/[escript]/trunk/finley/src/CPPAdapter/MeshAdapter.cpp
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Diff of /trunk/finley/src/CPPAdapter/MeshAdapter.cpp

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trunk/esys2/finley/src/CPPAdapter/MeshAdapter.cpp revision 149 by jgs, Thu Sep 1 03:31:39 2005 UTC trunk/finley/src/CPPAdapter/MeshAdapter.cpp revision 1347 by ksteube, Fri Nov 16 05:37:07 2007 UTC
# Line 1  Line 1 
 // $Id$  
 /*  
  ******************************************************************************  
  *                                                                            *  
  *       COPYRIGHT  ACcESS 2004 -  All Rights Reserved                        *  
  *                                                                            *  
  * This software is the property of ACcESS. No part of this code              *  
  * may be copied in any form or by any means without the expressed written    *  
  * consent of ACcESS.  Copying, use or modification of this software          *  
  * by any unauthorised person is illegal unless that person has a software    *  
  * license agreement with ACcESS.                                             *  
  *                                                                            *  
  ******************************************************************************  
 */  
 extern "C" {  
 #include "finley/finleyC/Finley.h"  
 #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"  
1    
2  #include <iostream>  /* $Id$ */
3    
4    /*******************************************************
5     *
6     *           Copyright 2003-2007 by ACceSS MNRF
7     *       Copyright 2007 by University of Queensland
8     *
9     *                http://esscc.uq.edu.au
10     *        Primary Business: Queensland, Australia
11     *  Licensed under the Open Software License version 3.0
12     *     http://www.opensource.org/licenses/osl-3.0.php
13     *
14     *******************************************************/
15    
16    #include "MeshAdapter.h"
17    #include "escript/Data.h"
18    #include "escript/DataFactory.h"
19    #ifdef USE_NETCDF
20    #include <netcdfcpp.h>
21    #endif
22    extern "C" {
23    #include "escript/blocktimer.h"
24    }
25  #include <vector>  #include <vector>
 #include <sstream>  
26    
27  using namespace std;  using namespace std;
28  using namespace escript;  using namespace escript;
# Line 44  MeshAdapter::FunctionSpaceNamesMapType M Line 35  MeshAdapter::FunctionSpaceNamesMapType M
35  const int MeshAdapter::DegreesOfFreedom=FINLEY_DEGREES_OF_FREEDOM;  const int MeshAdapter::DegreesOfFreedom=FINLEY_DEGREES_OF_FREEDOM;
36  const int MeshAdapter::ReducedDegreesOfFreedom=FINLEY_REDUCED_DEGREES_OF_FREEDOM;  const int MeshAdapter::ReducedDegreesOfFreedom=FINLEY_REDUCED_DEGREES_OF_FREEDOM;
37  const int MeshAdapter::Nodes=FINLEY_NODES;  const int MeshAdapter::Nodes=FINLEY_NODES;
38    const int MeshAdapter::ReducedNodes=FINLEY_REDUCED_NODES;
39  const int MeshAdapter::Elements=FINLEY_ELEMENTS;  const int MeshAdapter::Elements=FINLEY_ELEMENTS;
40    const int MeshAdapter::ReducedElements=FINLEY_REDUCED_ELEMENTS;
41  const int MeshAdapter::FaceElements=FINLEY_FACE_ELEMENTS;  const int MeshAdapter::FaceElements=FINLEY_FACE_ELEMENTS;
42    const int MeshAdapter::ReducedFaceElements=FINLEY_REDUCED_FACE_ELEMENTS;
43  const int MeshAdapter::Points=FINLEY_POINTS;  const int MeshAdapter::Points=FINLEY_POINTS;
44  const int MeshAdapter::ContactElementsZero=FINLEY_CONTACT_ELEMENTS_1;  const int MeshAdapter::ContactElementsZero=FINLEY_CONTACT_ELEMENTS_1;
45    const int MeshAdapter::ReducedContactElementsZero=FINLEY_REDUCED_CONTACT_ELEMENTS_1;
46  const int MeshAdapter::ContactElementsOne=FINLEY_CONTACT_ELEMENTS_2;  const int MeshAdapter::ContactElementsOne=FINLEY_CONTACT_ELEMENTS_2;
47    const int MeshAdapter::ReducedContactElementsOne=FINLEY_REDUCED_CONTACT_ELEMENTS_2;
48    
49  MeshAdapter::MeshAdapter(Finley_Mesh* finleyMesh)  MeshAdapter::MeshAdapter(Finley_Mesh* finleyMesh)
50  {  {
51    setFunctionSpaceTypeNames();    setFunctionSpaceTypeNames();
52    //    //
53    // 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
54    // for us.    // for us.
55    m_finleyMesh.reset(finleyMesh,null_deleter());    m_finleyMesh.reset(finleyMesh,null_deleter());
56  }  }
# Line 73  MeshAdapter::~MeshAdapter() Line 69  MeshAdapter::~MeshAdapter()
69    // 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.
70    //  cout << "In MeshAdapter destructor." << endl;    //  cout << "In MeshAdapter destructor." << endl;
71    if (m_finleyMesh.unique()) {    if (m_finleyMesh.unique()) {
72      //   cout << "Calling dealloc." << endl;      Finley_Mesh_free(m_finleyMesh.get());
     Finley_Mesh_dealloc(m_finleyMesh.get());  
     //   cout << "Finished dealloc." << endl;  
73    }    }
74  }  }
75    
76    int MeshAdapter::getMPISize() const
77    {
78       return m_finleyMesh.get()->MPIInfo->size;
79    }
80    int MeshAdapter::getMPIRank() const
81    {
82       return m_finleyMesh.get()->MPIInfo->rank;
83    }
84    
85    
86  Finley_Mesh* MeshAdapter::getFinley_Mesh() const {  Finley_Mesh* MeshAdapter::getFinley_Mesh() const {
87     return m_finleyMesh.get();     return m_finleyMesh.get();
88  }  }
89    
90  void MeshAdapter::write(const std::string& fileName) const  void MeshAdapter::write(const std::string& fileName) const
91  {  {
92    char fName[fileName.size()+1];    char *fName = (fileName.size()+1>0) ? TMPMEMALLOC(fileName.size()+1,char) : (char*)NULL;
93    strcpy(fName,fileName.c_str());    strcpy(fName,fileName.c_str());
94    Finley_Mesh_write(m_finleyMesh.get(),fName);    Finley_Mesh_write(m_finleyMesh.get(),fName);
95    checkFinleyError();    checkFinleyError();
96      TMPMEMFREE(fName);
97    }
98    
99    void MeshAdapter::Print_Mesh_Info(const bool full=false) const
100    {
101      Finley_PrintMesh_Info(m_finleyMesh.get(), full);
102  }  }
103    
104  // void MeshAdapter::getTagList(int functionSpaceType,  void MeshAdapter::dump(const std::string& fileName) const
105  //                  int* numTags) const  {
106  // {  #ifdef USE_NETCDF
107  //   Finley_Mesh_tagList(m_finleyMesh.get(),functionSpaceType,tagList,numTags);     const NcDim* ncdims[12];
108  //   return;     NcVar *ids, *data;
109  // }     int *int_ptr;
110       Finley_Mesh *mesh = m_finleyMesh.get();
111       Finley_TagMap* tag_map;
112       int num_Tags = 0;
113       int mpi_size             = mesh->MPIInfo->size;
114       int mpi_rank             = mesh->MPIInfo->rank;
115       int numDim               = mesh->Nodes->numDim;
116       int numNodes             = mesh->Nodes->numNodes;
117       int num_Elements         = mesh->Elements->numElements;
118       int num_FaceElements         = mesh->FaceElements->numElements;
119       int num_ContactElements      = mesh->ContactElements->numElements;
120       int num_Points           = mesh->Points->numElements;
121       int num_Elements_numNodes        = mesh->Elements->numNodes;
122       int num_FaceElements_numNodes    = mesh->FaceElements->numNodes;
123       int num_ContactElements_numNodes = mesh->ContactElements->numNodes;
124       char *newFileName = Paso_MPI_appendRankToFileName(strdup(fileName.c_str()), mpi_size, mpi_rank);
125    
126       /* Figure out how much storage is required for tags */
127       tag_map = mesh->TagMap;
128       if (tag_map) {
129         while (tag_map) {
130        num_Tags++;
131            tag_map=tag_map->next;
132         }
133       }
134    
135       // NetCDF error handler
136       NcError err(NcError::verbose_nonfatal);
137       // Create the file.
138       NcFile dataFile(newFileName, NcFile::Replace);
139       // check if writing was successful
140       if (!dataFile.is_valid())
141            throw DataException("Error - MeshAdapter::dump: opening of NetCDF file for output failed: " + *newFileName);
142    
143       // Define dimensions (num_Elements and dim_Elements are identical, dim_Elements only appears if > 0)
144       if (! (ncdims[0] = dataFile.add_dim("numNodes", numNodes)) )
145            throw DataException("Error - MeshAdapter::dump: appending dimension numNodes to netCDF file failed: " + *newFileName);
146       if (! (ncdims[1] = dataFile.add_dim("numDim", numDim)) )
147            throw DataException("Error - MeshAdapter::dump: appending dimension numDim to netCDF file failed: " + *newFileName);
148       if (! (ncdims[2] = dataFile.add_dim("mpi_size_plus_1", mpi_size+1)) )
149            throw DataException("Error - MeshAdapter::dump: appending dimension mpi_size to netCDF file failed: " + *newFileName);
150       if (num_Elements>0)
151          if (! (ncdims[3] = dataFile.add_dim("dim_Elements", num_Elements)) )
152            throw DataException("Error - MeshAdapter::dump: appending dimension dim_Elements to netCDF file failed: " + *newFileName);
153       if (num_FaceElements>0)
154          if (! (ncdims[4] = dataFile.add_dim("dim_FaceElements", num_FaceElements)) )
155            throw DataException("Error - MeshAdapter::dump: appending dimension dim_FaceElements to netCDF file failed: " + *newFileName);
156       if (num_ContactElements>0)
157          if (! (ncdims[5] = dataFile.add_dim("dim_ContactElements", num_ContactElements)) )
158            throw DataException("Error - MeshAdapter::dump: appending dimension dim_ContactElements to netCDF file failed: " + *newFileName);
159       if (num_Points>0)
160          if (! (ncdims[6] = dataFile.add_dim("dim_Points", num_Points)) )
161            throw DataException("Error - MeshAdapter::dump: appending dimension dim_Points to netCDF file failed: " + *newFileName);
162       if (num_Elements>0)
163          if (! (ncdims[7] = dataFile.add_dim("dim_Elements_Nodes", num_Elements_numNodes)) )
164            throw DataException("Error - MeshAdapter::dump: appending dimension dim_Elements_Nodes to netCDF file failed: " + *newFileName);
165       if (num_FaceElements>0)
166          if (! (ncdims[8] = dataFile.add_dim("dim_FaceElements_numNodes", num_FaceElements_numNodes)) )
167            throw DataException("Error - MeshAdapter::dump: appending dimension dim_FaceElements_numNodes to netCDF file failed: " + *newFileName);
168       if (num_ContactElements>0)
169          if (! (ncdims[9] = dataFile.add_dim("dim_ContactElements_numNodes", num_ContactElements_numNodes)) )
170            throw DataException("Error - MeshAdapter::dump: appending dimension dim_ContactElements_numNodes to netCDF file failed: " + *newFileName);
171       if (num_Tags>0)
172          if (! (ncdims[10] = dataFile.add_dim("dim_Tags", num_Tags)) )
173            throw DataException("Error - MeshAdapter::dump: appending dimension dim_Tags to netCDF file failed: " + *newFileName);
174    
175       // Attributes: MPI size, MPI rank, Name, order, reduced_order
176       if (!dataFile.add_att("mpi_size", mpi_size) )
177            throw DataException("Error - MeshAdapter::dump: appending mpi_size to NetCDF file failed: " + *newFileName);
178       if (!dataFile.add_att("mpi_rank", mpi_rank) )
179            throw DataException("Error - MeshAdapter::dump: appending mpi_rank to NetCDF file failed: " + *newFileName);
180       if (!dataFile.add_att("Name",mesh->Name) )
181            throw DataException("Error - MeshAdapter::dump: appending Name to NetCDF file failed: " + *newFileName);
182       if (!dataFile.add_att("numDim",numDim) )
183            throw DataException("Error - MeshAdapter::dump: appending order to NetCDF file failed: " + *newFileName);
184       if (!dataFile.add_att("order",mesh->order) )
185            throw DataException("Error - MeshAdapter::dump: appending order to NetCDF file failed: " + *newFileName);
186       if (!dataFile.add_att("reduced_order",mesh->reduced_order) )
187            throw DataException("Error - MeshAdapter::dump: appending reduced_order to NetCDF file failed: " + *newFileName);
188       if (!dataFile.add_att("numNodes",numNodes) )
189            throw DataException("Error - MeshAdapter::dump: appending numNodes to NetCDF file failed: " + *newFileName);
190       if (!dataFile.add_att("num_Elements",num_Elements) )
191            throw DataException("Error - MeshAdapter::dump: appending num_Elements to NetCDF file failed: " + *newFileName);
192       if (!dataFile.add_att("num_FaceElements",num_FaceElements) )
193            throw DataException("Error - MeshAdapter::dump: appending num_FaceElements to NetCDF file failed: " + *newFileName);
194       if (!dataFile.add_att("num_ContactElements",num_ContactElements) )
195            throw DataException("Error - MeshAdapter::dump: appending num_ContactElements to NetCDF file failed: " + *newFileName);
196       if (!dataFile.add_att("num_Points",num_Points) )
197            throw DataException("Error - MeshAdapter::dump: appending num_Points to NetCDF file failed: " + *newFileName);
198       if (!dataFile.add_att("num_Elements_numNodes",num_Elements_numNodes) )
199            throw DataException("Error - MeshAdapter::dump: appending num_Elements_numNodes to NetCDF file failed: " + *newFileName);
200       if (!dataFile.add_att("num_FaceElements_numNodes",num_FaceElements_numNodes) )
201            throw DataException("Error - MeshAdapter::dump: appending num_FaceElements_numNodes to NetCDF file failed: " + *newFileName);
202       if (!dataFile.add_att("num_ContactElements_numNodes",num_ContactElements_numNodes) )
203            throw DataException("Error - MeshAdapter::dump: appending num_ContactElements_numNodes to NetCDF file failed: " + *newFileName);
204       if (!dataFile.add_att("Elements_TypeId", mesh->Elements->ReferenceElement->Type->TypeId) )
205          throw DataException("Error - MeshAdapter::dump: appending Elements_TypeId to NetCDF file failed: " + *newFileName);
206       if (!dataFile.add_att("FaceElements_TypeId", mesh->FaceElements->ReferenceElement->Type->TypeId) )
207          throw DataException("Error - MeshAdapter::dump: appending FaceElements_TypeId to NetCDF file failed: " + *newFileName);
208       if (!dataFile.add_att("ContactElements_TypeId", mesh->ContactElements->ReferenceElement->Type->TypeId) )
209          throw DataException("Error - MeshAdapter::dump: appending ContactElements_TypeId to NetCDF file failed: " + *newFileName);
210       if (!dataFile.add_att("Points_TypeId", mesh->Points->ReferenceElement->Type->TypeId) )
211          throw DataException("Error - MeshAdapter::dump: appending Points_TypeId to NetCDF file failed: " + *newFileName);
212       if (!dataFile.add_att("num_Tags", num_Tags) )
213          throw DataException("Error - MeshAdapter::dump: appending num_Tags to NetCDF file failed: " + *newFileName);
214    
215       // // // // // Nodes // // // // //
216    
217       // Only write nodes if non-empty because NetCDF doesn't like empty arrays (it treats them as NC_UNLIMITED)
218       if (numNodes>0) {
219    
220       // Nodes Id
221       if (! ( ids = dataFile.add_var("Nodes_Id", ncInt, ncdims[0])) )
