=mesh->Elements->ReferenceElementReducedOrder->numQuadNodes;
680               numDataPointsPerSample=1;     }
681               numSamples=mesh->Points->numElements;     break;
682             }     case(FaceElements):
683             break;     if (mesh->FaceElements!=NULL) {
684        case(ContactElementsZero):        numDataPointsPerSample=mesh->FaceElements->ReferenceElement->numQuadNodes;
685             if (mesh->ContactElements!=NULL) {        numSamples=mesh->FaceElements->numElements;
686               numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;     }
687               numSamples=mesh->ContactElements->numElements;     break;
688             }     case(ReducedFaceElements):
689             break;     if (mesh->FaceElements!=NULL) {
690        case(ContactElementsOne):        numDataPointsPerSample=mesh->FaceElements->ReferenceElementReducedOrder->numQuadNodes;
691             if (mesh->ContactElements!=NULL) {        numSamples=mesh->FaceElements->numElements;
692               numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;     }
693               numSamples=mesh->ContactElements->numElements;     break;
694             }     case(Points):
695             break;     if (mesh->Points!=NULL) {
696        case(DegreesOfFreedom):        numDataPointsPerSample=1;
697             if (mesh->Nodes!=NULL) {        numSamples=mesh->Points->numElements;
698               numDataPointsPerSample=1;     }
699               numSamples=mesh->Nodes->numDegreesOfFreedom;     break;
700             }     case(ContactElementsZero):
701             break;     if (mesh->ContactElements!=NULL) {
702        case(ReducedDegreesOfFreedom):        numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;
703             if (mesh->Nodes!=NULL) {        numSamples=mesh->ContactElements->numElements;
704               numDataPointsPerSample=1;     }
705               numSamples=mesh->Nodes->reducedNumDegreesOfFreedom;     break;
706             }     case(ReducedContactElementsZero):
707             break;     if (mesh->ContactElements!=NULL) {
708        default:        numDataPointsPerSample=mesh->ContactElements->ReferenceElementReducedOrder->numQuadNodes;
709          stringstream temp;        numSamples=mesh->ContactElements->numElements;
710          temp << "Error - Invalid function space type: " << functionSpaceCode << " for domain: " << getDescription();     }
711          throw FinleyAdapterException(temp.str());     break;
712          break;     case(ContactElementsOne):
713        }     if (mesh->ContactElements!=NULL) {
714        return pair<int,int>(numDataPointsPerSample,numSamples);        numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;
715          numSamples=mesh->ContactElements->numElements;
716       }
717       break;
718       case(ReducedContactElementsOne):
719       if (mesh->ContactElements!=NULL) {
720          numDataPointsPerSample=mesh->ContactElements->ReferenceElementReducedOrder->numQuadNodes;
721          numSamples=mesh->ContactElements->numElements;
722       }
723       break;
724       case(DegreesOfFreedom):
725       if (mesh->Nodes!=NULL) {
726          numDataPointsPerSample=1;
727          numSamples=Finley_NodeFile_getNumDegreesOfFreedom(mesh->Nodes);
728       }
729       break;
730       case(ReducedDegreesOfFreedom):
731       if (mesh->Nodes!=NULL) {
732          numDataPointsPerSample=1;
733          numSamples=Finley_NodeFile_getNumReducedDegreesOfFreedom(mesh->Nodes);
734       }
735       break;
736       default:
737          stringstream temp;
738          temp << "Error - Invalid function space type: " << functionSpaceCode << " for domain: " << getDescription();
739          throw FinleyAdapterException(temp.str());
740          break;
741       }
742       return pair<int,int>(numDataPointsPerSample,numSamples);
743  }  }
744    
745  //  //
746  // 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:
747  //  //
748  void MeshAdapter::addPDEToSystem(  void MeshAdapter::addPDEToSystem(
749                       SystemMatrixAdapter& mat, escript::Data& rhs,                                   SystemMatrixAdapter& mat, escript::Data& rhs,
750                       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,
751                       const escript::Data& d, const escript::Data& y,                                   const escript::Data& d, const escript::Data& y,
752                       const escript::Data& d_contact,const escript::Data& y_contact) const                                   const escript::Data& d_contact,const escript::Data& y_contact) const
753  {  {
754       escriptDataC _rhs=rhs.getDataC();
755       escriptDataC _A  =A.getDataC();
756       escriptDataC _B=B.getDataC();
757       escriptDataC _C=C.getDataC();
758       escriptDataC _D=D.getDataC();
759       escriptDataC _X=X.getDataC();
760       escriptDataC _Y=Y.getDataC();
761       escriptDataC _d=d.getDataC();
762       escriptDataC _y=y.getDataC();
763       escriptDataC _d_contact=d_contact.getDataC();
764       escriptDataC _y_contact=y_contact.getDataC();
765    
766     Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
767     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,mat.getPaso_SystemMatrix(),&(rhs.getDataC()),  
768                         &(A.getDataC()),&(B.getDataC()),&(C.getDataC()),&(D.getDataC()),&(X.getDataC()),&(Y.getDataC()));     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,mat.getPaso_SystemMatrix(), &_rhs, &_A, &_B, &_C, &_D, &_X, &_Y );
769       checkFinleyError();
770    
771       Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, mat.getPaso_SystemMatrix(), &_rhs, 0, 0, 0, &_d, 0, &_y );
772       checkFinleyError();
773    
774       Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, mat.getPaso_SystemMatrix(), &_rhs , 0, 0, 0, &_d_contact, 0, &_y_contact );
775     checkFinleyError();     checkFinleyError();
776     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->FaceElements,  }
777                    mat.getPaso_SystemMatrix(),  
778                    &(rhs.getDataC()),  void  MeshAdapter::addPDEToLumpedSystem(
779                                    &(d.getDataC()),&(y.getDataC()),                                          escript::Data& mat,
780                                    Finley_Assemble_handelShapeMissMatch_Mean_out);                                          const escript::Data& D,
781     checkFinleyError();                                          const escript::Data& d) const
782     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->ContactElements,  {
783                    mat.getPaso_SystemMatrix(),     escriptDataC _mat=mat.getDataC();
784                    &(rhs.getDataC()),     escriptDataC _D=D.getDataC();
785                                    &(d_contact.getDataC()),     escriptDataC _d=d.getDataC();
786                    &(y_contact.getDataC()),  
787                                    Finley_Assemble_handelShapeMissMatch_Step_out);     Finley_Mesh* mesh=m_finleyMesh.get();
788    
789       Finley_Assemble_LumpedSystem(mesh->Nodes,mesh->Elements,&_mat, &_D);
790       Finley_Assemble_LumpedSystem(mesh->Nodes,mesh->FaceElements,&_mat, &_d);
791    
792     checkFinleyError();     checkFinleyError();
793  }  }
794    
795    
796  //  //
797  // adds linear PDE of second order into the right hand side only  // adds linear PDE of second order into the right hand side only
798  //  //
799  void MeshAdapter::addPDEToRHS( escript::Data& rhs,  void MeshAdapter::addPDEToRHS( escript::Data& rhs, const  escript::Data& X,const  escript::Data& Y, const escript::Data& y, const escript::Data& y_contact) const
                      const  escript::Data& X,const  escript::Data& Y, const escript::Data& y, const escript::Data& y_contact) const  
800  {  {
801     Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
802    
803     // Finley_Assemble_PDE_RHS(mesh->Nodes,mesh->Elements,&(rhs.getDataC()),&(X.getDataC()),&(Y.getDataC()));     escriptDataC _rhs=rhs.getDataC();
804     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,0,&(rhs.getDataC()),0,0,0,0,&(X.getDataC()),&(Y.getDataC()));     escriptDataC _X=X.getDataC();
805       escriptDataC _Y=Y.getDataC();
806       escriptDataC _y=y.getDataC();
807       escriptDataC _y_contact=y_contact.getDataC();
808    
809       Finley_Assemble_PDE(mesh->Nodes,mesh->Elements, 0, &_rhs, 0, 0, 0, 0, &_X, &_Y );
810       checkFinleyError();
811    
812       Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, 0, &_rhs, 0, 0, 0, 0, 0, &_y );
813       checkFinleyError();
814    
815       Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, 0, &_rhs , 0, 0, 0, 0, 0, &_y_contact );
816       checkFinleyError();
817    }
818    //
819    // adds PDE of second order into a transport problem
820    //
821    void MeshAdapter::addPDEToTransportProblem(
822                                               TransportProblemAdapter& tp, escript::Data& source, const escript::Data& M,
823                                               const escript::Data& A, const escript::Data& B, const escript::Data& C,
824                                               const  escript::Data& D,const  escript::Data& X,const  escript::Data& Y,
825                                               const escript::Data& d, const escript::Data& y,
826                                               const escript::Data& d_contact,const escript::Data& y_contact) const
827    {
828       DataTypes::ShapeType shape;
829       source.expand();
830       escriptDataC _source=source.getDataC();
831       escriptDataC _M=M.getDataC();
832       escriptDataC _A=A.getDataC();
833       escriptDataC _B=B.getDataC();
834       escriptDataC _C=C.getDataC();
835       escriptDataC _D=D.getDataC();
836       escriptDataC _X=X.getDataC();
837       escriptDataC _Y=Y.getDataC();
838       escriptDataC _d=d.getDataC();
839       escriptDataC _y=y.getDataC();
840       escriptDataC _d_contact=d_contact.getDataC();
841       escriptDataC _y_contact=y_contact.getDataC();
842    
843       Finley_Mesh* mesh=m_finleyMesh.get();
844       Paso_FCTransportProblem* _tp = tp.getPaso_FCTransportProblem();
845    
846       Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,_tp->mass_matrix, &_source, 0, 0, 0, &_M, 0, 0 );
847     checkFinleyError();     checkFinleyError();
848    
849     // Finley_Assemble_RobinCondition_RHS(mesh->Nodes,mesh->FaceElements,&(rhs.getDataC()),&(y.getDataC()),Finley_Assemble_handelShapeMissMatch_Mean_out);     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,_tp->transport_matrix, &_source, &_A, &_B, &_C, &_D, &_X, &_Y );
850     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->FaceElements,0,&(rhs.getDataC()),0,&(y.getDataC()),Finley_Assemble_handelShapeMissMatch_Mean_out);     checkFinleyError();
851    
852       Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, _tp->transport_matrix, &_source, 0, 0, 0, &_d, 0, &_y );
853     checkFinleyError();     checkFinleyError();
854     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->ContactElements,0,&(rhs.getDataC()),0,&(y_contact.getDataC()),Finley_Assemble_handelShapeMissMatch_Step_out);  
855     // Finley_Assemble_RobinCondition_RHS(mesh->Nodes,mesh->ContactElements,&(rhs.getDataC()),&(y_contact.getDataC()),Finley_Assemble_handelShapeMissMatch_Step_out);     Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, _tp->transport_matrix, &_source , 0, 0, 0, &_d_contact, 0, &_y_contact );
856     checkFinleyError();     checkFinleyError();
857  }  }
858    
# Line 439  void MeshAdapter::addPDEToRHS( escript:: Line 861  void MeshAdapter::addPDEToRHS( escript::
861  //  //
