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

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

Parent Directory Parent Directory | Revision Log Revision Log


Revision 1366 - (hide annotations)
Tue Dec 18 05:49:17 2007 UTC (11 years, 4 months ago) by gross
Original Path: trunk/finley/src/CPPAdapter/MeshAdapter.cpp
File size: 83950 byte(s)
finley can create a TransportProblem now
1 jgs 472
2 ksteube 1312 /* $Id$ */
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 jgs 203 #include "MeshAdapter.h"
17 robwdcock 682 #include "escript/Data.h"
18     #include "escript/DataFactory.h"
19 ksteube 1343 #ifdef USE_NETCDF
20     #include <netcdfcpp.h>
21     #endif
22 ksteube 1312 extern "C" {
23     #include "escript/blocktimer.h"
24     }
25     #include <vector>
26 jgs 480
27 jgs 82 using namespace std;
28     using namespace escript;
29    
30     namespace finley {
31 jgs 149
32 jgs 82 //
33 jgs 149 // define the static constants
34 jgs 82 MeshAdapter::FunctionSpaceNamesMapType MeshAdapter::m_functionSpaceTypeNames;
35     const int MeshAdapter::DegreesOfFreedom=FINLEY_DEGREES_OF_FREEDOM;
36     const int MeshAdapter::ReducedDegreesOfFreedom=FINLEY_REDUCED_DEGREES_OF_FREEDOM;
37     const int MeshAdapter::Nodes=FINLEY_NODES;
38 gross 1062 const int MeshAdapter::ReducedNodes=FINLEY_REDUCED_NODES;
39 jgs 82 const int MeshAdapter::Elements=FINLEY_ELEMENTS;
40 gross 1059 const int MeshAdapter::ReducedElements=FINLEY_REDUCED_ELEMENTS;
41 jgs 82 const int MeshAdapter::FaceElements=FINLEY_FACE_ELEMENTS;
42 gross 1059 const int MeshAdapter::ReducedFaceElements=FINLEY_REDUCED_FACE_ELEMENTS;
43 jgs 82 const int MeshAdapter::Points=FINLEY_POINTS;
44     const int MeshAdapter::ContactElementsZero=FINLEY_CONTACT_ELEMENTS_1;
45 gross 1059 const int MeshAdapter::ReducedContactElementsZero=FINLEY_REDUCED_CONTACT_ELEMENTS_1;
46 jgs 82 const int MeshAdapter::ContactElementsOne=FINLEY_CONTACT_ELEMENTS_2;
47 gross 1059 const int MeshAdapter::ReducedContactElementsOne=FINLEY_REDUCED_CONTACT_ELEMENTS_2;
48 jgs 82
49     MeshAdapter::MeshAdapter(Finley_Mesh* finleyMesh)
50     {
51     setFunctionSpaceTypeNames();
52     //
53 ksteube 1312 // need to use a null_deleter as Finley_Mesh_free deletes the pointer
54 jgs 82 // for us.
55     m_finleyMesh.reset(finleyMesh,null_deleter());
56     }
57 jgs 149
58 jgs 82 //
59     // The copy constructor should just increment the use count
60     MeshAdapter::MeshAdapter(const MeshAdapter& in):
61     m_finleyMesh(in.m_finleyMesh)
62     {
63     setFunctionSpaceTypeNames();
64     }
65    
66     MeshAdapter::~MeshAdapter()
67     {
68     //
69     // I hope the case for the pointer being zero has been taken care of.
70     // cout << "In MeshAdapter destructor." << endl;
71     if (m_finleyMesh.unique()) {
72 ksteube 1312 Finley_Mesh_free(m_finleyMesh.get());
73 jgs 82 }
74     }
75    
76 ksteube 1312 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 jgs 82 Finley_Mesh* MeshAdapter::getFinley_Mesh() const {
87     return m_finleyMesh.get();
88     }
89    
90     void MeshAdapter::write(const std::string& fileName) const
91     {
92 woo409 757 char *fName = (fileName.size()+1>0) ? TMPMEMALLOC(fileName.size()+1,char) : (char*)NULL;
93 jgs 82 strcpy(fName,fileName.c_str());
94     Finley_Mesh_write(m_finleyMesh.get(),fName);
95     checkFinleyError();
96 woo409 757 TMPMEMFREE(fName);
97 jgs 82 }
98    
99 ksteube 1339 void MeshAdapter::Print_Mesh_Info(const bool full=false) const
100 ksteube 1326 {
101 ksteube 1339 Finley_PrintMesh_Info(m_finleyMesh.get(), full);
102 ksteube 1326 }
103    
104 ksteube 1312 void MeshAdapter::dump(const std::string& fileName) const
105     {
106 ksteube 1343 #ifdef USE_NETCDF
107 ksteube 1347 const NcDim* ncdims[12];
108 ksteube 1343 NcVar *ids, *data;
109     int *int_ptr;
110     Finley_Mesh *mesh = m_finleyMesh.get();
111 ksteube 1347 Finley_TagMap* tag_map;
112     int num_Tags = 0;
113 ksteube 1343 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 ksteube 1347 /* 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 ksteube 1343 // 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 ksteube 1347 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 ksteube 1343
175 ksteube 1345 // Attributes: MPI size, MPI rank, Name, order, reduced_order
176 ksteube 1343 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 ksteube 1345 if (!dataFile.add_att("numDim",numDim) )
183     throw DataException("Error - MeshAdapter::dump: appending order to NetCDF file failed: " + *newFileName);
184 ksteube 1343 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 ksteube 1345 if (!dataFile.add_att("numNodes",numNodes) )
189     throw DataException("Error - MeshAdapter::dump: appending numNodes to NetCDF file failed: " + *newFileName);
190 ksteube 1343 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 ksteube 1346 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 ksteube 1347 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 ksteube 1343
215     // // // // // Nodes // // // // //
216    
217 ksteube 1345 // 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 ksteube 1343 // 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 ksteube 1345 }
276    
277 ksteube 1343 // // // // // 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 ksteube 1344 TMPMEMFREE(Elements_Nodes);
322    
323 ksteube 1343 }
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 ksteube 1344 TMPMEMFREE(FaceElements_Nodes);
370    
371 ksteube 1343 }
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 ksteube 1344 TMPMEMFREE(ContactElements_Nodes);
418    
419 ksteube 1343 }
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 ksteube 1344 TMPMEMFREE(Points_Nodes);
468    
469 ksteube 1343 }
470    
471     // // // // // TagMap // // // // //
472    
473 ksteube 1347 if (num_Tags>0) {
474 ksteube 1343
475 ksteube 1347 // 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 ksteube 1343 // 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 ksteube 1312 }
522    
523 jgs 82 string MeshAdapter::getDescription() const
524     {
525 ksteube 1312 return "FinleyMesh";
526 jgs 82 }
527    
528     string MeshAdapter::functionSpaceTypeAsString(int functionSpaceType) const
529     {
530     FunctionSpaceNamesMapType::iterator loc;
531     loc=m_functionSpaceTypeNames.find(functionSpaceType);
532     if (loc==m_functionSpaceTypeNames.end()) {
533     return "Invalid function space type code.";
534     } else {
535 ksteube 1312 return loc->second;
536 jgs 82 }
537     }
538    
539     bool MeshAdapter::isValidFunctionSpaceType(int functionSpaceType) const
540     {
541     FunctionSpaceNamesMapType::iterator loc;
542     loc=m_functionSpaceTypeNames.find(functionSpaceType);
543     return (loc!=m_functionSpaceTypeNames.end());
544     }
545    
546     void MeshAdapter::setFunctionSpaceTypeNames()
547     {
548     m_functionSpaceTypeNames.insert
549     (FunctionSpaceNamesMapType::value_type(DegreesOfFreedom,"Finley_DegreesOfFreedom"));
550     m_functionSpaceTypeNames.insert
551     (FunctionSpaceNamesMapType::value_type(ReducedDegreesOfFreedom,"Finley_ReducedDegreesOfFreedom"));
552     m_functionSpaceTypeNames.insert
553     (FunctionSpaceNamesMapType::value_type(Nodes,"Finley_Nodes"));
554     m_functionSpaceTypeNames.insert
555 gross 1062 (FunctionSpaceNamesMapType::value_type(ReducedNodes,"Finley_Reduced_Nodes"));
556     m_functionSpaceTypeNames.insert
557 jgs 82 (FunctionSpaceNamesMapType::value_type(Elements,"Finley_Elements"));
558     m_functionSpaceTypeNames.insert
559 gross 1059 (FunctionSpaceNamesMapType::value_type(ReducedElements,"Finley_Reduced_Elements"));
560     m_functionSpaceTypeNames.insert
561 jgs 82 (FunctionSpaceNamesMapType::value_type(FaceElements,"Finley_Face_Elements"));
562     m_functionSpaceTypeNames.insert
563 gross 1059 (FunctionSpaceNamesMapType::value_type(ReducedFaceElements,"Finley_Reduced_Face_Elements"));
564     m_functionSpaceTypeNames.insert
565 jgs 82 (FunctionSpaceNamesMapType::value_type(Points,"Finley_Points"));
566     m_functionSpaceTypeNames.insert
567     (FunctionSpaceNamesMapType::value_type(ContactElementsZero,"Finley_Contact_Elements_0"));