222            throw DataException("Error - MeshAdapter::dump: appending Nodes_Id to netCDF file failed: " + *newFileName);
223       int_ptr = &mesh->Nodes->Id[0];
224       if (! (ids->put(int_ptr, numNodes)) )
225            throw DataException("Error - MeshAdapter::dump: copy Nodes_Id to netCDF buffer failed: " + *newFileName);
226    
227       // Nodes Tag
228       if (! ( ids = dataFile.add_var("Nodes_Tag", ncInt, ncdims[0])) )
229            throw DataException("Error - MeshAdapter::dump: appending Nodes_Tag to netCDF file failed: " + *newFileName);
230       int_ptr = &mesh->Nodes->Tag[0];
231       if (! (ids->put(int_ptr, numNodes)) )
232            throw DataException("Error - MeshAdapter::dump: copy Nodes_Tag to netCDF buffer failed: " + *newFileName);
233    
234       // Nodes gDOF
235       if (! ( ids = dataFile.add_var("Nodes_gDOF", ncInt, ncdims[0])) )
236            throw DataException("Error - MeshAdapter::dump: appending Nodes_gDOF to netCDF file failed: " + *newFileName);
237       int_ptr = &mesh->Nodes->globalDegreesOfFreedom[0];
238       if (! (ids->put(int_ptr, numNodes)) )
239            throw DataException("Error - MeshAdapter::dump: copy Nodes_gDOF to netCDF buffer failed: " + *newFileName);
240    
241       // Nodes global node index
242       if (! ( ids = dataFile.add_var("Nodes_gNI", ncInt, ncdims[0])) )
243            throw DataException("Error - MeshAdapter::dump: appending Nodes_gNI to netCDF file failed: " + *newFileName);
244       int_ptr = &mesh->Nodes->globalNodesIndex[0];
245       if (! (ids->put(int_ptr, numNodes)) )
246            throw DataException("Error - MeshAdapter::dump: copy Nodes_gNI to netCDF buffer failed: " + *newFileName);
247    
248       // Nodes grDof
249       if (! ( ids = dataFile.add_var("Nodes_grDfI", ncInt, ncdims[0])) )
250            throw DataException("Error - MeshAdapter::dump: appending Nodes_grDfI to netCDF file failed: " + *newFileName);
251       int_ptr = &mesh->Nodes->globalReducedDOFIndex[0];
252       if (! (ids->put(int_ptr, numNodes)) )
253            throw DataException("Error - MeshAdapter::dump: copy Nodes_grDfI to netCDF buffer failed: " + *newFileName);
254    
255       // Nodes grNI
256       if (! ( ids = dataFile.add_var("Nodes_grNI", ncInt, ncdims[0])) )
257            throw DataException("Error - MeshAdapter::dump: appending Nodes_grNI to netCDF file failed: " + *newFileName);
258       int_ptr = &mesh->Nodes->globalReducedNodesIndex[0];
259       if (! (ids->put(int_ptr, numNodes)) )
260            throw DataException("Error - MeshAdapter::dump: copy Nodes_grNI to netCDF buffer failed: " + *newFileName);
261    
262       // Nodes Coordinates
263       if (! ( ids = dataFile.add_var("Nodes_Coordinates", ncDouble, ncdims[0], ncdims[1]) ) )
264            throw DataException("Error - MeshAdapter::dump: appending Nodes_Coordinates to netCDF file failed: " + *newFileName);
265       if (! (ids->put(&(mesh->Nodes->Coordinates[INDEX2(0,0,numDim)]), numNodes, numDim)) )
266            throw DataException("Error - MeshAdapter::dump: copy Nodes_Coordinates to netCDF buffer failed: " + *newFileName);
267    
268       // Nodes degreesOfFreedomDistribution
269       if (! ( ids = dataFile.add_var("Nodes_DofDistribution", ncInt, ncdims[2])) )
270            throw DataException("Error - MeshAdapter::dump: appending Nodes_DofDistribution to netCDF file failed: " + *newFileName);
271       int_ptr = &mesh->Nodes->degreesOfFreedomDistribution->first_component[0];
272       if (! (ids->put(int_ptr, mpi_size+1)) )
273            throw DataException("Error - MeshAdapter::dump: copy Nodes_DofDistribution to netCDF buffer failed: " + *newFileName);
274    
275       }
276    
277       // // // // // Elements // // // // //
278    
279       if (num_Elements>0) {
280    
281         // Temp storage to gather node IDs
282         int *Elements_Nodes = TMPMEMALLOC(num_Elements*num_Elements_numNodes,int);
283    
284         // Elements_Id
285         if (! ( ids = dataFile.add_var("Elements_Id", ncInt, ncdims[3])) )
286            throw DataException("Error - MeshAdapter::dump: appending Elements_Id to netCDF file failed: " + *newFileName);
287         int_ptr = &mesh->Elements->Id[0];
288         if (! (ids->put(int_ptr, num_Elements)) )
289            throw DataException("Error - MeshAdapter::dump: copy Elements_Id to netCDF buffer failed: " + *newFileName);
290    
291         // Elements_Tag
292         if (! ( ids = dataFile.add_var("Elements_Tag", ncInt, ncdims[3])) )
293            throw DataException("Error - MeshAdapter::dump: appending Elements_Tag to netCDF file failed: " + *newFileName);
294         int_ptr = &mesh->Elements->Tag[0];
295         if (! (ids->put(int_ptr, num_Elements)) )
296            throw DataException("Error - MeshAdapter::dump: copy Elements_Tag to netCDF buffer failed: " + *newFileName);
297    
298         // Elements_Owner
299         if (! ( ids = dataFile.add_var("Elements_Owner", ncInt, ncdims[3])) )
300            throw DataException("Error - MeshAdapter::dump: appending Elements_Owner to netCDF file failed: " + *newFileName);
301         int_ptr = &mesh->Elements->Owner[0];
302         if (! (ids->put(int_ptr, num_Elements)) )
303            throw DataException("Error - MeshAdapter::dump: copy Elements_Owner to netCDF buffer failed: " + *newFileName);
304    
305         // Elements_Color
306         if (! ( ids = dataFile.add_var("Elements_Color", ncInt, ncdims[3])) )
307            throw DataException("Error - MeshAdapter::dump: appending Elements_Color to netCDF file failed: " + *newFileName);
308         int_ptr = &mesh->Elements->Color[0];
309         if (! (ids->put(int_ptr, num_Elements)) )
310            throw DataException("Error - MeshAdapter::dump: copy Elements_Color to netCDF buffer failed: " + *newFileName);
311    
312         // Elements_Nodes
313         for (int i=0; i<num_Elements; i++)
314           for (int j=0; j<num_Elements_numNodes; j++)
315             Elements_Nodes[INDEX2(j,i,num_Elements_numNodes)] = mesh->Nodes->Id[mesh->Elements->Nodes[INDEX2(j,i,num_Elements_numNodes)]];
316         if (! ( ids = dataFile.add_var("Elements_Nodes", ncInt, ncdims[3], ncdims[7]) ) )
317            throw DataException("Error - MeshAdapter::dump: appending Elements_Nodes to netCDF file failed: " + *newFileName);
318         if (! (ids->put(&(Elements_Nodes[0]), num_Elements, num_Elements_numNodes)) )
319            throw DataException("Error - MeshAdapter::dump: copy Elements_Nodes to netCDF buffer failed: " + *newFileName);
320    
321         TMPMEMFREE(Elements_Nodes);
322    
323       }
324    
325       // // // // // Face_Elements // // // // //
326    
327       if (num_FaceElements>0) {
328    
329         // Temp storage to gather node IDs
330         int *FaceElements_Nodes = TMPMEMALLOC(num_FaceElements*num_FaceElements_numNodes,int);
331    
332         // FaceElements_Id
333         if (! ( ids = dataFile.add_var("FaceElements_Id", ncInt, ncdims[4])) )
334            throw DataException("Error - MeshAdapter::dump: appending FaceElements_Id to netCDF file failed: " + *newFileName);
335         int_ptr = &mesh->FaceElements->Id[0];
336         if (! (ids->put(int_ptr, num_FaceElements)) )
337            throw DataException("Error - MeshAdapter::dump: copy FaceElements_Id to netCDF buffer failed: " + *newFileName);
338    
339         // FaceElements_Tag
340         if (! ( ids = dataFile.add_var("FaceElements_Tag", ncInt, ncdims[4])) )
341            throw DataException("Error - MeshAdapter::dump: appending FaceElements_Tag to netCDF file failed: " + *newFileName);
342         int_ptr = &mesh->FaceElements->Tag[0];
343         if (! (ids->put(int_ptr, num_FaceElements)) )
344            throw DataException("Error - MeshAdapter::dump: copy FaceElements_Tag to netCDF buffer failed: " + *newFileName);
345    
346         // FaceElements_Owner
347         if (! ( ids = dataFile.add_var("FaceElements_Owner", ncInt, ncdims[4])) )
348            throw DataException("Error - MeshAdapter::dump: appending FaceElements_Owner to netCDF file failed: " + *newFileName);
349         int_ptr = &mesh->FaceElements->Owner[0];
350         if (! (ids->put(int_ptr, num_FaceElements)) )
351            throw DataException("Error - MeshAdapter::dump: copy FaceElements_Owner to netCDF buffer failed: " + *newFileName);
352    
353         // FaceElements_Color
354         if (! ( ids = dataFile.add_var("FaceElements_Color", ncInt, ncdims[4])) )
355            throw DataException("Error - MeshAdapter::dump: appending FaceElements_Color to netCDF file failed: " + *newFileName);
356         int_ptr = &mesh->FaceElements->Color[0];
357         if (! (ids->put(int_ptr, num_FaceElements)) )
358            throw DataException("Error - MeshAdapter::dump: copy FaceElements_Color to netCDF buffer failed: " + *newFileName);
359    
360         // FaceElements_Nodes
361         for (int i=0; i<num_FaceElements; i++)
362           for (int j=0; j<num_FaceElements_numNodes; j++)
363             FaceElements_Nodes[INDEX2(j,i,num_FaceElements_numNodes)] = mesh->Nodes->Id[mesh->FaceElements->Nodes[INDEX2(j,i,num_FaceElements_numNodes)]];
364         if (! ( ids = dataFile.add_var("FaceElements_Nodes", ncInt, ncdims[4], ncdims[8]) ) )
365            throw DataException("Error - MeshAdapter::dump: appending FaceElements_Nodes to netCDF file failed: " + *newFileName);
366         if (! (ids->put(&(FaceElements_Nodes[0]), num_FaceElements, num_FaceElements_numNodes)) )
367            throw DataException("Error - MeshAdapter::dump: copy FaceElements_Nodes to netCDF buffer failed: " + *newFileName);
368    
369         TMPMEMFREE(FaceElements_Nodes);
370    
371       }
372    
373       // // // // // Contact_Elements // // // // //
374    
375       if (num_ContactElements>0) {
376    
377         // Temp storage to gather node IDs
378         int *ContactElements_Nodes = TMPMEMALLOC(num_ContactElements*num_ContactElements_numNodes,int);
379    
380         // ContactElements_Id
381         if (! ( ids = dataFile.add_var("ContactElements_Id", ncInt, ncdims[5])) )
382            throw DataException("Error - MeshAdapter::dump: appending ContactElements_Id to netCDF file failed: " + *newFileName);
383         int_ptr = &mesh->ContactElements->Id[0];
384         if (! (ids->put(int_ptr, num_ContactElements)) )
385            throw DataException("Error - MeshAdapter::dump: copy ContactElements_Id to netCDF buffer failed: " + *newFileName);
386    
387         // ContactElements_Tag
388         if (! ( ids = dataFile.add_var("ContactElements_Tag", ncInt, ncdims[5])) )
389            throw DataException("Error - MeshAdapter::dump: appending ContactElements_Tag to netCDF file failed: " + *newFileName);
390         int_ptr = &mesh->ContactElements->Tag[0];
391         if (! (ids->put(int_ptr, num_ContactElements)) )
392            throw DataException("Error - MeshAdapter::dump: copy ContactElements_Tag to netCDF buffer failed: " + *newFileName);
393    
394         // ContactElements_Owner
395         if (! ( ids = dataFile.add_var("ContactElements_Owner", ncInt, ncdims[5])) )
396            throw DataException("Error - MeshAdapter::dump: appending ContactElements_Owner to netCDF file failed: " + *newFileName);
397         int_ptr = &mesh->ContactElements->Owner[0];
398         if (! (ids->put(int_ptr, num_ContactElements)) )
399            throw DataException("Error - MeshAdapter::dump: copy ContactElements_Owner to netCDF buffer failed: " + *newFileName);
400    
401         // ContactElements_Color
402         if (! ( ids = dataFile.add_var("ContactElements_Color", ncInt, ncdims[5])) )
403            throw DataException("Error - MeshAdapter::dump: appending ContactElements_Color to netCDF file failed: " + *newFileName);
404         int_ptr = &mesh->ContactElements->Color[0];
405         if (! (ids->put(int_ptr, num_ContactElements)) )
406            throw DataException("Error - MeshAdapter::dump: copy ContactElements_Color to netCDF buffer failed: " + *newFileName);
407    
408         // ContactElements_Nodes
409         for (int i=0; i<num_ContactElements; i++)
410           for (int j=0; j<num_ContactElements_numNodes; j++)
411             ContactElements_Nodes[INDEX2(j,i,num_ContactElements_numNodes)] = mesh->Nodes->Id[mesh->ContactElements->Nodes[INDEX2(j,i,num_ContactElements_numNodes)]];
412         if (! ( ids = dataFile.add_var("ContactElements_Nodes", ncInt, ncdims[5], ncdims[9]) ) )
413            throw DataException("Error - MeshAdapter::dump: appending ContactElements_Nodes to netCDF file failed: " + *newFileName);
414         if (! (ids->put(&(ContactElements_Nodes[0]), num_ContactElements, num_ContactElements_numNodes)) )
415            throw DataException("Error - MeshAdapter::dump: copy ContactElements_Nodes to netCDF buffer failed: " + *newFileName);
416    
417         TMPMEMFREE(ContactElements_Nodes);
418    
419       }
420    
421       // // // // // Points // // // // //
422    
423       if (num_Points>0) {
424    
425         fprintf(stderr, "\n\n\nWARNING: MeshAdapter::dump has not been tested with Point elements\n\n\n");
426    
427         // Temp storage to gather node IDs
428         int *Points_Nodes = TMPMEMALLOC(num_Points,int);
429    
430         // Points_Id
431         if (! ( ids = dataFile.add_var("Points_Id", ncInt, ncdims[6])) )
432            throw DataException("Error - MeshAdapter::dump: appending Points_Id to netCDF file failed: " + *newFileName);
433         int_ptr = &mesh->Points->Id[0];
434         if (! (ids->put(int_ptr, num_Points)) )
435            throw DataException("Error - MeshAdapter::dump: copy Points_Id to netCDF buffer failed: " + *newFileName);
436    
437         // Points_Tag
438         if (! ( ids = dataFile.add_var("Points_Tag", ncInt, ncdims[6])) )
439            throw DataException("Error - MeshAdapter::dump: appending Points_Tag to netCDF file failed: " + *newFileName);
440         int_ptr = &mesh->Points->Tag[0];
441         if (! (ids->put(int_ptr, num_Points)) )
442            throw DataException("Error - MeshAdapter::dump: copy Points_Tag to netCDF buffer failed: " + *newFileName);
443    
444         // Points_Owner
445         if (! ( ids = dataFile.add_var("Points_Owner", ncInt, ncdims[6])) )
446            throw DataException("Error - MeshAdapter::dump: appending Points_Owner to netCDF file failed: " + *newFileName);
447         int_ptr = &mesh->Points->Owner[0];
448         if (! (ids->put(int_ptr, num_Points)) )
449            throw DataException("Error - MeshAdapter::dump: copy Points_Owner to netCDF buffer failed: " + *newFileName);
450    
451         // Points_Color
452         if (! ( ids = dataFile.add_var("Points_Color", ncInt, ncdims[6])) )
453            throw DataException("Error - MeshAdapter::dump: appending Points_Color to netCDF file failed: " + *newFileName);
454         int_ptr = &mesh->Points->Color[0];
455         if (! (ids->put(int_ptr, num_Points)) )