862  void MeshAdapter::interpolateOnDomain(escript::Data& target,const escript::Data& in) const  void MeshAdapter::interpolateOnDomain(escript::Data& target,const escript::Data& in) const
863  {  {
864    const MeshAdapter& inDomain=dynamic_cast<const MeshAdapter&>(in.getFunctionSpace().getDomain());     const MeshAdapter& inDomain=dynamic_cast<const MeshAdapter&>(in.getFunctionSpace().getDomain());
865    const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());     const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());
866    if (inDomain!=*this)     if (inDomain!=*this)  
867       throw FinleyAdapterException("Error - Illegal domain of interpolant.");        throw FinleyAdapterException("Error - Illegal domain of interpolant.");
868    if (targetDomain!=*this)     if (targetDomain!=*this)
869       throw FinleyAdapterException("Error - Illegal domain of interpolation target.");        throw FinleyAdapterException("Error - Illegal domain of interpolation target.");
870    
871    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
872    switch(in.getFunctionSpace().getTypeCode()) {     escriptDataC _target=target.getDataC();
873       case(Nodes):     escriptDataC _in=in.getDataC();
874          switch(target.getFunctionSpace().getTypeCode()) {     switch(in.getFunctionSpace().getTypeCode()) {
875             case(Nodes):     case(Nodes):
876             case(ReducedDegreesOfFreedom):     switch(target.getFunctionSpace().getTypeCode()) {
877             case(DegreesOfFreedom):     case(Nodes):
878                 Finley_Assemble_CopyNodalData(mesh->Nodes,&(target.getDataC()),&(in.getDataC()));     case(ReducedNodes):
879                 break;     case(DegreesOfFreedom):
880             case(Elements):     case(ReducedDegreesOfFreedom):
881                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&(in.getDataC()),&(target.getDataC()));     Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
882                 break;     break;
883             case(FaceElements):     case(Elements):
884                 Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&(in.getDataC()),&(target.getDataC()));     case(ReducedElements):
885                 break;     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
886             case(Points):     break;
887                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&(in.getDataC()),&(target.getDataC()));     case(FaceElements):
888                 break;     case(ReducedFaceElements):
889             case(ContactElementsZero):     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
890                 Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));     break;
891                 break;     case(Points):
892             case(ContactElementsOne):     Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
893                 Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));     break;
894                 break;     case(ContactElementsZero):
895             default:     case(ReducedContactElementsZero):
896                 stringstream temp;     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
897                 temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();     break;
898                 throw FinleyAdapterException(temp.str());     case(ContactElementsOne):
899                 break;     case(ReducedContactElementsOne):
900          }     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
901          break;     break;
902       case(Elements):     default:
903          if (target.getFunctionSpace().getTypeCode()==Elements) {        stringstream temp;
904             Finley_Assemble_CopyElementData(mesh->Elements,&(target.getDataC()),&(in.getDataC()));        temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
905          } else {        throw FinleyAdapterException(temp.str());
906             throw FinleyAdapterException("Error - No interpolation with data on elements possible.");        break;
907          }     }
908          break;     break;
909       case(FaceElements):     case(ReducedNodes):
910          if (target.getFunctionSpace().getTypeCode()==FaceElements) {     switch(target.getFunctionSpace().getTypeCode()) {
911             Finley_Assemble_CopyElementData(mesh->FaceElements,&(target.getDataC()),&(in.getDataC()));     case(Nodes):
912          } else {     case(ReducedNodes):
913             throw FinleyAdapterException("Error - No interpolation with data on face elements possible.");     case(DegreesOfFreedom):
914             break;     case(ReducedDegreesOfFreedom):
915         }     Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
916       case(Points):     break;
917          if (target.getFunctionSpace().getTypeCode()==Points) {     case(Elements):
918             Finley_Assemble_CopyElementData(mesh->Points,&(target.getDataC()),&(in.getDataC()));     case(ReducedElements):
919          } else {     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
920             throw FinleyAdapterException("Error - No interpolation with data on points possible.");     break;
921             break;     case(FaceElements):
922          }     case(ReducedFaceElements):
923          break;     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
924       case(ContactElementsZero):     break;
925       case(ContactElementsOne):     case(Points):
926          if (target.getFunctionSpace().getTypeCode()==ContactElementsZero || target.getFunctionSpace().getTypeCode()==ContactElementsOne) {     Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
927             Finley_Assemble_CopyElementData(mesh->ContactElements,&(target.getDataC()),&(in.getDataC()));     break;
928          } else {     case(ContactElementsZero):
929             throw FinleyAdapterException("Error - No interpolation with data on contact elements possible.");     case(ReducedContactElementsZero):
930             break;     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
931          }     break;
932          break;     case(ContactElementsOne):
933       case(DegreesOfFreedom):     case(ReducedContactElementsOne):
934          switch(target.getFunctionSpace().getTypeCode()) {     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
935             case(ReducedDegreesOfFreedom):     break;
936             case(DegreesOfFreedom):     default:
937             case(Nodes):        stringstream temp;
938                Finley_Assemble_CopyNodalData(mesh->Nodes,&(target.getDataC()),&(in.getDataC()));        temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
939                break;        throw FinleyAdapterException(temp.str());
940             case(Elements):        break;
941                Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&(in.getDataC()),&(target.getDataC()));     }
942                break;     break;
943             case(FaceElements):     case(Elements):
944                Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&(in.getDataC()),&(target.getDataC()));     if (target.getFunctionSpace().getTypeCode()==Elements) {
945                break;        Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);
946             case(Points):     } else if (target.getFunctionSpace().getTypeCode()==ReducedElements) {
947                Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&(in.getDataC()),&(target.getDataC()));        Finley_Assemble_AverageElementData(mesh->Elements,&_target,&_in);
948                break;     } else {
949             case(ContactElementsZero):        throw FinleyAdapterException("Error - No interpolation with data on elements possible.");
950             case(ContactElementsOne):     }
951                Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));     break;
952               break;     case(ReducedElements):
953             default:     if (target.getFunctionSpace().getTypeCode()==ReducedElements) {
954               stringstream temp;        Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);
955               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();     } else {
956               throw FinleyAdapterException(temp.str());        throw FinleyAdapterException("Error - No interpolation with data on elements with reduced integration order possible.");
957               break;     }
958          }     break;
959          break;     case(FaceElements):
960       case(ReducedDegreesOfFreedom):     if (target.getFunctionSpace().getTypeCode()==FaceElements) {
961         switch(target.getFunctionSpace().getTypeCode()) {        Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);
962            case(ReducedDegreesOfFreedom):     } else if (target.getFunctionSpace().getTypeCode()==ReducedFaceElements) {
963               Finley_Assemble_CopyNodalData(mesh->Nodes,&(target.getDataC()),&(in.getDataC()));        Finley_Assemble_AverageElementData(mesh->FaceElements,&_target,&_in);
964               break;     } else {
965            case(Elements):        throw FinleyAdapterException("Error - No interpolation with data on face elements possible.");
966               Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&(in.getDataC()),&(target.getDataC()));     }
967               break;     break;
968            case(FaceElements):     case(ReducedFaceElements):
969               Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&(in.getDataC()),&(target.getDataC()));     if (target.getFunctionSpace().getTypeCode()==ReducedFaceElements) {
970               break;        Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);
971            case(Points):     } else {
972               Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&(in.getDataC()),&(target.getDataC()));        throw FinleyAdapterException("Error - No interpolation with data on face elements with reduced integration order possible.");
973               break;     }
974            case(ContactElementsZero):     break;
975            case(ContactElementsOne):     case(Points):
976               Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));     if (target.getFunctionSpace().getTypeCode()==Points) {
977               break;        Finley_Assemble_CopyElementData(mesh->Points,&_target,&_in);
978            case(Nodes):     } else {
979               throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to mesh nodes.");        throw FinleyAdapterException("Error - No interpolation with data on points possible.");
980               break;     }
981            case(DegreesOfFreedom):     break;
982               throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to degrees of freedom");     case(ContactElementsZero):
983               break;     case(ContactElementsOne):
984            default:     if (target.getFunctionSpace().getTypeCode()==ContactElementsZero || target.getFunctionSpace().getTypeCode()==ContactElementsOne) {
985               stringstream temp;        Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);
986               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();     } else if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {
987               throw FinleyAdapterException(temp.str());        Finley_Assemble_AverageElementData(mesh->ContactElements,&_target,&_in);
988               break;     } else {
989         }        throw FinleyAdapterException("Error - No interpolation with data on contact elements possible.");
990         break;     }
991       default:     break;
992          stringstream temp;     case(ReducedContactElementsZero):
993          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type %d" << in.getFunctionSpace().getTypeCode();     case(ReducedContactElementsOne):
994          throw FinleyAdapterException(temp.str());     if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {
