/[escript]/trunk/finley/src/Mesh_readGmsh.c
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Contents of /trunk/finley/src/Mesh_readGmsh.c

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Revision 1887 - (show annotations)
Wed Oct 15 03:26:25 2008 UTC (11 years, 1 month ago) by ksteube
File MIME type: text/plain
File size: 16288 byte(s)
Fixed two typos that stopped the test suite from running.

Also, gcc 4.3.2 issued several warnings not seen before:
ignoring the return value of fscanf and using the wrong format
with printf.

1
2 /*******************************************************
3 *
4 * Copyright (c) 2003-2008 by University of Queensland
5 * Earth Systems Science Computational Center (ESSCC)
6 * http://www.uq.edu.au/esscc
7 *
8 * Primary Business: Queensland, Australia
9 * Licensed under the Open Software License version 3.0
10 * http://www.opensource.org/licenses/osl-3.0.php
11 *
12 *******************************************************/
13
14
15 /**************************************************************/
16
17 /* Finley: read mesh */
18
19 /**************************************************************/
20
21 #include "Mesh.h"
22 #include <stdio.h>
23
24 #define FSCANF_CHECK(scan_ret, reason) { if (scan_ret == EOF) perror(reason); return NULL; }
25
26
27 /**************************************************************/
28
29 /* reads a mesh from a Finley file of name fname */
30
31 #define MAX_numNodes_gmsh 10
32
33 Finley_Mesh* Finley_Mesh_readGmsh(char* fname ,index_t numDim, index_t order, index_t reduced_order, bool_t optimize) {
34
35 double version = 1.0;
36 int format = 0, size = sizeof(double), scan_ret;
37 dim_t numNodes, totalNumElements=0, numTags=0, numNodesPerElement, numNodesPerElement2, element_dim;
38 index_t e, i0, j, gmsh_type, partition_id, itmp, elementary_id;
39 index_t numElements=0, numFaceElements=0, *id=NULL, *tag=NULL, *vertices=NULL;
40 Finley_Mesh *mesh_p=NULL;
41 char line[LenString_MAX+1];
42 char error_msg[LenErrorMsg_MAX];
43 double rtmp0, rtmp1;
44 double time0=Finley_timer();
45 FILE * fileHandle_p = NULL;
46 ElementTypeId* element_type=NULL;
47
48 Paso_MPIInfo *mpi_info = Paso_MPIInfo_alloc( MPI_COMM_WORLD );
49 Finley_resetError();
50 if (mpi_info->size>1) {
51 Finley_setError(IO_ERROR,"reading GMSH with MPI is not supported yet.");
52 Paso_MPIInfo_free( mpi_info );
53 return NULL;
54 } else {
55
56 /* allocate mesh */
57
58 mesh_p = Finley_Mesh_alloc(fname,numDim,order, reduced_order, mpi_info);
59 if (! Finley_noError()) return NULL;
60
61 /* get file handle */
62 fileHandle_p = fopen(fname, "r");
63 if (fileHandle_p==NULL) {
64 sprintf(error_msg,"Opening Gmsh file %s for reading failed.",fname);
65 Finley_setError(IO_ERROR,error_msg);
66 Paso_MPIInfo_free( mpi_info );
67 return NULL;
68 }
69
70 /* start reading */
71 while(1) {
72 if (! Finley_noError()) break;
73 /* find line staring with $ */
74 do {
75 if( ! fgets(line, sizeof(line), fileHandle_p) ) break;
76 if(feof(fileHandle_p)) break;
77 } while(line[0] != '$');
78
79 if (feof(fileHandle_p)) break;
80
81
82 /* format */
83 if (!strncmp(&line[1], "MeshFormat", 10)) {
84 scan_ret = fscanf(fileHandle_p, "%lf %d %d\n", &version, &format, &size);
85 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
86 }
87 /* nodes are read */
88 if ( !strncmp(&line[1], "NOD", 3) ||
89 !strncmp(&line[1], "NOE", 3) ||
90 !strncmp(&line[1], "Nodes", 5) ) {
91
92 scan_ret = fscanf(fileHandle_p, "%d", &numNodes);
93 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
94 if (! Finley_noError()) break;
95 Finley_NodeFile_allocTable(mesh_p->Nodes, numNodes);
96 if (! Finley_noError()) break;
97 for (i0 = 0; i0 < numNodes; i0++) {
98 if (1 == numDim) {
99 scan_ret = fscanf(fileHandle_p, "%d %le %le %le\n", &mesh_p->Nodes->Id[i0],
100 &mesh_p->Nodes->Coordinates[INDEX2(0,i0,numDim)],
101 &rtmp0,
102 &rtmp1);
103 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
104 } else if (2 == numDim) {
105 scan_ret = fscanf(fileHandle_p, "%d %le %le %le\n", &mesh_p->Nodes->Id[i0],
106 &mesh_p->Nodes->Coordinates[INDEX2(0,i0,numDim)],
107 &mesh_p->Nodes->Coordinates[INDEX2(1,i0,numDim)],
108 &rtmp0);
109 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
110 } else if (3 == numDim) {
111 scan_ret = fscanf(fileHandle_p, "%d %le %le %le\n", &mesh_p->Nodes->Id[i0],
112 &mesh_p->Nodes->Coordinates[INDEX2(0,i0,numDim)],
113 &mesh_p->Nodes->Coordinates[INDEX2(1,i0,numDim)],
114 &mesh_p->Nodes->Coordinates[INDEX2(2,i0,numDim)]);
