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

Diff of /branches/diaplayground/finley/src/CPPAdapter/MeshAdapter.cpp

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

trunk/esys2/finley/src/CPPAdapter/MeshAdapter.cpp revision 102 by jgs, Wed Dec 15 07:08:39 2004 UTC trunk/finley/src/CPPAdapter/MeshAdapter.cpp revision 1872 by jfenwick, Mon Oct 13 00:18:55 2008 UTC
# Line 1  Line 1 
1  // $Id$  
2  /*  /*******************************************************
3   ******************************************************************************  *
4   *                                                                            *  * Copyright (c) 2003-2008 by University of Queensland
5   *       COPYRIGHT  ACcESS 2004 -  All Rights Reserved                        *  * Earth Systems Science Computational Center (ESSCC)
6   *                                                                            *  * http://www.uq.edu.au/esscc
7   * This software is the property of ACcESS. No part of this code              *  *
8   * may be copied in any form or by any means without the expressed written    *  * Primary Business: Queensland, Australia
9   * consent of ACcESS.  Copying, use or modification of this software          *  * Licensed under the Open Software License version 3.0
10   * by any unauthorised person is illegal unless that person has a software    *  * http://www.opensource.org/licenses/osl-3.0.php
11   * license agreement with ACcESS.                                             *  *
12   *                                                                            *  *******************************************************/
13   ******************************************************************************  
14  */  
15    #include "MeshAdapter.h"
16    #include "escript/Data.h"
17    #include "escript/DataFactory.h"
18    #ifdef USE_NETCDF
19    #include <netcdfcpp.h>
20    #endif
21    #ifdef PASO_MPI
22    #include <mpi.h>
23    #include "paso/Paso_MPI.h"
24    #endif
25  extern "C" {  extern "C" {
26  #include "finley/finleyC/Finley.h"  #include "escript/blocktimer.h"
27  #include "finley/finleyC/Assemble.h"  }
 #include "finley/finleyC/Mesh.h"  
 #include "finley/finleyC/Finley.h"  
 #include "finley/finleyC/System.h"  
 }  
 #include "finley/CPPAdapter/SystemMatrixAdapter.h"  
 #include "finley/CPPAdapter/MeshAdapter.h"  
 #include "finley/CPPAdapter/FinleyError.h"  
 #include "finley/CPPAdapter/FinleyAdapterException.h"  
 #include "escript/Data/FunctionSpaceFactory.h"  
 #include "escript/Data/Data.h"  
 #include "escript/Data/DataArrayView.h"  
 #include "escript/Data/FunctionSpace.h"  
 #include "escript/Data/DataFactory.h"  
 #include <iostream>  
28  #include <vector>  #include <vector>
29  #include <sstream>  
30    #define IS_THERE_A_REASON_FOR_THIS_MAGIC_NAME_LENGTH  256
31    
32  using namespace std;  using namespace std;
33  using namespace escript;  using namespace escript;
34    
35  namespace finley {  namespace finley {
36    
 struct null_deleter  
 {  
   void operator()(void const *ptr) const  
   {  
   }  
 };  
   
37  //  //
38  // define the statics  // define the static constants
39  MeshAdapter::FunctionSpaceNamesMapType MeshAdapter::m_functionSpaceTypeNames;  MeshAdapter::FunctionSpaceNamesMapType MeshAdapter::m_functionSpaceTypeNames;
40  const int MeshAdapter::DegreesOfFreedom=FINLEY_DEGREES_OF_FREEDOM;  const int MeshAdapter::DegreesOfFreedom=FINLEY_DEGREES_OF_FREEDOM;
41  const int MeshAdapter::ReducedDegreesOfFreedom=FINLEY_REDUCED_DEGREES_OF_FREEDOM;  const int MeshAdapter::ReducedDegreesOfFreedom=FINLEY_REDUCED_DEGREES_OF_FREEDOM;
42  const int MeshAdapter::Nodes=FINLEY_NODES;  const int MeshAdapter::Nodes=FINLEY_NODES;
43    const int MeshAdapter::ReducedNodes=FINLEY_REDUCED_NODES;
44  const int MeshAdapter::Elements=FINLEY_ELEMENTS;  const int MeshAdapter::Elements=FINLEY_ELEMENTS;
45    const int MeshAdapter::ReducedElements=FINLEY_REDUCED_ELEMENTS;
46  const int MeshAdapter::FaceElements=FINLEY_FACE_ELEMENTS;  const int MeshAdapter::FaceElements=FINLEY_FACE_ELEMENTS;
47    const int MeshAdapter::ReducedFaceElements=FINLEY_REDUCED_FACE_ELEMENTS;
48  const int MeshAdapter::Points=FINLEY_POINTS;  const int MeshAdapter::Points=FINLEY_POINTS;
49  const int MeshAdapter::ContactElementsZero=FINLEY_CONTACT_ELEMENTS_1;  const int MeshAdapter::ContactElementsZero=FINLEY_CONTACT_ELEMENTS_1;
50    const int MeshAdapter::ReducedContactElementsZero=FINLEY_REDUCED_CONTACT_ELEMENTS_1;
51  const int MeshAdapter::ContactElementsOne=FINLEY_CONTACT_ELEMENTS_2;  const int MeshAdapter::ContactElementsOne=FINLEY_CONTACT_ELEMENTS_2;
52    const int MeshAdapter::ReducedContactElementsOne=FINLEY_REDUCED_CONTACT_ELEMENTS_2;
53    
54  MeshAdapter::MeshAdapter(Finley_Mesh* finleyMesh)  MeshAdapter::MeshAdapter(Finley_Mesh* finleyMesh)
55  {  {
56    setFunctionSpaceTypeNames();     setFunctionSpaceTypeNames();
57    //     //
58    // 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
59    // for us.     // for us.
60    m_finleyMesh.reset(finleyMesh,null_deleter());     m_finleyMesh.reset(finleyMesh,null_deleter());
61  }  }
62    
63  //  //
64  // The copy constructor should just increment the use count  // The copy constructor should just increment the use count
65  MeshAdapter::MeshAdapter(const MeshAdapter& in):  MeshAdapter::MeshAdapter(const MeshAdapter& in):
66  m_finleyMesh(in.m_finleyMesh)  m_finleyMesh(in.m_finleyMesh)
67  {  {
68    setFunctionSpaceTypeNames();     setFunctionSpaceTypeNames();
69  }  }
70    
71  MeshAdapter::~MeshAdapter()  MeshAdapter::~MeshAdapter()
72  {  {
73    //     //
74    // 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.
75    //  cout << "In MeshAdapter destructor." << endl;     //  cout << "In MeshAdapter destructor." << endl;
76    if (m_finleyMesh.unique()) {     if (m_finleyMesh.unique()) {
77      //   cout << "Calling dealloc." << endl;        Finley_Mesh_free(m_finleyMesh.get());
78      Finley_Mesh_dealloc(m_finleyMesh.get());     }
     //   cout << "Finished dealloc." << endl;  
   }  
79  }  }
80    
81    int MeshAdapter::getMPISize() const
82    {
83       return m_finleyMesh.get()->MPIInfo->size;
84    }
85    int MeshAdapter::getMPIRank() const
86    {
87       return m_finleyMesh.get()->MPIInfo->rank;
88    }
89    
90    
91  Finley_Mesh* MeshAdapter::getFinley_Mesh() const {  Finley_Mesh* MeshAdapter::getFinley_Mesh() const {
92     return m_finleyMesh.get();     return m_finleyMesh.get();
93  }  }
94    
95  void MeshAdapter::write(const std::string& fileName) const  void MeshAdapter::write(const std::string& fileName) const
96  {  {
97    char fName[fileName.size()+1];     char *fName = (fileName.size()+1>0) ? TMPMEMALLOC(fileName.size()+1,char) : (char*)NULL;
98    strcpy(fName,fileName.c_str());     strcpy(fName,fileName.c_str());
99    Finley_Mesh_write(m_finleyMesh.get(),fName);     Finley_Mesh_write(m_finleyMesh.get(),fName);
100    checkFinleyError();     checkFinleyError();
101       TMPMEMFREE(fName);
102  }  }
103    
104  // void MeshAdapter::getTagList(int functionSpaceType,  void MeshAdapter::Print_Mesh_Info(const bool full=false) const
105  //                  int* numTags) const  {
106  // {     Finley_PrintMesh_Info(m_finleyMesh.get(), full);
107  //   Finley_Mesh_tagList(m_finleyMesh.get(),functionSpaceType,tagList,numTags);  }
108  //   return;  
109  // }  void MeshAdapter::dump(const std::string& fileName) const
110    {
111    #ifdef USE_NETCDF
112       const NcDim* ncdims[12];
113       NcVar *ids;
114       int *int_ptr;
115       Finley_Mesh *mesh = m_finleyMesh.get();
116       Finley_TagMap* tag_map;
117       int num_Tags = 0;
118       int mpi_size             = mesh->MPIInfo->size;
119       int mpi_rank             = mesh->MPIInfo->rank;
120       int numDim               = mesh->Nodes->numDim;
121       int numNodes             = mesh->Nodes->numNodes;
122       int num_Elements         = mesh->Elements->numElements;
123       int num_FaceElements         = mesh->FaceElements->numElements;
124       int num_ContactElements      = mesh->ContactElements->numElements;
125       int num_Points           = mesh->Points->numElements;
126       int num_Elements_numNodes        = mesh->Elements->numNodes;
127       int num_FaceElements_numNodes    = mesh->FaceElements->numNodes;
128       int num_ContactElements_numNodes = mesh->ContactElements->numNodes;
129    #ifdef PASO_MPI
130       MPI_Status status;
131    #endif
132    
133    /* Incoming token indicates it's my turn to write */
134    #ifdef PASO_MPI
135       if (mpi_rank>0) MPI_Recv(&num_Tags, 0, MPI_INT, mpi_rank-1, 81800, mesh->MPIInfo->comm, &status);
136    #endif
137    
138       char *newFileName = Paso_MPI_appendRankToFileName(fileName.c_str(),
139                                                         mpi_size, mpi_rank);
140    
141       /* Figure out how much storage is required for tags */
142       tag_map = mesh->TagMap;
143       num_Tags = 0;
144       if (tag_map) {
145          while (tag_map) {
146             num_Tags++;
147             tag_map=tag_map->next;
148          }
149       }
150    
151       // NetCDF error handler
152       NcError err(NcError::verbose_nonfatal);
153       // Create the file.