568     m_functionSpaceTypeNames.insert
569 gross 1059 (FunctionSpaceNamesMapType::value_type(ReducedContactElementsZero,"Finley_Reduced_Contact_Elements_0"));
570     m_functionSpaceTypeNames.insert
571 jgs 82 (FunctionSpaceNamesMapType::value_type(ContactElementsOne,"Finley_Contact_Elements_1"));
572 gross 1059 m_functionSpaceTypeNames.insert
573     (FunctionSpaceNamesMapType::value_type(ReducedContactElementsOne,"Finley_Reduced_Contact_Elements_1"));
574 jgs 82 }
575    
576     int MeshAdapter::getContinuousFunctionCode() const
577     {
578     return Nodes;
579     }
580 gross 1062 int MeshAdapter::getReducedContinuousFunctionCode() const
581     {
582     return ReducedNodes;
583     }
584 jgs 149
585 jgs 82 int MeshAdapter::getFunctionCode() const
586     {
587     return Elements;
588     }
589 gross 1059 int MeshAdapter::getReducedFunctionCode() const
590     {
591     return ReducedElements;
592     }
593 jgs 149
594 jgs 82 int MeshAdapter::getFunctionOnBoundaryCode() const
595     {
596     return FaceElements;
597     }
598 gross 1059 int MeshAdapter::getReducedFunctionOnBoundaryCode() const
599     {
600     return ReducedFaceElements;
601     }
602 jgs 149
603 jgs 82 int MeshAdapter::getFunctionOnContactZeroCode() const
604     {
605     return ContactElementsZero;
606     }
607 gross 1059 int MeshAdapter::getReducedFunctionOnContactZeroCode() const
608     {
609     return ReducedContactElementsZero;
610     }
611 jgs 149
612 jgs 82 int MeshAdapter::getFunctionOnContactOneCode() const
613     {
614     return ContactElementsOne;
615     }
616 gross 1059 int MeshAdapter::getReducedFunctionOnContactOneCode() const
617     {
618     return ReducedContactElementsOne;
619     }
620 jgs 82
621     int MeshAdapter::getSolutionCode() const
622     {
623     return DegreesOfFreedom;
624     }
625 jgs 149
626 jgs 82 int MeshAdapter::getReducedSolutionCode() const
627     {
628     return ReducedDegreesOfFreedom;
629     }
630 jgs 149
631 jgs 82 int MeshAdapter::getDiracDeltaFunctionCode() const
632     {
633     return Points;
634     }
635 jgs 149
636 jgs 82 //
637     // return the spatial dimension of the Mesh:
638     //
639     int MeshAdapter::getDim() const
640     {
641     int numDim=Finley_Mesh_getDim(m_finleyMesh.get());
642     checkFinleyError();
643     return numDim;
644     }
645 jgs 149
646 jgs 82 //
647     // return the number of data points per sample and the number of samples
648     // needed to represent data on a parts of the mesh.
649     //
650     pair<int,int> MeshAdapter::getDataShape(int functionSpaceCode) const
651     {
652     int numDataPointsPerSample=0;
653     int numSamples=0;
654     Finley_Mesh* mesh=m_finleyMesh.get();
655     switch (functionSpaceCode) {
656     case(Nodes):
657     numDataPointsPerSample=1;
658 ksteube 1312 numSamples=Finley_NodeFile_getNumNodes(mesh->Nodes);
659 jgs 82 break;
660 gross 1062 case(ReducedNodes):
661     numDataPointsPerSample=1;
662 ksteube 1312 numSamples=Finley_NodeFile_getNumReducedNodes(mesh->Nodes);
663 gross 1062 break;
664 jgs 82 case(Elements):
665     if (mesh->Elements!=NULL) {
666     numSamples=mesh->Elements->numElements;
667     numDataPointsPerSample=mesh->Elements->ReferenceElement->numQuadNodes;
668     }
669     break;
670 gross 1062 case(ReducedElements):
671     if (mesh->Elements!=NULL) {
672     numSamples=mesh->Elements->numElements;
673     numDataPointsPerSample=mesh->Elements->ReferenceElementReducedOrder->numQuadNodes;
674     }
675     break;
676 jgs 82 case(FaceElements):
677     if (mesh->FaceElements!=NULL) {
678     numDataPointsPerSample=mesh->FaceElements->ReferenceElement->numQuadNodes;
679     numSamples=mesh->FaceElements->numElements;
680     }
681     break;
682 gross 1062 case(ReducedFaceElements):
683     if (mesh->FaceElements!=NULL) {
684     numDataPointsPerSample=mesh->FaceElements->ReferenceElementReducedOrder->numQuadNodes;
685     numSamples=mesh->FaceElements->numElements;
686     }
687     break;
688 jgs 82 case(Points):
689     if (mesh->Points!=NULL) {
690     numDataPointsPerSample=1;
691     numSamples=mesh->Points->numElements;
692     }
693     break;
694     case(ContactElementsZero):
695     if (mesh->ContactElements!=NULL) {
696     numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;
697     numSamples=mesh->ContactElements->numElements;
698     }
699     break;
700 gross 1062 case(ReducedContactElementsZero):
701     if (mesh->ContactElements!=NULL) {
702     numDataPointsPerSample=mesh->ContactElements->ReferenceElementReducedOrder->numQuadNodes;
703     numSamples=mesh->ContactElements->numElements;
704     }
705     break;
706 jgs 82 case(ContactElementsOne):
707     if (mesh->ContactElements!=NULL) {
708     numDataPointsPerSample=mesh->ContactElements->ReferenceElement->numQuadNodes;
709     numSamples=mesh->ContactElements->numElements;
710     }
711     break;
712 gross 1062 case(ReducedContactElementsOne):
713     if (mesh->ContactElements!=NULL) {
714     numDataPointsPerSample=mesh->ContactElements->ReferenceElementReducedOrder->numQuadNodes;
715     numSamples=mesh->ContactElements->numElements;
716     }
717     break;
718 jgs 82 case(DegreesOfFreedom):
719     if (mesh->Nodes!=NULL) {
720     numDataPointsPerSample=1;
721 ksteube 1312 numSamples=Finley_NodeFile_getNumDegreesOfFreedom(mesh->Nodes);
722 jgs 82 }
723     break;
724     case(ReducedDegreesOfFreedom):
725     if (mesh->Nodes!=NULL) {
726     numDataPointsPerSample=1;
727 ksteube 1312 numSamples=Finley_NodeFile_getNumReducedDegreesOfFreedom(mesh->Nodes);
728 jgs 82 }
729     break;
730     default:
731     stringstream temp;
732 jgs 150 temp << "Error - Invalid function space type: " << functionSpaceCode << " for domain: " << getDescription();
733 jgs 82 throw FinleyAdapterException(temp.str());
734     break;
735     }
736     return pair<int,int>(numDataPointsPerSample,numSamples);
737     }
738 jgs 149
739 jgs 82 //
740     // adds linear PDE of second order into a given stiffness matrix and right hand side:
741     //
742     void MeshAdapter::addPDEToSystem(
743 jgs 480 SystemMatrixAdapter& mat, escript::Data& rhs,
744     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 escript::Data& d, const escript::Data& y,
746     const escript::Data& d_contact,const escript::Data& y_contact) const
747 jgs 82 {
748 gross 798 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 bcumming 751
760 jgs 82 Finley_Mesh* mesh=m_finleyMesh.get();
761 gross 798
762 bcumming 751 Finley_Assemble_PDE(mesh->Nodes,mesh->Elements,mat.getPaso_SystemMatrix(), &_rhs, &_A, &_B, &_C, &_D, &_X, &_Y );
763 jgs 82 checkFinleyError();
764 bcumming 751
765 gross 798 Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, mat.getPaso_SystemMatrix(), &_rhs, 0, 0, 0, &_d, 0, &_y );
766 jgs 82 checkFinleyError();
767 bcumming 751
768 gross 798 Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, mat.getPaso_SystemMatrix(), &_rhs , 0, 0, 0, &_d_contact, 0, &_y_contact );
769 jgs 82 checkFinleyError();
770     }
771 jgs 149
772 gross 1204 void MeshAdapter::addPDEToLumpedSystem(
773     escript::Data& mat,
774 ksteube 1312 const escript::Data& D,
775 gross 1204 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 ksteube 1312
783 gross 1204 Finley_Assemble_LumpedSystem(mesh->Nodes,mesh->Elements,&_mat, &_D);
784     Finley_Assemble_LumpedSystem(mesh->Nodes,mesh->FaceElements,&_mat, &_d);
785    
786     checkFinleyError();
787     }
788    
789    
790 jgs 82 //
791 jgs 102 // adds linear PDE of second order into the right hand side only
792     //
793 bcumming 751 void MeshAdapter::addPDEToRHS( escript::Data& rhs, const escript::Data& X,const escript::Data& Y, const escript::Data& y, const escript::Data& y_contact) const
794 jgs 102 {
795     Finley_Mesh* mesh=m_finleyMesh.get();
796 jgs 147
797 gross 798 escriptDataC _rhs=rhs.getDataC();
798     escriptDataC _X=X.getDataC();
799     escriptDataC _Y=Y.getDataC();
800     escriptDataC _y=y.getDataC();
801     escriptDataC _y_contact=y_contact.getDataC();
802    
803     Finley_Assemble_PDE(mesh->Nodes,mesh->Elements, 0, &_rhs, 0, 0, 0, 0, &_X, &_Y );