995          break;        Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);
996    }     } else {
997    checkFinleyError();        throw FinleyAdapterException("Error - No interpolation with data on contact elements with reduced integration order possible.");
998       }
999       break;
1000       case(DegreesOfFreedom):      
1001       switch(target.getFunctionSpace().getTypeCode()) {
1002       case(ReducedDegreesOfFreedom):
1003       case(DegreesOfFreedom):
1004       Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1005       break;
1006    
1007       case(Nodes):
1008       case(ReducedNodes):
1009       if (getMPISize()>1) {
1010          escript::Data temp=escript::Data(in);
1011          temp.expand();
1012          escriptDataC _in2 = temp.getDataC();
1013          Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in2);
1014       } else {
1015          Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1016       }
1017       break;
1018       case(Elements):
1019       case(ReducedElements):
1020       if (getMPISize()>1) {
1021          escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1022          escriptDataC _in2 = temp.getDataC();
1023          Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in2,&_target);
1024       } else {
1025          Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
1026       }
1027       break;
1028       case(FaceElements):
1029       case(ReducedFaceElements):
1030       if (getMPISize()>1) {
1031          escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1032          escriptDataC _in2 = temp.getDataC();
1033          Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in2,&_target);
1034    
1035       } else {
1036          Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
1037       }
1038       break;
1039       case(Points):
1040       if (getMPISize()>1) {
1041          escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1042          escriptDataC _in2 = temp.getDataC();
1043       } else {
1044          Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
1045       }
1046       break;
1047       case(ContactElementsZero):
1048       case(ContactElementsOne):
1049       case(ReducedContactElementsZero):
1050       case(ReducedContactElementsOne):
1051       if (getMPISize()>1) {
1052          escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1053          escriptDataC _in2 = temp.getDataC();
1054          Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in2,&_target);
1055       } else {
1056          Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
1057       }
1058       break;
1059       default:
1060          stringstream temp;
1061          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
1062          throw FinleyAdapterException(temp.str());
1063          break;
1064       }
1065       break;
1066       case(ReducedDegreesOfFreedom):
1067       switch(target.getFunctionSpace().getTypeCode()) {
1068       case(Nodes):
1069       throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to mesh nodes.");
1070       break;
1071       case(ReducedNodes):
1072       if (getMPISize()>1) {
1073          escript::Data temp=escript::Data(in);
1074          temp.expand();
1075          escriptDataC _in2 = temp.getDataC();
1076          Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in2);
1077       } else {
1078          Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1079       }
1080       break;
1081       case(DegreesOfFreedom):
1082       throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to degrees of freedom");
1083       break;
1084       case(ReducedDegreesOfFreedom):
1085       Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1086       break;
1087       case(Elements):
1088       case(ReducedElements):
1089       if (getMPISize()>1) {
1090          escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1091          escriptDataC _in2 = temp.getDataC();
1092          Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in2,&_target);
1093       } else {
1094          Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
1095       }
1096       break;
1097       case(FaceElements):
1098       case(ReducedFaceElements):
1099       if (getMPISize()>1) {
1100          escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1101          escriptDataC _in2 = temp.getDataC();
1102          Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in2,&_target);
1103       } else {
1104          Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
1105       }
1106       break;
1107       case(Points):
1108       if (getMPISize()>1) {
1109          escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1110          escriptDataC _in2 = temp.getDataC();
1111          Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in2,&_target);
1112       } else {
1113          Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
1114       }
1115       break;
1116       case(ContactElementsZero):
1117       case(ContactElementsOne):
1118       case(ReducedContactElementsZero):
1119       case(ReducedContactElementsOne):
1120       if (getMPISize()>1) {
1121          escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1122          escriptDataC _in2 = temp.getDataC();
1123          Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in2,&_target);
1124       } else {
1125          Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
1126       }
1127       break;
1128       default:
1129          stringstream temp;
1130          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
1131          throw FinleyAdapterException(temp.str());
1132          break;
1133       }
1134       break;
1135       default:
1136          stringstream temp;
1137          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type %d" << in.getFunctionSpace().getTypeCode();
1138          throw FinleyAdapterException(temp.str());
1139          break;
1140       }
1141       checkFinleyError();
1142  }  }
1143    
1144  //  //
# Line 580  void MeshAdapter::interpolateOnDomain(es Line 1146  void MeshAdapter::interpolateOnDomain(es
1146  //  //
1147  void MeshAdapter::setToX(escript::Data& arg) const  void MeshAdapter::setToX(escript::Data& arg) const
1148  {  {
1149    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());     const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());
1150    if (argDomain!=*this)     if (argDomain!=*this)
1151       throw FinleyAdapterException("Error - Illegal domain of data point locations");        throw FinleyAdapterException("Error - Illegal domain of data point locations");
1152    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
1153    // in case of values node coordinates we can do the job directly:     // in case of values node coordinates we can do the job directly:
1154    if (arg.getFunctionSpace().getTypeCode()==Nodes) {     if (arg.getFunctionSpace().getTypeCode()==Nodes) {
1155       Finley_Assemble_NodeCoordinates(mesh->Nodes,&(arg.getDataC()));        escriptDataC _arg=arg.getDataC();
1156    } else {        Finley_Assemble_NodeCoordinates(mesh->Nodes,&_arg);
1157       escript::Data tmp_data=Vector(0.0,continuousFunction(asAbstractContinuousDomain()),true);     } else {
1158       Finley_Assemble_NodeCoordinates(mesh->Nodes,&(tmp_data.getDataC()));        escript::Data tmp_data=Vector(0.0,continuousFunction(asAbstractContinuousDomain()),true);
1159       // this is then interpolated onto arg:        escriptDataC _tmp_data=tmp_data.getDataC();
1160       interpolateOnDomain(arg,tmp_data);        Finley_Assemble_NodeCoordinates(mesh->Nodes,&_tmp_data);
1161    }        // this is then interpolated onto arg:
1162    checkFinleyError();        interpolateOnDomain(arg,tmp_data);
1163       }
1164       checkFinleyError();
1165  }  }
1166    
1167  //  //
# Line 601  void MeshAdapter::setToX(escript::Data& Line 1169  void MeshAdapter::setToX(escript::Data&
1169  //  //
1170  void MeshAdapter::setToNormal(escript::Data& normal) const  void MeshAdapter::setToNormal(escript::Data& normal) const
1171  {  {
1172    const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(normal.getFunctionSpace().getDomain());     const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(normal.getFunctionSpace().getDomain());
1173    if (normalDomain!=*this)     if (normalDomain!=*this)
1174       throw FinleyAdapterException("Error - Illegal domain of normal locations");        throw FinleyAdapterException("Error - Illegal domain of normal locations");
1175    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
1176    switch(normal.getFunctionSpace().getTypeCode()) {     escriptDataC _normal=normal.getDataC();
1177      case(Nodes):     switch(normal.getFunctionSpace().getTypeCode()) {
1178        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for nodes");     case(Nodes):
1179        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for nodes");
1180      case(Elements):     break;
1181        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements");     case(ReducedNodes):
1182        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced nodes");
1183      case (FaceElements):     break;
1184        Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&(normal.getDataC()));     case(Elements):
1185        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements");
1186      case(Points):     break;
1187        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for point elements");     case(ReducedElements):
1188        break;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements with reduced integration order");
1189      case (ContactElementsOne):     break;
1190      case (ContactElementsZero):     case (FaceElements):
1191        Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&(normal.getDataC()));     Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);
1192        break;     break;
1193      case(DegreesOfFreedom):     case (ReducedFaceElements):
1194        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for degrees of freedom.");     Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);
1195        break;     break;
1196      case(ReducedDegreesOfFreedom):     case(Points):
1197        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced degrees of freedom.");     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for point elements");
1198        break;     break;
1199      default:     case (ContactElementsOne):
1200       case (ContactElementsZero):
1201       Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);
1202       break;
1203       case (ReducedContactElementsOne):
1204       case (ReducedContactElementsZero):
1205       Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);
1206       break;
1207       case(DegreesOfFreedom):
1208       throw FinleyAdapterException("Error - Finley does not support surface normal vectors for degrees of freedom.");
1209       break;
1210       case(ReducedDegreesOfFreedom):
1211       throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced degrees of freedom.");
1212       break;
1213       default:
1214        stringstream temp;        stringstream temp;
1215        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();
1216        throw FinleyAdapterException(temp.str());        throw FinleyAdapterException(temp.str());
1217        break;        break;
1218    }     }
1219    checkFinleyError();     checkFinleyError();
1220  }  }
1221    
1222  //  //
# Line 642  void MeshAdapter::setToNormal(escript::D Line 1224  void MeshAdapter::setToNormal(escript::D
1224  //  //
1225  void MeshAdapter::interpolateACross(escript::Data& target,const escript::Data& source) const  void MeshAdapter::interpolateACross(escript::Data& target,const escript::Data& source) const