154       NcFile dataFile(newFileName, NcFile::Replace);
155       // check if writing was successful
156       if (!dataFile.is_valid())
157          throw DataException("Error - MeshAdapter::dump: opening of NetCDF file for output failed: " + *newFileName);
158    
159       // Define dimensions (num_Elements and dim_Elements are identical, dim_Elements only appears if > 0)
160       if (! (ncdims[0] = dataFile.add_dim("numNodes", numNodes)) )
161          throw DataException("Error - MeshAdapter::dump: appending dimension numNodes to netCDF file failed: " + *newFileName);
162       if (! (ncdims[1] = dataFile.add_dim("numDim", numDim)) )
163          throw DataException("Error - MeshAdapter::dump: appending dimension numDim to netCDF file failed: " + *newFileName);
164       if (! (ncdims[2] = dataFile.add_dim("mpi_size_plus_1", mpi_size+1)) )
165          throw DataException("Error - MeshAdapter::dump: appending dimension mpi_size to netCDF file failed: " + *newFileName);
166       if (num_Elements>0)
167          if (! (ncdims[3] = dataFile.add_dim("dim_Elements", num_Elements)) )
168             throw DataException("Error - MeshAdapter::dump: appending dimension dim_Elements to netCDF file failed: " + *newFileName);
169       if (num_FaceElements>0)
170          if (! (ncdims[4] = dataFile.add_dim("dim_FaceElements", num_FaceElements)) )
171             throw DataException("Error - MeshAdapter::dump: appending dimension dim_FaceElements to netCDF file failed: " + *newFileName);
172       if (num_ContactElements>0)
173          if (! (ncdims[5] = dataFile.add_dim("dim_ContactElements", num_ContactElements)) )
174             throw DataException("Error - MeshAdapter::dump: appending dimension dim_ContactElements to netCDF file failed: " + *newFileName);
175       if (num_Points>0)
176          if (! (ncdims[6] = dataFile.add_dim("dim_Points", num_Points)) )
177             throw DataException("Error - MeshAdapter::dump: appending dimension dim_Points to netCDF file failed: " + *newFileName);
178       if (num_Elements>0)
179          if (! (ncdims[7] = dataFile.add_dim("dim_Elements_Nodes", num_Elements_numNodes)) )
180             throw DataException("Error - MeshAdapter::dump: appending dimension dim_Elements_Nodes to netCDF file failed: " + *newFileName);
181       if (num_FaceElements>0)
182          if (! (ncdims[8] = dataFile.add_dim("dim_FaceElements_numNodes", num_FaceElements_numNodes)) )
183             throw DataException("Error - MeshAdapter::dump: appending dimension dim_FaceElements_numNodes to netCDF file failed: " + *newFileName);
184       if (num_ContactElements>0)
185          if (! (ncdims[9] = dataFile.add_dim("dim_ContactElements_numNodes", num_ContactElements_numNodes)) )
186             throw DataException("Error - MeshAdapter::dump: appending dimension dim_ContactElements_numNodes to netCDF file failed: " + *newFileName);
187       if (num_Tags>0)
188          if (! (ncdims[10] = dataFile.add_dim("dim_Tags", num_Tags)) )
189             throw DataException("Error - MeshAdapter::dump: appending dimension dim_Tags to netCDF file failed: " + *newFileName);
190    
191       // Attributes: MPI size, MPI rank, Name, order, reduced_order
192       if (!dataFile.add_att("mpi_size", mpi_size) )
193          throw DataException("Error - MeshAdapter::dump: appending mpi_size to NetCDF file failed: " + *newFileName);
194       if (!dataFile.add_att("mpi_rank", mpi_rank) )
195          throw DataException("Error - MeshAdapter::dump: appending mpi_rank to NetCDF file failed: " + *newFileName);
196       if (!dataFile.add_att("Name",mesh->Name) )
197          throw DataException("Error - MeshAdapter::dump: appending Name to NetCDF file failed: " + *newFileName);
198       if (!dataFile.add_att("numDim",numDim) )
199          throw DataException("Error - MeshAdapter::dump: appending order to NetCDF file failed: " + *newFileName);
200       if (!dataFile.add_att("order",mesh->order) )
201          throw DataException("Error - MeshAdapter::dump: appending order to NetCDF file failed: " + *newFileName);
202       if (!dataFile.add_att("reduced_order",mesh->reduced_order) )
203          throw DataException("Error - MeshAdapter::dump: appending reduced_order to NetCDF file failed: " + *newFileName);
204       if (!dataFile.add_att("numNodes",numNodes) )
205          throw DataException("Error - MeshAdapter::dump: appending numNodes to NetCDF file failed: " + *newFileName);
206       if (!dataFile.add_att("num_Elements",num_Elements) )
207          throw DataException("Error - MeshAdapter::dump: appending num_Elements to NetCDF file failed: " + *newFileName);
208       if (!dataFile.add_att("num_FaceElements",num_FaceElements) )
209          throw DataException("Error - MeshAdapter::dump: appending num_FaceElements to NetCDF file failed: " + *newFileName);
210       if (!dataFile.add_att("num_ContactElements",num_ContactElements) )
211          throw DataException("Error - MeshAdapter::dump: appending num_ContactElements to NetCDF file failed: " + *newFileName);
212       if (!dataFile.add_att("num_Points",num_Points) )
213          throw DataException("Error - MeshAdapter::dump: appending num_Points to NetCDF file failed: " + *newFileName);
214       if (!dataFile.add_att("num_Elements_numNodes",num_Elements_numNodes) )
215          throw DataException("Error - MeshAdapter::dump: appending num_Elements_numNodes to NetCDF file failed: " + *newFileName);
216       if (!dataFile.add_att("num_FaceElements_numNodes",num_FaceElements_numNodes) )
217          throw DataException("Error - MeshAdapter::dump: appending num_FaceElements_numNodes to NetCDF file failed: " + *newFileName);
218       if (!dataFile.add_att("num_ContactElements_numNodes",num_ContactElements_numNodes) )
219          throw DataException("Error - MeshAdapter::dump: appending num_ContactElements_numNodes to NetCDF file failed: " + *newFileName);
220       if (!dataFile.add_att("Elements_TypeId", mesh->Elements->ReferenceElement->Type->TypeId) )
221          throw DataException("Error - MeshAdapter::dump: appending Elements_TypeId to NetCDF file failed: " + *newFileName);
222       if (!dataFile.add_att("FaceElements_TypeId", mesh->FaceElements->ReferenceElement->Type->TypeId) )
223          throw DataException("Error - MeshAdapter::dump: appending FaceElements_TypeId to NetCDF file failed: " + *newFileName);
224       if (!dataFile.add_att("ContactElements_TypeId", mesh->ContactElements->ReferenceElement->Type->TypeId) )
225          throw DataException("Error - MeshAdapter::dump: appending ContactElements_TypeId to NetCDF file failed: " + *newFileName);
226       if (!dataFile.add_att("Points_TypeId", mesh->Points->ReferenceElement->Type->TypeId) )
227          throw DataException("Error - MeshAdapter::dump: appending Points_TypeId to NetCDF file failed: " + *newFileName);
228       if (!dataFile.add_att("num_Tags", num_Tags) )
229          throw DataException("Error - MeshAdapter::dump: appending num_Tags to NetCDF file failed: " + *newFileName);
230    
231       // // // // // Nodes // // // // //
232    
233       // Only write nodes if non-empty because NetCDF doesn't like empty arrays (it treats them as NC_UNLIMITED)
234       if (numNodes>0) {
235    
236          // Nodes Id
237          if (! ( ids = dataFile.add_var("Nodes_Id", ncInt, ncdims[0])) )
238             throw DataException("Error - MeshAdapter::dump: appending Nodes_Id to netCDF file failed: " + *newFileName);
239          int_ptr = &mesh->Nodes->Id[0];
240          if (! (ids->put(int_ptr, numNodes)) )
241             throw DataException("Error - MeshAdapter::dump: copy Nodes_Id to netCDF buffer failed: " + *newFileName);
242    
243          // Nodes Tag
244          if (! ( ids = dataFile.add_var("Nodes_Tag", ncInt, ncdims[0])) )
245             throw DataException("Error - MeshAdapter::dump: appending Nodes_Tag to netCDF file failed: " + *newFileName);
246          int_ptr = &mesh->Nodes->Tag[0];
247          if (! (ids->put(int_ptr, numNodes)) )
248             throw DataException("Error - MeshAdapter::dump: copy Nodes_Tag to netCDF buffer failed: " + *newFileName);
249    
250          // Nodes gDOF
251          if (! ( ids = dataFile.add_var("Nodes_gDOF", ncInt, ncdims[0])) )
252             throw DataException("Error - MeshAdapter::dump: appending Nodes_gDOF to netCDF file failed: " + *newFileName);
253          int_ptr = &mesh->Nodes->globalDegreesOfFreedom[0];
254          if (! (ids->put(int_ptr, numNodes)) )
255             throw DataException("Error - MeshAdapter::dump: copy Nodes_gDOF to netCDF buffer failed: " + *newFileName);
256    
257          // Nodes global node index
258          if (! ( ids = dataFile.add_var("Nodes_gNI", ncInt, ncdims[0])) )
259             throw DataException("Error - MeshAdapter::dump: appending Nodes_gNI to netCDF file failed: " + *newFileName);
260          int_ptr = &mesh->Nodes->globalNodesIndex[0];
261          if (! (ids->put(int_ptr, numNodes)) )
262             throw DataException("Error - MeshAdapter::dump: copy Nodes_gNI to netCDF buffer failed: " + *newFileName);
263    
264          // Nodes grDof
265          if (! ( ids = dataFile.add_var("Nodes_grDfI", ncInt, ncdims[0])) )
266             throw DataException("Error - MeshAdapter::dump: appending Nodes_grDfI to netCDF file failed: " + *newFileName);
267          int_ptr = &mesh->Nodes->globalReducedDOFIndex[0];
268          if (! (ids->put(int_ptr, numNodes)) )
269             throw DataException("Error - MeshAdapter::dump: copy Nodes_grDfI to netCDF buffer failed: " + *newFileName);
270    
271          // Nodes grNI
272          if (! ( ids = dataFile.add_var("Nodes_grNI", ncInt, ncdims[0])) )
273             throw DataException("Error - MeshAdapter::dump: appending Nodes_grNI to netCDF file failed: " + *newFileName);
274          int_ptr = &mesh->Nodes->globalReducedNodesIndex[0];
275          if (! (ids->put(int_ptr, numNodes)) )
276             throw DataException("Error - MeshAdapter::dump: copy Nodes_grNI to netCDF buffer failed: " + *newFileName);
277    
278          // Nodes Coordinates
279          if (! ( ids = dataFile.add_var("Nodes_Coordinates", ncDouble, ncdims[0], ncdims[1]) ) )
280             throw DataException("Error - MeshAdapter::dump: appending Nodes_Coordinates to netCDF file failed: " + *newFileName);
281          if (! (ids->put(&(mesh->Nodes->Coordinates[INDEX2(0,0,numDim)]), numNodes, numDim)) )
282             throw DataException("Error - MeshAdapter::dump: copy Nodes_Coordinates to netCDF buffer failed: " + *newFileName);
283    
284          // Nodes degreesOfFreedomDistribution
285          if (! ( ids = dataFile.add_var("Nodes_DofDistribution", ncInt, ncdims[2])) )
286             throw DataException("Error - MeshAdapter::dump: appending Nodes_DofDistribution to netCDF file failed: " + *newFileName);
287          int_ptr = &mesh->Nodes->degreesOfFreedomDistribution->first_component[0];
288          if (! (ids->put(int_ptr, mpi_size+1)) )
289             throw DataException("Error - MeshAdapter::dump: copy Nodes_DofDistribution to netCDF buffer failed: " + *newFileName);
290    
291          // Nodes nodeDistribution
292          if (! ( ids = dataFile.add_var("Nodes_NodeDistribution", ncInt, ncdims[2])) )
293             throw DataException("Error - MeshAdapter::dump: appending Nodes_NodeDistribution to netCDF file failed: " + *newFileName);
294          int_ptr = &mesh->Nodes->nodesDistribution->first_component[0];
295          if (! (ids->put(int_ptr, mpi_size+1)) )
296             throw DataException("Error - MeshAdapter::dump: copy Nodes_NodeDistribution to netCDF buffer failed: " + *newFileName);
297    
298       }
299    
300       // // // // // Elements // // // // //
301    
302       if (num_Elements>0) {
303    
304          // Elements_Id
305          if (! ( ids = dataFile.add_var("Elements_Id", ncInt, ncdims[3])) )
306             throw DataException("Error - MeshAdapter::dump: appending Elements_Id to netCDF file failed: " + *newFileName);
307          int_ptr = &mesh->Elements->Id[0];
308          if (! (ids->put(int_ptr, num_Elements)) )
309             throw DataException("Error - MeshAdapter::dump: copy Elements_Id to netCDF buffer failed: " + *newFileName);
310    
311          // Elements_Tag
312          if (! ( ids = dataFile.add_var("Elements_Tag", ncInt, ncdims[3])) )
313             throw DataException("Error - MeshAdapter::dump: appending Elements_Tag to netCDF file failed: " + *newFileName);
314          int_ptr = &mesh->Elements->Tag[0];
315          if (! (ids->put(int_ptr, num_Elements)) )
316             throw DataException("Error - MeshAdapter::dump: copy Elements_Tag to netCDF buffer failed: " + *newFileName);
317    
318          // Elements_Owner
319          if (! ( ids = dataFile.add_var("Elements_Owner", ncInt, ncdims[3])) )
320             throw DataException("Error - MeshAdapter::dump: appending Elements_Owner to netCDF file failed: " + *newFileName);
321          int_ptr = &mesh->Elements->Owner[0];
322          if (! (ids->put(int_ptr, num_Elements)) )
323             throw DataException("Error - MeshAdapter::dump: copy Elements_Owner to netCDF buffer failed: " + *newFileName);
324    
325          // Elements_Color
326          if (! ( ids = dataFile.add_var("Elements_Color", ncInt, ncdims[3])) )
327             throw DataException("Error - MeshAdapter::dump: appending Elements_Color to netCDF file failed: " + *newFileName);
328          int_ptr = &mesh->Elements->Color[0];
329          if (! (ids->put(int_ptr, num_Elements)) )
330             throw DataException("Error - MeshAdapter::dump: copy Elements_Color to netCDF buffer failed: " + *newFileName);
331    
332          // Elements_Nodes
333          if (! ( ids = dataFile.add_var("Elements_Nodes", ncInt, ncdims[3], ncdims[7]) ) )
334             throw DataException("Error - MeshAdapter::dump: appending Elements_Nodes to netCDF file failed: " + *newFileName);
335          if (! (ids->put(&(mesh->Elements->Nodes[0]), num_Elements, num_Elements_numNodes)) )
336             throw DataException("Error - MeshAdapter::dump: copy Elements_Nodes to netCDF buffer failed: " + *newFileName);
337    
338       }
339    
340       // // // // // Face_Elements // // // // //
341    
342       if (num_FaceElements>0) {
343    
344          // FaceElements_Id
345          if (! ( ids = dataFile.add_var("FaceElements_Id", ncInt, ncdims[4])) )
346             throw DataException("Error - MeshAdapter::dump: appending FaceElements_Id to netCDF file failed: " + *newFileName);
347          int_ptr = &mesh->FaceElements->Id[0];
348          if (! (ids->put(int_ptr, num_FaceElements)) )
349             throw DataException("Error - MeshAdapter::dump: copy FaceElements_Id to netCDF buffer failed: " + *newFileName);
350    
351          // FaceElements_Tag
352          if (! ( ids = dataFile.add_var("FaceElements_Tag", ncInt, ncdims[4])) )
353             throw DataException("Error - MeshAdapter::dump: appending FaceElements_Tag to netCDF file failed: " + *newFileName);
354          int_ptr = &mesh->FaceElements->Tag[0];
355          if (! (ids->put(int_ptr, num_FaceElements)) )
356             throw DataException("Error - MeshAdapter::dump: copy FaceElements_Tag to netCDF buffer failed: " + *newFileName);
357    
358          // FaceElements_Owner
359          if (! ( ids = dataFile.add_var("FaceElements_Owner", ncInt, ncdims[4])) )