804 jgs 102 checkFinleyError();
805 jgs 147
806 gross 798 Finley_Assemble_PDE(mesh->Nodes,mesh->FaceElements, 0, &_rhs, 0, 0, 0, 0, 0, &_y );
807     checkFinleyError();
808 jgs 147
809 gross 798 Finley_Assemble_PDE(mesh->Nodes,mesh->ContactElements, 0, &_rhs , 0, 0, 0, 0, 0, &_y_contact );
810 jgs 102 checkFinleyError();
811     }
812 jgs 149
813 jgs 102 //
814 jgs 82 // interpolates data between different function spaces:
815     //
816 jgs 480 void MeshAdapter::interpolateOnDomain(escript::Data& target,const escript::Data& in) const
817 jgs 82 {
818     const MeshAdapter& inDomain=dynamic_cast<const MeshAdapter&>(in.getFunctionSpace().getDomain());
819     const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());
820 bcumming 751 if (inDomain!=*this)
821     throw FinleyAdapterException("Error - Illegal domain of interpolant.");
822 jgs 82 if (targetDomain!=*this)
823 bcumming 751 throw FinleyAdapterException("Error - Illegal domain of interpolation target.");
824 jgs 82
825     Finley_Mesh* mesh=m_finleyMesh.get();
826 gross 1062 escriptDataC _target=target.getDataC();
827     escriptDataC _in=in.getDataC();
828 jgs 82 switch(in.getFunctionSpace().getTypeCode()) {
829     case(Nodes):
830     switch(target.getFunctionSpace().getTypeCode()) {
831     case(Nodes):
832 gross 1062 case(ReducedNodes):
833     case(DegreesOfFreedom):
834 jgs 82 case(ReducedDegreesOfFreedom):
835 gross 1062 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 jgs 82 case(DegreesOfFreedom):
868 gross 1062 case(ReducedDegreesOfFreedom):
869     Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
870 jgs 82 break;
871     case(Elements):
872 gross 1062 case(ReducedElements):
873     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
874 jgs 82 break;
875     case(FaceElements):
876 gross 1062 case(ReducedFaceElements):
877     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
878 jgs 82 break;
879     case(Points):
880 gross 1062 Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
881 jgs 82 break;
882     case(ContactElementsZero):
883 gross 1062 case(ReducedContactElementsZero):
884     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
885 jgs 82 break;
886     case(ContactElementsOne):
887 gross 1062 case(ReducedContactElementsOne):
888     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
889 jgs 82 break;
890     default:
891 jgs 150 stringstream temp;
892     temp << "Error - Interpolation on Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
893     throw FinleyAdapterException(temp.str());
894 jgs 82 break;
895     }
896     break;
897     case(Elements):
898     if (target.getFunctionSpace().getTypeCode()==Elements) {
899 gross 1062 Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);
900 gross 1116 } else if (target.getFunctionSpace().getTypeCode()==ReducedElements) {
901     Finley_Assemble_AverageElementData(mesh->Elements,&_target,&_in);
902 jgs 82 } else {
903 jgs 150 throw FinleyAdapterException("Error - No interpolation with data on elements possible.");
904 jgs 82 }
905     break;
906 gross 1062 case(ReducedElements):
907     if (target.getFunctionSpace().getTypeCode()==ReducedElements) {
908     Finley_Assemble_CopyElementData(mesh->Elements,&_target,&_in);
909     } else {
910     throw FinleyAdapterException("Error - No interpolation with data on elements with reduced integration order possible.");
911     }
912     break;
913 jgs 82 case(FaceElements):
914     if (target.getFunctionSpace().getTypeCode()==FaceElements) {
915 gross 1062 Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);
916 gross 1116 } else if (target.getFunctionSpace().getTypeCode()==ReducedFaceElements) {
917     Finley_Assemble_AverageElementData(mesh->FaceElements,&_target,&_in);
918 jgs 82 } else {
919 jgs 150 throw FinleyAdapterException("Error - No interpolation with data on face elements possible.");
920 gross 1361 }
921     break;
922 gross 1062 case(ReducedFaceElements):
923 gross 1361 cout << "A\n";
924 gross 1062 if (target.getFunctionSpace().getTypeCode()==FaceElements) {
925 gross 1361 cout << "B\n";
926 gross 1062 Finley_Assemble_CopyElementData(mesh->FaceElements,&_target,&_in);
927 gross 1361 cout << "C\n";
928     throw FinleyAdapterException("A");
929 gross 1062 } else {
930     throw FinleyAdapterException("Error - No interpolation with data on face elements with reduced integration order possible.");
931     }
932 gross 1361 cout << "A\n";
933 gross 1062 break;
934 jgs 82 case(Points):
935     if (target.getFunctionSpace().getTypeCode()==Points) {
936 gross 1062 Finley_Assemble_CopyElementData(mesh->Points,&_target,&_in);
937 jgs 82 } else {
938 jgs 150 throw FinleyAdapterException("Error - No interpolation with data on points possible.");
939 jgs 82 }
940     break;
941     case(ContactElementsZero):
942     case(ContactElementsOne):
943     if (target.getFunctionSpace().getTypeCode()==ContactElementsZero || target.getFunctionSpace().getTypeCode()==ContactElementsOne) {
944 gross 1062 Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);
945 gross 1116 } else if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {
946     Finley_Assemble_AverageElementData(mesh->ContactElements,&_target,&_in);
947 jgs 82 } else {
948 jgs 150 throw FinleyAdapterException("Error - No interpolation with data on contact elements possible.");
949 jgs 82 }
950     break;
951 gross 1062 case(ReducedContactElementsZero):
952     case(ReducedContactElementsOne):
953     if (target.getFunctionSpace().getTypeCode()==ReducedContactElementsZero || target.getFunctionSpace().getTypeCode()==ReducedContactElementsOne) {
954     Finley_Assemble_CopyElementData(mesh->ContactElements,&_target,&_in);
955     } else {
956     throw FinleyAdapterException("Error - No interpolation with data on contact elements with reduced integration order possible.");
957     }
958     break;
959 bcumming 751 case(DegreesOfFreedom):
960 jgs 82 switch(target.getFunctionSpace().getTypeCode()) {
961     case(ReducedDegreesOfFreedom):
962     case(DegreesOfFreedom):
963 ksteube 1312 Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
964     break;
965    
966 jgs 82 case(Nodes):
967 gross 1062 case(ReducedNodes):
968 ksteube 1312 if (getMPISize()>1) {
969     escript::Data temp=escript::Data(in);
970     temp.expand();
971     escriptDataC _in2 = temp.getDataC();
972     Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in2);
973     } else {
974     Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
975     }
976 jgs 82 break;
977     case(Elements):
978 gross 1062 case(ReducedElements):
979 ksteube 1312 if (getMPISize()>1) {
980     escript::Data temp=escript::Data( in, continuousFunction(asAbstractContinuousDomain()) );
981     escriptDataC _in2 = temp.getDataC();
982     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in2,&_target);
983     } else {
984     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
985     }
986 jgs 82 break;
987     case(FaceElements):
988 gross 1062 case(ReducedFaceElements):
989 ksteube 1312 if (getMPISize()>1) {
990     escript::Data temp=escript::Data( in, continuousFunction(asAbstractContinuousDomain()) );
991     escriptDataC _in2 = temp.getDataC();
992     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in2,&_target);
993    
994     } else {
995     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
996     }
997 jgs 82 break;
998     case(Points):
999 ksteube 1312 if (getMPISize()>1) {
1000     escript::Data temp=escript::Data( in, continuousFunction(asAbstractContinuousDomain()) );
1001     escriptDataC _in2 = temp.getDataC();
1002     } else {
1003     Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
1004     }
1005 jgs 82 break;
1006     case(ContactElementsZero):
1007     case(ContactElementsOne):
1008 gross 1062 case(ReducedContactElementsZero):
1009     case(ReducedContactElementsOne):
1010 ksteube 1312 if (getMPISize()>1) {
1011     escript::Data temp=escript::Data( in, continuousFunction(asAbstractContinuousDomain()) );
1012     escriptDataC _in2 = temp.getDataC();
1013     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in2,&_target);
1014     } else {