456            throw DataException("Error - MeshAdapter::dump: copy Points_Color to netCDF buffer failed: " + *newFileName);
457    
458         // Points_Nodes
459         // mesh->Nodes->Id[mesh->Points->Nodes[INDEX2(0,i,1)]]
460         for (int i=0; i<num_Points; i++)
461           Points_Nodes[i] = mesh->Nodes->Id[mesh->Points->Nodes[INDEX2(0,i,1)]];
462         if (! ( ids = dataFile.add_var("Points_Nodes", ncInt, ncdims[6]) ) )
463            throw DataException("Error - MeshAdapter::dump: appending Points_Nodes to netCDF file failed: " + *newFileName);
464         if (! (ids->put(&(Points_Nodes[0]), num_Points)) )
465            throw DataException("Error - MeshAdapter::dump: copy Points_Nodes to netCDF buffer failed: " + *newFileName);
466    
467         TMPMEMFREE(Points_Nodes);
468    
469       }
470    
471       // // // // // TagMap // // // // //
472    
473       if (num_Tags>0) {
474    
475         // Temp storage to gather node IDs
476         int *Tags_keys = TMPMEMALLOC(num_Tags, int);
477         char name_temp[4096];
478    
479         /* Copy tag data into temp arrays */
480         tag_map = mesh->TagMap;
481         if (tag_map) {
482           int i = 0;
483           while (tag_map) {
484        Tags_keys[i++] = tag_map->tag_key;
485            tag_map=tag_map->next;
486           }
487         }
488    
489         // Tags_keys
490         if (! ( ids = dataFile.add_var("Tags_keys", ncInt, ncdims[10])) )
491            throw DataException("Error - MeshAdapter::dump: appending Tags_keys to netCDF file failed: " + *newFileName);
492         int_ptr = &Tags_keys[0];
493         if (! (ids->put(int_ptr, num_Tags)) )
494            throw DataException("Error - MeshAdapter::dump: copy Tags_keys to netCDF buffer failed: " + *newFileName);
495    
496         // Tags_names_*
497         // This is an array of strings, it should be stored as an array but instead I have hacked in one attribute per string
498         // because the NetCDF manual doesn't tell how to do an array of strings
499         tag_map = mesh->TagMap;
500         if (tag_map) {
501           int i = 0;
502           while (tag_map) {
503             sprintf(name_temp, "Tags_name_%d", i);
504             if (!dataFile.add_att(name_temp, tag_map->name) )
505               throw DataException("Error - MeshAdapter::dump: appending Tags_names_ to NetCDF file failed: " + *newFileName);
506             tag_map=tag_map->next;
507         i++;
508           }
509         }
510    
511         TMPMEMFREE(Tags_keys);
512    
513       }
514    
515    
516       // NetCDF file is closed by destructor of NcFile object
517    #else
518       Finley_setError(IO_ERROR, "MeshAdapter::dump: not configured with NetCDF. Please contact your installation manager.");
519    #endif  /* USE_NETCDF */
520       checkFinleyError();
521    }
522    
523  string MeshAdapter::getDescription() const  string MeshAdapter::getDescription() const
524  {  {
# Line 130  void MeshAdapter::setFunctionSpaceTypeNa Line 552  void MeshAdapter::setFunctionSpaceTypeNa
552    m_functionSpaceTypeNames.insert    m_functionSpaceTypeNames.insert
553      (FunctionSpaceNamesMapType::value_type(Nodes,"Finley_Nodes"));      (FunctionSpaceNamesMapType::value_type(Nodes,"Finley_Nodes"));
554    m_functionSpaceTypeNames.insert    m_functionSpaceTypeNames.insert
555        (FunctionSpaceNamesMapType::value_type(ReducedNodes,"Finley_Reduced_Nodes"));
556      m_functionSpaceTypeNames.insert
557      (FunctionSpaceNamesMapType::value_type(Elements,"Finley_Elements"));      (FunctionSpaceNamesMapType::value_type(Elements,"Finley_Elements"));
558    m_functionSpaceTypeNames.insert    m_functionSpaceTypeNames.insert
559        (FunctionSpaceNamesMapType::value_type(ReducedElements,"Finley_Reduced_Elements"));
560      m_functionSpaceTypeNames.insert
561      (FunctionSpaceNamesMapType::value_type(FaceElements,"Finley_Face_Elements"));      (FunctionSpaceNamesMapType::value_type(FaceElements,"Finley_Face_Elements"));
562    m_functionSpaceTypeNames.insert    m_functionSpaceTypeNames.insert
563        (FunctionSpaceNamesMapType::value_type(ReducedFaceElements,"Finley_Reduced_Face_Elements"));
564      m_functionSpaceTypeNames.insert
565      (FunctionSpaceNamesMapType::value_type(Points,"Finley_Points"));      (FunctionSpaceNamesMapType::value_type(Points,"Finley_Points"));
566    m_functionSpaceTypeNames.insert    m_functionSpaceTypeNames.insert
567      (FunctionSpaceNamesMapType::value_type(ContactElementsZero,"Finley_Contact_Elements_0"));      (FunctionSpaceNamesMapType::value_type(ContactElementsZero,"Finley_Contact_Elements_0"));
568    m_functionSpaceTypeNames.insert    m_functionSpaceTypeNames.insert
569        (FunctionSpaceNamesMapType::value_type(ReducedContactElementsZero,"Finley_Reduced_Contact_Elements_0"));
570      m_functionSpaceTypeNames.insert
571      (FunctionSpaceNamesMapType::value_type(ContactElementsOne,"Finley_Contact_Elements_1"));      (FunctionSpaceNamesMapType::value_type(ContactElementsOne,"Finley_Contact_Elements_1"));
572      m_functionSpaceTypeNames.insert
573        (FunctionSpaceNamesMapType::value_type(ReducedContactElementsOne,"Finley_Reduced_Contact_Elements_1"));
574  }  }
575    
576  int MeshAdapter::getContinuousFunctionCode() const  int MeshAdapter::getContinuousFunctionCode() const
577  {  {
578    return Nodes;    return Nodes;
579  }  }
580    int MeshAdapter::getReducedContinuousFunctionCode() const
581    {
582      return ReducedNodes;
583    }
584    
585  int MeshAdapter::getFunctionCode() const  int MeshAdapter::getFunctionCode() const
586  {  {
587    return Elements;    return Elements;
588  }  }
589    int MeshAdapter::getReducedFunctionCode() const
590    {
591      return ReducedElements;
592    }
593    
594  int MeshAdapter::getFunctionOnBoundaryCode() const  int MeshAdapter::getFunctionOnBoundaryCode() const
595  {  {
596    return FaceElements;    return FaceElements;
597  }  }
598    int MeshAdapter::getReducedFunctionOnBoundaryCode() const
599    {
600      return ReducedFaceElements;
601    }
602    
603  int MeshAdapter::getFunctionOnContactZeroCode() const  int MeshAdapter::getFunctionOnContactZeroCode() const
604  {  {
605    return ContactElementsZero;    return ContactElementsZero;
606  }  }
607    int MeshAdapter::getReducedFunctionOnContactZeroCode() const
608    {
609      return ReducedContactElementsZero;
610    }
611    
612  int MeshAdapter::getFunctionOnContactOneCode() const  int MeshAdapter::getFunctionOnContactOneCode() const
613  {  {
614    return ContactElementsOne;    return ContactElementsOne;
615  }  }
616    int MeshAdapter::getReducedFunctionOnContactOneCode() const
617    {
618      return ReducedContactElementsOne;
619    }
620    
621  int MeshAdapter::getSolutionCode() const  int MeshAdapter::getSolutionCode() const
622  {  {
# Line 182  int MeshAdapter::getDiracDeltaFunctionCo Line 634  int MeshAdapter::getDiracDeltaFunctionCo
634  }  }
635    
636  //  //
 // returns a pointer to the tag list of samples of functionSpaceType  
 //  
 void MeshAdapter::getTagList(int functionSpaceType, int** tagList,  
                  int* numTags) const  
 {  
   *tagList=NULL;  
   *numTags=0;  
   Finley_Mesh* mesh=m_finleyMesh.get();  
   switch (functionSpaceType) {  
   case(Nodes):  
     if (mesh->Nodes!=NULL) {  
       *tagList=mesh->Nodes->Tag;  
       *numTags=mesh->Nodes->numNodes;  
     }  
     break;  
   case(Elements):  
     if (mesh->Elements!=NULL) {  
       *tagList=mesh->Elements->Tag;  
       *numTags=mesh->Elements->numElements;  
     }  
     break;  
   case(FaceElements):  
     if (mesh->FaceElements!=NULL) {  
       *tagList=mesh->FaceElements->Tag;  
       *numTags=mesh->FaceElements->numElements;  
     }  
     break;  
   case(Points):  
     if (mesh->Points!=NULL) {  
       *tagList=mesh->Points->Tag;  
       *numTags=mesh->Points->numElements;  
     }  
     break;  
   case(ContactElementsZero):  
     if (mesh->ContactElements!=NULL) {  
       *tagList=mesh->ContactElements->Tag;  
       *numTags=mesh->ContactElements->numElements;  
     }  
     break;  
   case(ContactElementsOne):  
     if (mesh->ContactElements!=NULL) {  
       *tagList=mesh->ContactElements->Tag;  
       *numTags=mesh->ContactElements->numElements;  
     }  
     break;  
   case(DegreesOfFreedom):  
     if (mesh->Nodes!=NULL) {  
       *tagList=NULL;  
       *numTags=0;  
     }  
     break;  
   case(ReducedDegreesOfFreedom):  
     if (mesh->Nodes!=NULL) {  
       *tagList=NULL;  
       *numTags=0;  
     }  
     break;  
   default:  
     stringstream temp;  
     temp << "Error - Invalid function space type: "  
      << functionSpaceType << " for domain: " << getDescription();  
     throw FinleyAdapterException(temp.str());  
     break;  
   }  
   if (*tagList==NULL) {  
     stringstream temp;  
     temp << "Error - no tags available for " << functionSpaceType << " for domain: " << getDescription();  
     throw FinleyAdapterException(temp.str());  
   }  
   return;  
 }  
   
 //  
 // returns a pointer to the reference no list of samples of functionSpaceType  
 //  
 void MeshAdapter::getReferenceNoList(int functionSpaceType, int** referenceNoList,  
                  int* numReferenceNo) const  
 {  
   *referenceNoList=NULL;  
   *numReferenceNo=0;  
   Finley_Mesh* mesh=m_finleyMesh.get();  
   switch (functionSpaceType) {  
   case(Nodes):  
     if (mesh->Nodes!=NULL) {  
       *referenceNoList=mesh->Nodes->Id;  
       *numReferenceNo=mesh->Nodes->numNodes;  
     }  
     break;  
   case(Elements):  
     if (mesh->Elements!=NULL) {  
       *referenceNoList=mesh->Elements->Id;  
       *numReferenceNo=mesh->Elements->numElements;  
     }  
     break;  
   case(FaceElements):  
     if (mesh->FaceElements!=NULL) {  
       *referenceNoList=mesh->FaceElements->Id;  
       *numReferenceNo=mesh->FaceElements->numElements;  
     }  
     break;  
   case(Points):  
     if (mesh->Points!=NULL) {  
       *referenceNoList=mesh->Points->Id;  
       *numReferenceNo=mesh->Points->numElements;  
     }  
     break;  
   case(ContactElementsZero):  
     if (mesh->ContactElements!=NULL) {  
       *referenceNoList=mesh->ContactElements->Id;  
       *numReferenceNo=mesh->ContactElements->numElements;  
     }  
     break;  
   case(ContactElementsOne):  
     if (mesh->ContactElements!=NULL) {  
       *referenceNoList=mesh->ContactElements->Id;  
       *numReferenceNo=mesh->ContactElements->numElements;  
     }  
     break;  
   case(DegreesOfFreedom):  
     if (mesh->Nodes!=NULL) {  
       *referenceNoList=NULL;  
       *numReferenceNo=0;  
     }  
     break;  
   case(ReducedDegreesOfFreedom):  
     if (mesh->Nodes!=NULL) {  
       *referenceNoList=NULL;  
       *numReferenceNo=0;  
     }  
     break;  
   default:  
     stringstream temp;  
     temp << "Error - Invalid function space type: "  
      << functionSpaceType << " for domain: " << getDescription();  
     throw FinleyAdapterException(temp.str());  
     break;  
   }  
   if (*referenceNoList==NULL) {  
     stringstream temp;  
     temp << "Error - reference number list available for " << functionSpaceType << " for domain: " << getDescription();  
     throw FinleyAdapterException(temp.str());  
   }  
   return;  
 }  
   
 //  
637  // return the spatial dimension of the Mesh:  // return the spatial dimension of the Mesh:
638  //  //
639  int MeshAdapter::getDim() const  int MeshAdapter::getDim() const
# Line 349  pair<int,int> MeshAdapter::getDataShape( Line 655  pair<int,int> MeshAdapter::getDataShape(
655     switch (functionSpaceCode) {     switch (functionSpaceCode) {
656        case(Nodes):        case(Nodes):
657             numDataPointsPerSample=1;             numDataPointsPerSample=1;
658             if (mesh->Nodes!=NULL) numSamples=mesh->Nodes->numNodes;             numSamples=Finley_NodeFile_getNumNodes(mesh->Nodes);
659               break;
660          case(ReducedNodes):
661               numDataPointsPerSample=1;
662               numSamples=Finley_NodeFile_getNumReducedNodes(mesh->Nodes);
663             break;             break;
664        case(Elements):        case(Elements):
665             if (mesh->Elements!=NULL) {             if (mesh->Elements!=NULL) {
# Line 357  pair<int,int> MeshAdapter::getDataShape( Line 667  pair<int,int> MeshAdapter::getDataShape(
667               numDataPointsPerSample=mesh->Elements->ReferenceElement->numQuadNodes;               numDataPointsPerSample=mesh->Elements->ReferenceElement->numQuadNodes;
668             }             }
669             break;             break;
670          case(ReducedElements):
671               if (mesh->Elements!=NULL) {
672                 numSamples=mesh->Elements->numElements;
673                 numDataPointsPerSample=mesh->Elements->ReferenceElementReducedOrder->numQuadNodes;
674               }
675               break;
676        case(FaceElements):        case(FaceElements):
677             if (mesh->FaceElements!=NULL) {             if (mesh->FaceElements!=NULL) {
678                  numDataPointsPerSample=mesh->FaceElements->ReferenceElement->numQuadNodes;                  numDataPointsPerSample=mesh->FaceElements->ReferenceElement->numQuadNodes;
679                  numSamples=mesh->FaceElements->numElements;                  numSamples=mesh->FaceElements->numElements;
680             }             }
681             break;             break;
682          case(ReducedFaceElements):
683               if (mesh->FaceElements!=NULL) {
684                    numDataPointsPerSample=mesh->FaceElements->ReferenceElementReducedOrder->numQuadNodes;
685                    numSamples=mesh->FaceElements->numElements;
686               }
687               break;
688        case(Points):        case(Points):
689             if (mesh->Points!=NULL) {             if (mesh->Points!=NULL) {
690               numDataPointsPerSample=1;               numDataPointsPerSample=1;
# Line 375  pair<int,int> MeshAdapter::getDataShape( Line 697  pair<int,int> MeshAdapter::getDataShape(
697               numSamples=mesh->ContactElements->numElements;               numSamples=mesh->ContactElements->numElements;
698             }             }
699             break;             break;
700          case(ReducedContactElementsZero):
701               if (mesh->ContactElements!=NULL) {
702                 numDataPointsPerSample=mesh->ContactElements->ReferenceElementReducedOrder->numQuadNodes;
703                 numSamples=mesh->ContactElements->numElements;
704               }
705               break;
706        case(ContactElementsOne):        case(ContactElementsOne):
707             if (mesh->ContactElements!=NULL) {             if (mesh->ContactElements!=NULL) {
708               numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;               numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;
709               numSamples=mesh->ContactElements->numElements;               numSamples=mesh->ContactElements->numElements;