360             throw DataException("Error - MeshAdapter::dump: appending FaceElements_Owner to netCDF file failed: " + *newFileName);
361          int_ptr = &mesh->FaceElements->Owner[0];
362          if (! (ids->put(int_ptr, num_FaceElements)) )
363             throw DataException("Error - MeshAdapter::dump: copy FaceElements_Owner to netCDF buffer failed: " + *newFileName);
364    
365          // FaceElements_Color
366          if (! ( ids = dataFile.add_var("FaceElements_Color", ncInt, ncdims[4])) )
367             throw DataException("Error - MeshAdapter::dump: appending FaceElements_Color to netCDF file failed: " + *newFileName);
368          int_ptr = &mesh->FaceElements->Color[0];
369          if (! (ids->put(int_ptr, num_FaceElements)) )
370             throw DataException("Error - MeshAdapter::dump: copy FaceElements_Color to netCDF buffer failed: " + *newFileName);
371    
372          // FaceElements_Nodes
373          if (! ( ids = dataFile.add_var("FaceElements_Nodes", ncInt, ncdims[4], ncdims[8]) ) )
374             throw DataException("Error - MeshAdapter::dump: appending FaceElements_Nodes to netCDF file failed: " + *newFileName);
375          if (! (ids->put(&(mesh->FaceElements->Nodes[0]), num_FaceElements, num_FaceElements_numNodes)) )
376             throw DataException("Error - MeshAdapter::dump: copy FaceElements_Nodes to netCDF buffer failed: " + *newFileName);
377    
378       }
379    
380       // // // // // Contact_Elements // // // // //
381    
382       if (num_ContactElements>0) {
383    
384          // ContactElements_Id
385          if (! ( ids = dataFile.add_var("ContactElements_Id", ncInt, ncdims[5])) )
386             throw DataException("Error - MeshAdapter::dump: appending ContactElements_Id to netCDF file failed: " + *newFileName);
387          int_ptr = &mesh->ContactElements->Id[0];
388          if (! (ids->put(int_ptr, num_ContactElements)) )
389             throw DataException("Error - MeshAdapter::dump: copy ContactElements_Id to netCDF buffer failed: " + *newFileName);
390    
391          // ContactElements_Tag
392          if (! ( ids = dataFile.add_var("ContactElements_Tag", ncInt, ncdims[5])) )
393             throw DataException("Error - MeshAdapter::dump: appending ContactElements_Tag to netCDF file failed: " + *newFileName);
394          int_ptr = &mesh->ContactElements->Tag[0];
395          if (! (ids->put(int_ptr, num_ContactElements)) )
396             throw DataException("Error - MeshAdapter::dump: copy ContactElements_Tag to netCDF buffer failed: " + *newFileName);
397    
398          // ContactElements_Owner
399          if (! ( ids = dataFile.add_var("ContactElements_Owner", ncInt, ncdims[5])) )
400             throw DataException("Error - MeshAdapter::dump: appending ContactElements_Owner to netCDF file failed: " + *newFileName);
401          int_ptr = &mesh->ContactElements->Owner[0];
402          if (! (ids->put(int_ptr, num_ContactElements)) )
403             throw DataException("Error - MeshAdapter::dump: copy ContactElements_Owner to netCDF buffer failed: " + *newFileName);
404    
405          // ContactElements_Color
406          if (! ( ids = dataFile.add_var("ContactElements_Color", ncInt, ncdims[5])) )
407             throw DataException("Error - MeshAdapter::dump: appending ContactElements_Color to netCDF file failed: " + *newFileName);
408          int_ptr = &mesh->ContactElements->Color[0];
409          if (! (ids->put(int_ptr, num_ContactElements)) )
410             throw DataException("Error - MeshAdapter::dump: copy ContactElements_Color to netCDF buffer failed: " + *newFileName);
411    
412          // ContactElements_Nodes
413          if (! ( ids = dataFile.add_var("ContactElements_Nodes", ncInt, ncdims[5], ncdims[9]) ) )
414             throw DataException("Error - MeshAdapter::dump: appending ContactElements_Nodes to netCDF file failed: " + *newFileName);
415          if (! (ids->put(&(mesh->ContactElements->Nodes[0]), num_ContactElements, num_ContactElements_numNodes)) )
416             throw DataException("Error - MeshAdapter::dump: copy ContactElements_Nodes to netCDF buffer failed: " + *newFileName);
417    
418       }
419    
420       // // // // // Points // // // // //
421    
422       if (num_Points>0) {
423    
424          fprintf(stderr, "\n\n\nWARNING: MeshAdapter::dump has not been tested with Point elements\n\n\n");
425    
426          // Points_Id
427          if (! ( ids = dataFile.add_var("Points_Id", ncInt, ncdims[6])) )
428             throw DataException("Error - MeshAdapter::dump: appending Points_Id to netCDF file failed: " + *newFileName);
429          int_ptr = &mesh->Points->Id[0];
430          if (! (ids->put(int_ptr, num_Points)) )
431             throw DataException("Error - MeshAdapter::dump: copy Points_Id to netCDF buffer failed: " + *newFileName);
432    
433          // Points_Tag
434          if (! ( ids = dataFile.add_var("Points_Tag", ncInt, ncdims[6])) )
435             throw DataException("Error - MeshAdapter::dump: appending Points_Tag to netCDF file failed: " + *newFileName);
436          int_ptr = &mesh->Points->Tag[0];
437          if (! (ids->put(int_ptr, num_Points)) )
438             throw DataException("Error - MeshAdapter::dump: copy Points_Tag to netCDF buffer failed: " + *newFileName);
439    
440          // Points_Owner
441          if (! ( ids = dataFile.add_var("Points_Owner", ncInt, ncdims[6])) )
442             throw DataException("Error - MeshAdapter::dump: appending Points_Owner to netCDF file failed: " + *newFileName);
443          int_ptr = &mesh->Points->Owner[0];
444          if (! (ids->put(int_ptr, num_Points)) )
445             throw DataException("Error - MeshAdapter::dump: copy Points_Owner to netCDF buffer failed: " + *newFileName);
446    
447          // Points_Color
448          if (! ( ids = dataFile.add_var("Points_Color", ncInt, ncdims[6])) )
449             throw DataException("Error - MeshAdapter::dump: appending Points_Color to netCDF file failed: " + *newFileName);
450          int_ptr = &mesh->Points->Color[0];
451          if (! (ids->put(int_ptr, num_Points)) )
452             throw DataException("Error - MeshAdapter::dump: copy Points_Color to netCDF buffer failed: " + *newFileName);
453    
454          // Points_Nodes
455          // mesh->Nodes->Id[mesh->Points->Nodes[INDEX2(0,i,1)]]
456          if (! ( ids = dataFile.add_var("Points_Nodes", ncInt, ncdims[6]) ) )
457             throw DataException("Error - MeshAdapter::dump: appending Points_Nodes to netCDF file failed: " + *newFileName);
458          if (! (ids->put(&(mesh->Points->Nodes[0]), num_Points)) )
459             throw DataException("Error - MeshAdapter::dump: copy Points_Nodes to netCDF buffer failed: " + *newFileName);
460    
461       }
462    
463       // // // // // TagMap // // // // //
464    
465       if (num_Tags>0) {
466    
467          // Temp storage to gather node IDs
468          int *Tags_keys = TMPMEMALLOC(num_Tags, int);
469          char name_temp[4096];
470    
471          /* Copy tag data into temp arrays */
472          tag_map = mesh->TagMap;
473          if (tag_map) {
474             int i = 0;
475             while (tag_map) {
476                Tags_keys[i++] = tag_map->tag_key;
477                tag_map=tag_map->next;
478             }
479          }
480    
481          // Tags_keys
482          if (! ( ids = dataFile.add_var("Tags_keys", ncInt, ncdims[10])) )
483             throw DataException("Error - MeshAdapter::dump: appending Tags_keys to netCDF file failed: " + *newFileName);
484          int_ptr = &Tags_keys[0];
485          if (! (ids->put(int_ptr, num_Tags)) )
486             throw DataException("Error - MeshAdapter::dump: copy Tags_keys to netCDF buffer failed: " + *newFileName);
487    
488          // Tags_names_*
489          // This is an array of strings, it should be stored as an array but instead I have hacked in one attribute per string
490          // because the NetCDF manual doesn't tell how to do an array of strings
491          tag_map = mesh->TagMap;
492          if (tag_map) {
493             int i = 0;
494             while (tag_map) {
495                sprintf(name_temp, "Tags_name_%d", i);
496                if (!dataFile.add_att(name_temp, tag_map->name) )
497                   throw DataException("Error - MeshAdapter::dump: appending Tags_names_ to NetCDF file failed: " + *newFileName);
498                tag_map=tag_map->next;
499                i++;
500             }
501          }
502    
503          TMPMEMFREE(Tags_keys);
504    
505       }
506    
507    /* Send token to next MPI process so he can take his turn */
508    #ifdef PASO_MPI
509       if (mpi_rank<mpi_size-1) MPI_Send(&num_Tags, 0, MPI_INT, mpi_rank+1, 81800, mesh->MPIInfo->comm);
510    #endif
511    
512       // NetCDF file is closed by destructor of NcFile object
513    
514    #else
515       Finley_setError(IO_ERROR, "MeshAdapter::dump: not configured with NetCDF. Please contact your installation manager.");
516    #endif  /* USE_NETCDF */
517       checkFinleyError();
518    }
519    
520  string MeshAdapter::getDescription() const  string MeshAdapter::getDescription() const
521  {  {
522    return "FinleyMesh";     return "FinleyMesh";
523  }  }
524    
525  string MeshAdapter::functionSpaceTypeAsString(int functionSpaceType) const  string MeshAdapter::functionSpaceTypeAsString(int functionSpaceType) const
526  {  {
527    FunctionSpaceNamesMapType::iterator loc;     FunctionSpaceNamesMapType::iterator loc;
528    loc=m_functionSpaceTypeNames.find(functionSpaceType);     loc=m_functionSpaceTypeNames.find(functionSpaceType);
529    if (loc==m_functionSpaceTypeNames.end()) {     if (loc==m_functionSpaceTypeNames.end()) {
530      return "Invalid function space type code.";        return "Invalid function space type code.";
531    } else {     } else {
532      return loc->second;        return loc->second;
533    }     }
534  }  }
535    
536  bool MeshAdapter::isValidFunctionSpaceType(int functionSpaceType) const  bool MeshAdapter::isValidFunctionSpaceType(int functionSpaceType) const
537  {  {
538    FunctionSpaceNamesMapType::iterator loc;     FunctionSpaceNamesMapType::iterator loc;
539    loc=m_functionSpaceTypeNames.find(functionSpaceType);     loc=m_functionSpaceTypeNames.find(functionSpaceType);
540    return (loc!=m_functionSpaceTypeNames.end());     return (loc!=m_functionSpaceTypeNames.end());
541  }  }
542    
543  void MeshAdapter::setFunctionSpaceTypeNames()  void MeshAdapter::setFunctionSpaceTypeNames()
544  {  {
545    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
546      (FunctionSpaceNamesMapType::value_type(DegreesOfFreedom,"Finley_DegreesOfFreedom"));     (FunctionSpaceNamesMapType::value_type(DegreesOfFreedom,"Finley_DegreesOfFreedom"));
547    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
548      (FunctionSpaceNamesMapType::value_type(ReducedDegreesOfFreedom,"Finley_ReducedDegreesOfFreedom"));     (FunctionSpaceNamesMapType::value_type(ReducedDegreesOfFreedom,"Finley_ReducedDegreesOfFreedom"));
549    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
550      (FunctionSpaceNamesMapType::value_type(Nodes,"Finley_Nodes"));     (FunctionSpaceNamesMapType::value_type(Nodes,"Finley_Nodes"));
551    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
552      (FunctionSpaceNamesMapType::value_type(Elements,"Finley_Elements"));     (FunctionSpaceNamesMapType::value_type(ReducedNodes,"Finley_Reduced_Nodes"));
553    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
554      (FunctionSpaceNamesMapType::value_type(FaceElements,"Finley_Face_Elements"));     (FunctionSpaceNamesMapType::value_type(Elements,"Finley_Elements"));
555    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
556      (FunctionSpaceNamesMapType::value_type(Points,"Finley_Points"));     (FunctionSpaceNamesMapType::value_type(ReducedElements,"Finley_Reduced_Elements"));
557    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
558      (FunctionSpaceNamesMapType::value_type(ContactElementsZero,"Finley_Contact_Elements_0"));     (FunctionSpaceNamesMapType::value_type(FaceElements,"Finley_Face_Elements"));
559    m_functionSpaceTypeNames.insert     m_functionSpaceTypeNames.insert
560      (FunctionSpaceNamesMapType::value_type(ContactElementsOne,"Finley_Contact_Elements_1"));     (FunctionSpaceNamesMapType::value_type(ReducedFaceElements,"Finley_Reduced_Face_Elements"));
561       m_functionSpaceTypeNames.insert
562       (FunctionSpaceNamesMapType::value_type(Points,"Finley_Points"));
563       m_functionSpaceTypeNames.insert
564       (FunctionSpaceNamesMapType::value_type(ContactElementsZero,"Finley_Contact_Elements_0"));
565       m_functionSpaceTypeNames.insert
566       (FunctionSpaceNamesMapType::value_type(ReducedContactElementsZero,"Finley_Reduced_Contact_Elements_0"));
567       m_functionSpaceTypeNames.insert
568       (FunctionSpaceNamesMapType::value_type(ContactElementsOne,"Finley_Contact_Elements_1"));
569       m_functionSpaceTypeNames.insert
570       (FunctionSpaceNamesMapType::value_type(ReducedContactElementsOne,"Finley_Reduced_Contact_Elements_1"));
571  }  }
572    
573  int MeshAdapter::getContinuousFunctionCode() const  int MeshAdapter::getContinuousFunctionCode() const
574  {  {
575    return Nodes;     return Nodes;
576  }  }
577    int MeshAdapter::getReducedContinuousFunctionCode() const
578    {
579       return ReducedNodes;
580    }
581    
582  int MeshAdapter::getFunctionCode() const  int MeshAdapter::getFunctionCode() const
583  {  {
584    return Elements;     return Elements;
585    }
586    int MeshAdapter::getReducedFunctionCode() const
587    {
588       return ReducedElements;
589  }  }
590    
591  int MeshAdapter::getFunctionOnBoundaryCode() const  int MeshAdapter::getFunctionOnBoundaryCode() const
592  {  {
593    return FaceElements;     return FaceElements;
594    }
595    int MeshAdapter::getReducedFunctionOnBoundaryCode() const
596    {
597       return ReducedFaceElements;
598  }  }
599    
600  int MeshAdapter::getFunctionOnContactZeroCode() const  int MeshAdapter::getFunctionOnContactZeroCode() const
601  {  {
602    return ContactElementsZero;     return ContactElementsZero;
603    }
604    int MeshAdapter::getReducedFunctionOnContactZeroCode() const
605    {
606       return ReducedContactElementsZero;
607  }  }
608    
609  int MeshAdapter::getFunctionOnContactOneCode() const  int MeshAdapter::getFunctionOnContactOneCode() const
610  {  {
611    return ContactElementsOne;     return ContactElementsOne;
612    }
613    int MeshAdapter::getReducedFunctionOnContactOneCode() const
614    {
615       return ReducedContactElementsOne;
616  }  }
617    
618  int MeshAdapter::getSolutionCode() const  int MeshAdapter::getSolutionCode() const
619  {  {
620    return DegreesOfFreedom;     return DegreesOfFreedom;
621  }  }
622    
623  int MeshAdapter::getReducedSolutionCode() const  int MeshAdapter::getReducedSolutionCode() const
624  {  {
625    return ReducedDegreesOfFreedom;     return ReducedDegreesOfFreedom;
 }  
 int MeshAdapter::getDiracDeltaFunctionCode() const  
 {  
   return Points;  
626  }  }
627    
628  int MeshAdapter::getTagFromSampleNo(int functionSpaceType, int sampleNo) const  int MeshAdapter::getDiracDeltaFunctionCode() const
629  {  {
630    //     return Points;
   // It is assumed the sampleNo has been checked  
   // before calling this function.  