1015     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
1016     }
1017 jgs 82 break;
1018     default:
1019 jgs 150 stringstream temp;
1020     temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
1021     throw FinleyAdapterException(temp.str());
1022 jgs 82 break;
1023     }
1024     break;
1025     case(ReducedDegreesOfFreedom):
1026     switch(target.getFunctionSpace().getTypeCode()) {
1027 gross 1062 case(Nodes):
1028     throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to mesh nodes.");
1029     break;
1030     case(ReducedNodes):
1031 ksteube 1312 if (getMPISize()>1) {
1032     escript::Data temp=escript::Data(in);
1033     temp.expand();
1034     escriptDataC _in2 = temp.getDataC();
1035     Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in2);
1036     } else {
1037     Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1038     }
1039     break;
1040 gross 1062 case(DegreesOfFreedom):
1041     throw FinleyAdapterException("Error - Finley does not support interpolation from reduced degrees of freedom to degrees of freedom");
1042     break;
1043 jgs 82 case(ReducedDegreesOfFreedom):
1044 gross 1062 Finley_Assemble_CopyNodalData(mesh->Nodes,&_target,&_in);
1045 jgs 82 break;
1046     case(Elements):
1047 gross 1062 case(ReducedElements):
1048 ksteube 1312 if (getMPISize()>1) {
1049     escript::Data temp=escript::Data( in, continuousFunction(asAbstractContinuousDomain()) );
1050     escriptDataC _in2 = temp.getDataC();
1051     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in2,&_target);
1052     } else {
1053     Finley_Assemble_interpolate(mesh->Nodes,mesh->Elements,&_in,&_target);
1054     }
1055 jgs 82 break;
1056     case(FaceElements):
1057 gross 1062 case(ReducedFaceElements):
1058 ksteube 1312 if (getMPISize()>1) {
1059     escript::Data temp=escript::Data( in, continuousFunction(asAbstractContinuousDomain()) );
1060     escriptDataC _in2 = temp.getDataC();
1061     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in2,&_target);
1062     } else {
1063     Finley_Assemble_interpolate(mesh->Nodes,mesh->FaceElements,&_in,&_target);
1064     }
1065 jgs 82 break;
1066     case(Points):
1067 ksteube 1312 if (getMPISize()>1) {
1068     escript::Data temp=escript::Data( in, continuousFunction(asAbstractContinuousDomain()) );
1069     escriptDataC _in2 = temp.getDataC();
1070     Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in2,&_target);
1071     } else {
1072     Finley_Assemble_interpolate(mesh->Nodes,mesh->Points,&_in,&_target);
1073     }
1074 jgs 82 break;
1075     case(ContactElementsZero):
1076     case(ContactElementsOne):
1077 gross 1062 case(ReducedContactElementsZero):
1078     case(ReducedContactElementsOne):
1079 ksteube 1312 if (getMPISize()>1) {
1080     escript::Data temp=escript::Data( in, continuousFunction(asAbstractContinuousDomain()) );
1081     escriptDataC _in2 = temp.getDataC();
1082     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in2,&_target);
1083     } else {
1084     Finley_Assemble_interpolate(mesh->Nodes,mesh->ContactElements,&_in,&_target);
1085     }
1086 jgs 82 break;
1087     default:
1088 jgs 150 stringstream temp;
1089     temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << target.getFunctionSpace().getTypeCode();
1090     throw FinleyAdapterException(temp.str());
1091 jgs 82 break;
1092     }
1093     break;
1094     default:
1095 jgs 150 stringstream temp;
1096     temp << "Error - Interpolation On Domain: Finley does not know anything about function space type %d" << in.getFunctionSpace().getTypeCode();
1097     throw FinleyAdapterException(temp.str());
1098 jgs 82 break;
1099     }
1100     checkFinleyError();
1101     }
1102    
1103     //
1104     // copies the locations of sample points into x:
1105     //
1106 jgs 480 void MeshAdapter::setToX(escript::Data& arg) const
1107 jgs 82 {
1108     const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());
1109     if (argDomain!=*this)
1110     throw FinleyAdapterException("Error - Illegal domain of data point locations");
1111     Finley_Mesh* mesh=m_finleyMesh.get();
1112     // in case of values node coordinates we can do the job directly:
1113     if (arg.getFunctionSpace().getTypeCode()==Nodes) {
1114 gross 1062 escriptDataC _arg=arg.getDataC();
1115     Finley_Assemble_NodeCoordinates(mesh->Nodes,&_arg);
1116 jgs 82 } else {
1117 jgs 480 escript::Data tmp_data=Vector(0.0,continuousFunction(asAbstractContinuousDomain()),true);
1118 gross 1062 escriptDataC _tmp_data=tmp_data.getDataC();
1119     Finley_Assemble_NodeCoordinates(mesh->Nodes,&_tmp_data);
1120 jgs 82 // this is then interpolated onto arg:
1121     interpolateOnDomain(arg,tmp_data);
1122     }
1123     checkFinleyError();
1124     }
1125 jgs 149
1126 jgs 82 //
1127     // return the normal vectors at the location of data points as a Data object:
1128     //
1129 jgs 480 void MeshAdapter::setToNormal(escript::Data& normal) const
1130 jgs 82 {
1131     const MeshAdapter& normalDomain=dynamic_cast<const MeshAdapter&>(normal.getFunctionSpace().getDomain());
1132     if (normalDomain!=*this)
1133     throw FinleyAdapterException("Error - Illegal domain of normal locations");
1134     Finley_Mesh* mesh=m_finleyMesh.get();
1135 gross 1062 escriptDataC _normal=normal.getDataC();
1136 jgs 82 switch(normal.getFunctionSpace().getTypeCode()) {
1137     case(Nodes):
1138 jgs 150 throw FinleyAdapterException("Error - Finley does not support surface normal vectors for nodes");
1139 jgs 82 break;
1140 gross 1062 case(ReducedNodes):
1141     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced nodes");
1142     break;
1143 jgs 82 case(Elements):
1144 jgs 150 throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements");
1145 jgs 82 break;
1146 gross 1062 case(ReducedElements):
1147     throw FinleyAdapterException("Error - Finley does not support surface normal vectors for elements with reduced integration order");
1148     break;
1149 jgs 82 case (FaceElements):
1150 gross 1062 Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);
1151 jgs 82 break;
1152 gross 1062 case (ReducedFaceElements):
1153     Finley_Assemble_setNormal(mesh->Nodes,mesh->FaceElements,&_normal);
1154     break;
1155 jgs 82 case(Points):
1156 jgs 150 throw FinleyAdapterException("Error - Finley does not support surface normal vectors for point elements");
1157 jgs 82 break;
1158     case (ContactElementsOne):
1159     case (ContactElementsZero):
1160 gross 1062 Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);
1161 jgs 82 break;
1162 gross 1062 case (ReducedContactElementsOne):
1163     case (ReducedContactElementsZero):
1164     Finley_Assemble_setNormal(mesh->Nodes,mesh->ContactElements,&_normal);
1165     break;
1166 jgs 82 case(DegreesOfFreedom):
1167 jgs 150 throw FinleyAdapterException("Error - Finley does not support surface normal vectors for degrees of freedom.");
1168 jgs 82 break;
1169     case(ReducedDegreesOfFreedom):
1170 jgs 150 throw FinleyAdapterException("Error - Finley does not support surface normal vectors for reduced degrees of freedom.");
1171 jgs 82 break;
1172     default:
1173 jgs 150 stringstream temp;
1174     temp << "Error - Normal Vectors: Finley does not know anything about function space type " << normal.getFunctionSpace().getTypeCode();
1175     throw FinleyAdapterException(temp.str());
1176 jgs 82 break;
1177     }
1178     checkFinleyError();
1179     }
1180 jgs 149
1181 jgs 82 //
1182     // interpolates data to other domain:
1183     //
1184 jgs 480 void MeshAdapter::interpolateACross(escript::Data& target,const escript::Data& source) const
1185 jgs 82 {
1186     const MeshAdapter& targetDomain=dynamic_cast<const MeshAdapter&>(target.getFunctionSpace().getDomain());
1187     if (targetDomain!=*this)
1188     throw FinleyAdapterException("Error - Illegal domain of interpolation target");
1189    
1190 jgs 150 throw FinleyAdapterException("Error - Finley does not allow interpolation across domains yet.");
1191 jgs 82 }
1192 jgs 149
1193 jgs 82 //
1194     // calculates the integral of a function defined of arg:
1195     //
1196 jgs 480 void MeshAdapter::setToIntegrals(std::vector<double>& integrals,const escript::Data& arg) const