710             }             }
711             break;             break;
712          case(ReducedContactElementsOne):
713               if (mesh->ContactElements!=NULL) {
714                 numDataPointsPerSample=mesh->ContactElements->ReferenceElementReducedOrder->numQuadNodes;
715                 numSamples=mesh->ContactElements->numElements;
716               }
717               break;
718        case(DegreesOfFreedom):        case(DegreesOfFreedom):
719             if (mesh->Nodes!=NULL) {             if (mesh->Nodes!=NULL) {
720               numDataPointsPerSample=1;               numDataPointsPerSample=1;
721               numSamples=mesh->Nodes->numDegreesOfFreedom;               numSamples=Finley_NodeFile_getNumDegreesOfFreedom(mesh->Nodes);
722             }             }
723             break;             break;
724        case(ReducedDegreesOfFreedom):        case(ReducedDegreesOfFreedom):
725             if (mesh->Nodes!=NULL) {             if (mesh->Nodes!=NULL) {
726               numDataPointsPerSample=1;               numDataPointsPerSample=1;
727               numSamples=mesh->Nodes->reducedNumDegreesOfFreedom;               numSamples=Finley_NodeFile_getNumReducedDegreesOfFreedom(mesh->Nodes);
728             }             }
729             break;             break;
730        default:        default:
731          stringstream temp;          stringstream temp;
732          temp << "Error - Invalid function space type: "          temp << "Error - Invalid function space type: " << functionSpaceCode << " for domain: " << getDescription();
          << functionSpaceCode << " for domain: " << getDescription();  
733          throw FinleyAdapterException(temp.str());          throw FinleyAdapterException(temp.str());
734          break;          break;
735        }        }
# Line 407  pair<int,int> MeshAdapter::getDataShape( Line 740  pair<int,int> MeshAdapter::getDataShape(
740  // 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:
741  //  //
742  void MeshAdapter::addPDEToSystem(  void MeshAdapter::addPDEToSystem(
743                       SystemMatrixAdapter& mat, Data& rhs,                       SystemMatrixAdapter& mat, escript::Data& rhs,
744                       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,
745                       const Data& d, const Data& y,                       const escript::Data& d, const escript::Data& y,
746                       const Data& d_contact,const Data& y_contact) const                       const escript::Data& d_contact,const escript::Data& y_contact) const
747  {  {
748       escriptDataC _rhs=rhs.getDataC();
749       escriptDataC _A  =A.getDataC();
750       escriptDataC _B=B.getDataC();
751       escriptDataC _C=C.getDataC();
752       escriptDataC _D=D.getDataC();
753       escriptDataC _X=X.getDataC();
754       escriptDataC _Y=Y.getDataC();
755       escriptDataC _d=d.getDataC();
756       escriptDataC _y=y.getDataC();
757       escriptDataC _d_contact=d_contact.getDataC();
758       escriptDataC _y_contact=y_contact.getDataC();
759    
760     Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
761     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,mat.getFinley_SystemMatrix(),&(rhs.getDataC()),  
762                         &(A.getDataC()),&(B.getDataC()),&(C.getDataC()),&(D.getDataC()),&(X.getDataC()),&(Y.getDataC()));     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,mat.getPaso_SystemMatrix(), &_rhs, &_A, &_B, &_C, &_D, &_X, &_Y );
763     checkFinleyError();     checkFinleyError();
764     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->FaceElements,  
765                    mat.getFinley_SystemMatrix(),     Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, mat.getPaso_SystemMatrix(), &_rhs, 0, 0, 0, &_d, 0, &_y );
                   &(rhs.getDataC()),  
                                   &(d.getDataC()),&(y.getDataC()),  
                                   Finley_Assemble_handelShapeMissMatch_Mean_out);  
766     checkFinleyError();     checkFinleyError();
767     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->ContactElements,  
768                    mat.getFinley_SystemMatrix(),     Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, mat.getPaso_SystemMatrix(), &_rhs , 0, 0, 0, &_d_contact, 0, &_y_contact );
769                    &(rhs.getDataC()),     checkFinleyError();
770                                    &(d_contact.getDataC()),  }
771                    &(y_contact.getDataC()),  
772                                    Finley_Assemble_handelShapeMissMatch_Step_out);  void  MeshAdapter::addPDEToLumpedSystem(
773                         escript::Data& mat,
774                         const escript::Data& D,
775                         const escript::Data& d) const
776    {
777       escriptDataC _mat=mat.getDataC();
778       escriptDataC _D=D.getDataC();
779       escriptDataC _d=d.getDataC();
780    
781       Finley_Mesh* mesh=m_finleyMesh.get();
782    
783       Finley_Assemble_LumpedSystem(mesh->Nodes,mesh->Elements,&_mat, &_D);
784       Finley_Assemble_LumpedSystem(mesh->Nodes,mesh->FaceElements,&_mat, &_d);
785    
786     checkFinleyError();     checkFinleyError();
787  }  }
788    
789    
790  //  //
791  // adds linear PDE of second order into the right hand side only  // adds linear PDE of second order into the right hand side only
792  //  //
793  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  
794  {  {
795     Finley_Mesh* mesh=m_finleyMesh.get();     Finley_Mesh* mesh=m_finleyMesh.get();
796    
797     // Finley_Assemble_PDE_RHS(mesh->Nodes,mesh->Elements,&(rhs.getDataC()),&(X.getDataC()),&(Y.getDataC()));     escriptDataC _rhs=rhs.getDataC();
798     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,0,&(rhs.getDataC()),0,0,0,0,&(X.getDataC()),&(Y.getDataC()));     escriptDataC _X=X.getDataC();
799     checkFinleyError();     escriptDataC _Y=Y.getDataC();
800       escriptDataC _y=y.getDataC();
801       escriptDataC _y_contact=y_contact.getDataC();
802    
803     // Finley_Assemble_RobinCondition_RHS(mesh->Nodes,mesh->FaceElements,&(rhs.getDataC()),&(y.getDataC()),Finley_Assemble_handelShapeMissMatch_Mean_out);     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements, 0, &_rhs, 0, 0, 0, 0, &_X, &_Y );
804     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->FaceElements,0,&(rhs.getDataC()),0,&(y.getDataC()),Finley_Assemble_handelShapeMissMatch_Mean_out);     checkFinleyError();
805    
806       Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, 0, &_rhs, 0, 0, 0, 0, 0, &_y );
807     checkFinleyError();     checkFinleyError();
808     Finley_Assemble_RobinCondition(mesh->Nodes,mesh->ContactElements,0,&(rhs.getDataC()),0,&(y_contact.getDataC()),Finley_Assemble_handelShapeMissMatch_Step_out);  
809     // Finley_Assemble_RobinCondition_RHS(mesh->Nodes,mesh->ContactElements,&(rhs.getDataC()),&(y_contact.getDataC()),Finley_Assemble_handelShapeMissMatch_Step_out);     Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, 0, &_rhs , 0, 0, 0, 0, 0, &_y_contact );
810     checkFinleyError();     checkFinleyError();
811  }  }
812    
813  //  //
814  // interpolates data between different function spaces:  // interpolates data between different function spaces:
815  //  //
816  void MeshAdapter::interpolateOnDomain(Data& target,const Data& in) const  void MeshAdapter::interpolateOnDomain(escript::Data& target,const escript::Data& in) const
817  {  {
818    const MeshAdapter& inDomain=dynamic_cast<const MeshAdapter&>(in.getFunctionSpace().getDomain());    const MeshAdapter& inDomain=dynamic_cast<const MeshAdapter&>(in.getFunctionSpace().getDomain());
819    const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());    const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());
820    if (inDomain!=*this)    if (inDomain!=*this)  
821       throw FinleyAdapterException("Error - Illegal domain of interpolant.");      throw FinleyAdapterException("Error - Illegal domain of interpolant.");
822    if (targetDomain!=*this)    if (targetDomain!=*this)
823       throw FinleyAdapterException("Error - Illegal domain of interpolation target.");      throw FinleyAdapterException("Error - Illegal domain of interpolation target.");
824    
825    Finley_Mesh* mesh=m_finleyMesh.get();    Finley_Mesh* mesh=m_finleyMesh.get();
826      escriptDataC _target=target.getDataC();
827      escriptDataC _in=in.getDataC();
828    switch(in.getFunctionSpace().getTypeCode()) {    switch(in.getFunctionSpace().getTypeCode()) {
829       case(Nodes):       case(Nodes):
830          switch(target.getFunctionSpace().getTypeCode()) {          switch(target.getFunctionSpace().getTypeCode()) {
831             case(Nodes):             case(Nodes):
832               case(ReducedNodes):
833               case(DegreesOfFreedom):
834             case(ReducedDegreesOfFreedom):             case(ReducedDegreesOfFreedom):
835                   Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
836                   break;
837               case(Elements):
838               case(ReducedElements):
839                   Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
840                   break;
841               case(FaceElements):
842               case(ReducedFaceElements):
843                   Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
844                   break;
845               case(Points):
846                   Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
847                   break;
848               case(ContactElementsZero):
849               case(ReducedContactElementsZero):
850                   Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
851                   break;
852               case(ContactElementsOne):
853               case(ReducedContactElementsOne):
854                   Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
855                   break;
856               default:
857                   stringstream temp;
858                   temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
859                   throw FinleyAdapterException(temp.str());
860                   break;
861            }
862            break;
863         case(ReducedNodes):
864            switch(target.getFunctionSpace().getTypeCode()) {
865               case(Nodes):
866               case(ReducedNodes):
867             case(DegreesOfFreedom):             case(DegreesOfFreedom):
868                 Finley_Assemble_CopyNodalData(mesh->Nodes,&(target.getDataC()),&(in.getDataC()));             case(ReducedDegreesOfFreedom):
869                   Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
870                 break;                 break;
871             case(Elements):             case(Elements):
872                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&(in.getDataC()),&(target.getDataC()));             case(ReducedElements):
873                   Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
874                 break;                 break;
875             case(FaceElements):             case(FaceElements):
876                 Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&(in.getDataC()),&(target.getDataC()));             case(ReducedFaceElements):
877                   Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
878                 break;                 break;
879             case(Points):             case(Points):
880                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&(in.getDataC()),&(target.getDataC()));                 Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
881                 break;                 break;
882             case(ContactElementsZero):             case(ContactElementsZero):
883                 Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));             case(ReducedContactElementsZero):
884                   Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
885                 break;                 break;
886             case(ContactElementsOne):             case(ContactElementsOne):
887                 Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));             case(ReducedContactElementsOne):
888                   Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
889                 break;                 break;
890             default:             default:
891                 Finley_ErrorCode=TYPE_ERROR;                 stringstream temp;
892                 sprintf(Finley_ErrorMsg,"Interpolation on Domain: Finley does not know anything about function space type %d",target.getFunctionSpace().getTypeCode());                 temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
893                   throw FinleyAdapterException(temp.str());
894                 break;                 break;
895          }          }
896          break;          break;
897       case(Elements):       case(Elements):
898          if (target.getFunctionSpace().getTypeCode()==Elements) {          if (target.getFunctionSpace().getTypeCode()==Elements) {
899             Finley_Assemble_CopyElementData(mesh->Elements,&(target.getDataC()),&(in.getDataC()));             Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);
900            } else if (target.getFunctionSpace().getTypeCode()==ReducedElements) {
901               Finley_Assemble_AverageElementData(mesh->Elements,&_target,&_in);
902            } else {
903               throw FinleyAdapterException("Error - No interpolation with data on elements possible.");
904            }
905            break;
906         case(ReducedElements):
907            if (target.getFunctionSpace().getTypeCode()==ReducedElements) {
908               Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);
909          } else {          } else {
910             Finley_ErrorCode=TYPE_ERROR;             throw FinleyAdapterException("Error - No interpolation with data on elements with reduced integration order possible.");
            sprintf(Finley_ErrorMsg,"No interpolation with data on elements possible.");  
911          }          }
912          break;          break;
913       case(FaceElements):       case(FaceElements):
914          if (target.getFunctionSpace().getTypeCode()==FaceElements) {          if (target.getFunctionSpace().getTypeCode()==FaceElements) {
915             Finley_Assemble_CopyElementData(mesh->FaceElements,&(target.getDataC()),&(in.getDataC()));             Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);
916            } else if (target.getFunctionSpace().getTypeCode()==ReducedFaceElements) {
917               Finley_Assemble_AverageElementData(mesh->FaceElements,&_target,&_in);
918          } else {          } else {
919             Finley_ErrorCode=TYPE_ERROR;             throw FinleyAdapterException("Error - No interpolation with data on face elements possible.");
920             sprintf(Finley_ErrorMsg,"No interpolation with data on face elements possible.");         }