1226  {  {
1227    const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());     const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());
1228    if (targetDomain!=*this)     if (targetDomain!=*this)
1229       throw FinleyAdapterException("Error - Illegal domain of interpolation target");        throw FinleyAdapterException("Error - Illegal domain of interpolation target");
1230    
1231    throw FinleyAdapterException("Error - Finley does not allow interpolation across domains yet.");     throw FinleyAdapterException("Error - Finley does not allow interpolation across domains yet.");
1232  }  }
1233    
1234  //  //
# Line 654  void MeshAdapter::interpolateACross(escr Line 1236  void MeshAdapter::interpolateACross(escr
1236  //  //
1237  void MeshAdapter::setToIntegrals(std::vector<double>& integrals,const escript::Data& arg) const  void MeshAdapter::setToIntegrals(std::vector<double>& integrals,const escript::Data& arg) const
1238  {  {
1239    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());     const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());
1240    if (argDomain!=*this)     if (argDomain!=*this)
1241       throw FinleyAdapterException("Error - Illegal domain of integration kernel");        throw FinleyAdapterException("Error - Illegal domain of integration kernel");
1242    
1243    Finley_Mesh* mesh=m_finleyMesh.get();     double blocktimer_start = blocktimer_time();
1244    switch(arg.getFunctionSpace().getTypeCode()) {     Finley_Mesh* mesh=m_finleyMesh.get();
1245       case(Nodes):     escriptDataC _temp;
1246          throw FinleyAdapterException("Error - Integral of data on nodes is not supported.");     escript::Data temp;
1247          break;     escriptDataC _arg=arg.getDataC();
1248       case(Elements):     switch(arg.getFunctionSpace().getTypeCode()) {
1249          Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&(arg.getDataC()),&integrals[0]);     case(Nodes):
1250          break;     temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1251       case(FaceElements):     _temp=temp.getDataC();
1252          Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&(arg.getDataC()),&integrals[0]);     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1253          break;     break;
1254       case(Points):     case(ReducedNodes):
1255          throw FinleyAdapterException("Error - Integral of data on points is not supported.");     temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1256          break;     _temp=temp.getDataC();
1257       case(ContactElementsZero):     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1258          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&(arg.getDataC()),&integrals[0]);     break;
1259          break;     case(Elements):
1260       case(ContactElementsOne):     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);
1261          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&(arg.getDataC()),&integrals[0]);     break;
1262          break;     case(ReducedElements):
1263       case(DegreesOfFreedom):     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);
1264          throw FinleyAdapterException("Error - Integral of data on degrees of freedom is not supported.");     break;
1265          break;     case(FaceElements):
1266       case(ReducedDegreesOfFreedom):     Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);
1267          throw FinleyAdapterException("Error - Integral of data on reduced degrees of freedom is not supported.");     break;
1268          break;     case(ReducedFaceElements):
1269       default:     Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);
1270          stringstream temp;     break;
1271          temp << "Error - Integrals: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();     case(Points):
1272          throw FinleyAdapterException(temp.str());     throw FinleyAdapterException("Error - Integral of data on points is not supported.");
1273          break;     break;
1274    }     case(ContactElementsZero):
1275    checkFinleyError();     Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1276       break;
1277       case(ReducedContactElementsZero):
1278       Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1279       break;
1280       case(ContactElementsOne):
1281       Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1282       break;
1283       case(ReducedContactElementsOne):
1284       Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1285       break;
1286       case(DegreesOfFreedom):
1287       temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1288       _temp=temp.getDataC();
1289       Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1290       break;
1291       case(ReducedDegreesOfFreedom):
1292       temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1293       _temp=temp.getDataC();
1294       Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1295       break;
1296       default:
1297          stringstream temp;
1298          temp << "Error - Integrals: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();
1299          throw FinleyAdapterException(temp.str());
1300          break;
1301       }
1302       checkFinleyError();
1303       blocktimer_increment("integrate()", blocktimer_start);
1304  }  }
1305    
1306  //  //
# Line 698  void MeshAdapter::setToIntegrals(std::ve Line 1308  void MeshAdapter::setToIntegrals(std::ve
1308  //  //
1309  void MeshAdapter::setToGradient(escript::Data& grad,const escript::Data& arg) const  void MeshAdapter::setToGradient(escript::Data& grad,const escript::Data& arg) const
1310  {  {
1311    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());     const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());
1312    if (argDomain!=*this)     if (argDomain!=*this)
1313      throw FinleyAdapterException("Error - Illegal domain of gradient argument");        throw FinleyAdapterException("Error - Illegal domain of gradient argument");
1314    const MeshAdapter& gradDomain=dynamic_cast<const MeshAdapter&>(grad.getFunctionSpace().getDomain());     const MeshAdapter& gradDomain=dynamic_cast<const MeshAdapter&>(grad.getFunctionSpace().getDomain());
1315    if (gradDomain!=*this)     if (gradDomain!=*this)
1316       throw FinleyAdapterException("Error - Illegal domain of gradient");        throw FinleyAdapterException("Error - Illegal domain of gradient");
1317    
1318    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
1319    switch(grad.getFunctionSpace().getTypeCode()) {     escriptDataC _grad=grad.getDataC();
1320         case(Nodes):     escriptDataC nodeDataC;
1321            throw FinleyAdapterException("Error - Gradient at nodes is not supported.");     escript::Data temp;
1322            break;     if (getMPISize()>1) {
1323         case(Elements):        if( arg.getFunctionSpace().getTypeCode() == DegreesOfFreedom ) {
1324            Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&(grad.getDataC()),&(arg.getDataC()));           temp=escript::Data( arg,  continuousFunction(asAbstractContinuousDomain()) );
1325            break;           nodeDataC = temp.getDataC();
1326         case(FaceElements):        } else if( arg.getFunctionSpace().getTypeCode() == ReducedDegreesOfFreedom ) {
1327            Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&(grad.getDataC()),&(arg.getDataC()));           temp=escript::Data( arg,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1328            break;           nodeDataC = temp.getDataC();
1329         case(Points):        } else {
1330            throw FinleyAdapterException("Error - Gradient at points is not supported.");           nodeDataC = arg.getDataC();
1331            break;        }
1332         case(ContactElementsZero):     } else {
1333            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&(grad.getDataC()),&(arg.getDataC()));        nodeDataC = arg.getDataC();
1334            break;     }
1335         case(ContactElementsOne):     switch(grad.getFunctionSpace().getTypeCode()) {
1336            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&(grad.getDataC()),&(arg.getDataC()));     case(Nodes):
1337            break;     throw FinleyAdapterException("Error - Gradient at nodes is not supported.");
1338         case(DegreesOfFreedom):     break;
1339            throw FinleyAdapterException("Error - Gradient at degrees of freedom is not supported.");     case(ReducedNodes):
1340            break;     throw FinleyAdapterException("Error - Gradient at reduced nodes is not supported.");
1341         case(ReducedDegreesOfFreedom):     break;
1342            throw FinleyAdapterException("Error - Gradient at reduced degrees of freedom is not supported.");     case(Elements):
1343            break;     Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);
1344         default:     break;
1345            stringstream temp;     case(ReducedElements):
1346            temp << "Error - Gradient: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();     Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);
1347            throw FinleyAdapterException(temp.str());     break;
1348            break;     case(FaceElements):
1349    }     Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);
1350    checkFinleyError();     break;
1351       case(ReducedFaceElements):
1352       Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);
1353       break;
1354       case(Points):
1355       throw FinleyAdapterException("Error - Gradient at points is not supported.");
1356       break;
1357       case(ContactElementsZero):
1358       Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1359       break;
1360       case(ReducedContactElementsZero):
1361       Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1362       break;
1363       case(ContactElementsOne):
1364       Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1365       break;
1366       case(ReducedContactElementsOne):
1367       Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1368       break;
1369       case(DegreesOfFreedom):
1370       throw FinleyAdapterException("Error - Gradient at degrees of freedom is not supported.");
1371       break;
1372       case(ReducedDegreesOfFreedom):
1373       throw FinleyAdapterException("Error - Gradient at reduced degrees of freedom is not supported.");
1374       break;
1375       default:
1376          stringstream temp;
1377          temp << "Error - Gradient: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();
1378          throw FinleyAdapterException(temp.str());
1379          break;
1380       }
1381       checkFinleyError();
1382  }  }
1383    
1384  //  //
# Line 745  void MeshAdapter::setToGradient(escript: Line 1386  void MeshAdapter::setToGradient(escript:
1386  //  //
1387  void MeshAdapter::setToSize(escript::Data& size) const  void MeshAdapter::setToSize(escript::Data& size) const
1388  {  {
1389    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
1390    escriptDataC tmp=size.getDataC();     escriptDataC tmp=size.getDataC();
1391    switch(size.getFunctionSpace().getTypeCode()) {     switch(size.getFunctionSpace().getTypeCode()) {
1392         case(Nodes):     case(Nodes):
1393            throw FinleyAdapterException("Error - Size of nodes is not supported.");     throw FinleyAdapterException("Error - Size of nodes is not supported.");
1394            break;     break;
1395         case(Elements):     case(ReducedNodes):
1396            Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);     throw FinleyAdapterException("Error - Size of reduced nodes is not supported.");
1397            break;     break;