1197 jgs 82 {
1198     const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());
1199     if (argDomain!=*this)
1200     throw FinleyAdapterException("Error - Illegal domain of integration kernel");
1201    
1202 ksteube 1312 double blocktimer_start = blocktimer_time();
1203 jgs 82 Finley_Mesh* mesh=m_finleyMesh.get();
1204 ksteube 1312 escriptDataC _temp;
1205     escript::Data temp;
1206 gross 1062 escriptDataC _arg=arg.getDataC();
1207 jgs 82 switch(arg.getFunctionSpace().getTypeCode()) {
1208     case(Nodes):
1209 ksteube 1312 temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1210     _temp=temp.getDataC();
1211     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1212 jgs 82 break;
1213 gross 1062 case(ReducedNodes):
1214 ksteube 1312 temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1215     _temp=temp.getDataC();
1216     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1217 gross 1062 break;
1218 jgs 82 case(Elements):
1219 gross 1062 Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);
1220 jgs 82 break;
1221 gross 1062 case(ReducedElements):
1222     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_arg,&integrals[0]);
1223 gross 1064 break;
1224 jgs 82 case(FaceElements):
1225 gross 1062 Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);
1226 jgs 82 break;
1227 gross 1062 case(ReducedFaceElements):
1228     Finley_Assemble_integrate(mesh->Nodes,mesh->FaceElements,&_arg,&integrals[0]);
1229     break;
1230 jgs 82 case(Points):
1231 jgs 150 throw FinleyAdapterException("Error - Integral of data on points is not supported.");
1232 jgs 82 break;
1233     case(ContactElementsZero):
1234 gross 1062 Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1235 jgs 82 break;
1236 gross 1062 case(ReducedContactElementsZero):
1237     Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1238     break;
1239 jgs 82 case(ContactElementsOne):
1240 gross 1062 Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1241 jgs 82 break;
1242 gross 1062 case(ReducedContactElementsOne):
1243     Finley_Assemble_integrate(mesh->Nodes,mesh->ContactElements,&_arg,&integrals[0]);
1244     break;
1245 jgs 82 case(DegreesOfFreedom):
1246 ksteube 1312 temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1247     _temp=temp.getDataC();
1248     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1249 jgs 82 break;
1250     case(ReducedDegreesOfFreedom):
1251 ksteube 1312 temp=escript::Data( arg, function(asAbstractContinuousDomain()) );
1252     _temp=temp.getDataC();
1253     Finley_Assemble_integrate(mesh->Nodes,mesh->Elements,&_temp,&integrals[0]);
1254 jgs 82 break;
1255     default:
1256 jgs 150 stringstream temp;
1257     temp << "Error - Integrals: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();
1258     throw FinleyAdapterException(temp.str());
1259 jgs 82 break;
1260     }
1261     checkFinleyError();
1262 ksteube 1312 blocktimer_increment("integrate()", blocktimer_start);
1263 jgs 82 }
1264 jgs 149
1265 jgs 82 //
1266     // calculates the gradient of arg:
1267     //
1268 jgs 480 void MeshAdapter::setToGradient(escript::Data& grad,const escript::Data& arg) const
1269 jgs 82 {
1270     const MeshAdapter& argDomain=dynamic_cast<const MeshAdapter&>(arg.getFunctionSpace().getDomain());
1271     if (argDomain!=*this)
1272     throw FinleyAdapterException("Error - Illegal domain of gradient argument");
1273     const MeshAdapter& gradDomain=dynamic_cast<const MeshAdapter&>(grad.getFunctionSpace().getDomain());
1274     if (gradDomain!=*this)
1275     throw FinleyAdapterException("Error - Illegal domain of gradient");
1276    
1277     Finley_Mesh* mesh=m_finleyMesh.get();
1278 gross 1062 escriptDataC _grad=grad.getDataC();
1279 bcumming 751 escriptDataC nodeDataC;
1280 ksteube 1312 escript::Data temp;
1281     if (getMPISize()>1) {
1282     if( arg.getFunctionSpace().getTypeCode() == DegreesOfFreedom ) {
1283     temp=escript::Data( arg, continuousFunction(asAbstractContinuousDomain()) );
1284     nodeDataC = temp.getDataC();
1285     } else if( arg.getFunctionSpace().getTypeCode() == ReducedDegreesOfFreedom ) {
1286     temp=escript::Data( arg, reducedContinuousFunction(asAbstractContinuousDomain()) );
1287     nodeDataC = temp.getDataC();
1288     } else {
1289     nodeDataC = arg.getDataC();
1290     }
1291     } else {
1292     nodeDataC = arg.getDataC();
1293 bcumming 751 }
1294 jgs 82 switch(grad.getFunctionSpace().getTypeCode()) {
1295     case(Nodes):
1296 jgs 150 throw FinleyAdapterException("Error - Gradient at nodes is not supported.");
1297 jgs 82 break;
1298 gross 1062 case(ReducedNodes):
1299     throw FinleyAdapterException("Error - Gradient at reduced nodes is not supported.");
1300     break;
1301 jgs 82 case(Elements):
1302 gross 1062 Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);
1303 jgs 82 break;
1304 gross 1062 case(ReducedElements):
1305     Finley_Assemble_gradient(mesh->Nodes,mesh->Elements,&_grad,&nodeDataC);
1306     break;
1307 jgs 82 case(FaceElements):
1308 gross 1062 Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);
1309 jgs 82 break;
1310 gross 1062 case(ReducedFaceElements):
1311     Finley_Assemble_gradient(mesh->Nodes,mesh->FaceElements,&_grad,&nodeDataC);
1312     break;
1313 jgs 82 case(Points):
1314 jgs 150 throw FinleyAdapterException("Error - Gradient at points is not supported.");
1315 jgs 82 break;
1316     case(ContactElementsZero):
1317 gross 1062 Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1318 jgs 82 break;
1319 gross 1062 case(ReducedContactElementsZero):
1320     Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1321     break;
1322 jgs 82 case(ContactElementsOne):
1323 gross 1062 Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1324 jgs 82 break;
1325 gross 1062 case(ReducedContactElementsOne):
1326     Finley_Assemble_gradient(mesh->Nodes,mesh->ContactElements,&_grad,&nodeDataC);
1327     break;
1328 jgs 82 case(DegreesOfFreedom):
1329 jgs 150 throw FinleyAdapterException("Error - Gradient at degrees of freedom is not supported.");
1330 jgs 82 break;
1331     case(ReducedDegreesOfFreedom):
1332 jgs 150 throw FinleyAdapterException("Error - Gradient at reduced degrees of freedom is not supported.");
1333 jgs 82 break;
1334     default:
1335 jgs 150 stringstream temp;
1336     temp << "Error - Gradient: Finley does not know anything about function space type " << arg.getFunctionSpace().getTypeCode();
1337     throw FinleyAdapterException(temp.str());
1338 jgs 82 break;
1339     }
1340     checkFinleyError();
1341     }
1342 jgs 149
1343 jgs 82 //
1344     // returns the size of elements:
1345     //
1346 jgs 480 void MeshAdapter::setToSize(escript::Data& size) const
1347 jgs 82 {
1348     Finley_Mesh* mesh=m_finleyMesh.get();
1349     escriptDataC tmp=size.getDataC();
1350     switch(size.getFunctionSpace().getTypeCode()) {
1351     case(Nodes):
1352 jgs 150 throw FinleyAdapterException("Error - Size of nodes is not supported.");
1353 jgs 82 break;
1354 gross 1062 case(ReducedNodes):
1355     throw FinleyAdapterException("Error - Size of reduced nodes is not supported.");
1356     break;
1357 jgs 82 case(Elements):
1358     Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);
1359     break;
1360 gross 1062 case(ReducedElements):
1361     Finley_Assemble_getSize(mesh->Nodes,mesh->Elements,&tmp);
1362     break;
1363 jgs 82 case(FaceElements):
1364     Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);
1365     break;
1366 gross 1062 case(ReducedFaceElements):
1367     Finley_Assemble_getSize(mesh->Nodes,mesh->FaceElements,&tmp);
1368     break;
1369 jgs 82 case(Points):
1370 jgs 150 throw FinleyAdapterException("Error - Size of point elements is not supported.");
1371 jgs 82 break;
1372     case(ContactElementsZero):
1373     case(ContactElementsOne):
1374     Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);
1375     break;
1376 gross 1062 case(ReducedContactElementsZero):
1377     case(ReducedContactElementsOne):
1378     Finley_Assemble_getSize(mesh->Nodes,mesh->ContactElements,&tmp);
1379     break;
1380 jgs 82 case(DegreesOfFreedom):