921             break;         break;
922         case(ReducedFaceElements):
923            if (target.getFunctionSpace().getTypeCode()==FaceElements) {
924               Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);
925            } else {
926               throw FinleyAdapterException("Error - No interpolation with data on face elements with reduced integration order possible.");
927         }         }
928           break;
929       case(Points):       case(Points):
930          if (target.getFunctionSpace().getTypeCode()==Points) {          if (target.getFunctionSpace().getTypeCode()==Points) {
931             Finley_Assemble_CopyElementData(mesh->Points,&(target.getDataC()),&(in.getDataC()));             Finley_Assemble_CopyElementData(mesh->Points,&_target,&_in);
932          } else {          } else {
933             Finley_ErrorCode=TYPE_ERROR;             throw FinleyAdapterException("Error - No interpolation with data on points possible.");
            sprintf(Finley_ErrorMsg,"No interpolation with data on points possible.");  
            break;  
934          }          }
935          break;          break;
936       case(ContactElementsZero):       case(ContactElementsZero):
937       case(ContactElementsOne):       case(ContactElementsOne):
938          if (target.getFunctionSpace().getTypeCode()==ContactElementsZero || target.getFunctionSpace().getTypeCode()==ContactElementsOne) {          if (target.getFunctionSpace().getTypeCode()==ContactElementsZero || target.getFunctionSpace().getTypeCode()==ContactElementsOne) {
939             Finley_Assemble_CopyElementData(mesh->ContactElements,&(target.getDataC()),&(in.getDataC()));             Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);
940            } else if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {
941               Finley_Assemble_AverageElementData(mesh->ContactElements,&_target,&_in);
942          } else {          } else {
943             Finley_ErrorCode=TYPE_ERROR;             throw FinleyAdapterException("Error - No interpolation with data on contact elements possible.");
            sprintf(Finley_ErrorMsg,"No interpolation with data on contact elements possible.");  
944             break;             break;
945          }          }
946          break;          break;
947       case(DegreesOfFreedom):       case(ReducedContactElementsZero):
948         case(ReducedContactElementsOne):
949            if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {
950               Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);
951            } else {
952               throw FinleyAdapterException("Error - No interpolation with data on contact elements with reduced integration order possible.");
953               break;
954            }
955            break;
956         case(DegreesOfFreedom):      
957          switch(target.getFunctionSpace().getTypeCode()) {          switch(target.getFunctionSpace().getTypeCode()) {
958             case(ReducedDegreesOfFreedom):             case(ReducedDegreesOfFreedom):
959             case(DegreesOfFreedom):             case(DegreesOfFreedom):
960                  Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
961                  break;
962    
963             case(Nodes):             case(Nodes):
964                Finley_Assemble_CopyNodalData(mesh->Nodes,&(target.getDataC()),&(in.getDataC()));             case(ReducedNodes):
965                  if (getMPISize()>1) {
966                      escript::Data temp=escript::Data(in);
967                      temp.expand();
968                      escriptDataC _in2 = temp.getDataC();
969                      Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in2);
970                  } else {
971                      Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
972                  }
973                break;                break;
974             case(Elements):             case(Elements):
975                Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&(in.getDataC()),&(target.getDataC()));             case(ReducedElements):
976                  if (getMPISize()>1) {
977                     escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
978                     escriptDataC _in2 = temp.getDataC();
979                     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in2,&_target);
980                  } else {
981                     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
982                  }
983                break;                break;
984             case(FaceElements):             case(FaceElements):
985                Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&(in.getDataC()),&(target.getDataC()));             case(ReducedFaceElements):
986                  if (getMPISize()>1) {
987                     escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
988                     escriptDataC _in2 = temp.getDataC();
989                     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in2,&_target);
990    
991                  } else {
992                     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
993                  }
994                break;                break;
995             case(Points):             case(Points):
996                Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&(in.getDataC()),&(target.getDataC()));                if (getMPISize()>1) {
997                     escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
998                     escriptDataC _in2 = temp.getDataC();
999                  } else {
1000                     Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
1001                  }
1002                break;                break;
1003             case(ContactElementsZero):             case(ContactElementsZero):
1004             case(ContactElementsOne):             case(ContactElementsOne):
1005                Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));             case(ReducedContactElementsZero):
1006               case(ReducedContactElementsOne):
1007                  if (getMPISize()>1) {
1008                     escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1009                     escriptDataC _in2 = temp.getDataC();
1010                     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in2,&_target);
1011                  } else {
1012                     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
1013                  }
1014               break;               break;
1015             default:             default:
1016               Finley_ErrorCode=TYPE_ERROR;               stringstream temp;
1017               sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",target.getFunctionSpace().getTypeCode());               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
1018                 throw FinleyAdapterException(temp.str());
1019               break;               break;
1020          }          }
1021          break;          break;
1022       case(ReducedDegreesOfFreedom):       case(ReducedDegreesOfFreedom):
1023         switch(target.getFunctionSpace().getTypeCode()) {         switch(target.getFunctionSpace().getTypeCode()) {
1024              case(Nodes):
1025                 throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to mesh nodes.");
1026                 break;
1027              case(ReducedNodes):
1028                  if (getMPISize()>1) {
1029                      escript::Data temp=escript::Data(in);
1030                      temp.expand();
1031                      escriptDataC _in2 = temp.getDataC();
1032                      Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in2);
1033                  } else {
1034                      Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1035                  }
1036                  break;
1037              case(DegreesOfFreedom):
1038                 throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to degrees of freedom");
1039                 break;
1040            case(ReducedDegreesOfFreedom):            case(ReducedDegreesOfFreedom):
1041               Finley_Assemble_CopyNodalData(mesh->Nodes,&(target.getDataC()),&(in.getDataC()));               Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1042               break;               break;
1043            case(Elements):            case(Elements):
1044               Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&(in.getDataC()),&(target.getDataC()));            case(ReducedElements):
1045                  if (getMPISize()>1) {
1046                     escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1047                     escriptDataC _in2 = temp.getDataC();
1048                     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in2,&_target);
1049                  } else {
1050                     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
1051                 }
1052               break;               break;
1053            case(FaceElements):            case(FaceElements):
1054               Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&(in.getDataC()),&(target.getDataC()));            case(ReducedFaceElements):
1055                  if (getMPISize()>1) {
1056                     escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1057                     escriptDataC _in2 = temp.getDataC();
1058                     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in2,&_target);
1059                  } else {
1060                     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
1061                  }
1062               break;               break;
1063            case(Points):            case(Points):
1064               Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&(in.getDataC()),&(target.getDataC()));                if (getMPISize()>1) {
1065                     escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1066                     escriptDataC _in2 = temp.getDataC();
1067                     Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in2,&_target);
1068                  } else {
1069                     Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
1070                 }
1071               break;               break;
1072            case(ContactElementsZero):            case(ContactElementsZero):
1073            case(ContactElementsOne):            case(ContactElementsOne):
1074               Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&(in.getDataC()),&(target.getDataC()));            case(ReducedContactElementsZero):
1075               break;            case(ReducedContactElementsOne):
1076            case(Nodes):                if (getMPISize()>1) {
1077               Finley_ErrorCode=TYPE_ERROR;                   escript::Data temp=escript::Data( in,  continuousFunction(asAbstractContinuousDomain()) );
1078               sprintf(Finley_ErrorMsg,"Finley does not support interpolation from reduced degrees of freedom to mesh nodes.");                   escriptDataC _in2 = temp.getDataC();
1079               break;                   Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in2,&_target);
1080            case(DegreesOfFreedom):                } else {
1081               Finley_ErrorCode=TYPE_ERROR;                   Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
1082               sprintf(Finley_ErrorMsg,"Finley does not support interpolation from reduced degrees of freedom to degrees of freedom");               }
1083               break;               break;
1084            default:            default:
1085               Finley_ErrorCode=TYPE_ERROR;               stringstream temp;
1086               sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",target.getFunctionSpace().getTypeCode());               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
1087                 throw FinleyAdapterException(temp.str());
1088               break;               break;
1089         }         }
1090         break;         break;
1091       default:       default:
1092          Finley_ErrorCode=TYPE_ERROR;          stringstream temp;
1093          sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",in.getFunctionSpace().getTypeCode());          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type %d" << in.getFunctionSpace().getTypeCode();
1094            throw FinleyAdapterException(temp.str());
1095          break;          break;
1096    }    }
1097    checkFinleyError();    checkFinleyError();
# Line 598  void MeshAdapter::interpolateOnDomain(Da Line 1100  void MeshAdapter::interpolateOnDomain(Da
1100  //  //
1101  // copies the locations of sample points into x:  // copies the locations of sample points into x:
1102  //  //
1103  void MeshAdapter::setToX(Data& arg) const  void MeshAdapter::setToX(escript::Data& arg) const
1104  {  {
1105    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());
1106    if (argDomain!=*this)    if (argDomain!=*this)
# Line 606  void MeshAdapter::setToX(Data& arg) cons Line 1108  void MeshAdapter::setToX(Data& arg) cons
1108    Finley_Mesh* mesh=m_finleyMesh.get();    Finley_Mesh* mesh=m_finleyMesh.get();
1109    // in case of values node coordinates we can do the job directly:    // in case of values node coordinates we can do the job directly:
1110    if (arg.getFunctionSpace().getTypeCode()==Nodes) {    if (arg.getFunctionSpace().getTypeCode()==Nodes) {
1111       Finley_Assemble_NodeCoordinates(mesh->Nodes,&(arg.getDataC()));       escriptDataC _arg=arg.getDataC();
1112         Finley_Assemble_NodeCoordinates(mesh->Nodes,&_arg);
1113    } else {    } else {
1114       Data tmp_data=Vector(0.0,continuousFunction(asAbstractContinuousDomain()),true);       escript::Data tmp_data=Vector(0.0,continuousFunction(asAbstractContinuousDomain()),true);
1115       Finley_Assemble_NodeCoordinates(mesh->Nodes,&(tmp_data.getDataC()));       escriptDataC _tmp_data=tmp_data.getDataC();
1116         Finley_Assemble_NodeCoordinates(mesh->Nodes,&_tmp_data);
1117       // this is then interpolated onto arg:       // this is then interpolated onto arg:
1118       interpolateOnDomain(arg,tmp_data);       interpolateOnDomain(arg,tmp_data);
1119    }    }
# Line 619  void MeshAdapter::setToX(Data& arg) cons Line 1123  void MeshAdapter::setToX(Data& arg) cons
1123  //  //
1124  // 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:
1125  //  //
1126  void MeshAdapter::setToNormal(Data& normal) const  void MeshAdapter::setToNormal(escript::Data& normal) const
1127  {  {
1128    const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(normal.getFunctionSpace().getDomain());    const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(normal.getFunctionSpace().getDomain());
1129    if (normalDomain!=*this)    if (normalDomain!=*this)
1130       throw FinleyAdapterException("Error - Illegal domain of normal locations");       throw FinleyAdapterException("Error - Illegal domain of normal locations");