1398         case(FaceElements):     case(Elements):
1399            Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);     Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);
1400            break;     break;
1401         case(Points):     case(ReducedElements):
1402            throw FinleyAdapterException("Error - Size of point elements is not supported.");     Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);
1403            break;     break;
1404         case(ContactElementsZero):     case(FaceElements):
1405         case(ContactElementsOne):     Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);
1406            Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);     break;
1407            break;     case(ReducedFaceElements):
1408         case(DegreesOfFreedom):     Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);
1409            throw FinleyAdapterException("Error - Size of degrees of freedom is not supported.");     break;
1410            break;     case(Points):
1411         case(ReducedDegreesOfFreedom):     throw FinleyAdapterException("Error - Size of point elements is not supported.");
1412            throw FinleyAdapterException("Error - Size of reduced degrees of freedom is not supported.");     break;
1413            break;     case(ContactElementsZero):
1414         default:     case(ContactElementsOne):
1415            stringstream temp;     Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);
1416            temp << "Error - Element size: Finley does not know anything about function space type " << size.getFunctionSpace().getTypeCode();     break;
1417            throw FinleyAdapterException(temp.str());     case(ReducedContactElementsZero):
1418            break;     case(ReducedContactElementsOne):
1419    }     Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);
1420    checkFinleyError();     break;
1421       case(DegreesOfFreedom):
1422       throw FinleyAdapterException("Error - Size of degrees of freedom is not supported.");
1423       break;
1424       case(ReducedDegreesOfFreedom):
1425       throw FinleyAdapterException("Error - Size of reduced degrees of freedom is not supported.");
1426       break;
1427       default:
1428          stringstream temp;
1429          temp << "Error - Element size: Finley does not know anything about function space type " << size.getFunctionSpace().getTypeCode();
1430          throw FinleyAdapterException(temp.str());
1431          break;
1432       }
1433       checkFinleyError();
1434  }  }
1435    
1436  // sets the location of nodes:  // sets the location of nodes:
1437  void MeshAdapter::setNewX(const escript::Data& new_x)  void MeshAdapter::setNewX(const escript::Data& new_x)
1438  {  {
1439    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
1440    const MeshAdapter& newDomain=dynamic_cast<const MeshAdapter&>(new_x.getFunctionSpace().getDomain());     escriptDataC tmp;
1441    if (newDomain!=*this)     const MeshAdapter& newDomain=dynamic_cast<const MeshAdapter&>(new_x.getFunctionSpace().getDomain());
1442       throw FinleyAdapterException("Error - Illegal domain of new point locations");     if (newDomain!=*this)
1443    Finley_Mesh_setCoordinates(mesh,&(new_x.getDataC()));        throw FinleyAdapterException("Error - Illegal domain of new point locations");
1444    checkFinleyError();     tmp = new_x.getDataC();
1445       Finley_Mesh_setCoordinates(mesh,&tmp);
1446       checkFinleyError();
1447  }  }
1448    
1449  // saves a data array in openDX format:  // saves a data array in openDX format:
1450  void MeshAdapter::saveDX(const std::string& filename,const boost::python::dict& arg) const  void MeshAdapter::saveDX(const std::string& filename,const boost::python::dict& arg) const
1451  {  {
1452      int MAX_namelength=256;     unsigned int MAX_namelength=IS_THERE_A_REASON_FOR_THIS_MAGIC_NAME_LENGTH;
1453      const int num_data=boost::python::extract<int>(arg.attr("__len__")());     const int num_data=boost::python::extract<int>(arg.attr("__len__")());
1454      char names[num_data][MAX_namelength];     /* win32 refactor */
1455      char* c_names[num_data];     char* *names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1456      escriptDataC data[num_data];     for(int i=0;i<num_data;i++)
1457      escriptDataC* ptr_data[num_data];     {
1458          names[i] = (MAX_namelength>0) ? TMPMEMALLOC(MAX_namelength,char) : (char*)NULL;
1459      boost::python::list keys=arg.keys();     }
1460      for (int i=0;i<num_data;++i) {  
1461           escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);     escriptDataC *data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC) : (escriptDataC*)NULL;
1462           if (dynamic_cast<const MeshAdapter&>(d.getFunctionSpace().getDomain()) !=*this)     escriptDataC* *ptr_data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC*) : (escriptDataC**)NULL;
1463               throw FinleyAdapterException("Error  in saveVTK: Data must be defined on same Domain");  
1464           data[i]=d.getDataC();     boost::python::list keys=arg.keys();
1465           ptr_data[i]=&(data[i]);     for (int i=0;i<num_data;++i) {
1466           std::string n=boost::python::extract<std::string>(keys[i]);        std::string n=boost::python::extract<std::string>(keys[i]);
1467           c_names[i]=&(names[i][0]);        escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);
1468           if (n.length()>MAX_namelength-1) {        if (dynamic_cast<const MeshAdapter&>(d.getFunctionSpace().getDomain()) !=*this)
1469              strncpy(c_names[i],n.c_str(),MAX_namelength-1);           throw FinleyAdapterException("Error  in saveVTK: Data must be defined on same Domain");
1470              c_names[i][MAX_namelength-1]='\0';        data[i]=d.getDataC();
1471           } else {        ptr_data[i]= &(data[i]);
1472              strcpy(c_names[i],n.c_str());        if (n.length()>MAX_namelength-1) {
1473           }           strncpy(names[i],n.c_str(),MAX_namelength-1);
1474      }           names[i][MAX_namelength-1]='\0';
1475      Finley_Mesh_saveDX(filename.c_str(),m_finleyMesh.get(),num_data,c_names,ptr_data);        } else {
1476      checkFinleyError();           strcpy(names[i],n.c_str());
1477      return;        }
1478       }
1479       Finley_Mesh_saveDX(filename.c_str(),m_finleyMesh.get(),num_data,names,ptr_data);
1480       checkFinleyError();
1481    
1482       /* win32 refactor */
1483       TMPMEMFREE(data);
1484       TMPMEMFREE(ptr_data);
1485       for(int i=0;i<num_data;i++)
1486       {
1487          TMPMEMFREE(names[i]);
1488       }
1489       TMPMEMFREE(names);
1490    
1491       return;
1492  }  }
1493    
1494  // saves a data array in openVTK format:  // saves a data array in openVTK format:
1495  void MeshAdapter::saveVTK(const std::string& filename,const boost::python::dict& arg) const  void MeshAdapter::saveVTK(const std::string& filename,const boost::python::dict& arg) const
1496  {  {
1497      int MAX_namelength=256;     unsigned int MAX_namelength=IS_THERE_A_REASON_FOR_THIS_MAGIC_NAME_LENGTH;
1498      const int num_data=boost::python::extract<int>(arg.attr("__len__")());     const int num_data=boost::python::extract<int>(arg.attr("__len__")());
1499      char names[num_data][MAX_namelength];     /* win32 refactor */
1500      char* c_names[num_data];     char* *names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1501      escriptDataC data[num_data];     for(int i=0;i<num_data;i++)
1502      escriptDataC* ptr_data[num_data];     {
1503          names[i] = (MAX_namelength>0) ? TMPMEMALLOC(MAX_namelength,char) : (char*)NULL;
1504      boost::python::list keys=arg.keys();     }
1505      for (int i=0;i<num_data;++i) {  
1506           escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);     escriptDataC *data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC) : (escriptDataC*)NULL;
1507           if (dynamic_cast<const MeshAdapter&>(d.getFunctionSpace().getDomain()) !=*this)     escriptDataC* *ptr_data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC*) : (escriptDataC**)NULL;
1508               throw FinleyAdapterException("Error  in saveVTK: Data must be defined on same Domain");  
1509           data[i]=d.getDataC();     boost::python::list keys=arg.keys();
1510           ptr_data[i]=&(data[i]);     for (int i=0;i<num_data;++i) {
1511           std::string n=boost::python::extract<std::string>(keys[i]);        std::string n=boost::python::extract<std::string>(keys[i]);
1512           c_names[i]=&(names[i][0]);        escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);
1513           if (n.length()>MAX_namelength-1) {        if (dynamic_cast<const MeshAdapter&>(d.getFunctionSpace().getDomain()) !=*this)
1514              strncpy(c_names[i],n.c_str(),MAX_namelength-1);           throw FinleyAdapterException("Error  in saveVTK: Data must be defined on same Domain");
1515              c_names[i][MAX_namelength-1]='\0';        data[i]=d.getDataC();
1516           } else {        ptr_data[i]=&(data[i]);
1517              strcpy(c_names[i],n.c_str());        if (n.length()>MAX_namelength-1) {
1518           }           strncpy(names[i],n.c_str(),MAX_namelength-1);
1519      }           names[i][MAX_namelength-1]='\0';
1520      Finley_Mesh_saveVTK(filename.c_str(),m_finleyMesh.get(),num_data,c_names,ptr_data);        } else {
1521      checkFinleyError();           strcpy(names[i],n.c_str());
1522      return;        }
1523       }
1524       Finley_Mesh_saveVTK(filename.c_str(),m_finleyMesh.get(),num_data,names,ptr_data);
1525    
1526       checkFinleyError();
1527       /* win32 refactor */
1528       TMPMEMFREE(data);
1529       TMPMEMFREE(ptr_data);
1530       for(int i=0;i<num_data;i++)
1531       {
1532          TMPMEMFREE(names[i]);
1533       }
1534       TMPMEMFREE(names);
1535    
1536       return;
1537  }  }
1538                                                                                                                                                                                                                                                                                                                                                
1539                                                                                                                                                                                                                                                                                                                                                
1540  // creates a SystemMatrixAdapter stiffness matrix an initializes it with zeros:  // creates a SystemMatrixAdapter stiffness matrix an initializes it with zeros:
1541  SystemMatrixAdapter MeshAdapter::newSystemMatrix(  SystemMatrixAdapter MeshAdapter::newSystemMatrix(
1542                        const int row_blocksize,                                                   const int row_blocksize,
1543                        const escript::FunctionSpace& row_functionspace,                                                   const escript::FunctionSpace& row_functionspace,
1544                        const int column_blocksize,                                                   const int column_blocksize,
1545                        const escript::FunctionSpace& column_functionspace,                                                   const escript::FunctionSpace& column_functionspace,
1546                        const int type) const                                                   const int type) const
1547  {  {
1548      int reduceRowOrder=0;     int reduceRowOrder=0;
1549      int reduceColOrder=0;     int reduceColOrder=0;
1550      // is the domain right?     // is the domain right?