   int* tagList;  
   int numTags;  
   getTagList(functionSpaceType, &tagList, &numTags);  
   return tagList[sampleNo];  
631  }  }
632    
633  //  //
634  // returns a pointer to the tag list of samples of functionSpaceType  // return the spatial dimension of the Mesh:
635  //  //
636  void MeshAdapter::getTagList(int functionSpaceType, int** tagList,  int MeshAdapter::getDim() const
                  int* numTags) const  
637  {  {
638    *tagList=NULL;     int numDim=Finley_Mesh_getDim(m_finleyMesh.get());
639    *numTags=0;     checkFinleyError();
640    Finley_Mesh* mesh=m_finleyMesh.get();     return numDim;
   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;  
   }  
   return;  
641  }  }
642    
643  //  //
644  // return the spatial dimension of the Mesh:  // Return the number of data points summed across all MPI processes
645  //  //
646  int MeshAdapter::getDim() const  int MeshAdapter::getNumDataPointsGlobal() const
647  {  {
648    int numDim=Finley_Mesh_getDim(m_finleyMesh.get());     return Finley_NodeFile_getGlobalNumNodes(m_finleyMesh.get()->Nodes);
   checkFinleyError();  
   return numDim;  
649  }  }
650    
651  //  //
652  // return the number of data points per sample and the number of samples  // return the number of data points per sample and the number of samples
653  // needed to represent data on a parts of the mesh.  // needed to represent data on a parts of the mesh.
# Line 278  pair<int,int> MeshAdapter::getDataShape( Line 658  pair<int,int> MeshAdapter::getDataShape(
658     int numSamples=0;     int numSamples=0;
659     Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
660     switch (functionSpaceCode) {     switch (functionSpaceCode) {
661        case(Nodes):     case(Nodes):
662             numDataPointsPerSample=1;     numDataPointsPerSample=1;
663             if (mesh->Nodes!=NULL) numSamples=mesh->Nodes->numNodes;     numSamples=Finley_NodeFile_getNumNodes(mesh->Nodes);
664             break;     break;
665        case(Elements):     case(ReducedNodes):
666             if (mesh->Elements!=NULL) {     numDataPointsPerSample=1;
667               numSamples=mesh->Elements->numElements;     numSamples=Finley_NodeFile_getNumReducedNodes(mesh->Nodes);
668               numDataPointsPerSample=mesh->Elements->ReferenceElement->numQuadNodes;     break;
669             }     case(Elements):
670             break;     if (mesh->Elements!=NULL) {
671        case(FaceElements):        numSamples=mesh->Elements->numElements;
672             if (mesh->FaceElements!=NULL) {        numDataPointsPerSample=mesh->Elements->ReferenceElement->numQuadNodes;
673                  numDataPointsPerSample=mesh->FaceElements->ReferenceElement->numQuadNodes;     }
674                  numSamples=mesh->FaceElements->numElements;     break;
675             }     case(ReducedElements):
676             break;     if (mesh->Elements!=NULL) {
677        case(Points):        numSamples=mesh->Elements->numElements;
678             if (mesh->Points!=NULL) {        numDataPointsPerSample=mesh->Elements->ReferenceElementReducedOrder->numQuadNodes;
679               numDataPointsPerSample=1;     }
680               numSamples=mesh->Points->numElements;     break;
681             }     case(FaceElements):
682             break;     if (mesh->FaceElements!=NULL) {
683        case(ContactElementsZero):        numDataPointsPerSample=mesh->FaceElements->ReferenceElement->numQuadNodes;
684             if (mesh->ContactElements!=NULL) {        numSamples=mesh->FaceElements->numElements;
685               numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;     }
686               numSamples=mesh->ContactElements->numElements;     break;
687             }     case(ReducedFaceElements):
688             break;     if (mesh->FaceElements!=NULL) {
689        case(ContactElementsOne):        numDataPointsPerSample=mesh->FaceElements->ReferenceElementReducedOrder->numQuadNodes;
690             if (mesh->ContactElements!=NULL) {        numSamples=mesh->FaceElements->numElements;
691               numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;     }
692               numSamples=mesh->ContactElements->numElements;     break;
693             }     case(Points):
694             break;     if (mesh->Points!=NULL) {
695        case(DegreesOfFreedom):        numDataPointsPerSample=1;
696             if (mesh->Nodes!=NULL) {        numSamples=mesh->Points->numElements;
697               numDataPointsPerSample=1;     }
698               numSamples=mesh->Nodes->numDegreesOfFreedom;     break;
699             }     case(ContactElementsZero):
700             break;     if (mesh->ContactElements!=NULL) {
701        case(ReducedDegreesOfFreedom):        numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;
702             if (mesh->Nodes!=NULL) {        numSamples=mesh->ContactElements->numElements;
703               numDataPointsPerSample=1;     }
704               numSamples=mesh->Nodes->reducedNumDegreesOfFreedom;     break;
705             }     case(ReducedContactElementsZero):
706             break;     if (mesh->ContactElements!=NULL) {
707        default:        numDataPointsPerSample=mesh->ContactElements->ReferenceElementReducedOrder->numQuadNodes;
708          stringstream temp;        numSamples=mesh->ContactElements->numElements;
709          temp << "Error - Invalid function space type: "     }
710           << functionSpaceCode << " for domain: " << getDescription();     break;
711          throw FinleyAdapterException(temp.str());     case(ContactElementsOne):
712          break;     if (mesh->ContactElements!=NULL) {
713        }        numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;
714        return pair<int,int>(numDataPointsPerSample,numSamples);        numSamples=mesh->ContactElements->numElements;
715       }
716       break;
717       case(ReducedContactElementsOne):
718       if (mesh->ContactElements!=NULL) {
719          numDataPointsPerSample=mesh->ContactElements->ReferenceElementReducedOrder->numQuadNodes;
720          numSamples=mesh->ContactElements->numElements;
721       }
722       break;
723       case(DegreesOfFreedom):
724       if (mesh->Nodes!=NULL) {
725          numDataPointsPerSample=1;
726          numSamples=Finley_NodeFile_getNumDegreesOfFreedom(mesh->Nodes);
727       }
728       break;
729       case(ReducedDegreesOfFreedom):
730       if (mesh->Nodes!=NULL) {
731          numDataPointsPerSample=1;
732          numSamples=Finley_NodeFile_getNumReducedDegreesOfFreedom(mesh->Nodes);
733       }
734       break;
735       default:
736          stringstream temp;
737          temp << "Error - Invalid function space type: " << functionSpaceCode << " for domain: " << getDescription();
738          throw FinleyAdapterException(temp.str());
739          break;
740       }
741       return pair<int,int>(numDataPointsPerSample,numSamples);
742  }  }
743    
744  //  //
745  // 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:
746  //  //
747  void MeshAdapter::addPDEToSystem(  void MeshAdapter::addPDEToSystem(
748                       SystemMatrixAdapter& mat, Data& rhs,                                   SystemMatrixAdapter& mat, escript::Data& rhs,
749                       const Data& A, const Data& B, const Data& C,const  Data& D,const  Data& X,const  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,
750                       const Data& d, const Data& y,                                   const escript::Data& d, const escript::Data& y,
751                       const Data& d_contact,const Data& y_contact) const                                   const escript::Data& d_contact,const escript::Data& y_contact) const
752  {  {
753     Finley_Mesh* mesh=m_finleyMesh.get();     escriptDataC _rhs=rhs.getDataC();
754     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,mat.getFinley_SystemMatrix(),&(rhs.getDataC()),     escriptDataC _A  =A.getDataC();
755                         &(A.getDataC()),&(B.getDataC()),&(C.getDataC()),&(D.getDataC()),&(X.getDataC()),&(Y.getDataC()));     escriptDataC _B=B.getDataC();
756     checkFinleyError();     escriptDataC _C=C.getDataC();
757     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->FaceElements,     escriptDataC _D=D.getDataC();
758                    mat.getFinley_SystemMatrix(),     escriptDataC _X=X.getDataC();
759                    &(rhs.getDataC()),     escriptDataC _Y=Y.getDataC();
760                                    &(d.getDataC()),&(y.getDataC()),     escriptDataC _d=d.getDataC();
761                                    Finley_Assemble_handelShapeMissMatch_Mean_out);     escriptDataC _y=y.getDataC();
762     checkFinleyError();     escriptDataC _d_contact=d_contact.getDataC();
763     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->FaceElements,     escriptDataC _y_contact=y_contact.getDataC();
764                    mat.getFinley_SystemMatrix(),  
765                    &(rhs.getDataC()),     Finley_Mesh* mesh=m_finleyMesh.get();
766                                    &(d_contact.getDataC()),  
767                    &(y_contact.getDataC()),     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,mat.getPaso_SystemMatrix(), &_rhs, &_A, &_B, &_C, &_D, &_X, &_Y );
768                                    Finley_Assemble_handelShapeMissMatch_Step_out);     checkFinleyError();
769    
770       Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, mat.getPaso_SystemMatrix(), &_rhs, 0, 0, 0, &_d, 0, &_y );
771       checkFinleyError();
772    
773       Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, mat.getPaso_SystemMatrix(), &_rhs , 0, 0, 0, &_d_contact, 0, &_y_contact );
774       checkFinleyError();
775    }
776    
777    void  MeshAdapter::addPDEToLumpedSystem(
778                                            escript::Data& mat,
779                                            const escript::Data& D,
780                                            const escript::Data& d) const
781    {
782       escriptDataC _mat=mat.getDataC();
783       escriptDataC _D=D.getDataC();
784       escriptDataC _d=d.getDataC();
785    
786       Finley_Mesh* mesh=m_finleyMesh.get();
787    
788       Finley_Assemble_LumpedSystem(mesh->Nodes,mesh->Elements,&_mat, &_D);
789       Finley_Assemble_LumpedSystem(mesh->Nodes,mesh->FaceElements,&_mat, &_d);
790    
791     checkFinleyError();     checkFinleyError();
792  }  }
793    
794    
795  //  //
796  // adds linear PDE of second order into the right hand side only  // adds linear PDE of second order into the right hand side only
797  //  //
798  void MeshAdapter::addPDEToRHS( 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  Data& X,const  Data& Y, const Data& y, const Data& y_contact) const  
799  {  {
800     Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
801     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,0,&(rhs.getDataC()),0,0,0,0,&(X.getDataC()),&(Y.getDataC()));  
802       escriptDataC _rhs=rhs.getDataC();
803       escriptDataC _X=X.getDataC();
804       escriptDataC _Y=Y.getDataC();
805       escriptDataC _y=y.getDataC();
806       escriptDataC _y_contact=y_contact.getDataC();
807    
808       Finley_Assemble_PDE(mesh->Nodes,mesh->Elements, 0, &_rhs, 0, 0, 0, 0, &_X, &_Y );
809       checkFinleyError();
810    
811       Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, 0, &_rhs, 0, 0, 0, 0, 0, &_y );
812       checkFinleyError();
813    
814       Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, 0, &_rhs , 0, 0, 0, 0, 0, &_y_contact );
815       checkFinleyError();
816    }
817    //
818    // adds PDE of second order into a transport problem
819    //
820    void MeshAdapter::addPDEToTransportProblem(
821                                               TransportProblemAdapter& tp, escript::Data& source, const escript::Data& M,
822                                               const escript::Data& A, const escript::Data& B, const escript::Data& C,
823                                               const  escript::Data& D,const  escript::Data& X,const  escript::Data& Y,
824                                               const escript::Data& d, const escript::Data& y,
825                                               const escript::Data& d_contact,const escript::Data& y_contact) const
826    {
827       DataTypes::ShapeType shape;
828       source.expand();
829       escriptDataC _source=source.getDataC();
830       escriptDataC _M=M.getDataC();
831       escriptDataC _A=A.getDataC();
832       escriptDataC _B=B.getDataC();
833       escriptDataC _C=C.getDataC();
834       escriptDataC _D=D.getDataC();
835       escriptDataC _X=X.getDataC();
836       escriptDataC _Y=Y.getDataC();
837       escriptDataC _d=d.getDataC();
838       escriptDataC _y=y.getDataC();
839       escriptDataC _d_contact=d_contact.getDataC();
840       escriptDataC _y_contact=y_contact.getDataC();
841    
842       Finley_Mesh* mesh=m_finleyMesh.get();
843       Paso_FCTransportProblem* _tp = tp.getPaso_FCTransportProblem();
844    
845       Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,_tp->mass_matrix, &_source, 0, 0, 0, &_M, 0, 0 );
846     checkFinleyError();     checkFinleyError();
847     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->FaceElements,0,&(rhs.getDataC()),0,&(y.getDataC()),  
848                                    Finley_Assemble_handelShapeMissMatch_Mean_out);     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,_tp->transport_matrix, &_source, &_A, &_B, &_C, &_D, &_X, &_Y );
849  // cout << "Calling :addPDEToRHS." << endl;     checkFinleyError();
850    
851       Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, _tp->transport_matrix, &_source, 0, 0, 0, &_d, 0, &_y );
852     checkFinleyError();     checkFinleyError();
853     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->FaceElements,0,&(rhs.getDataC()),0,&(y_contact.getDataC()),  
854                                    Finley_Assemble_handelShapeMissMatch_Step_out);     Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, _tp->transport_matrix, &_source , 0, 0, 0, &_d_contact, 0, &_y_contact );
 // cout << "Calling :addPDEToRHS." << endl;  
855     checkFinleyError();     checkFinleyError();