1131    Finley_Mesh* mesh=m_finleyMesh.get();    Finley_Mesh* mesh=m_finleyMesh.get();
1132      escriptDataC _normal=normal.getDataC();
1133    switch(normal.getFunctionSpace().getTypeCode()) {    switch(normal.getFunctionSpace().getTypeCode()) {
1134      case(Nodes):      case(Nodes):
1135        Finley_ErrorCode=TYPE_ERROR;        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for nodes");
1136        sprintf(Finley_ErrorMsg,"Finley does not support surface normal vectors for nodes");        break;
1137        case(ReducedNodes):
1138          throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced nodes");
1139        break;        break;
1140      case(Elements):      case(Elements):
1141        Finley_ErrorCode=TYPE_ERROR;        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements");
1142        sprintf(Finley_ErrorMsg,"Finley does not support surface normal vectors for elements");        break;
1143        case(ReducedElements):
1144          throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements with reduced integration order");
1145        break;        break;
1146      case (FaceElements):      case (FaceElements):
1147        Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&(normal.getDataC()));        Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);
1148          break;
1149        case (ReducedFaceElements):
1150          Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);
1151        break;        break;
1152      case(Points):      case(Points):
1153        Finley_ErrorCode=TYPE_ERROR;        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for point elements");
       sprintf(Finley_ErrorMsg,"Finley does not support surface normal vectors for point elements");  
1154        break;        break;
1155      case (ContactElementsOne):      case (ContactElementsOne):
1156      case (ContactElementsZero):      case (ContactElementsZero):
1157        Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&(normal.getDataC()));        Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);
1158          break;
1159        case (ReducedContactElementsOne):
1160        case (ReducedContactElementsZero):
1161          Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);
1162        break;        break;
1163      case(DegreesOfFreedom):      case(DegreesOfFreedom):
1164        Finley_ErrorCode=TYPE_ERROR;        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for degrees of freedom.");
       sprintf(Finley_ErrorMsg,"Finley does not support surface normal vectors for degrees of freedom.");  
1165        break;        break;
1166      case(ReducedDegreesOfFreedom):      case(ReducedDegreesOfFreedom):
1167        Finley_ErrorCode=TYPE_ERROR;        throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced degrees of freedom.");
       sprintf(Finley_ErrorMsg,"Finley does not support surface normal vectors for reduced degrees of freedom.");  
1168        break;        break;
1169      default:      default:
1170        Finley_ErrorCode=TYPE_ERROR;        stringstream temp;
1171        sprintf(Finley_ErrorMsg,"Normal Vectors: Finley does not know anything about function space type %d",normal.getFunctionSpace().getTypeCode());        temp << "Error - Normal Vectors: Finley does not know anything about function space type " << normal.getFunctionSpace().getTypeCode();
1172          throw FinleyAdapterException(temp.str());
1173        break;        break;
1174    }    }
1175    checkFinleyError();    checkFinleyError();
# Line 664  void MeshAdapter::setToNormal(Data& norm Line 1178  void MeshAdapter::setToNormal(Data& norm
1178  //  //
1179  // interpolates data to other domain:  // interpolates data to other domain:
1180  //  //
1181  void MeshAdapter::interpolateACross(Data& target,const Data& source) const  void MeshAdapter::interpolateACross(escript::Data& target,const escript::Data& source) const
1182  {  {
1183    const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());    const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());
1184    if (targetDomain!=*this)    if (targetDomain!=*this)
1185       throw FinleyAdapterException("Error - Illegal domain of interpolation target");       throw FinleyAdapterException("Error - Illegal domain of interpolation target");
1186    
1187    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();  
1188  }  }
1189    
1190  //  //
1191  // calculates the integral of a function defined of arg:  // calculates the integral of a function defined of arg:
1192  //  //
1193  void MeshAdapter::setToIntegrals(std::vector<double>& integrals,const Data& arg) const  void MeshAdapter::setToIntegrals(std::vector<double>& integrals,const escript::Data& arg) const
1194  {  {
1195    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());
1196    if (argDomain!=*this)    if (argDomain!=*this)
1197       throw FinleyAdapterException("Error - Illegal domain of integration kernel");       throw FinleyAdapterException("Error - Illegal domain of integration kernel");
1198    
1199      double blocktimer_start = blocktimer_time();
1200    Finley_Mesh* mesh=m_finleyMesh.get();    Finley_Mesh* mesh=m_finleyMesh.get();
1201      escriptDataC _temp;
1202      escript::Data temp;
1203      escriptDataC _arg=arg.getDataC();
1204    switch(arg.getFunctionSpace().getTypeCode()) {    switch(arg.getFunctionSpace().getTypeCode()) {
1205       case(Nodes):       case(Nodes):
1206          Finley_ErrorCode=TYPE_ERROR;          temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1207          sprintf(Finley_ErrorMsg,"Integral of data on nodes is not supported.");          _temp=temp.getDataC();
1208            Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1209            break;
1210         case(ReducedNodes):
1211            temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1212            _temp=temp.getDataC();
1213            Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1214          break;          break;
1215       case(Elements):       case(Elements):
1216          Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&(arg.getDataC()),&integrals[0]);          Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);
1217            break;
1218         case(ReducedElements):
1219            Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);
1220          break;          break;
1221       case(FaceElements):       case(FaceElements):
1222          Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&(arg.getDataC()),&integrals[0]);          Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);
1223            break;
1224         case(ReducedFaceElements):
1225            Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);
1226          break;          break;
1227       case(Points):       case(Points):
1228          Finley_ErrorCode=TYPE_ERROR;          throw FinleyAdapterException("Error - Integral of data on points is not supported.");
         sprintf(Finley_ErrorMsg,"Integral of data on points is not supported.");  
1229          break;          break;
1230       case(ContactElementsZero):       case(ContactElementsZero):
1231          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&(arg.getDataC()),&integrals[0]);          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1232            break;
1233         case(ReducedContactElementsZero):
1234            Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1235          break;          break;
1236       case(ContactElementsOne):       case(ContactElementsOne):
1237          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&(arg.getDataC()),&integrals[0]);          Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1238            break;
1239         case(ReducedContactElementsOne):
1240            Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1241          break;          break;
1242       case(DegreesOfFreedom):       case(DegreesOfFreedom):
1243          Finley_ErrorCode=TYPE_ERROR;          temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1244          sprintf(Finley_ErrorMsg,"Integral of data on degrees of freedom is not supported.");          _temp=temp.getDataC();
1245            Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1246          break;          break;
1247       case(ReducedDegreesOfFreedom):       case(ReducedDegreesOfFreedom):
1248          Finley_ErrorCode=TYPE_ERROR;          temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1249          sprintf(Finley_ErrorMsg,"Integral of data on reduced degrees of freedom is not supported.");          _temp=temp.getDataC();
1250            Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1251          break;          break;
1252       default:       default:
1253          Finley_ErrorCode=TYPE_ERROR;          stringstream temp;
1254          sprintf(Finley_ErrorMsg,"Integrals: Finley does not know anything about function space type %d",arg.getFunctionSpace().getTypeCode());          temp << "Error - Integrals: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();
1255            throw FinleyAdapterException(temp.str());
1256          break;          break;
1257    }    }
1258    checkFinleyError();    checkFinleyError();
1259      blocktimer_increment("integrate()", blocktimer_start);
1260  }  }
1261    
1262  //  //
1263  // calculates the gradient of arg:  // calculates the gradient of arg:
1264  //  //
1265  void MeshAdapter::setToGradient(Data& grad,const Data& arg) const  void MeshAdapter::setToGradient(escript::Data& grad,const escript::Data& arg) const
1266  {  {
1267    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());    const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());
1268    if (argDomain!=*this)    if (argDomain!=*this)
# Line 735  void MeshAdapter::setToGradient(Data& gr Line 1272  void MeshAdapter::setToGradient(Data& gr
1272       throw FinleyAdapterException("Error - Illegal domain of gradient");       throw FinleyAdapterException("Error - Illegal domain of gradient");
1273    
1274    Finley_Mesh* mesh=m_finleyMesh.get();    Finley_Mesh* mesh=m_finleyMesh.get();
1275      escriptDataC _grad=grad.getDataC();
1276      escriptDataC nodeDataC;
1277      escript::Data temp;
1278      if (getMPISize()>1) {
1279          if( arg.getFunctionSpace().getTypeCode() == DegreesOfFreedom ) {
1280            temp=escript::Data( arg,  continuousFunction(asAbstractContinuousDomain()) );
1281            nodeDataC = temp.getDataC();
1282          } else if( arg.getFunctionSpace().getTypeCode() == ReducedDegreesOfFreedom ) {
1283            temp=escript::Data( arg,  reducedContinuousFunction(asAbstractContinuousDomain()) );
1284            nodeDataC = temp.getDataC();
1285          } else {
1286            nodeDataC = arg.getDataC();
1287          }
1288      } else {
1289         nodeDataC = arg.getDataC();
1290      }
1291    switch(grad.getFunctionSpace().getTypeCode()) {    switch(grad.getFunctionSpace().getTypeCode()) {
1292         case(Nodes):         case(Nodes):
1293            Finley_ErrorCode=TYPE_ERROR;            throw FinleyAdapterException("Error - Gradient at nodes is not supported.");
1294            sprintf(Finley_ErrorMsg,"Gradient at nodes is not supported.");            break;
1295           case(ReducedNodes):
1296              throw FinleyAdapterException("Error - Gradient at reduced nodes is not supported.");
1297            break;            break;
1298         case(Elements):         case(Elements):
1299            Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&(grad.getDataC()),&(arg.getDataC()));            Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);
1300              break;
1301           case(ReducedElements):
1302              Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);
1303            break;            break;
1304         case(FaceElements):         case(FaceElements):
1305            Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&(grad.getDataC()),&(arg.getDataC()));            Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);
1306              break;
1307           case(ReducedFaceElements):
1308              Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);
1309            break;            break;
1310         case(Points):         case(Points):
1311            Finley_ErrorCode=TYPE_ERROR;            throw FinleyAdapterException("Error - Gradient at points is not supported.");
           sprintf(Finley_ErrorMsg,"Gradient at points is not supported.");  
1312            break;            break;
1313         case(ContactElementsZero):         case(ContactElementsZero):
1314            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&(grad.getDataC()),&(arg.getDataC()));            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1315              break;
1316           case(ReducedContactElementsZero):
1317              Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1318            break;            break;
1319         case(ContactElementsOne):         case(ContactElementsOne):
1320            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&(grad.getDataC()),&(arg.getDataC()));            Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1321              break;
1322           case(ReducedContactElementsOne):
1323              Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1324            break;            break;
1325         case(DegreesOfFreedom):         case(DegreesOfFreedom):
1326            Finley_ErrorCode=TYPE_ERROR;            throw FinleyAdapterException("Error - Gradient at degrees of freedom is not supported.");
           sprintf(Finley_ErrorMsg,"Gradient at degrees of freedom is not supported.");  
1327            break;            break;
1328         case(ReducedDegreesOfFreedom):         case(ReducedDegreesOfFreedom):
1329            Finley_ErrorCode=TYPE_ERROR;            throw FinleyAdapterException("Error - Gradient at reduced degrees of freedom is not supported.");
           sprintf(Finley_ErrorMsg,"Gradient at reduced degrees of freedom is not supported.");  
1330            break;            break;
1331         default:         default:
1332            Finley_ErrorCode=TYPE_ERROR;            stringstream temp;
1333            sprintf(Finley_ErrorMsg,"Gradient: Finley does not know anything about function space type %d",arg.getFunctionSpace().getTypeCode());            temp << "Error - Gradient: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();
1334              throw FinleyAdapterException(temp.str());
1335            break;            break;
1336    }    }
1337    checkFinleyError();    checkFinleyError();
# Line 775  void MeshAdapter::setToGradient(Data& gr Line 1340  void MeshAdapter::setToGradient(Data& gr
1340  //  //
1341  // returns the size of elements:  // returns the size of elements:
1342  //  //
1343  void MeshAdapter::setToSize(Data& size) const  void MeshAdapter::setToSize(escript::Data& size) const