1381 jgs 150 throw FinleyAdapterException("Error - Size of degrees of freedom is not supported.");
1382 jgs 82 break;
1383     case(ReducedDegreesOfFreedom):
1384 jgs 150 throw FinleyAdapterException("Error - Size of reduced degrees of freedom is not supported.");
1385 jgs 82 break;
1386     default:
1387 jgs 150 stringstream temp;
1388     temp << "Error - Element size: Finley does not know anything about function space type " << size.getFunctionSpace().getTypeCode();
1389     throw FinleyAdapterException(temp.str());
1390 jgs 82 break;
1391     }
1392     checkFinleyError();
1393     }
1394 jgs 149
1395 jgs 82 // sets the location of nodes:
1396 jgs 480 void MeshAdapter::setNewX(const escript::Data& new_x)
1397 jgs 82 {
1398     Finley_Mesh* mesh=m_finleyMesh.get();
1399 bcumming 751 escriptDataC tmp;
1400 jgs 82 const MeshAdapter& newDomain=dynamic_cast<const MeshAdapter&>(new_x.getFunctionSpace().getDomain());
1401     if (newDomain!=*this)
1402     throw FinleyAdapterException("Error - Illegal domain of new point locations");
1403 bcumming 751 tmp = new_x.getDataC();
1404     Finley_Mesh_setCoordinates(mesh,&tmp);
1405 jgs 82 checkFinleyError();
1406     }
1407 jgs 149
1408 jgs 82 // saves a data array in openDX format:
1409 jgs 153 void MeshAdapter::saveDX(const std::string& filename,const boost::python::dict& arg) const
1410     {
1411     int MAX_namelength=256;
1412     const int num_data=boost::python::extract<int>(arg.attr("__len__")());
1413 woo409 757 /* win32 refactor */
1414     char* *names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1415     for(int i=0;i<num_data;i++)
1416     {
1417     names[i] = (MAX_namelength>0) ? TMPMEMALLOC(MAX_namelength,char) : (char*)NULL;
1418     }
1419 jgs 153
1420 woo409 757 char* *c_names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1421     escriptDataC *data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC) : (escriptDataC*)NULL;
1422     escriptDataC* *ptr_data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC*) : (escriptDataC**)NULL;
1423    
1424 ksteube 1312 boost::python::list keys=arg.keys();
1425     for (int i=0;i<num_data;++i) {
1426     std::string n=boost::python::extract<std::string>(keys[i]);
1427 jgs 480 escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);
1428 jgs 153 if (dynamic_cast<const MeshAdapter&>(d.getFunctionSpace().getDomain()) !=*this)
1429 ksteube 1312 throw FinleyAdapterException("Error in saveVTK: Data must be defined on same Domain");
1430 jgs 153 data[i]=d.getDataC();
1431     ptr_data[i]=&(data[i]);
1432     c_names[i]=&(names[i][0]);
1433     if (n.length()>MAX_namelength-1) {
1434     strncpy(c_names[i],n.c_str(),MAX_namelength-1);
1435     c_names[i][MAX_namelength-1]='\0';
1436     } else {
1437     strcpy(c_names[i],n.c_str());
1438     }
1439     }
1440     Finley_Mesh_saveDX(filename.c_str(),m_finleyMesh.get(),num_data,c_names,ptr_data);
1441     checkFinleyError();
1442 woo409 757
1443     /* win32 refactor */
1444     TMPMEMFREE(c_names);
1445     TMPMEMFREE(data);
1446     TMPMEMFREE(ptr_data);
1447     for(int i=0;i<num_data;i++)
1448     {
1449     TMPMEMFREE(names[i]);
1450     }
1451     TMPMEMFREE(names);
1452    
1453 jgs 153 return;
1454 jgs 82 }
1455 jgs 149
1456 jgs 110 // saves a data array in openVTK format:
1457 jgs 153 void MeshAdapter::saveVTK(const std::string& filename,const boost::python::dict& arg) const
1458     {
1459     int MAX_namelength=256;
1460     const int num_data=boost::python::extract<int>(arg.attr("__len__")());
1461 woo409 757 /* win32 refactor */
1462     char* *names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1463     for(int i=0;i<num_data;i++)
1464     {
1465     names[i] = (MAX_namelength>0) ? TMPMEMALLOC(MAX_namelength,char) : (char*)NULL;
1466     }
1467 jgs 153
1468 woo409 757 char* *c_names = (num_data>0) ? TMPMEMALLOC(num_data,char*) : (char**)NULL;
1469     escriptDataC *data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC) : (escriptDataC*)NULL;
1470     escriptDataC* *ptr_data = (num_data>0) ? TMPMEMALLOC(num_data,escriptDataC*) : (escriptDataC**)NULL;
1471    
1472 jgs 153 boost::python::list keys=arg.keys();
1473     for (int i=0;i<num_data;++i) {
1474 ksteube 1312 std::string n=boost::python::extract<std::string>(keys[i]);
1475 jgs 480 escript::Data& d=boost::python::extract<escript::Data&>(arg[keys[i]]);
1476 jgs 153 if (dynamic_cast<const MeshAdapter&>(d.getFunctionSpace().getDomain()) !=*this)
1477     throw FinleyAdapterException("Error in saveVTK: Data must be defined on same Domain");
1478     data[i]=d.getDataC();
1479     ptr_data[i]=&(data[i]);
1480     c_names[i]=&(names[i][0]);
1481     if (n.length()>MAX_namelength-1) {
1482     strncpy(c_names[i],n.c_str(),MAX_namelength-1);
1483     c_names[i][MAX_namelength-1]='\0';
1484     } else {
1485     strcpy(c_names[i],n.c_str());
1486     }
1487     }
1488     Finley_Mesh_saveVTK(filename.c_str(),m_finleyMesh.get(),num_data,c_names,ptr_data);
1489 dhawcroft 793
1490 ksteube 1312 checkFinleyError();
1491 woo409 757 /* win32 refactor */
1492     TMPMEMFREE(c_names);
1493     TMPMEMFREE(data);
1494     TMPMEMFREE(ptr_data);
1495     for(int i=0;i<num_data;i++)
1496     {
1497     TMPMEMFREE(names[i]);
1498     }
1499     TMPMEMFREE(names);
1500    
1501 jgs 153 return;
1502 jgs 110 }
1503 jgs 153
1504    
1505 jgs 82 // creates a SystemMatrixAdapter stiffness matrix an initializes it with zeros:
1506     SystemMatrixAdapter MeshAdapter::newSystemMatrix(
1507     const int row_blocksize,
1508     const escript::FunctionSpace& row_functionspace,
1509     const int column_blocksize,
1510     const escript::FunctionSpace& column_functionspace,
1511 jgs 102 const int type) const
1512 jgs 82 {
1513     int reduceRowOrder=0;
1514     int reduceColOrder=0;
1515     // is the domain right?
1516     const MeshAdapter& row_domain=dynamic_cast<const MeshAdapter&>(row_functionspace.getDomain());
1517     if (row_domain!=*this)
1518     throw FinleyAdapterException("Error - domain of row function space does not match the domain of matrix generator.");
1519     const MeshAdapter& col_domain=dynamic_cast<const MeshAdapter&>(column_functionspace.getDomain());
1520     if (col_domain!=*this)
1521     throw FinleyAdapterException("Error - domain of columnn function space does not match the domain of matrix generator.");
1522     // is the function space type right
1523     if (row_functionspace.getTypeCode()==DegreesOfFreedom) {
1524     reduceRowOrder=0;
1525     } else if (row_functionspace.getTypeCode()==ReducedDegreesOfFreedom) {
1526     reduceRowOrder=1;
1527     } else {
1528     throw FinleyAdapterException("Error - illegal function space type for system matrix rows.");
1529     }
1530     if (column_functionspace.getTypeCode()==DegreesOfFreedom) {
1531     reduceColOrder=0;
1532     } else if (column_functionspace.getTypeCode()==ReducedDegreesOfFreedom) {
1533     reduceColOrder=1;
1534     } else {
1535     throw FinleyAdapterException("Error - illegal function space type for system matrix columns.");
1536     }
1537     // generate matrix:
1538 jgs 102
1539 jgs 150 Paso_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceRowOrder,reduceColOrder);
1540 jgs 82 checkFinleyError();
1541 ksteube 1312 Paso_SystemMatrix* fsystemMatrix;
1542     int trilinos = 0;
1543     if (trilinos) {
1544     #ifdef TRILINOS
1545     /* Allocation Epetra_VrbMatrix here */
1546     #endif
1547     }
1548     else {
1549     fsystemMatrix=Paso_SystemMatrix_alloc(type,fsystemMatrixPattern,row_blocksize,column_blocksize);
1550     }
1551 jgs 150 checkPasoError();
1552 ksteube 1312 Paso_SystemMatrixPattern_free(fsystemMatrixPattern);
1553 jgs 82 return SystemMatrixAdapter(fsystemMatrix,row_blocksize,row_functionspace,column_blocksize,column_functionspace);
1554     }
1555 gross 1366 // creates a TransportProblemAdapter
1556     TransportProblemAdapter MeshAdapter::newTransportProblem(
1557     const double theta,
1558     const double dt_max,
1559     const int blocksize,
1560     const escript::FunctionSpace& functionspace,
1561     const int type) const
1562     {
1563     int reduceOrder=0;
1564     // is the domain right?