856  }  }
857    
858  //  //
859  // interpolates data between different function spaces:  // interpolates data between different function spaces:
860  //  //
861  void MeshAdapter::interpolateOnDomain(Data& target,const Data& in) const  void MeshAdapter::interpolateOnDomain(escript::Data& target,const escript::Data& in) const
862  {  {
863    const MeshAdapter& inDomain=dynamic_cast<const MeshAdapter&>(in.getFunctionSpace().getDomain());     const MeshAdapter& inDomain=dynamic_cast<const MeshAdapter&>(*(in.getFunctionSpace().getDomain()));
864    const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());     const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(*(target.getFunctionSpace().getDomain()));
865    if (inDomain!=*this)     if (inDomain!=*this)  
866       throw FinleyAdapterException("Error - Illegal domain of interpolant.");        throw FinleyAdapterException("Error - Illegal domain of interpolant.");
867    if (targetDomain!=*this)     if (targetDomain!=*this)
868       throw FinleyAdapterException("Error - Illegal domain of interpolation target.");        throw FinleyAdapterException("Error - Illegal domain of interpolation target.");
869    
870    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
871    switch(in.getFunctionSpace().getTypeCode()) {     escriptDataC _target=target.getDataC();
872       case(Nodes):     escriptDataC _in=in.getDataC();
873          switch(target.getFunctionSpace().getTypeCode()) {     switch(in.getFunctionSpace().getTypeCode()) {
874             case(Nodes):     case(Nodes):
875             case(ReducedDegreesOfFreedom):     switch(target.getFunctionSpace().getTypeCode()) {
876             case(DegreesOfFreedom):     case(Nodes):
877                 Finley_Assemble_CopyNodalData(mesh->Nodes,&(target.getDataC()),&(in.getDataC()));     case(ReducedNodes):
878                 break;     case(DegreesOfFreedom):
879             case(Elements):     case(ReducedDegreesOfFreedom):
880                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&(in.getDataC()),&(target.getDataC()));     Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
881                 break;     break;
882             case(FaceElements):     case(Elements):
883                 Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&(in.getDataC()),&(target.getDataC()));     case(ReducedElements):
884                 break;     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
885             case(Points):     break;
886                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&(in.getDataC()),&(target.getDataC()));     case(FaceElements):
887                 break;     case(ReducedFaceElements):
888             case(ContactElementsZero):     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
889                 Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));     break;
890                 break;     case(Points):
891             case(ContactElementsOne):     Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
892                 Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));     break;
893                 break;     case(ContactElementsZero):
894             default:     case(ReducedContactElementsZero):
895                 Finley_ErrorCode=TYPE_ERROR;     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
896                 sprintf(Finley_ErrorMsg,"Interpolation on Domain: Finley does not know anything about function space type %d",target.getFunctionSpace().getTypeCode());     break;
897                 break;     case(ContactElementsOne):
898          }     case(ReducedContactElementsOne):
899          break;     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
900       case(Elements):     break;
901          if (target.getFunctionSpace().getTypeCode()==Elements) {     default:
902             Finley_Assemble_CopyElementData(mesh->Elements,&(target.getDataC()),&(in.getDataC()));        stringstream temp;
903          } else {        temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
904             Finley_ErrorCode=TYPE_ERROR;        throw FinleyAdapterException(temp.str());
905             sprintf(Finley_ErrorMsg,"No interpolation with data on elements possible.");        break;
906          }     }
907          break;     break;
908       case(FaceElements):     case(ReducedNodes):
909          if (target.getFunctionSpace().getTypeCode()==FaceElements) {     switch(target.getFunctionSpace().getTypeCode()) {
910             Finley_Assemble_CopyElementData(mesh->FaceElements,&(target.getDataC()),&(in.getDataC()));     case(Nodes):
911          } else {     case(ReducedNodes):
912             Finley_ErrorCode=TYPE_ERROR;     case(DegreesOfFreedom):
913             sprintf(Finley_ErrorMsg,"No interpolation with data on face elements possible.");     case(ReducedDegreesOfFreedom):
914             break;     Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
915         }     break;
916       case(Points):     case(Elements):
917          if (target.getFunctionSpace().getTypeCode()==Points) {     case(ReducedElements):
918             Finley_Assemble_CopyElementData(mesh->Points,&(target.getDataC()),&(in.getDataC()));     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
919          } else {     break;
920             Finley_ErrorCode=TYPE_ERROR;     case(FaceElements):
921             sprintf(Finley_ErrorMsg,"No interpolation with data on points possible.");     case(ReducedFaceElements):
922             break;     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
923          }     break;
924          break;     case(Points):
925       case(ContactElementsZero):     Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
926       case(ContactElementsOne):     break;
927          if (target.getFunctionSpace().getTypeCode()==ContactElementsZero || target.getFunctionSpace().getTypeCode()==ContactElementsOne) {     case(ContactElementsZero):
928             Finley_Assemble_CopyElementData(mesh->ContactElements,&(target.getDataC()),&(in.getDataC()));     case(ReducedContactElementsZero):
929          } else {     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
930             Finley_ErrorCode=TYPE_ERROR;     break;
931             sprintf(Finley_ErrorMsg,"No interpolation with data on contact elements possible.");     case(ContactElementsOne):
932             break;     case(ReducedContactElementsOne):
933          }     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
934          break;     break;
935       case(DegreesOfFreedom):     default:
936          switch(target.getFunctionSpace().getTypeCode()) {        stringstream temp;
937             case(ReducedDegreesOfFreedom):        temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
938             case(DegreesOfFreedom):        throw FinleyAdapterException(temp.str());
939             case(Nodes):        break;
940                Finley_Assemble_CopyNodalData(mesh->Nodes,&(target.getDataC()),&(in.getDataC()));     }
941                break;     break;
942             case(Elements):     case(Elements):
943                Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&(in.getDataC()),&(target.getDataC()));     if (target.getFunctionSpace().getTypeCode()==Elements) {
944                break;        Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);
945             case(FaceElements):     } else if (target.getFunctionSpace().getTypeCode()==ReducedElements) {
946                Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&(in.getDataC()),&(target.getDataC()));        Finley_Assemble_AverageElementData(mesh->Elements,&_target,&_in);
947                break;     } else {
948             case(Points):        throw FinleyAdapterException("Error - No interpolation with data on elements possible.");
949                Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&(in.getDataC()),&(target.getDataC()));     }
950                break;     break;
951             case(ContactElementsZero):     case(ReducedElements):
952             case(ContactElementsOne):     if (target.getFunctionSpace().getTypeCode()==ReducedElements) {
953                Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));        Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);
954               break;     } else {
955             default:        throw FinleyAdapterException("Error - No interpolation with data on elements with reduced integration order possible.");
956               Finley_ErrorCode=TYPE_ERROR;     }
957               sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",target.getFunctionSpace().getTypeCode());     break;
958               break;     case(FaceElements):
959          }     if (target.getFunctionSpace().getTypeCode()==FaceElements) {
960          break;        Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);
961       case(ReducedDegreesOfFreedom):     } else if (target.getFunctionSpace().getTypeCode()==ReducedFaceElements) {
962         switch(target.getFunctionSpace().getTypeCode()) {        Finley_Assemble_AverageElementData(mesh->FaceElements,&_target,&_in);
963            case(ReducedDegreesOfFreedom):     } else {
964            case(Nodes):        throw FinleyAdapterException("Error - No interpolation with data on face elements possible.");
965               Finley_Assemble_CopyNodalData(mesh->Nodes,&(target.getDataC()),&(in.getDataC()));     }
966               break;     break;
967            case(Elements):     case(ReducedFaceElements):
968               Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&(in.getDataC()),&(target.getDataC()));     if (target.getFunctionSpace().getTypeCode()==ReducedFaceElements) {
969               break;        Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);
970            case(FaceElements):     } else {
971               Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&(in.getDataC()),&(target.getDataC()));        throw FinleyAdapterException("Error - No interpolation with data on face elements with reduced integration order possible.");
972               break;     }
973            case(Points):     break;
974               Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&(in.getDataC()),&(target.getDataC()));     case(Points):
975               break;     if (target.getFunctionSpace().getTypeCode()==Points) {
976            case(ContactElementsZero):        Finley_Assemble_CopyElementData(mesh->Points,&_target,&_in);
977            case(ContactElementsOne):     } else {
978               Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));        throw FinleyAdapterException("Error - No interpolation with data on points possible.");
979               break;     }
980            case(DegreesOfFreedom):     break;
981               Finley_ErrorCode=TYPE_ERROR;     case(ContactElementsZero):
982               sprintf(Finley_ErrorMsg,"Finley does not support interpolation from reduced degrees of freedom to degrees of freedom");     case(ContactElementsOne):
983               break;     if (target.getFunctionSpace().getTypeCode()==ContactElementsZero || target.getFunctionSpace().getTypeCode()==ContactElementsOne) {
984            default:        Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);
985               Finley_ErrorCode=TYPE_ERROR;     } else if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {
986               sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",target.getFunctionSpace().getTypeCode());        Finley_Assemble_AverageElementData(mesh->ContactElements,&_target,&_in);
987               break;     } else {
988         }        throw FinleyAdapterException("Error - No interpolation with data on contact elements possible.");
989         break;     }
990       default:     break;
991          Finley_ErrorCode=TYPE_ERROR;     case(ReducedContactElementsZero):
992          sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",in.getFunctionSpace().getTypeCode());     case(ReducedContactElementsOne):
993          break;     if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {
994    }        Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);
995    checkFinleyError();     } else {
996          throw FinleyAdapterException("Error - No interpolation with data on contact elements with reduced integration order possible.");
997       }
998       break;
999       case(DegreesOfFreedom):      
1000       switch(target.getFunctionSpace().getTypeCode()) {
1001       case(ReducedDegreesOfFreedom):
1002       case(DegreesOfFreedom):
1003       Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1004       break;
1005    
1006       case(Nodes):
1007       case(ReducedNodes):
1008       if (getMPISize()>1) {
1009          escript::Data temp=escript::Data(in);
1010          temp.expand();
1011          escriptDataC _in2 = temp.getDataC();
1012          Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in2);
1013       } else {
1014          Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1015       }
1016       break;
1017       case(Elements):
1018       case(ReducedElements):
1019       if (getMPISize()>1) {
1020          escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1021          escriptDataC _in2 = temp.getDataC();
1022          Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in2,&_target);
1023       } else {
1024          Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
1025       }
1026       break;
1027       case(FaceElements):
1028       case(ReducedFaceElements):
1029       if (getMPISize()>1) {
1030          escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1031          escriptDataC _in2 = temp.getDataC();
1032          Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in2,&_target);
1033    
1034       } else {
1035          Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
1036       }
1037       break;
1038       case(Points):
1039       if (getMPISize()>1) {
1040          escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1041          escriptDataC _in2 = temp.getDataC();
1042       } else {
1043          Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
1044       }