1344  {  {
1345    Finley_Mesh* mesh=m_finleyMesh.get();    Finley_Mesh* mesh=m_finleyMesh.get();
1346    escriptDataC tmp=size.getDataC();    escriptDataC tmp=size.getDataC();
1347    switch(size.getFunctionSpace().getTypeCode()) {    switch(size.getFunctionSpace().getTypeCode()) {
1348         case(Nodes):         case(Nodes):
1349            Finley_ErrorCode=TYPE_ERROR;            throw FinleyAdapterException("Error - Size of nodes is not supported.");
1350            sprintf(Finley_ErrorMsg,"Size of nodes is not supported.");            break;
1351           case(ReducedNodes):
1352              throw FinleyAdapterException("Error - Size of reduced nodes is not supported.");
1353            break;            break;
1354         case(Elements):         case(Elements):
1355            Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);            Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);
1356            break;            break;
1357           case(ReducedElements):
1358              Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);
1359              break;
1360         case(FaceElements):         case(FaceElements):
1361            Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);            Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);
1362            break;            break;
1363           case(ReducedFaceElements):
1364              Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);
1365              break;
1366         case(Points):         case(Points):
1367            Finley_ErrorCode=TYPE_ERROR;            throw FinleyAdapterException("Error - Size of point elements is not supported.");
           sprintf(Finley_ErrorMsg,"Size of point elements is not supported.");  
1368            break;            break;
1369         case(ContactElementsZero):         case(ContactElementsZero):
1370         case(ContactElementsOne):         case(ContactElementsOne):
1371            Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);            Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);
1372            break;            break;
1373           case(ReducedContactElementsZero):
1374           case(ReducedContactElementsOne):
1375              Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);
1376              break;
1377         case(DegreesOfFreedom):         case(DegreesOfFreedom):
1378            Finley_ErrorCode=TYPE_ERROR;            throw FinleyAdapterException("Error - Size of degrees of freedom is not supported.");
           sprintf(Finley_ErrorMsg,"Size of degrees of freedom is not supported.");  
1379            break;            break;
1380         case(ReducedDegreesOfFreedom):         case(ReducedDegreesOfFreedom):
1381            Finley_ErrorCode=TYPE_ERROR;            throw FinleyAdapterException("Error - Size of reduced degrees of freedom is not supported.");
           sprintf(Finley_ErrorMsg,"Size of reduced degrees of freedom is not supported.");  
1382            break;            break;
1383         default:         default:
1384            Finley_ErrorCode=TYPE_ERROR;            stringstream temp;
1385            sprintf(Finley_ErrorMsg,"Element size: Finley does not know anything about function space type %d",size.getFunctionSpace().getTypeCode());            temp << "Error - Element size: Finley does not know anything about function space type " << size.getFunctionSpace().getTypeCode();
1386              throw FinleyAdapterException(temp.str());
1387            break;            break;
1388    }    }
1389    checkFinleyError();    checkFinleyError();
1390  }  }
1391    
1392  // sets the location of nodes:  // sets the location of nodes:
1393  void MeshAdapter::setNewX(const Data& new_x)  void MeshAdapter::setNewX(const escript::Data& new_x)
1394  {  {
1395    Finley_Mesh* mesh=m_finleyMesh.get();    Finley_Mesh* mesh=m_finleyMesh.get();
1396      escriptDataC tmp;
1397    const MeshAdapter& newDomain=dynamic_cast<const MeshAdapter&>(new_x.getFunctionSpace().getDomain());    const MeshAdapter& newDomain=dynamic_cast<const MeshAdapter&>(new_x.getFunctionSpace().getDomain());
1398    if (newDomain!=*this)    if (newDomain!=*this)
1399       throw FinleyAdapterException("Error - Illegal domain of new point locations");       throw FinleyAdapterException("Error - Illegal domain of new point locations");
1400    Finley_NodeFile_setCoordinates(mesh->Nodes,&(new_x.getDataC()));    tmp = new_x.getDataC();
1401      Finley_Mesh_setCoordinates(mesh,&tmp);
1402    checkFinleyError();    checkFinleyError();
1403  }  }
1404    
1405  // saves a data array in openDX format:  // saves a data array in openDX format:
1406  void MeshAdapter::saveDX(const std::string& filename,const Data& arg) const  void MeshAdapter::saveDX(const std::string& filename,const boost::python::dict& arg) const
1407  {  {
1408    Finley_Mesh_saveDX(filename.c_str(),m_finleyMesh.get(),&(arg.getDataC()));      int MAX_namelength=256;
1409    checkFinleyError();      const int num_data=boost::python::extract<int>(arg.attr("__len__")());
1410      /* win32 refactor */
1411      char* *names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1412      for(int i=0;i<num_data;i++)
1413      {
1414        names[i] = (MAX_namelength>0) ? TMPMEMALLOC(MAX_namelength,char) : (char*)NULL;
1415      }
1416    
1417      char* *c_names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1418      escriptDataC *data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC) : (escriptDataC*)NULL;
1419      escriptDataC* *ptr_data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC*) : (escriptDataC**)NULL;
1420    
1421      boost::python::list keys=arg.keys();
1422      for (int i=0;i<num_data;++i) {
1423             std::string n=boost::python::extract<std::string>(keys[i]);
1424             escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);
1425             if (dynamic_cast<const MeshAdapter&>(d.getFunctionSpace().getDomain()) !=*this)
1426                 throw FinleyAdapterException("Error  in saveVTK: Data must be defined on same Domain");
1427             data[i]=d.getDataC();
1428             ptr_data[i]=&(data[i]);
1429             c_names[i]=&(names[i][0]);
1430             if (n.length()>MAX_namelength-1) {
1431                strncpy(c_names[i],n.c_str(),MAX_namelength-1);
1432                c_names[i][MAX_namelength-1]='\0';
1433             } else {
1434                strcpy(c_names[i],n.c_str());
1435             }
1436        }
1437        Finley_Mesh_saveDX(filename.c_str(),m_finleyMesh.get(),num_data,c_names,ptr_data);
1438        checkFinleyError();
1439        
1440          /* win32 refactor */
1441      TMPMEMFREE(c_names);
1442      TMPMEMFREE(data);
1443      TMPMEMFREE(ptr_data);
1444      for(int i=0;i<num_data;i++)
1445      {
1446        TMPMEMFREE(names[i]);
1447      }
1448      TMPMEMFREE(names);
1449    
1450        return;
1451  }  }
1452    
1453  // saves a data array in openVTK format:  // saves a data array in openVTK format:
1454  void MeshAdapter::saveVTK(const std::string& filename,const Data& arg) const  void MeshAdapter::saveVTK(const std::string& filename,const boost::python::dict& arg) const
1455  {  {
1456    Finley_Mesh_saveVTK(filename.c_str(),m_finleyMesh.get(),&(arg.getDataC()));      int MAX_namelength=256;
1457        const int num_data=boost::python::extract<int>(arg.attr("__len__")());
1458      /* win32 refactor */
1459      char* *names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1460      for(int i=0;i<num_data;i++)
1461      {
1462        names[i] = (MAX_namelength>0) ? TMPMEMALLOC(MAX_namelength,char) : (char*)NULL;
1463      }
1464    
1465      char* *c_names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1466      escriptDataC *data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC) : (escriptDataC*)NULL;
1467      escriptDataC* *ptr_data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC*) : (escriptDataC**)NULL;
1468    
1469        boost::python::list keys=arg.keys();
1470        for (int i=0;i<num_data;++i) {
1471             std::string n=boost::python::extract<std::string>(keys[i]);
1472             escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);
1473             if (dynamic_cast<const MeshAdapter&>(d.getFunctionSpace().getDomain()) !=*this)
1474                 throw FinleyAdapterException("Error  in saveVTK: Data must be defined on same Domain");
1475             data[i]=d.getDataC();
1476             ptr_data[i]=&(data[i]);
1477             c_names[i]=&(names[i][0]);
1478             if (n.length()>MAX_namelength-1) {
1479                strncpy(c_names[i],n.c_str(),MAX_namelength-1);
1480                c_names[i][MAX_namelength-1]='\0';
1481             } else {
1482                strcpy(c_names[i],n.c_str());
1483             }
1484        }
1485        Finley_Mesh_saveVTK(filename.c_str(),m_finleyMesh.get(),num_data,c_names,ptr_data);
1486    
1487    checkFinleyError();    checkFinleyError();
1488  }    /* win32 refactor */
1489      TMPMEMFREE(c_names);
1490      TMPMEMFREE(data);
1491      TMPMEMFREE(ptr_data);
1492      for(int i=0;i<num_data;i++)
1493      {
1494        TMPMEMFREE(names[i]);
1495      }
1496      TMPMEMFREE(names);
1497    
1498        return;
1499    }
1500                                                                                                                                                                            
1501                                                                                                                                                                            
1502  // creates a SystemMatrixAdapter stiffness matrix an initializes it with zeros:  // creates a SystemMatrixAdapter stiffness matrix an initializes it with zeros:
1503  SystemMatrixAdapter MeshAdapter::newSystemMatrix(  SystemMatrixAdapter MeshAdapter::newSystemMatrix(
1504                        const int row_blocksize,                        const int row_blocksize,
# Line 873  SystemMatrixAdapter MeshAdapter::newSyst Line 1533  SystemMatrixAdapter MeshAdapter::newSyst
1533      }      }
1534      // generate matrix:      // generate matrix:
1535            
1536      Finley_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceRowOrder,reduceColOrder);      Paso_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceRowOrder,reduceColOrder);
1537      checkFinleyError();      checkFinleyError();
1538      Finley_SystemMatrix* fsystemMatrix=Finley_SystemMatrix_alloc(type,fsystemMatrixPattern,row_blocksize,column_blocksize);      Paso_SystemMatrix* fsystemMatrix;
1539      checkFinleyError();      int trilinos = 0;
1540      Finley_SystemMatrixPattern_dealloc(fsystemMatrixPattern);      if (trilinos) {
1541    #ifdef TRILINOS
1542          /* Allocation Epetra_VrbMatrix here */
1543    #endif
1544        }
1545        else {
1546          fsystemMatrix=Paso_SystemMatrix_alloc(type,fsystemMatrixPattern,row_blocksize,column_blocksize);
1547        }
1548        checkPasoError();
1549        Paso_SystemMatrixPattern_free(fsystemMatrixPattern);
1550      return SystemMatrixAdapter(fsystemMatrix,row_blocksize,row_functionspace,column_blocksize,column_functionspace);      return SystemMatrixAdapter(fsystemMatrix,row_blocksize,row_functionspace,column_blocksize,column_functionspace);
1551  }  }
1552    
# Line 901  bool MeshAdapter::isCellOriented(int fun Line 1570  bool MeshAdapter::isCellOriented(int fun
1570         case(Points):         case(Points):
1571         case(ContactElementsZero):         case(ContactElementsZero):
1572         case(ContactElementsOne):         case(ContactElementsOne):
1573           case(ReducedElements):
1574           case(ReducedFaceElements):
1575           case(ReducedContactElementsZero):
1576           case(ReducedContactElementsOne):
1577            return true;            return true;
1578            break;            break;
1579         default:         default:
1580            Finley_ErrorCode=TYPE_ERROR;            stringstream temp;
1581            sprintf(Finley_ErrorMsg,"Cell: Finley does not know anything about function space type %d",functionSpaceCode);            temp << "Error - Cell: Finley does not know anything about function space type " << functionSpaceCode;
1582              throw FinleyAdapterException(temp.str());
1583            break;            break;
1584    }    }
1585    checkFinleyError();    checkFinleyError();
# Line 918  bool MeshAdapter::probeInterpolationOnDo Line 1592  bool MeshAdapter::probeInterpolationOnDo
1592       case(Nodes):       case(Nodes):
1593          switch(functionSpaceType_target) {          switch(functionSpaceType_target) {
1594             case(Nodes):             case(Nodes):
1595               case(ReducedNodes):
1596             case(ReducedDegreesOfFreedom):             case(ReducedDegreesOfFreedom):
1597             case(DegreesOfFreedom):             case(DegreesOfFreedom):
1598             case(Elements):             case(Elements):
1599               case(ReducedElements):
1600               case(FaceElements):
1601               case(ReducedFaceElements):
1602               case(Points):
1603               case(ContactElementsZero):
1604               case(ReducedContactElementsZero):
1605               case(ContactElementsOne):
1606               case(ReducedContactElementsOne):
1607                   return true;
1608               default:
1609                   stringstream temp;
1610                   temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1611                   throw FinleyAdapterException(temp.str());
1612            }
1613            break;
1614         case(ReducedNodes):
1615            switch(functionSpaceType_target) {
1616               case(ReducedNodes):
1617               case(ReducedDegreesOfFreedom):
1618               case(Elements):
1619               case(ReducedElements):
1620             case(FaceElements):             case(FaceElements):
1621               case(ReducedFaceElements):
1622             case(Points):             case(Points):
1623             case(ContactElementsZero):             case(ContactElementsZero):
1624               case(ReducedContactElementsZero):
1625             case(ContactElementsOne):             case(ContactElementsOne):
1626               case(ReducedContactElementsOne):
1627                 return true;                 return true;
1628              case(Nodes):
1629              case(DegreesOfFreedom):
1630                 return false;
1631             default:             default:
1632                 Finley_ErrorCode=TYPE_ERROR;                 stringstream temp;
1633                 sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",functionSpaceType_target);                 temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1634                   throw FinleyAdapterException(temp.str());
1635          }          }
1636          break;          break;
1637       case(Elements):       case(Elements):