1551      const MeshAdapter& row_domain=dynamic_cast<const MeshAdapter&>(row_functionspace.getDomain());     const MeshAdapter& row_domain=dynamic_cast<const MeshAdapter&>(row_functionspace.getDomain());
1552      if (row_domain!=*this)     if (row_domain!=*this)
1553            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.");
1554      const MeshAdapter& col_domain=dynamic_cast<const MeshAdapter&>(column_functionspace.getDomain());     const MeshAdapter& col_domain=dynamic_cast<const MeshAdapter&>(column_functionspace.getDomain());
1555      if (col_domain!=*this)     if (col_domain!=*this)
1556            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.");
1557      // is the function space type right     // is the function space type right
1558      if (row_functionspace.getTypeCode()==DegreesOfFreedom) {     if (row_functionspace.getTypeCode()==DegreesOfFreedom) {
1559          reduceRowOrder=0;        reduceRowOrder=0;
1560      } else if (row_functionspace.getTypeCode()==ReducedDegreesOfFreedom) {     } else if (row_functionspace.getTypeCode()==ReducedDegreesOfFreedom) {
1561          reduceRowOrder=1;        reduceRowOrder=1;
1562      } else {     } else {
1563          throw FinleyAdapterException("Error - illegal function space type for system matrix rows.");        throw FinleyAdapterException("Error - illegal function space type for system matrix rows.");
1564      }     }
1565      if (column_functionspace.getTypeCode()==DegreesOfFreedom) {     if (column_functionspace.getTypeCode()==DegreesOfFreedom) {
1566          reduceColOrder=0;        reduceColOrder=0;
1567      } else if (column_functionspace.getTypeCode()==ReducedDegreesOfFreedom) {     } else if (column_functionspace.getTypeCode()==ReducedDegreesOfFreedom) {
1568          reduceColOrder=1;        reduceColOrder=1;
1569      } else {     } else {
1570          throw FinleyAdapterException("Error - illegal function space type for system matrix columns.");        throw FinleyAdapterException("Error - illegal function space type for system matrix columns.");
1571      }     }
1572      // generate matrix:     // generate matrix:
1573        
1574      Paso_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceRowOrder,reduceColOrder);     Paso_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceRowOrder,reduceColOrder);
1575      checkFinleyError();     checkFinleyError();
1576      Paso_SystemMatrix* fsystemMatrix=Paso_SystemMatrix_alloc(type,fsystemMatrixPattern,row_blocksize,column_blocksize);     Paso_SystemMatrix* fsystemMatrix;
1577      checkPasoError();     int trilinos = 0;
1578      Paso_SystemMatrixPattern_dealloc(fsystemMatrixPattern);     if (trilinos) {
1579      return SystemMatrixAdapter(fsystemMatrix,row_blocksize,row_functionspace,column_blocksize,column_functionspace);  #ifdef TRILINOS
1580          /* Allocation Epetra_VrbMatrix here */
1581    #endif
1582       }
1583       else {
1584          fsystemMatrix=Paso_SystemMatrix_alloc(type,fsystemMatrixPattern,row_blocksize,column_blocksize);
1585       }
1586       checkPasoError();
1587       Paso_SystemMatrixPattern_free(fsystemMatrixPattern);
1588       return SystemMatrixAdapter(fsystemMatrix,row_blocksize,row_functionspace,column_blocksize,column_functionspace);
1589    }
1590    // creates a TransportProblemAdapter
1591    TransportProblemAdapter MeshAdapter::newTransportProblem(
1592                                                             const double theta,
1593                                                             const int blocksize,
1594                                                             const escript::FunctionSpace& functionspace,
1595                                                             const int type) const
1596    {
1597       int reduceOrder=0;
1598       // is the domain right?
1599       const MeshAdapter& domain=dynamic_cast<const MeshAdapter&>(functionspace.getDomain());
1600       if (domain!=*this)
1601          throw FinleyAdapterException("Error - domain of function space does not match the domain of transport problem generator.");
1602       // is the function space type right
1603       if (functionspace.getTypeCode()==DegreesOfFreedom) {
1604          reduceOrder=0;
1605       } else if (functionspace.getTypeCode()==ReducedDegreesOfFreedom) {
1606          reduceOrder=1;
1607       } else {
1608          throw FinleyAdapterException("Error - illegal function space type for system matrix rows.");
1609       }
1610       // generate matrix:
1611    
1612       Paso_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceOrder,reduceOrder);
1613       checkFinleyError();
1614       Paso_FCTransportProblem* transportProblem;
1615       transportProblem=Paso_FCTransportProblem_alloc(theta,fsystemMatrixPattern,blocksize);
1616       checkPasoError();
1617       Paso_SystemMatrixPattern_free(fsystemMatrixPattern);
1618       return TransportProblemAdapter(transportProblem,theta,blocksize,functionspace);
1619  }  }
1620    
1621  //  //
# Line 904  SystemMatrixAdapter MeshAdapter::newSyst Line 1627  SystemMatrixAdapter MeshAdapter::newSyst
1627  // 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:
1628  bool MeshAdapter::isCellOriented(int functionSpaceCode) const  bool MeshAdapter::isCellOriented(int functionSpaceCode) const
1629  {  {
1630    switch(functionSpaceCode) {     switch(functionSpaceCode) {
1631         case(Nodes):     case(Nodes):
1632         case(DegreesOfFreedom):     case(DegreesOfFreedom):
1633         case(ReducedDegreesOfFreedom):     case(ReducedDegreesOfFreedom):
1634            return false;     return false;
1635            break;     break;
1636         case(Elements):     case(Elements):
1637         case(FaceElements):     case(FaceElements):
1638         case(Points):     case(Points):
1639         case(ContactElementsZero):     case(ContactElementsZero):
1640         case(ContactElementsOne):     case(ContactElementsOne):
1641            return true;     case(ReducedElements):
1642            break;     case(ReducedFaceElements):
1643         default:     case(ReducedContactElementsZero):
1644            stringstream temp;     case(ReducedContactElementsOne):
1645            temp << "Error - Cell: Finley does not know anything about function space type " << functionSpaceCode;     return true;
1646            throw FinleyAdapterException(temp.str());     break;
1647            break;     default:
1648    }        stringstream temp;
1649    checkFinleyError();        temp << "Error - Cell: Finley does not know anything about function space type " << functionSpaceCode;
1650    return false;        throw FinleyAdapterException(temp.str());
1651          break;
1652       }
1653       checkFinleyError();
1654       return false;
1655  }  }
1656    
1657  bool MeshAdapter::probeInterpolationOnDomain(int functionSpaceType_source,int functionSpaceType_target) const  bool MeshAdapter::probeInterpolationOnDomain(int functionSpaceType_source,int functionSpaceType_target) const
1658  {  {
1659    switch(functionSpaceType_source) {     switch(functionSpaceType_source) {
1660       case(Nodes):     case(Nodes):
1661          switch(functionSpaceType_target) {     switch(functionSpaceType_target) {
1662             case(Nodes):     case(Nodes):
1663             case(ReducedDegreesOfFreedom):     case(ReducedNodes):
1664             case(DegreesOfFreedom):     case(ReducedDegreesOfFreedom):
1665             case(Elements):     case(DegreesOfFreedom):
1666             case(FaceElements):     case(Elements):
1667             case(Points):     case(ReducedElements):
1668             case(ContactElementsZero):     case(FaceElements):
1669             case(ContactElementsOne):     case(ReducedFaceElements):
1670                 return true;     case(Points):
1671             default:     case(ContactElementsZero):
1672                 stringstream temp;     case(ReducedContactElementsZero):
1673                 temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;     case(ContactElementsOne):
1674                 throw FinleyAdapterException(temp.str());     case(ReducedContactElementsOne):
1675          }     return true;
1676          break;     default:
1677       case(Elements):        stringstream temp;
1678          if (functionSpaceType_target==Elements) {        temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1679             return true;        throw FinleyAdapterException(temp.str());
1680          } else {     }
1681             return false;     break;
1682          }     case(ReducedNodes):
1683       case(FaceElements):     switch(functionSpaceType_target) {
1684          if (functionSpaceType_target==FaceElements) {     case(ReducedNodes):
1685             return true;     case(ReducedDegreesOfFreedom):
1686          } else {     case(Elements):
1687             return false;     case(ReducedElements):
1688          }     case(FaceElements):
1689       case(Points):     case(ReducedFaceElements):
1690          if (functionSpaceType_target==Points) {     case(Points):
1691             return true;     case(ContactElementsZero):
1692          } else {     case(ReducedContactElementsZero):
1693             return false;     case(ContactElementsOne):