1045       break;
1046       case(ContactElementsZero):
1047       case(ContactElementsOne):
1048       case(ReducedContactElementsZero):
1049       case(ReducedContactElementsOne):
1050       if (getMPISize()>1) {
1051          escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1052          escriptDataC _in2 = temp.getDataC();
1053          Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in2,&_target);
1054       } else {
1055          Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
1056       }
1057       break;
1058       default:
1059          stringstream temp;
1060          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
1061          throw FinleyAdapterException(temp.str());
1062          break;
1063       }
1064       break;
1065       case(ReducedDegreesOfFreedom):
1066       switch(target.getFunctionSpace().getTypeCode()) {
1067       case(Nodes):
1068       throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to mesh nodes.");
1069       break;
1070       case(ReducedNodes):
1071       if (getMPISize()>1) {
1072          escript::Data temp=escript::Data(in);
1073          temp.expand();
1074          escriptDataC _in2 = temp.getDataC();
1075          Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in2);
1076       } else {
1077          Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1078       }
1079       break;
1080       case(DegreesOfFreedom):
1081       throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to degrees of freedom");
1082       break;
1083       case(ReducedDegreesOfFreedom):
1084       Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1085       break;
1086       case(Elements):
1087       case(ReducedElements):
1088       if (getMPISize()>1) {
1089          escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1090          escriptDataC _in2 = temp.getDataC();
1091          Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in2,&_target);
1092       } else {
1093          Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
1094       }
1095       break;
1096       case(FaceElements):
1097       case(ReducedFaceElements):
1098       if (getMPISize()>1) {
1099          escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1100          escriptDataC _in2 = temp.getDataC();
1101          Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in2,&_target);
1102       } else {
1103          Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
1104       }
1105       break;
1106       case(Points):
1107       if (getMPISize()>1) {
1108          escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1109          escriptDataC _in2 = temp.getDataC();
1110          Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in2,&_target);
1111       } else {
1112          Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
1113       }
1114       break;
1115       case(ContactElementsZero):
1116       case(ContactElementsOne):
1117       case(ReducedContactElementsZero):
1118       case(ReducedContactElementsOne):
1119       if (getMPISize()>1) {
1120          escript::Data temp=escript::Data( in,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1121          escriptDataC _in2 = temp.getDataC();
1122          Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in2,&_target);
1123       } else {
1124          Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
1125       }
1126       break;
1127       default:
1128          stringstream temp;
1129          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
1130          throw FinleyAdapterException(temp.str());
1131          break;
1132       }
1133       break;
1134       default:
1135          stringstream temp;
1136          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type %d" << in.getFunctionSpace().getTypeCode();
1137          throw FinleyAdapterException(temp.str());
1138          break;
1139       }
1140       checkFinleyError();
1141  }  }
1142    
1143  //  //
1144  // copies the locations of sample points into x:  // copies the locations of sample points into x:
1145  //  //
1146  void MeshAdapter::setToX(Data& arg) const  void MeshAdapter::setToX(escript::Data& arg) const
1147  {  {
1148    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());     const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(*(arg.getFunctionSpace().getDomain()));
1149    if (argDomain!=*this)     if (argDomain!=*this)
1150       throw FinleyAdapterException("Error - Illegal domain of data point locations");        throw FinleyAdapterException("Error - Illegal domain of data point locations");
1151    Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
1152    // in case of values node coordinates we can do the job directly:     // in case of values node coordinates we can do the job directly:
1153    if (arg.getFunctionSpace().getTypeCode()==Nodes) {     if (arg.getFunctionSpace().getTypeCode()==Nodes) {
1154       Finley_Assemble_NodeCoordinates(mesh->Nodes,&(arg.getDataC()));        escriptDataC _arg=arg.getDataC();
1155    } else {        Finley_Assemble_NodeCoordinates(mesh->Nodes,&_arg);
1156       Data tmp_data=Vector(0.0,continuousFunction(asAbstractContinuousDomain()),true);     } else {
1157       Finley_Assemble_NodeCoordinates(mesh->Nodes,&(tmp_data.getDataC()));        escript::Data tmp_data=Vector(0.0,continuousFunction(asAbstractContinuousDomain()),true);
1158       // this is then interpolated onto arg:        escriptDataC _tmp_data=tmp_data.getDataC();
1159       interpolateOnDomain(arg,tmp_data);        Finley_Assemble_NodeCoordinates(mesh->Nodes,&_tmp_data);
1160    }        // this is then interpolated onto arg:
1161    checkFinleyError();        interpolateOnDomain(arg,tmp_data);
1162       }
1163       checkFinleyError();
1164  }  }
1165    
1166  //  //
1167  // return the normal vectors at the location of data points as a Data object:  // return the normal vectors at the location of data points as a Data object:
1168  //  //
1169  void MeshAdapter::setToNormal(Data& normal) const  void MeshAdapter::setToNormal(escript::Data& normal) const
1170  {  {
1171    const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(normal.getFunctionSpace().getDomain());  /*   const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(normal.getFunctionSpace().getDomain());*/
1172    if (normalDomain!=*this)     const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(*(normal.getFunctionSpace().getDomain()));
1173       throw FinleyAdapterException("Error - Illegal domain of normal locations");     if (normalDomain!=*this)
1174    Finley_Mesh* mesh=m_finleyMesh.get();        throw FinleyAdapterException("Error - Illegal domain of normal locations");
1175    switch(normal.getFunctionSpace().getTypeCode()) {     Finley_Mesh* mesh=m_finleyMesh.get();
1176      case(Nodes):     escriptDataC _normal=normal.getDataC();
1177        Finley_ErrorCode=TYPE_ERROR;     switch(normal.getFunctionSpace().getTypeCode()) {
1178        sprintf(Finley_ErrorMsg,"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        Finley_ErrorCode=TYPE_ERROR;     case(ReducedNodes):
1182        sprintf(Finley_ErrorMsg,"Finley does not support surface normal vectors for elements");     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced nodes");
1183        break;     break;
1184      case (FaceElements):     case(Elements):
1185        Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&(normal.getDataC()));     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements");
1186        break;     break;
1187      case(Points):     case(ReducedElements):
1188        Finley_ErrorCode=TYPE_ERROR;     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements with reduced integration order");
1189        sprintf(Finley_ErrorMsg,"Finley does not support surface normal vectors for point elements");     break;
1190        break;     case (FaceElements):
1191      case (ContactElementsOne):     Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);
1192      case (ContactElementsZero):     break;
1193        Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&(normal.getDataC()));     case (ReducedFaceElements):
1194        break;     Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);
1195      case(DegreesOfFreedom):     break;
1196        Finley_ErrorCode=TYPE_ERROR;     case(Points):
1197        sprintf(Finley_ErrorMsg,"Finley does not support surface normal vectors for degrees of freedom.");     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for point elements");
1198        break;     break;
1199      case(ReducedDegreesOfFreedom):     case (ContactElementsOne):
1200        Finley_ErrorCode=TYPE_ERROR;     case (ContactElementsZero):
1201        sprintf(Finley_ErrorMsg,"Finley does not support surface normal vectors for reduced degrees of freedom.");     Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);
1202        break;     break;
1203      default:     case (ReducedContactElementsOne):
1204        Finley_ErrorCode=TYPE_ERROR;     case (ReducedContactElementsZero):
1205        sprintf(Finley_ErrorMsg,"Normal Vectors: Finley does not know anything about function space type %d",normal.getFunctionSpace().getTypeCode());     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;
1215          temp << "Error - Normal Vectors: Finley does not know anything about function space type " << normal.getFunctionSpace().getTypeCode();
1216          throw FinleyAdapterException(temp.str());
1217        break;        break;
1218    }     }
1219    checkFinleyError();     checkFinleyError();
1220  }  }
1221    
1222  //  //
1223  // interpolates data to other domain:  // interpolates data to other domain:
1224  //  //
1225  void MeshAdapter::interpolateACross(Data& target,const 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    Finley_ErrorCode=SYSTEM_ERROR;     throw FinleyAdapterException("Error - Finley does not allow interpolation across domains yet.");
   sprintf(Finley_ErrorMsg,"Finley does not allow interpolation across domains yet.");  
   checkFinleyError();  
1232  }  }
1233    
1234  //  //
1235  // calculates the integral of a function defined of arg:  // calculates the integral of a function defined of arg:
1236  //  //
1237  void MeshAdapter::setToIntegrals(std::vector<double>& integrals,const 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          Finley_ErrorCode=TYPE_ERROR;     escript::Data temp;
1247          sprintf(Finley_ErrorMsg,"Integral of data on nodes is not supported.");     escriptDataC _arg=arg.getDataC();
1248          break;     switch(arg.getFunctionSpace().getTypeCode()) {
1249       case(Elements):     case(Nodes):
1250          Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&(arg.getDataC()),&integrals[0]);     temp=escript::Data( arg, escript::function(asAbstractContinuousDomain()) );
1251          break;     _temp=temp.getDataC();
1252       case(FaceElements):     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1253          Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&(arg.getDataC()),&integrals[0]);     break;
1254          break;     case(ReducedNodes):
1255       case(Points):     temp=escript::Data( arg, escript::function(asAbstractContinuousDomain()) );
1256          Finley_ErrorCode=TYPE_ERROR;     _temp=temp.getDataC();
1257          sprintf(Finley_ErrorMsg,"Integral of data on points is not supported.");     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1258          break;     break;
1259       case(ContactElementsZero):     case(Elements):
1260          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&(arg.getDataC()),&integrals[0]);     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);
1261          break;     break;
1262       case(ContactElementsOne):     case(ReducedElements):
1263          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&(arg.getDataC()),&integrals[0]);     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);
1264          break;     break;
1265       case(DegreesOfFreedom):     case(FaceElements):
1266          Finley_ErrorCode=TYPE_ERROR;     Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);
1267          sprintf(Finley_ErrorMsg,"Integral of data on degrees of freedom is not supported.");     break;
1268          break;     case(ReducedFaceElements):
1269       case(ReducedDegreesOfFreedom):     Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);
1270          Finley_ErrorCode=TYPE_ERROR;     break;
1271          sprintf(Finley_ErrorMsg,"Integral of data on reduced degrees of freedom is not supported.");     case(Points):
1272          break;     throw FinleyAdapterException("Error - Integral of data on points is not supported.");
1273       default:     break;
1274          Finley_ErrorCode=TYPE_ERROR;     case(ContactElementsZero):
1275          sprintf(Finley_ErrorMsg,"Integrals: Finley does not know anything about function space type %d",arg.getFunctionSpace().getTypeCode());     Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1276          break;     break;
1277    }     case(ReducedContactElementsZero):
1278    checkFinleyError();     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, escript::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, escript::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  //  //
1307  // calculates the gradient of arg:  // calculates the gradient of arg:
1308  //  //
1309  void MeshAdapter::setToGradient(Data& grad,const 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            Finley_ErrorCode=TYPE_ERROR;     escript::Data temp;
1322            sprintf(Finley_ErrorMsg,"Gradient at nodes is not supported.");     if (getMPISize()>1) {
1323            break;        if( arg.getFunctionSpace().getTypeCode() == DegreesOfFreedom ) {
1324         case(Elements):           temp=escript::Data( arg,  continuousFunction(asAbstractContinuousDomain()) );
1325            Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&(grad.getDataC()),&(arg.getDataC()));           nodeDataC = temp.getDataC();
1326            break;        } else if( arg.getFunctionSpace().getTypeCode() == ReducedDegreesOfFreedom ) {