1638          if (functionSpaceType_target==Elements) {          if (functionSpaceType_target==Elements) {
1639             return true;             return true;
1640            } else if (functionSpaceType_target==ReducedElements) {
1641               return true;
1642            } else {
1643               return false;
1644            }
1645         case(ReducedElements):
1646            if (functionSpaceType_target==ReducedElements) {
1647               return true;
1648          } else {          } else {
1649             return false;             return false;
1650          }          }
1651       case(FaceElements):       case(FaceElements):
1652          if (functionSpaceType_target==FaceElements) {          if (functionSpaceType_target==FaceElements) {
1653             return true;             return true;
1654            } else if (functionSpaceType_target==ReducedFaceElements) {
1655               return true;
1656            } else {
1657               return false;
1658            }
1659         case(ReducedFaceElements):
1660            if (functionSpaceType_target==ReducedFaceElements) {
1661               return true;
1662          } else {          } else {
1663             return false;             return false;
1664          }          }
# Line 953  bool MeshAdapter::probeInterpolationOnDo Line 1672  bool MeshAdapter::probeInterpolationOnDo
1672       case(ContactElementsOne):       case(ContactElementsOne):
1673          if (functionSpaceType_target==ContactElementsZero || functionSpaceType_target==ContactElementsOne) {          if (functionSpaceType_target==ContactElementsZero || functionSpaceType_target==ContactElementsOne) {
1674             return true;             return true;
1675            } else if (functionSpaceType_target==ReducedContactElementsZero || functionSpaceType_target==ReducedContactElementsOne) {
1676               return true;
1677            } else {
1678               return false;
1679            }
1680         case(ReducedContactElementsZero):
1681         case(ReducedContactElementsOne):
1682            if (functionSpaceType_target==ReducedContactElementsZero || functionSpaceType_target==ReducedContactElementsOne) {
1683               return true;
1684          } else {          } else {
1685             return false;             return false;
1686          }          }
# Line 961  bool MeshAdapter::probeInterpolationOnDo Line 1689  bool MeshAdapter::probeInterpolationOnDo
1689             case(ReducedDegreesOfFreedom):             case(ReducedDegreesOfFreedom):
1690             case(DegreesOfFreedom):             case(DegreesOfFreedom):
1691             case(Nodes):             case(Nodes):
1692               case(ReducedNodes):
1693             case(Elements):             case(Elements):
1694             case(FaceElements):             case(ReducedElements):
1695             case(Points):             case(Points):
1696               case(FaceElements):
1697               case(ReducedFaceElements):
1698             case(ContactElementsZero):             case(ContactElementsZero):
1699               case(ReducedContactElementsZero):
1700             case(ContactElementsOne):             case(ContactElementsOne):
1701               case(ReducedContactElementsOne):
1702                return true;                return true;
1703             default:             default:
1704               Finley_ErrorCode=TYPE_ERROR;               stringstream temp;
1705               sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",functionSpaceType_target);               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1706                 throw FinleyAdapterException(temp.str());
1707          }          }
1708          break;          break;
1709       case(ReducedDegreesOfFreedom):       case(ReducedDegreesOfFreedom):
1710         switch(functionSpaceType_target) {         switch(functionSpaceType_target) {
1711            case(ReducedDegreesOfFreedom):            case(ReducedDegreesOfFreedom):
1712              case(ReducedNodes):
1713            case(Elements):            case(Elements):
1714              case(ReducedElements):
1715            case(FaceElements):            case(FaceElements):
1716              case(ReducedFaceElements):
1717            case(Points):            case(Points):
1718            case(ContactElementsZero):            case(ContactElementsZero):
1719              case(ReducedContactElementsZero):
1720            case(ContactElementsOne):            case(ContactElementsOne):
1721              case(ReducedContactElementsOne):
1722                return true;                return true;
1723            case(Nodes):            case(Nodes):
1724            case(DegreesOfFreedom):            case(DegreesOfFreedom):
1725               return false;               return false;
1726            default:            default:
1727               Finley_ErrorCode=TYPE_ERROR;               stringstream temp;
1728               sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",functionSpaceType_target);               temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1729                 throw FinleyAdapterException(temp.str());
1730         }         }
1731         break;         break;
1732       default:       default:
1733          Finley_ErrorCode=TYPE_ERROR;          stringstream temp;
1734          sprintf(Finley_ErrorMsg,"Interpolation On Domain: Finley does not know anything about function space type %d",functionSpaceType_source);          temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_source;
1735            throw FinleyAdapterException(temp.str());
1736          break;          break;
1737    }    }
1738    checkFinleyError();    checkFinleyError();
# Line 1018  bool MeshAdapter::operator!=(const Abstr Line 1759  bool MeshAdapter::operator!=(const Abstr
1759    return !(operator==(other));    return !(operator==(other));
1760  }  }
1761    
1762  int MeshAdapter::getSystemMatrixTypeId(const int solver, const bool symmetry) const  int MeshAdapter::getSystemMatrixTypeId(const int solver, const int package, const bool symmetry) const
1763  {  {
1764     int out=Finley_SystemMatrix_getSystemMatrixTypeId(solver,symmetry?1:0);     int out=Paso_SystemMatrix_getSystemMatrixTypeId(SystemMatrixAdapter::mapOptionToPaso(solver),SystemMatrixAdapter::mapOptionToPaso(package),symmetry?1:0);
1765     checkFinleyError();     checkPasoError();
1766     return out;     return out;
1767  }  }
1768    
1769  Data MeshAdapter::getX() const  escript::Data MeshAdapter::getX() const
1770  {  {
1771    return continuousFunction(asAbstractContinuousDomain()).getX();    return continuousFunction(asAbstractContinuousDomain()).getX();
1772  }  }
1773    
1774  Data MeshAdapter::getNormal() const  escript::Data MeshAdapter::getNormal() const
1775  {  {
1776    return functionOnBoundary(asAbstractContinuousDomain()).getNormal();    return functionOnBoundary(asAbstractContinuousDomain()).getNormal();
1777  }  }
1778    
1779  Data MeshAdapter::getSize() const  escript::Data MeshAdapter::getSize() const
1780  {  {
1781    return function(asAbstractContinuousDomain()).getSize();    return function(asAbstractContinuousDomain()).getSize();
1782  }  }
1783    
1784    int* MeshAdapter::borrowSampleReferenceIDs(int functionSpaceType) const
1785    {
1786      int *out=0,i;
1787      Finley_Mesh* mesh=m_finleyMesh.get();
1788      switch (functionSpaceType) {
1789        case(Nodes):
1790          out=mesh->Nodes->Id;
1791          break;
1792        case(ReducedNodes):
1793          out=mesh->Nodes->reducedNodesId;
1794          break;
1795        case(Elements):
1796          out=mesh->Elements->Id;
1797          break;
1798        case(ReducedElements):
1799          out=mesh->Elements->Id;
1800          break;
1801        case(FaceElements):
1802          out=mesh->FaceElements->Id;
1803          break;
1804        case(ReducedFaceElements):
1805          out=mesh->FaceElements->Id;
1806          break;
1807        case(Points):
1808          out=mesh->Points->Id;
1809          break;
1810        case(ContactElementsZero):
1811          out=mesh->ContactElements->Id;
1812          break;
1813        case(ReducedContactElementsZero):
1814          out=mesh->ContactElements->Id;
1815          break;
1816        case(ContactElementsOne):
1817          out=mesh->ContactElements->Id;
1818          break;
1819        case(ReducedContactElementsOne):
1820          out=mesh->ContactElements->Id;
1821          break;
1822        case(DegreesOfFreedom):
1823          out=mesh->Nodes->degreesOfFreedomId;
1824          break;
1825        case(ReducedDegreesOfFreedom):
1826          out=mesh->Nodes->reducedDegreesOfFreedomId;
1827          break;
1828        default:
1829          stringstream temp;
1830          temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();
1831          throw FinleyAdapterException(temp.str());
1832          break;
1833      }
1834      return out;
1835    }
1836  int MeshAdapter::getTagFromSampleNo(int functionSpaceType, int sampleNo) const  int MeshAdapter::getTagFromSampleNo(int functionSpaceType, int sampleNo) const
1837  {  {
1838    int* tagList;    int out=0;
1839    int numTags;    Finley_Mesh* mesh=m_finleyMesh.get();
1840    getTagList(functionSpaceType, &tagList, &numTags);    switch (functionSpaceType) {
1841    return tagList[sampleNo];    case(Nodes):
1842        out=mesh->Nodes->Tag[sampleNo];
1843        break;
1844      case(ReducedNodes):
1845        throw FinleyAdapterException(" Error - ReducedNodes does not support tags.");
1846        break;
1847      case(Elements):
1848        out=mesh->Elements->Tag[sampleNo];
1849        break;
1850      case(ReducedElements):
1851        out=mesh->Elements->Tag[sampleNo];
1852        break;
1853      case(FaceElements):
1854        out=mesh->FaceElements->Tag[sampleNo];
1855        break;
1856      case(ReducedFaceElements):
1857        out=mesh->FaceElements->Tag[sampleNo];
1858        break;
1859      case(Points):
1860        out=mesh->Points->Tag[sampleNo];
1861        break;
1862      case(ContactElementsZero):
1863        out=mesh->ContactElements->Tag[sampleNo];
1864        break;
1865      case(ReducedContactElementsZero):
1866        out=mesh->ContactElements->Tag[sampleNo];
1867        break;
1868      case(ContactElementsOne):
1869        out=mesh->ContactElements->Tag[sampleNo];
1870        break;
1871      case(ReducedContactElementsOne):
1872        out=mesh->ContactElements->Tag[sampleNo];
1873        break;
1874      case(DegreesOfFreedom):
1875        throw FinleyAdapterException(" Error - DegreesOfFreedom does not support tags.");
1876        break;
1877      case(ReducedDegreesOfFreedom):
1878        throw FinleyAdapterException(" Error - ReducedDegreesOfFreedom does not support tags.");
1879        break;
1880      default:
1881        stringstream temp;
1882        temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();
1883        throw FinleyAdapterException(temp.str());
1884        break;
1885      }
1886      return out;
1887    }
1888    
1889    
1890    void MeshAdapter::setTags(const int functionSpaceType, const int newTag, const escript::Data& mask) const
1891    {
1892      Finley_Mesh* mesh=m_finleyMesh.get();
1893      escriptDataC tmp=mask.getDataC();
1894      switch(functionSpaceType) {
1895           case(Nodes):
1896              Finley_NodeFile_setTags(mesh->Nodes,newTag,&tmp);
1897              break;
1898           case(ReducedNodes):
1899              throw FinleyAdapterException("Error - ReducedNodes does not support tags");
1900              break;
1901           case(DegreesOfFreedom):
1902              throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
1903              break;
1904           case(ReducedDegreesOfFreedom):
1905              throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
1906              break;
1907           case(Elements):
1908              Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);
1909              break;
1910           case(ReducedElements):
1911              Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);
1912              break;
1913           case(FaceElements):
1914              Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);
1915              break;
1916           case(ReducedFaceElements):
1917              Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);
1918              break;
1919           case(Points):
1920              Finley_ElementFile_setTags(mesh->Points,newTag,&tmp);
1921              break;
1922           case(ContactElementsZero):
1923              Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1924              break;
1925           case(ReducedContactElementsZero):
1926              Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1927              break;
1928           case(ContactElementsOne):
1929              Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1930              break;
1931           case(ReducedContactElementsOne):
1932              Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1933              break;
1934           default:
1935              stringstream temp;
1936              temp << "Error - Finley does not know anything about function space type " << functionSpaceType;
1937              throw FinleyAdapterException(temp.str());
1938      }
1939      checkFinleyError();
1940      return;
1941    }
1942    
1943    void MeshAdapter::setTagMap(const std::string& name,  int tag)
1944    {
1945      Finley_Mesh* mesh=m_finleyMesh.get();
1946      Finley_Mesh_addTagMap(mesh, name.c_str(),tag);
1947      checkPasoError();
1948      // throwStandardException("MeshAdapter::set TagMap is not implemented.");
1949  }  }
1950    
1951  int MeshAdapter::getReferenceNoFromSampleNo(int functionSpaceType, int sampleNo) const  int MeshAdapter::getTag(const std::string& name) const
1952  {  {
1953    int* referenceNoList;    Finley_Mesh* mesh=m_finleyMesh.get();
1954    int numReferenceNo;    int tag=0;
1955    getReferenceNoList(functionSpaceType, &referenceNoList, &numReferenceNo);    tag=Finley_Mesh_getTag(mesh, name.c_str());
1956    return referenceNoList[sampleNo];    checkPasoError();
1957      // throwStandardException("MeshAdapter::getTag is not implemented.");
1958      return tag;
1959    }
1960    
1961    bool MeshAdapter::isValidTagName(const std::string& name) const
1962    {
1963      Finley_Mesh* mesh=m_finleyMesh.get();
1964      return Finley_Mesh_isValidTagName(mesh,name.c_str());
1965    }
1966    
1967    std::string MeshAdapter::showTagNames() const
1968    {
1969      stringstream temp;
1970      Finley_Mesh* mesh=m_finleyMesh.get();
1971      Finley_TagMap* tag_map=mesh->TagMap;
1972      while (tag_map) {
1973         temp << tag_map->name;
1974         tag_map=tag_map->next;
1975         if (tag_map) temp << ", ";
1976      }
1977      return temp.str();
1978  }  }
1979    
1980  }  // end of namespace  }  // end of namespace

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