1694          }     case(ReducedContactElementsOne):
1695       case(ContactElementsZero):     return true;
1696       case(ContactElementsOne):     case(Nodes):
1697          if (functionSpaceType_target==ContactElementsZero || functionSpaceType_target==ContactElementsOne) {     case(DegreesOfFreedom):
1698             return true;     return false;
1699          } else {     default:
1700             return false;        stringstream temp;
1701          }        temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1702       case(DegreesOfFreedom):        throw FinleyAdapterException(temp.str());
1703          switch(functionSpaceType_target) {     }
1704             case(ReducedDegreesOfFreedom):     break;
1705             case(DegreesOfFreedom):     case(Elements):
1706             case(Nodes):     if (functionSpaceType_target==Elements) {
1707             case(Elements):        return true;
1708             case(FaceElements):     } else if (functionSpaceType_target==ReducedElements) {
1709             case(Points):        return true;
1710             case(ContactElementsZero):     } else {
1711             case(ContactElementsOne):        return false;
1712                return true;     }
1713             default:     case(ReducedElements):
1714               stringstream temp;     if (functionSpaceType_target==ReducedElements) {
1715               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;        return true;
1716               throw FinleyAdapterException(temp.str());     } else {
1717          }        return false;
1718          break;     }
1719       case(ReducedDegreesOfFreedom):     case(FaceElements):
1720         switch(functionSpaceType_target) {     if (functionSpaceType_target==FaceElements) {
1721            case(ReducedDegreesOfFreedom):        return true;
1722            case(Elements):     } else if (functionSpaceType_target==ReducedFaceElements) {
1723            case(FaceElements):        return true;
1724            case(Points):     } else {
1725            case(ContactElementsZero):        return false;
1726            case(ContactElementsOne):     }
1727                return true;     case(ReducedFaceElements):
1728            case(Nodes):     if (functionSpaceType_target==ReducedFaceElements) {
1729            case(DegreesOfFreedom):        return true;
1730               return false;     } else {
1731            default:        return false;
1732               stringstream temp;     }
1733               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;     case(Points):
1734               throw FinleyAdapterException(temp.str());     if (functionSpaceType_target==Points) {
1735         }        return true;
1736         break;     } else {
1737       default:        return false;
1738          stringstream temp;     }
1739          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_source;     case(ContactElementsZero):
1740          throw FinleyAdapterException(temp.str());     case(ContactElementsOne):
1741          break;     if (functionSpaceType_target==ContactElementsZero || functionSpaceType_target==ContactElementsOne) {
1742    }        return true;
1743    checkFinleyError();     } else if (functionSpaceType_target==ReducedContactElementsZero || functionSpaceType_target==ReducedContactElementsOne) {
1744    return false;        return true;
1745       } else {
1746          return false;
1747       }
1748       case(ReducedContactElementsZero):
1749       case(ReducedContactElementsOne):
1750       if (functionSpaceType_target==ReducedContactElementsZero || functionSpaceType_target==ReducedContactElementsOne) {
1751          return true;
1752       } else {
1753          return false;
1754       }
1755       case(DegreesOfFreedom):
1756       switch(functionSpaceType_target) {
1757       case(ReducedDegreesOfFreedom):
1758       case(DegreesOfFreedom):
1759       case(Nodes):
1760       case(ReducedNodes):
1761       case(Elements):
1762       case(ReducedElements):
1763       case(Points):
1764       case(FaceElements):
1765       case(ReducedFaceElements):
1766       case(ContactElementsZero):
1767       case(ReducedContactElementsZero):
1768       case(ContactElementsOne):
1769       case(ReducedContactElementsOne):
1770       return true;
1771       default:
1772          stringstream temp;
1773          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1774          throw FinleyAdapterException(temp.str());
1775       }
1776       break;
1777       case(ReducedDegreesOfFreedom):
1778       switch(functionSpaceType_target) {
1779       case(ReducedDegreesOfFreedom):
1780       case(ReducedNodes):
1781       case(Elements):
1782       case(ReducedElements):
1783       case(FaceElements):
1784       case(ReducedFaceElements):
1785       case(Points):
1786       case(ContactElementsZero):
1787       case(ReducedContactElementsZero):
1788       case(ContactElementsOne):
1789       case(ReducedContactElementsOne):
1790       return true;
1791       case(Nodes):
1792       case(DegreesOfFreedom):
1793       return false;
1794       default:
1795          stringstream temp;
1796          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1797          throw FinleyAdapterException(temp.str());
1798       }
1799       break;
1800       default:
1801          stringstream temp;
1802          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_source;
1803          throw FinleyAdapterException(temp.str());
1804          break;
1805       }
1806       checkFinleyError();
1807       return false;
1808  }  }
1809    
1810  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
1811  {  {
1812      return false;     return false;
1813  }  }
1814    
1815  bool MeshAdapter::operator==(const AbstractDomain& other) const  bool MeshAdapter::operator==(const AbstractDomain& other) const
1816  {  {
1817    const MeshAdapter* temp=dynamic_cast<const MeshAdapter*>(&other);     const MeshAdapter* temp=dynamic_cast<const MeshAdapter*>(&other);
1818    if (temp!=0) {     if (temp!=0) {
1819      return (m_finleyMesh==temp->m_finleyMesh);        return (m_finleyMesh==temp->m_finleyMesh);
1820    } else {     } else {
1821      return false;        return false;
1822    }     }
1823  }  }
1824    
1825  bool MeshAdapter::operator!=(const AbstractDomain& other) const  bool MeshAdapter::operator!=(const AbstractDomain& other) const
1826  {  {
1827    return !(operator==(other));     return !(operator==(other));
1828  }  }
1829    
1830  int MeshAdapter::getSystemMatrixTypeId(const int solver, const int package, const bool symmetry) const  int MeshAdapter::getSystemMatrixTypeId(const int solver, const int package, const bool symmetry) const
# Line 1046  int MeshAdapter::getSystemMatrixTypeId(c Line 1836  int MeshAdapter::getSystemMatrixTypeId(c
1836    
1837  escript::Data MeshAdapter::getX() const  escript::Data MeshAdapter::getX() const
1838  {  {
1839    return continuousFunction(asAbstractContinuousDomain()).getX();     return continuousFunction(asAbstractContinuousDomain()).getX();
1840  }  }
1841    
1842  escript::Data MeshAdapter::getNormal() const  escript::Data MeshAdapter::getNormal() const
1843  {  {
1844    return functionOnBoundary(asAbstractContinuousDomain()).getNormal();     return functionOnBoundary(asAbstractContinuousDomain()).getNormal();
1845  }  }
1846    
1847  escript::Data MeshAdapter::getSize() const  escript::Data MeshAdapter::getSize() const
1848  {  {
1849    return function(asAbstractContinuousDomain()).getSize();     return function(asAbstractContinuousDomain()).getSize();
1850  }  }
1851    
1852    int* MeshAdapter::borrowSampleReferenceIDs(int functionSpaceType) const
1853    {
1854       int *out = NULL;
1855       Finley_Mesh* mesh=m_finleyMesh.get();
1856       switch (functionSpaceType) {
1857       case(Nodes):
1858       out=mesh->Nodes->Id;
1859       break;
1860       case(ReducedNodes):
1861       out=mesh->Nodes->reducedNodesId;
1862       break;
1863       case(Elements):
1864       out=mesh->Elements->Id;
1865       break;
1866       case(ReducedElements):
1867       out=mesh->Elements->Id;
1868       break;
1869       case(FaceElements):
1870       out=mesh->FaceElements->Id;
1871       break;
1872       case(ReducedFaceElements):
1873       out=mesh->FaceElements->Id;
1874       break;
1875       case(Points):
1876       out=mesh->Points->Id;
1877       break;
1878       case(ContactElementsZero):
1879       out=mesh->ContactElements->Id;
1880       break;
1881       case(ReducedContactElementsZero):
1882       out=mesh->ContactElements->Id;
1883       break;
1884       case(ContactElementsOne):
1885       out=mesh->ContactElements->Id;
1886       break;
1887       case(ReducedContactElementsOne):
1888       out=mesh->ContactElements->Id;
1889       break;
1890       case(DegreesOfFreedom):
1891       out=mesh->Nodes->degreesOfFreedomId;
1892       break;
1893       case(ReducedDegreesOfFreedom):
1894       out=mesh->Nodes->reducedDegreesOfFreedomId;
1895       break;
1896       default:
1897          stringstream temp;
1898          temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();
1899          throw FinleyAdapterException(temp.str());
1900          break;