1327         case(FaceElements):           temp=escript::Data( arg,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1328            Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&(grad.getDataC()),&(arg.getDataC()));           nodeDataC = temp.getDataC();
1329            break;        } else {
1330         case(Points):           nodeDataC = arg.getDataC();
1331            Finley_ErrorCode=TYPE_ERROR;        }
1332            sprintf(Finley_ErrorMsg,"Gradient at points is not supported.");     } else {
1333            break;        nodeDataC = arg.getDataC();
1334         case(ContactElementsZero):     }
1335            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&(grad.getDataC()),&(arg.getDataC()));     switch(grad.getFunctionSpace().getTypeCode()) {
1336            break;     case(Nodes):
1337         case(ContactElementsOne):     throw FinleyAdapterException("Error - Gradient at nodes is not supported.");
1338            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&(grad.getDataC()),&(arg.getDataC()));     break;
1339            break;     case(ReducedNodes):
1340         case(DegreesOfFreedom):     throw FinleyAdapterException("Error - Gradient at reduced nodes is not supported.");
1341            Finley_ErrorCode=TYPE_ERROR;     break;
1342            sprintf(Finley_ErrorMsg,"Gradient at degrees of freedom is not supported.");     case(Elements):
1343            break;     Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);
1344         case(ReducedDegreesOfFreedom):     break;
1345            Finley_ErrorCode=TYPE_ERROR;     case(ReducedElements):
1346            sprintf(Finley_ErrorMsg,"Gradient at reduced degrees of freedom is not supported.");     Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);
1347            break;     break;
1348         default:     case(FaceElements):
1349            Finley_ErrorCode=TYPE_ERROR;     Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);
1350            sprintf(Finley_ErrorMsg,"Gradient: Finley does not know anything about function space type %d",arg.getFunctionSpace().getTypeCode());     break;
1351            break;     case(ReducedFaceElements):
1352    }     Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);
1353    checkFinleyError();     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  //  //
1385  // returns the size of elements:  // returns the size of elements:
1386  //  //
1387  void MeshAdapter::setToSize(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            Finley_ErrorCode=TYPE_ERROR;     throw FinleyAdapterException("Error - Size of nodes is not supported.");
1394            sprintf(Finley_ErrorMsg,"Size of nodes is not supported.");     break;
1395            break;     case(ReducedNodes):
1396         case(Elements):     throw FinleyAdapterException("Error - Size of reduced nodes is not supported.");
1397            Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);     break;
1398            break;     case(Elements):
1399         case(FaceElements):     Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);
1400            Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);     break;
1401            break;     case(ReducedElements):
1402         case(Points):     Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);
1403            Finley_ErrorCode=TYPE_ERROR;     break;
1404            sprintf(Finley_ErrorMsg,"Size of point elements is not supported.");     case(FaceElements):
1405            break;     Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);
1406         case(ContactElementsZero):     break;
1407         case(ContactElementsOne):     case(ReducedFaceElements):
1408            Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);     Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);
1409            break;     break;
1410         case(DegreesOfFreedom):     case(Points):
1411            Finley_ErrorCode=TYPE_ERROR;     throw FinleyAdapterException("Error - Size of point elements is not supported.");
1412            sprintf(Finley_ErrorMsg,"Size of degrees of freedom is not supported.");     break;
1413            break;     case(ContactElementsZero):
1414         case(ReducedDegreesOfFreedom):     case(ContactElementsOne):
1415            Finley_ErrorCode=TYPE_ERROR;     Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);
1416            sprintf(Finley_ErrorMsg,"Size of reduced degrees of freedom is not supported.");     break;
1417            break;     case(ReducedContactElementsZero):
1418         default:     case(ReducedContactElementsOne):
1419            Finley_ErrorCode=TYPE_ERROR;     Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);
1420            sprintf(Finley_ErrorMsg,"Element size: Finley does not know anything about function space type %d",size.getFunctionSpace().getTypeCode());     break;
1421            break;     case(DegreesOfFreedom):
1422    }     throw FinleyAdapterException("Error - Size of degrees of freedom is not supported.");
1423    checkFinleyError();     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 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_NodeFile_setCoordinates(mesh->Nodes,&(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 Data& arg) const  void MeshAdapter::saveDX(const std::string& filename,const boost::python::dict& arg) const
1451  {  {
1452    Finley_Mesh_saveDX(filename.c_str(),m_finleyMesh.get(),&(arg.getDataC()));     unsigned int MAX_namelength=IS_THERE_A_REASON_FOR_THIS_MAGIC_NAME_LENGTH;
1453    checkFinleyError();     const int num_data=boost::python::extract<int>(arg.attr("__len__")());
1454       /* win32 refactor */
1455       char* *names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1456       for(int i=0;i<num_data;i++)
1457       {
1458          names[i] = (MAX_namelength>0) ? TMPMEMALLOC(MAX_namelength,char) : (char*)NULL;
1459       }
1460    
1461       escriptDataC *data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC) : (escriptDataC*)NULL;
1462       escriptDataC* *ptr_data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC*) : (escriptDataC**)NULL;
1463    
1464       boost::python::list keys=arg.keys();
1465       for (int i=0;i<num_data;++i) {
1466          std::string n=boost::python::extract<std::string>(keys[i]);
1467          escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);
1468          if (dynamic_cast<const MeshAdapter&>(*(d.getFunctionSpace().getDomain())) !=*this)
1469             throw FinleyAdapterException("Error  in saveVTK: Data must be defined on same Domain");
1470          data[i]=d.getDataC();
1471          ptr_data[i]= &(data[i]);
1472          if (n.length()>MAX_namelength-1) {
1473             strncpy(names[i],n.c_str(),MAX_namelength-1);
1474             names[i][MAX_namelength-1]='\0';
1475          } else {
1476             strcpy(names[i],n.c_str());
1477          }
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:
1495    void MeshAdapter::saveVTK(const std::string& filename,const boost::python::dict& arg) const
1496    {
1497       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__")());
1499       /* win32 refactor */
1500       char* *names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1501       for(int i=0;i<num_data;i++)
1502       {
1503          names[i] = (MAX_namelength>0) ? TMPMEMALLOC(MAX_namelength,char) : (char*)NULL;
1504       }
1505    
1506       escriptDataC *data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC) : (escriptDataC*)NULL;
1507       escriptDataC* *ptr_data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC*) : (escriptDataC**)NULL;
1508    
1509       boost::python::list keys=arg.keys();
1510       for (int i=0;i<num_data;++i) {
1511          std::string n=boost::python::extract<std::string>(keys[i]);
1512          escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);
1513          if (dynamic_cast<const MeshAdapter&>(*(d.getFunctionSpace().getDomain())) !=*this)
1514             throw FinleyAdapterException("Error  in saveVTK: Data must be defined on same Domain");
1515          data[i]=d.getDataC();
1516          ptr_data[i]=&(data[i]);
1517          if (n.length()>MAX_namelength-1) {
1518             strncpy(names[i],n.c_str(),MAX_namelength-1);
1519             names[i][MAX_namelength-1]='\0';
1520          } else {
1521             strcpy(names[i],n.c_str());
1522          }
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      Finley_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceRowOrder,reduceColOrder);     Paso_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceRowOrder,reduceColOrder);
1575      checkFinleyError();     checkFinleyError();
1576      Finley_SystemMatrix* fsystemMatrix=Finley_SystemMatrix_alloc(type,fsystemMatrixPattern,row_blocksize,column_blocksize);     Paso_SystemMatrix* fsystemMatrix;
1577      checkFinleyError();     int trilinos = 0;
1578      return SystemMatrixAdapter(fsystemMatrix,row_blocksize,row_functionspace,column_blocksize,column_functionspace);     if (trilinos) {
1579    #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  //  //
1622  // vtkObject MeshAdapter::createVtkObject() const  // vtkObject MeshAdapter::createVtkObject() const
1623  // TODO:  // TODO:
1624  //  //
1625    
1626  //  //
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            Finley_ErrorCode=TYPE_ERROR;     case(ReducedContactElementsOne):
1645            sprintf(Finley_ErrorMsg,"Cell: Finley does not know anything about function space type %d",functionSpaceCode);     return true;
1646            break;     break;
1647    }     default:
1648    checkFinleyError();        stringstream temp;
1649    return false;        temp << "Error - Cell: Finley does not know anything about function space type " << functionSpaceCode;
1650          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                 Finley_ErrorCode=TYPE_ERROR;     case(ReducedContactElementsZero):
1673                 sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",functionSpaceType_target);     case(ContactElementsOne):
1674          }     case(ReducedContactElementsOne):
1675          break;     return true;
1676       case(Elements):     default:
1677          if (functionSpaceType_target==Elements) {        stringstream temp;
1678             return true;        temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1679          } else {        throw FinleyAdapterException(temp.str());
1680             return false;     }
1681          }     break;
1682       case(FaceElements):     case(ReducedNodes):
1683          if (functionSpaceType_target==FaceElements) {     switch(functionSpaceType_target) {
1684             return true;     case(ReducedNodes):
1685          } else {     case(ReducedDegreesOfFreedom):
1686             return false;     case(Elements):
1687          }     case(ReducedElements):
1688       case(Points):     case(FaceElements):
1689          if (functionSpaceType_target==Points) {     case(ReducedFaceElements):
1690             return true;     case(Points):
1691          } else {     case(ContactElementsZero):
1692             return false;     case(ReducedContactElementsZero):
1693          }     case(ContactElementsOne):
1694       case(ContactElementsZero):     case(ReducedContactElementsOne):
1695       case(ContactElementsOne):     return true;
1696          if (functionSpaceType_target==ContactElementsZero || functionSpaceType_target==ContactElementsOne) {     case(Nodes):
1697             return true;     case(DegreesOfFreedom):
1698          } else {     return false;
1699             return false;     default:
1700          }        stringstream temp;
1701       case(DegreesOfFreedom):        temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1702          switch(functionSpaceType_target) {        throw FinleyAdapterException(temp.str());
1703             case(ReducedDegreesOfFreedom):     }
1704             case(DegreesOfFreedom):     break;
1705             case(Nodes):     case(Elements):
1706             case(Elements):     if (functionSpaceType_target==Elements) {
1707             case(FaceElements):        return true;
1708             case(Points):     } else if (functionSpaceType_target==ReducedElements) {
1709             case(ContactElementsZero):        return true;
1710             case(ContactElementsOne):     } else {
1711                return true;        return false;
1712             default:     }
1713               Finley_ErrorCode=TYPE_ERROR;     case(ReducedElements):
1714               sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",functionSpaceType_target);     if (functionSpaceType_target==ReducedElements) {
1715          }        return true;
1716          break;     } else {
1717       case(ReducedDegreesOfFreedom):        return false;
1718         switch(functionSpaceType_target) {     }
1719            case(ReducedDegreesOfFreedom):     case(FaceElements):
1720            case(Nodes):     if (functionSpaceType_target==FaceElements) {
1721            case(Elements):        return true;
1722            case(FaceElements):     } else if (functionSpaceType_target==ReducedFaceElements) {
1723            case(Points):        return true;
1724            case(ContactElementsZero):     } else {
1725            case(ContactElementsOne):        return false;
1726                return true;     }
1727            case(DegreesOfFreedom):     case(ReducedFaceElements):
1728               return false;     if (functionSpaceType_target==ReducedFaceElements) {
1729            default:        return true;
1730               Finley_ErrorCode=TYPE_ERROR;     } else {
1731               sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",functionSpaceType_target);        return false;
1732         }     }
1733         break;     case(Points):
1734       default:     if (functionSpaceType_target==Points) {
1735          Finley_ErrorCode=TYPE_ERROR;        return true;
1736          sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",functionSpaceType_source);     } else {
1737          break;        return false;
1738    }     }
1739    checkFinleyError();     case(ContactElementsZero):
1740    return false;     case(ContactElementsOne):