1565     const MeshAdapter& domain=dynamic_cast<const MeshAdapter&>(functionspace.getDomain());
1566     if (domain!=*this)
1567     throw FinleyAdapterException("Error - domain of function space does not match the domain of transport problem generator.");
1568     // is the function space type right
1569     if (functionspace.getTypeCode()==DegreesOfFreedom) {
1570     reduceOrder=0;
1571     } else if (functionspace.getTypeCode()==ReducedDegreesOfFreedom) {
1572     reduceOrder=1;
1573     } else {
1574     throw FinleyAdapterException("Error - illegal function space type for system matrix rows.");
1575     }
1576     // generate matrix:
1577    
1578     Paso_SystemMatrixPattern* fsystemMatrixPattern=Finley_getPattern(getFinley_Mesh(),reduceOrder,reduceOrder);
1579     checkFinleyError();
1580     Paso_FCTransportProblem* transportProblem;
1581     transportProblem=Paso_FCTransportProblem_alloc(theta,dt_max,fsystemMatrixPattern,blocksize);
1582     checkPasoError();
1583     Paso_SystemMatrixPattern_free(fsystemMatrixPattern);
1584     return TransportProblemAdapter(transportProblem,theta,dt_max,blocksize,functionspace);
1585     }
1586 jgs 149
1587 jgs 82 //
1588     // vtkObject MeshAdapter::createVtkObject() const
1589     // TODO:
1590     //
1591 jgs 149
1592 jgs 82 //
1593     // returns true if data at the atom_type is considered as being cell centered:
1594     bool MeshAdapter::isCellOriented(int functionSpaceCode) const
1595     {
1596     switch(functionSpaceCode) {
1597     case(Nodes):
1598     case(DegreesOfFreedom):
1599     case(ReducedDegreesOfFreedom):
1600     return false;
1601     break;
1602     case(Elements):
1603     case(FaceElements):
1604     case(Points):
1605     case(ContactElementsZero):
1606     case(ContactElementsOne):
1607 gross 1062 case(ReducedElements):
1608     case(ReducedFaceElements):
1609     case(ReducedContactElementsZero):
1610     case(ReducedContactElementsOne):
1611 jgs 82 return true;
1612     break;
1613     default:
1614 jgs 150 stringstream temp;
1615     temp << "Error - Cell: Finley does not know anything about function space type " << functionSpaceCode;
1616     throw FinleyAdapterException(temp.str());
1617 jgs 82 break;
1618     }
1619     checkFinleyError();
1620     return false;
1621     }
1622 jgs 149
1623 jgs 82 bool MeshAdapter::probeInterpolationOnDomain(int functionSpaceType_source,int functionSpaceType_target) const
1624     {
1625     switch(functionSpaceType_source) {
1626     case(Nodes):
1627     switch(functionSpaceType_target) {
1628     case(Nodes):
1629 gross 1062 case(ReducedNodes):
1630 jgs 82 case(ReducedDegreesOfFreedom):
1631     case(DegreesOfFreedom):
1632     case(Elements):
1633 gross 1062 case(ReducedElements):
1634 jgs 82 case(FaceElements):
1635 gross 1062 case(ReducedFaceElements):
1636 jgs 82 case(Points):
1637     case(ContactElementsZero):
1638 gross 1062 case(ReducedContactElementsZero):
1639 jgs 82 case(ContactElementsOne):
1640 gross 1062 case(ReducedContactElementsOne):
1641 jgs 82 return true;
1642     default:
1643 jgs 150 stringstream temp;
1644     temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1645     throw FinleyAdapterException(temp.str());
1646 jgs 82 }
1647     break;
1648 gross 1062 case(ReducedNodes):
1649     switch(functionSpaceType_target) {
1650     case(ReducedNodes):
1651     case(ReducedDegreesOfFreedom):
1652     case(Elements):
1653     case(ReducedElements):
1654     case(FaceElements):
1655     case(ReducedFaceElements):
1656     case(Points):
1657     case(ContactElementsZero):
1658     case(ReducedContactElementsZero):
1659     case(ContactElementsOne):
1660     case(ReducedContactElementsOne):
1661     return true;
1662     case(Nodes):
1663     case(DegreesOfFreedom):
1664     return false;
1665     default:
1666     stringstream temp;
1667     temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1668     throw FinleyAdapterException(temp.str());
1669     }
1670     break;
1671 jgs 82 case(Elements):
1672     if (functionSpaceType_target==Elements) {
1673     return true;
1674 gross 1116 } else if (functionSpaceType_target==ReducedElements) {
1675     return true;
1676 jgs 82 } else {
1677     return false;
1678     }
1679 gross 1062 case(ReducedElements):
1680     if (functionSpaceType_target==ReducedElements) {
1681     return true;
1682     } else {
1683     return false;
1684     }
1685 jgs 82 case(FaceElements):
1686     if (functionSpaceType_target==FaceElements) {
1687     return true;
1688 gross 1116 } else if (functionSpaceType_target==ReducedFaceElements) {
1689     return true;
1690 jgs 82 } else {
1691     return false;
1692     }
1693 gross 1062 case(ReducedFaceElements):
1694     if (functionSpaceType_target==ReducedFaceElements) {
1695     return true;
1696     } else {
1697     return false;
1698     }
1699 jgs 82 case(Points):
1700     if (functionSpaceType_target==Points) {
1701     return true;
1702     } else {
1703     return false;
1704     }
1705     case(ContactElementsZero):
1706     case(ContactElementsOne):
1707     if (functionSpaceType_target==ContactElementsZero || functionSpaceType_target==ContactElementsOne) {
1708     return true;
1709 gross 1116 } else if (functionSpaceType_target==ReducedContactElementsZero || functionSpaceType_target==ReducedContactElementsOne) {
1710     return true;
1711 jgs 82 } else {
1712     return false;
1713     }
1714 gross 1062 case(ReducedContactElementsZero):
1715     case(ReducedContactElementsOne):
1716     if (functionSpaceType_target==ReducedContactElementsZero || functionSpaceType_target==ReducedContactElementsOne) {
1717     return true;
1718     } else {
1719     return false;
1720     }
1721 jgs 82 case(DegreesOfFreedom):
1722     switch(functionSpaceType_target) {
1723     case(ReducedDegreesOfFreedom):
1724     case(DegreesOfFreedom):
1725     case(Nodes):
1726 gross 1062 case(ReducedNodes):
1727 jgs 82 case(Elements):
1728 gross 1062 case(ReducedElements):
1729     case(Points):
1730 jgs 82 case(FaceElements):
1731 gross 1062 case(ReducedFaceElements):
1732 jgs 82 case(ContactElementsZero):
1733 gross 1062 case(ReducedContactElementsZero):
1734 jgs 82 case(ContactElementsOne):
1735 gross 1062 case(ReducedContactElementsOne):
1736 jgs 82 return true;
1737     default:
1738 jgs 150 stringstream temp;
1739     temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1740     throw FinleyAdapterException(temp.str());
1741 jgs 82 }
1742     break;
1743     case(ReducedDegreesOfFreedom):
1744     switch(functionSpaceType_target) {
1745     case(ReducedDegreesOfFreedom):
1746 gross 1062 case(ReducedNodes):
1747 jgs 82 case(Elements):
1748 gross 1062 case(ReducedElements):
1749 jgs 82 case(FaceElements):
1750 gross 1062 case(ReducedFaceElements):
1751 jgs 82 case(Points):
1752     case(ContactElementsZero):
1753 gross 1062 case(ReducedContactElementsZero):
1754 jgs 82 case(ContactElementsOne):
1755 gross 1062 case(ReducedContactElementsOne):
1756 jgs 82 return true;
1757 jgs 147 case(Nodes):
1758 jgs 82 case(DegreesOfFreedom):
1759     return false;
1760     default:
1761 jgs 150 stringstream temp;
1762     temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_target;
1763     throw FinleyAdapterException(temp.str());
1764 jgs 82 }
1765     break;
1766     default:
1767 jgs 150 stringstream temp;
1768     temp << "Error - Interpolation On Domain: Finley does not know anything about function space type " << functionSpaceType_source;
1769     throw FinleyAdapterException(temp.str());
1770 jgs 82 break;
1771     }
1772     checkFinleyError();
1773     return false;
1774     }
1775 jgs 149
1776 jgs 82 bool MeshAdapter::probeInterpolationACross(int functionSpaceType_source,const AbstractDomain& targetDomain, int functionSpaceType_target) const
1777     {
1778     return false;
1779     }
1780 jgs 104
1781 jgs 121 bool MeshAdapter::operator==(const AbstractDomain& other) const
1782 jgs 82 {
1783 jgs 121 const MeshAdapter* temp=dynamic_cast<const MeshAdapter*>(&other);
1784     if (temp!=0) {
1785     return (m_finleyMesh==temp->m_finleyMesh);
1786     } else {
1787     return false;
1788     }
1789 jgs 82 }
1790    
1791 jgs 121 bool MeshAdapter::operator!=(const AbstractDomain& other) const