1901       }
1902       return out;
1903    }
1904  int MeshAdapter::getTagFromSampleNo(int functionSpaceType, int sampleNo) const  int MeshAdapter::getTagFromSampleNo(int functionSpaceType, int sampleNo) const
1905  {  {
1906    int* tagList;     int out=0;
1907    int numTags;     Finley_Mesh* mesh=m_finleyMesh.get();
1908    getTagList(functionSpaceType, &tagList, &numTags);     switch (functionSpaceType) {
1909    return tagList[sampleNo];     case(Nodes):
1910       out=mesh->Nodes->Tag[sampleNo];
1911       break;
1912       case(ReducedNodes):
1913       throw FinleyAdapterException(" Error - ReducedNodes does not support tags.");
1914       break;
1915       case(Elements):
1916       out=mesh->Elements->Tag[sampleNo];
1917       break;
1918       case(ReducedElements):
1919       out=mesh->Elements->Tag[sampleNo];
1920       break;
1921       case(FaceElements):
1922       out=mesh->FaceElements->Tag[sampleNo];
1923       break;
1924       case(ReducedFaceElements):
1925       out=mesh->FaceElements->Tag[sampleNo];
1926       break;
1927       case(Points):
1928       out=mesh->Points->Tag[sampleNo];
1929       break;
1930       case(ContactElementsZero):
1931       out=mesh->ContactElements->Tag[sampleNo];
1932       break;
1933       case(ReducedContactElementsZero):
1934       out=mesh->ContactElements->Tag[sampleNo];
1935       break;
1936       case(ContactElementsOne):
1937       out=mesh->ContactElements->Tag[sampleNo];
1938       break;
1939       case(ReducedContactElementsOne):
1940       out=mesh->ContactElements->Tag[sampleNo];
1941       break;
1942       case(DegreesOfFreedom):
1943       throw FinleyAdapterException(" Error - DegreesOfFreedom does not support tags.");
1944       break;
1945       case(ReducedDegreesOfFreedom):
1946       throw FinleyAdapterException(" Error - ReducedDegreesOfFreedom does not support tags.");
1947       break;
1948       default:
1949          stringstream temp;
1950          temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();
1951          throw FinleyAdapterException(temp.str());
1952          break;
1953       }
1954       return out;
1955    }
1956    
1957    
1958    void MeshAdapter::setTags(const int functionSpaceType, const int newTag, const escript::Data& mask) const
1959    {
1960       Finley_Mesh* mesh=m_finleyMesh.get();
1961       escriptDataC tmp=mask.getDataC();
1962       switch(functionSpaceType) {
1963       case(Nodes):
1964       Finley_NodeFile_setTags(mesh->Nodes,newTag,&tmp);
1965       break;
1966       case(ReducedNodes):
1967       throw FinleyAdapterException("Error - ReducedNodes does not support tags");
1968       break;
1969       case(DegreesOfFreedom):
1970       throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
1971       break;
1972       case(ReducedDegreesOfFreedom):
1973       throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
1974       break;
1975       case(Elements):
1976       Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);
1977       break;
1978       case(ReducedElements):
1979       Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);
1980       break;
1981       case(FaceElements):
1982       Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);
1983       break;
1984       case(ReducedFaceElements):
1985       Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);
1986       break;
1987       case(Points):
1988       Finley_ElementFile_setTags(mesh->Points,newTag,&tmp);
1989       break;
1990       case(ContactElementsZero):
1991       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1992       break;
1993       case(ReducedContactElementsZero):
1994       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1995       break;
1996       case(ContactElementsOne):
1997       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1998       break;
1999       case(ReducedContactElementsOne):
2000       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
2001       break;
2002       default:
2003          stringstream temp;
2004          temp << "Error - Finley does not know anything about function space type " << functionSpaceType;
2005          throw FinleyAdapterException(temp.str());
2006       }
2007       checkFinleyError();
2008       return;
2009    }
2010    
2011    void MeshAdapter::setTagMap(const std::string& name,  int tag)
2012    {
2013       Finley_Mesh* mesh=m_finleyMesh.get();
2014       Finley_Mesh_addTagMap(mesh, name.c_str(),tag);
2015       checkPasoError();
2016       // throwStandardException("MeshAdapter::set TagMap is not implemented.");
2017  }  }
2018    
2019  int MeshAdapter::getReferenceNoFromSampleNo(int functionSpaceType, int sampleNo) const  int MeshAdapter::getTag(const std::string& name) const
2020  {  {
2021    int* referenceNoList;     Finley_Mesh* mesh=m_finleyMesh.get();
2022    int numReferenceNo;     int tag=0;
2023    getReferenceNoList(functionSpaceType, &referenceNoList, &numReferenceNo);     tag=Finley_Mesh_getTag(mesh, name.c_str());
2024    return referenceNoList[sampleNo];     checkPasoError();
2025       // throwStandardException("MeshAdapter::getTag is not implemented.");
2026       return tag;
2027    }
2028    
2029    bool MeshAdapter::isValidTagName(const std::string& name) const
2030    {
2031       Finley_Mesh* mesh=m_finleyMesh.get();
2032       return Finley_Mesh_isValidTagName(mesh,name.c_str());
2033  }  }
2034    
2035    std::string MeshAdapter::showTagNames() const
2036    {
2037       stringstream temp;
2038       Finley_Mesh* mesh=m_finleyMesh.get();
2039       Finley_TagMap* tag_map=mesh->TagMap;
2040       while (tag_map) {
2041          temp << tag_map->name;
2042          tag_map=tag_map->next;
2043          if (tag_map) temp << ", ";
2044       }
2045       return temp.str();
2046    }
2047    
2048    int MeshAdapter::getNumberOfTagsInUse(int functionSpaceCode) const
2049    {
2050      Finley_Mesh* mesh=m_finleyMesh.get();
2051      dim_t numTags=0;
2052      switch(functionSpaceCode) {
2053       case(Nodes):
2054              numTags=mesh->Nodes->numTagsInUse;
2055              break;
2056       case(ReducedNodes):
2057              throw FinleyAdapterException("Error - ReducedNodes does not support tags");
2058              break;
2059       case(DegreesOfFreedom):
2060              throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
2061              break;
2062       case(ReducedDegreesOfFreedom):
2063              throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
2064              break;
2065       case(Elements):
2066       case(ReducedElements):
2067              numTags=mesh->Elements->numTagsInUse;
2068              break;
2069       case(FaceElements):
2070       case(ReducedFaceElements):
2071              numTags=mesh->FaceElements->numTagsInUse;
2072              break;
2073       case(Points):
2074              numTags=mesh->Points->numTagsInUse;
2075              break;
2076       case(ContactElementsZero):
2077       case(ReducedContactElementsZero):
2078       case(ContactElementsOne):
2079       case(ReducedContactElementsOne):
2080              numTags=mesh->ContactElements->numTagsInUse;
2081              break;
2082       default:
2083          stringstream temp;
2084          temp << "Error - Finley does not know anything about function space type " << functionSpaceCode;
2085          throw FinleyAdapterException(temp.str());
2086      }
2087      return numTags;
2088    }
2089    int* MeshAdapter::borrowListOfTagsInUse(int functionSpaceCode) const
2090    {
2091      Finley_Mesh* mesh=m_finleyMesh.get();
2092      index_t* tags=NULL;
2093      switch(functionSpaceCode) {
2094       case(Nodes):
2095              tags=mesh->Nodes->tagsInUse;
2096              break;
2097       case(ReducedNodes):
2098              throw FinleyAdapterException("Error - ReducedNodes does not support tags");
2099              break;
2100       case(DegreesOfFreedom):
2101              throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
2102              break;
2103       case(ReducedDegreesOfFreedom):
2104              throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
2105              break;
2106       case(Elements):
2107       case(ReducedElements):
2108              tags=mesh->Elements->tagsInUse;
2109              break;
2110       case(FaceElements):
2111       case(ReducedFaceElements):
2112              tags=mesh->FaceElements->tagsInUse;
2113              break;
2114       case(Points):
2115              tags=mesh->Points->tagsInUse;
2116              break;
2117       case(ContactElementsZero):
2118       case(ReducedContactElementsZero):
2119       case(ContactElementsOne):
2120       case(ReducedContactElementsOne):
2121              tags=mesh->ContactElements->tagsInUse;
2122              break;
2123       default:
2124          stringstream temp;
2125          temp << "Error - Finley does not know anything about function space type " << functionSpaceCode;
2126          throw FinleyAdapterException(temp.str());
2127      }
2128      return tags;
2129    }
2130    
2131    
2132  }  // end of namespace  }  // end of namespace

Legend:
Removed from v.532  
changed lines
  Added in v.1801

  ViewVC Help
Powered by ViewVC 1.1.26