1741       if (functionSpaceType_target==ContactElementsZero || functionSpaceType_target==ContactElementsOne) {
1742          return true;
1743       } else if (functionSpaceType_target==ReducedContactElementsZero || functionSpaceType_target==ReducedContactElementsOne) {
1744          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  bool MeshAdapter::operator==(const MeshAdapter& other) const  
1815    bool MeshAdapter::operator==(const AbstractDomain& other) const
1816  {  {
1817    return (m_finleyMesh==other.m_finleyMesh);     const MeshAdapter* temp=dynamic_cast<const MeshAdapter*>(&other);
1818       if (temp!=0) {
1819          return (m_finleyMesh==temp->m_finleyMesh);
1820       } else {
1821          return false;
1822       }
1823  }  }
1824    
1825  int MeshAdapter::getSystemMatrixTypeId(const int solver, const bool symmetry) const  bool MeshAdapter::operator!=(const AbstractDomain& other) const
1826  {  {
1827     int out=Finley_SystemMatrix_getSystemMatrixTypeId(solver,symmetry?1:0);     return !(operator==(other));
1828     checkFinleyError();  }
1829    
1830    int MeshAdapter::getSystemMatrixTypeId(const int solver, const int preconditioner, const int package, const bool symmetry) const
1831    {
1832       int out=Paso_SystemMatrix_getSystemMatrixTypeId(SystemMatrixAdapter::mapOptionToPaso(solver),SystemMatrixAdapter::mapOptionToPaso(preconditioner), SystemMatrixAdapter::mapOptionToPaso(package),symmetry?1:0);
1833       checkPasoError();
1834     return out;     return out;
1835  }  }
1836  Data MeshAdapter::getX() const  int MeshAdapter::getTransportTypeId(const int solver, const int preconditioner, const int package, const bool symmetry) const
1837  {  {
1838    return continuousFunction(asAbstractContinuousDomain()).getX();     int out=Paso_FCTransportProblem_getTypeId(SystemMatrixAdapter::mapOptionToPaso(solver),SystemMatrixAdapter::mapOptionToPaso(preconditioner), SystemMatrixAdapter::mapOptionToPaso(package),symmetry?1:0);
1839       checkPasoError();
1840       return out;
1841  }  }
1842  Data MeshAdapter::getNormal() const  
1843    escript::Data MeshAdapter::getX() const
1844  {  {
1845    return functionOnBoundary(asAbstractContinuousDomain()).getNormal();     return continuousFunction(asAbstractContinuousDomain()).getX();
1846  }  }
1847  Data MeshAdapter::getSize() const  
1848    escript::Data MeshAdapter::getNormal() const
1849  {  {
1850    return function(asAbstractContinuousDomain()).getSize();     return functionOnBoundary(asAbstractContinuousDomain()).getNormal();
1851  }  }
1852    
1853    escript::Data MeshAdapter::getSize() const
1854    {
1855       return escript::function(asAbstractContinuousDomain()).getSize();
1856    }
1857    
1858  bool MeshAdapter::operator!=(const MeshAdapter& other) const  int* MeshAdapter::borrowSampleReferenceIDs(int functionSpaceType) const
1859  {  {
1860    return !operator==(other);     int *out = NULL;
1861       Finley_Mesh* mesh=m_finleyMesh.get();
1862       switch (functionSpaceType) {
1863       case(Nodes):
1864       out=mesh->Nodes->Id;
1865       break;
1866       case(ReducedNodes):
1867       out=mesh->Nodes->reducedNodesId;
1868       break;
1869       case(Elements):
1870       out=mesh->Elements->Id;
1871       break;
1872       case(ReducedElements):
1873       out=mesh->Elements->Id;
1874       break;
1875       case(FaceElements):
1876       out=mesh->FaceElements->Id;
1877       break;
1878       case(ReducedFaceElements):
1879       out=mesh->FaceElements->Id;
1880       break;
1881       case(Points):
1882       out=mesh->Points->Id;
1883       break;
1884       case(ContactElementsZero):
1885       out=mesh->ContactElements->Id;
1886       break;
1887       case(ReducedContactElementsZero):
1888       out=mesh->ContactElements->Id;
1889       break;
1890       case(ContactElementsOne):
1891       out=mesh->ContactElements->Id;
1892       break;
1893       case(ReducedContactElementsOne):
1894       out=mesh->ContactElements->Id;
1895       break;
1896       case(DegreesOfFreedom):
1897       out=mesh->Nodes->degreesOfFreedomId;
1898       break;
1899       case(ReducedDegreesOfFreedom):
1900       out=mesh->Nodes->reducedDegreesOfFreedomId;
1901       break;
1902       default:
1903          stringstream temp;
1904          temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();
1905          throw FinleyAdapterException(temp.str());
1906          break;
1907       }
1908       return out;
1909  }  }
1910  // bool MeshAdapter::operator==(const AbstractDomain& other) const  int MeshAdapter::getTagFromSampleNo(int functionSpaceType, int sampleNo) const
1911  // {  {
1912    // try {     int out=0;
1913      // const MeshAdapter& ref = dynamic_cast<const MeshAdapter&>(other);     Finley_Mesh* mesh=m_finleyMesh.get();
1914      // return (operator==(ref));     switch (functionSpaceType) {
1915    // }     case(Nodes):
1916    // catch (bad_cast) {     out=mesh->Nodes->Tag[sampleNo];
1917      // return false;     break;
1918    // }     case(ReducedNodes):
1919  // }     throw FinleyAdapterException(" Error - ReducedNodes does not support tags.");
1920       break;
1921       case(Elements):
1922       out=mesh->Elements->Tag[sampleNo];
1923       break;
1924       case(ReducedElements):
1925       out=mesh->Elements->Tag[sampleNo];
1926       break;
1927       case(FaceElements):
1928       out=mesh->FaceElements->Tag[sampleNo];
1929       break;
1930       case(ReducedFaceElements):
1931       out=mesh->FaceElements->Tag[sampleNo];
1932       break;
1933       case(Points):
1934       out=mesh->Points->Tag[sampleNo];
1935       break;
1936       case(ContactElementsZero):
1937       out=mesh->ContactElements->Tag[sampleNo];
1938       break;
1939       case(ReducedContactElementsZero):
1940       out=mesh->ContactElements->Tag[sampleNo];
1941       break;
1942       case(ContactElementsOne):
1943       out=mesh->ContactElements->Tag[sampleNo];
1944       break;
1945       case(ReducedContactElementsOne):
1946       out=mesh->ContactElements->Tag[sampleNo];
1947       break;
1948       case(DegreesOfFreedom):
1949       throw FinleyAdapterException(" Error - DegreesOfFreedom does not support tags.");
1950       break;
1951       case(ReducedDegreesOfFreedom):
1952       throw FinleyAdapterException(" Error - ReducedDegreesOfFreedom does not support tags.");
1953       break;
1954       default:
1955          stringstream temp;
1956          temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();
1957          throw FinleyAdapterException(temp.str());
1958          break;
1959       }
1960       return out;
1961    }
1962    
1963    
1964    void MeshAdapter::setTags(const int functionSpaceType, const int newTag, const escript::Data& mask) const
1965    {
1966       Finley_Mesh* mesh=m_finleyMesh.get();
1967       escriptDataC tmp=mask.getDataC();
1968       switch(functionSpaceType) {
1969       case(Nodes):
1970       Finley_NodeFile_setTags(mesh->Nodes,newTag,&tmp);
1971       break;
1972       case(ReducedNodes):
1973       throw FinleyAdapterException("Error - ReducedNodes does not support tags");
1974       break;
1975       case(DegreesOfFreedom):
1976       throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
1977       break;
1978       case(ReducedDegreesOfFreedom):
1979       throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
1980       break;
1981       case(Elements):
1982       Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);
1983       break;
1984       case(ReducedElements):
1985       Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);
1986       break;
1987       case(FaceElements):
1988       Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);
1989       break;
1990       case(ReducedFaceElements):
1991       Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);
1992       break;
1993       case(Points):
1994       Finley_ElementFile_setTags(mesh->Points,newTag,&tmp);
1995       break;
1996       case(ContactElementsZero):
1997       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1998       break;
1999       case(ReducedContactElementsZero):
2000       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
2001       break;
2002       case(ContactElementsOne):
2003       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
2004       break;
2005       case(ReducedContactElementsOne):
2006       Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
2007       break;
2008       default:
2009          stringstream temp;
2010          temp << "Error - Finley does not know anything about function space type " << functionSpaceType;
2011          throw FinleyAdapterException(temp.str());
2012       }
2013       checkFinleyError();
2014       return;
2015    }
2016    
2017    void MeshAdapter::setTagMap(const std::string& name,  int tag)
2018    {
2019       Finley_Mesh* mesh=m_finleyMesh.get();
2020       Finley_Mesh_addTagMap(mesh, name.c_str(),tag);
2021       checkPasoError();
2022       // throwStandardException("MeshAdapter::set TagMap is not implemented.");
2023    }
2024    
2025    int MeshAdapter::getTag(const std::string& name) const
2026    {
2027       Finley_Mesh* mesh=m_finleyMesh.get();
2028       int tag=0;
2029       tag=Finley_Mesh_getTag(mesh, name.c_str());
2030       checkPasoError();
2031       // throwStandardException("MeshAdapter::getTag is not implemented.");
2032       return tag;
2033    }
2034    
2035    bool MeshAdapter::isValidTagName(const std::string& name) const
2036    {
2037       Finley_Mesh* mesh=m_finleyMesh.get();
2038       return Finley_Mesh_isValidTagName(mesh,name.c_str());
2039    }
2040    
2041    std::string MeshAdapter::showTagNames() const
2042    {
2043       stringstream temp;
2044       Finley_Mesh* mesh=m_finleyMesh.get();
2045       Finley_TagMap* tag_map=mesh->TagMap;
2046       while (tag_map) {
2047          temp << tag_map->name;
2048          tag_map=tag_map->next;
2049          if (tag_map) temp << ", ";
2050       }
2051       return temp.str();
2052    }
2053    
2054    int MeshAdapter::getNumberOfTagsInUse(int functionSpaceCode) const
2055    {
2056      Finley_Mesh* mesh=m_finleyMesh.get();
2057      dim_t numTags=0;
2058      switch(functionSpaceCode) {
2059       case(Nodes):
2060              numTags=mesh->Nodes->numTagsInUse;
2061              break;
2062       case(ReducedNodes):
2063              throw FinleyAdapterException("Error - ReducedNodes does not support tags");
2064              break;
2065       case(DegreesOfFreedom):
2066              throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
2067              break;
2068       case(ReducedDegreesOfFreedom):
2069              throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
2070              break;
2071       case(Elements):
2072       case(ReducedElements):
2073              numTags=mesh->Elements->numTagsInUse;
2074              break;
2075       case(FaceElements):
2076       case(ReducedFaceElements):
2077              numTags=mesh->FaceElements->numTagsInUse;
2078              break;
2079       case(Points):
2080              numTags=mesh->Points->numTagsInUse;
2081              break;
2082       case(ContactElementsZero):
2083       case(ReducedContactElementsZero):
2084       case(ContactElementsOne):
2085       case(ReducedContactElementsOne):
2086              numTags=mesh->ContactElements->numTagsInUse;
2087              break;
2088       default:
2089          stringstream temp;
2090          temp << "Error - Finley does not know anything about function space type " << functionSpaceCode;
2091          throw FinleyAdapterException(temp.str());
2092      }
2093      return numTags;
2094    }
2095    int* MeshAdapter::borrowListOfTagsInUse(int functionSpaceCode) const
2096    {
2097      Finley_Mesh* mesh=m_finleyMesh.get();
2098      index_t* tags=NULL;
2099      switch(functionSpaceCode) {
2100       case(Nodes):
2101              tags=mesh->Nodes->tagsInUse;
2102              break;
2103       case(ReducedNodes):
2104              throw FinleyAdapterException("Error - ReducedNodes does not support tags");
2105              break;
2106       case(DegreesOfFreedom):
2107              throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
2108              break;
2109       case(ReducedDegreesOfFreedom):
2110              throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
2111              break;
2112       case(Elements):
2113       case(ReducedElements):
2114              tags=mesh->Elements->tagsInUse;
2115              break;
2116       case(FaceElements):
2117       case(ReducedFaceElements):
2118              tags=mesh->FaceElements->tagsInUse;
2119              break;
2120       case(Points):
2121              tags=mesh->Points->tagsInUse;
2122              break;
2123       case(ContactElementsZero):
2124       case(ReducedContactElementsZero):
2125       case(ContactElementsOne):
2126       case(ReducedContactElementsOne):
2127              tags=mesh->ContactElements->tagsInUse;
2128              break;
2129       default:
2130          stringstream temp;
2131          temp << "Error - Finley does not know anything about function space type " << functionSpaceCode;
2132          throw FinleyAdapterException(temp.str());
2133      }
2134      return tags;
2135    }
2136    
2137    
2138    bool MeshAdapter::canTag(int functionSpaceCode) const
2139    {
2140      switch(functionSpaceCode) {
2141       case(Nodes):
2142       case(Elements):
2143       case(ReducedElements):
2144       case(FaceElements):
2145       case(ReducedFaceElements):
2146       case(Points):
2147       case(ContactElementsZero):
2148       case(ReducedContactElementsZero):
2149       case(ContactElementsOne):
2150       case(ReducedContactElementsOne):
2151              return true;
2152       case(ReducedNodes):
2153       case(DegreesOfFreedom):
2154       case(ReducedDegreesOfFreedom):
2155          return false;
2156       default:
2157        return false;
2158      }
2159    }
2160    
2161    
2162  }  // end of namespace  }  // end of namespace

Legend:
Removed from v.102  
changed lines
  Added in v.1872

  ViewVC Help
Powered by ViewVC 1.1.26