1792 jgs 104 {
1793 jgs 121 return !(operator==(other));
1794 jgs 104 }
1795    
1796 jgs 150 int MeshAdapter::getSystemMatrixTypeId(const int solver, const int package, const bool symmetry) const
1797 jgs 102 {
1798 jgs 150 int out=Paso_SystemMatrix_getSystemMatrixTypeId(SystemMatrixAdapter::mapOptionToPaso(solver),SystemMatrixAdapter::mapOptionToPaso(package),symmetry?1:0);
1799     checkPasoError();
1800 jgs 102 return out;
1801     }
1802 jgs 149
1803 jgs 480 escript::Data MeshAdapter::getX() const
1804 jgs 102 {
1805     return continuousFunction(asAbstractContinuousDomain()).getX();
1806     }
1807 jgs 149
1808 jgs 480 escript::Data MeshAdapter::getNormal() const
1809 jgs 102 {
1810     return functionOnBoundary(asAbstractContinuousDomain()).getNormal();
1811     }
1812 jgs 149
1813 jgs 480 escript::Data MeshAdapter::getSize() const
1814 jgs 102 {
1815     return function(asAbstractContinuousDomain()).getSize();
1816     }
1817    
1818 gross 1062 int* MeshAdapter::borrowSampleReferenceIDs(int functionSpaceType) const
1819     {
1820     int *out=0,i;
1821     Finley_Mesh* mesh=m_finleyMesh.get();
1822     switch (functionSpaceType) {
1823     case(Nodes):
1824 ksteube 1312 out=mesh->Nodes->Id;
1825     break;
1826 gross 1062 case(ReducedNodes):
1827 ksteube 1312 out=mesh->Nodes->reducedNodesId;
1828 gross 1062 break;
1829     case(Elements):
1830 gross 1080 out=mesh->Elements->Id;
1831 gross 1062 break;
1832     case(ReducedElements):
1833     out=mesh->Elements->Id;
1834     break;
1835     case(FaceElements):
1836     out=mesh->FaceElements->Id;
1837     break;
1838     case(ReducedFaceElements):
1839     out=mesh->FaceElements->Id;
1840     break;
1841     case(Points):
1842     out=mesh->Points->Id;
1843     break;
1844     case(ContactElementsZero):
1845     out=mesh->ContactElements->Id;
1846     break;
1847     case(ReducedContactElementsZero):
1848     out=mesh->ContactElements->Id;
1849     break;
1850     case(ContactElementsOne):
1851     out=mesh->ContactElements->Id;
1852     break;
1853     case(ReducedContactElementsOne):
1854     out=mesh->ContactElements->Id;
1855     break;
1856     case(DegreesOfFreedom):
1857 ksteube 1312 out=mesh->Nodes->degreesOfFreedomId;
1858 gross 1062 break;
1859     case(ReducedDegreesOfFreedom):
1860 ksteube 1312 out=mesh->Nodes->reducedDegreesOfFreedomId;
1861 gross 1062 break;
1862     default:
1863     stringstream temp;
1864     temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();
1865     throw FinleyAdapterException(temp.str());
1866     break;
1867     }
1868     return out;
1869     }
1870 jgs 110 int MeshAdapter::getTagFromSampleNo(int functionSpaceType, int sampleNo) const
1871     {
1872 gross 547 int out=0;
1873     Finley_Mesh* mesh=m_finleyMesh.get();
1874     switch (functionSpaceType) {
1875     case(Nodes):
1876     out=mesh->Nodes->Tag[sampleNo];
1877     break;
1878 gross 1062 case(ReducedNodes):
1879     throw FinleyAdapterException(" Error - ReducedNodes does not support tags.");
1880     break;
1881 gross 547 case(Elements):
1882     out=mesh->Elements->Tag[sampleNo];
1883     break;
1884 gross 1062 case(ReducedElements):
1885     out=mesh->Elements->Tag[sampleNo];
1886     break;
1887 gross 547 case(FaceElements):
1888     out=mesh->FaceElements->Tag[sampleNo];
1889     break;
1890 gross 1062 case(ReducedFaceElements):
1891     out=mesh->FaceElements->Tag[sampleNo];
1892     break;
1893 gross 547 case(Points):
1894     out=mesh->Points->Tag[sampleNo];
1895     break;
1896     case(ContactElementsZero):
1897     out=mesh->ContactElements->Tag[sampleNo];
1898     break;
1899 gross 1062 case(ReducedContactElementsZero):
1900     out=mesh->ContactElements->Tag[sampleNo];
1901     break;
1902 gross 547 case(ContactElementsOne):
1903     out=mesh->ContactElements->Tag[sampleNo];
1904     break;
1905 gross 1062 case(ReducedContactElementsOne):
1906     out=mesh->ContactElements->Tag[sampleNo];
1907 gross 547 break;
1908     case(DegreesOfFreedom):
1909 gross 1062 throw FinleyAdapterException(" Error - DegreesOfFreedom does not support tags.");
1910 gross 547 break;
1911     case(ReducedDegreesOfFreedom):
1912 gross 1062 throw FinleyAdapterException(" Error - ReducedDegreesOfFreedom does not support tags.");
1913 gross 547 break;
1914     default:
1915     stringstream temp;
1916     temp << "Error - Invalid function space type: " << functionSpaceType << " for domain: " << getDescription();
1917     throw FinleyAdapterException(temp.str());
1918     break;
1919     }
1920     return out;
1921 jgs 110 }
1922    
1923 gross 1062
1924 gross 767 void MeshAdapter::setTags(const int functionSpaceType, const int newTag, const escript::Data& mask) const
1925     {
1926     Finley_Mesh* mesh=m_finleyMesh.get();
1927     escriptDataC tmp=mask.getDataC();
1928     switch(functionSpaceType) {
1929     case(Nodes):
1930     Finley_NodeFile_setTags(mesh->Nodes,newTag,&tmp);
1931     break;
1932 gross 1062 case(ReducedNodes):
1933     throw FinleyAdapterException("Error - ReducedNodes does not support tags");
1934     break;
1935 gross 767 case(DegreesOfFreedom):
1936     throw FinleyAdapterException("Error - DegreesOfFreedom does not support tags");
1937     break;
1938     case(ReducedDegreesOfFreedom):
1939     throw FinleyAdapterException("Error - ReducedDegreesOfFreedom does not support tags");
1940     break;
1941     case(Elements):
1942     Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);
1943     break;
1944 gross 1062 case(ReducedElements):
1945     Finley_ElementFile_setTags(mesh->Elements,newTag,&tmp);
1946     break;
1947 gross 767 case(FaceElements):
1948     Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);
1949     break;
1950 gross 1062 case(ReducedFaceElements):
1951     Finley_ElementFile_setTags(mesh->FaceElements,newTag,&tmp);
1952     break;
1953 gross 767 case(Points):
1954     Finley_ElementFile_setTags(mesh->Points,newTag,&tmp);
1955     break;
1956     case(ContactElementsZero):
1957     Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1958     break;
1959 gross 1062 case(ReducedContactElementsZero):
1960     Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1961     break;
1962 gross 767 case(ContactElementsOne):
1963     Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1964     break;
1965 gross 1062 case(ReducedContactElementsOne):
1966     Finley_ElementFile_setTags(mesh->ContactElements,newTag,&tmp);
1967     break;
1968 gross 767 default:
1969     stringstream temp;
1970     temp << "Error - Finley does not know anything about function space type " << functionSpaceType;
1971     throw FinleyAdapterException(temp.str());
1972     }
1973     checkFinleyError();
1974     return;
1975     }
1976    
1977 gross 1044 void MeshAdapter::setTagMap(const std::string& name, int tag)
1978     {
1979     Finley_Mesh* mesh=m_finleyMesh.get();
1980     Finley_Mesh_addTagMap(mesh, name.c_str(),tag);
1981     checkPasoError();
1982     // throwStandardException("MeshAdapter::set TagMap is not implemented.");
1983     }
1984 gross 767
1985 gross 1044 int MeshAdapter::getTag(const std::string& name) const
1986     {
1987     Finley_Mesh* mesh=m_finleyMesh.get();
1988     int tag=0;
1989     tag=Finley_Mesh_getTag(mesh, name.c_str());
1990     checkPasoError();
1991     // throwStandardException("MeshAdapter::getTag is not implemented.");
1992     return tag;
1993     }
1994    
1995     bool MeshAdapter::isValidTagName(const std::string& name) const
1996     {
1997     Finley_Mesh* mesh=m_finleyMesh.get();
1998     return Finley_Mesh_isValidTagName(mesh,name.c_str());
1999     }
2000    
2001     std::string MeshAdapter::showTagNames() const
2002     {
2003     stringstream temp;
2004     Finley_Mesh* mesh=m_finleyMesh.get();
2005     Finley_TagMap* tag_map=mesh->TagMap;
2006     while (tag_map) {
2007     temp << tag_map->name;
2008     tag_map=tag_map->next;
2009     if (tag_map) temp << ", ";
2010     }
2011 ksteube 1312 return temp.str();
2012 gross 1044 }
2013    
2014 jgs 82 } // end of namespace

Properties

Name Value
svn:eol-style native
svn:keywords Author Date Id Revision

  ViewVC Help
Powered by ViewVC 1.1.26