115 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
116 }
117 mesh_p->Nodes->globalDegreesOfFreedom[i0]=mesh_p->Nodes->Id[i0];
118 mesh_p->Nodes->Tag[i0]=0;
119 }
120 }
121 /* elements */
122 else if(!strncmp(&line[1], "ELM", 3) ||
123 !strncmp(&line[1], "Elements", 8)) {
124
125 ElementTypeId final_element_type = NoType;
126 ElementTypeId final_face_element_type = NoType;
127 ElementTypeId contact_element_type = NoType;
128 numElements=0;
129 numFaceElements=0;
130 scan_ret = fscanf(fileHandle_p, "%d", &totalNumElements);
131 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
132
133 id=TMPMEMALLOC(totalNumElements,index_t);
134 tag=TMPMEMALLOC(totalNumElements,index_t);
135
136
137 element_type=TMPMEMALLOC(totalNumElements,ElementTypeId);
138 vertices=TMPMEMALLOC(totalNumElements*MAX_numNodes_gmsh,index_t);
139 if (! (Finley_checkPtr(id) || Finley_checkPtr(tag) || Finley_checkPtr(element_type) || Finley_checkPtr(vertices) ) ) {
140 /* read all in */
141 for(e = 0; e < totalNumElements; e++) {
142 scan_ret = fscanf(fileHandle_p, "%d %d", &id[e], &gmsh_type);
143 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
144 switch (gmsh_type) {
145 case 1: /* line order 1 */
146 element_type[e]=Line2;
147 element_dim=1;
148 numNodesPerElement=2;
149 break;
150 case 2: /* traingle order 1 */
151 element_type[e]=Tri3;
152 numNodesPerElement= 3;
153 element_dim=2;
154 break;
155 case 3: /* quadrilateral order 1 */
156 element_type[e]=Rec4;
157 numNodesPerElement= 4;
158 element_dim=2;
159 break;
160 case 4: /* tetrahedron order 1 */
161 element_type[e]=Tet4;
162 numNodesPerElement= 4;
163 element_dim=3;
164 break;
165 case 5: /* hexahedron order 1 */
166 element_type[e]=Hex8;
167 numNodesPerElement= 8;
168 element_dim=3;
169 break;
170 case 8: /* line order 2 */
171 element_type[e]=Line3;
172 numNodesPerElement= 3;
173 element_dim=1;
174 break;
175 case 9: /* traingle order 2 */
176 element_type[e]=Tri6;
177 numNodesPerElement= 6;
178 element_dim=2;
179 break;
180 case 10: /* quadrilateral order 2 */
181 element_type[e]=Rec9;
182 numNodesPerElement= 9;
183 element_dim=2;
184 break;
185 case 11: /* tetrahedron order 2 */
186 element_type[e]=Tet10;
187 numNodesPerElement= 10;
188 element_dim=3;
189 break;
190 case 15 : /* point */
191 element_type[e]=Point1;
192 numNodesPerElement= 1;
193 element_dim=0;
194 break;
195 default:
196 element_type[e]=NoType;
197 sprintf(error_msg,"Unexected gmsh element type %d in mesh file %s.",gmsh_type,fname);
198 Finley_setError(IO_ERROR,error_msg);
199 }
200 if (element_dim == numDim) {
201 if (final_element_type == NoType) {
202 final_element_type = element_type[e];
203 } else if (final_element_type != element_type[e]) {
204 sprintf(error_msg,"Finley can handle a single type of internal elements only.");
205 Finley_setError(IO_ERROR,error_msg);
206 break;
207 }
208 numElements++;
209 } else if (element_dim == numDim-1) {
210 if (final_face_element_type == NoType) {
211 final_face_element_type = element_type[e];
212 } else if (final_face_element_type != element_type[e]) {
213 sprintf(error_msg,"Finley can handle a single type of face elements only.");
214 Finley_setError(IO_ERROR,error_msg);
215 break;
216 }
217 numFaceElements++;
218 }
219
220 if(version <= 1.0){
221 scan_ret = fscanf(fileHandle_p, "%d %d %d", &tag[e], &elementary_id, &numNodesPerElement2);
222 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
223 partition_id = 1;
224 if (numNodesPerElement2 != numNodesPerElement) {
225 sprintf(error_msg,"Illegal number of nodes for element %d in mesh file %s.",id[e],fname);
226 Finley_setError(IO_ERROR,error_msg);
227 }
228 } else {
229 scan_ret = fscanf(fileHandle_p, "%d", &numTags);
230 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
231 elementary_id = tag[e] = partition_id = 1;
232 numNodesPerElement2=-1;
233 for(j = 0; j < numTags; j++){
234 scan_ret = fscanf(fileHandle_p, "%d", &itmp);
235 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
236 if (j == 0) {
237 tag[e] = itmp;
238 } else if (j == 1) {
239 elementary_id = itmp;
240 } else if (j == 2) {
241 partition_id = itmp;
242 }
243 /* ignore any other tags */
244 }
245 }
246 if (! Finley_noError()) break;
247 for(j = 0; j < numNodesPerElement; j++) {
248 scan_ret = fscanf(fileHandle_p, "%d", &vertices[INDEX2(j,e,MAX_numNodes_gmsh)]);
249 FSCANF_CHECK(scan_ret, "fscanf: Finley_Mesh_readGmsh");
250 }
251 /* for tet10 the last two nodes need to be swapped */
252 if (element_type[e]==Tet10) {
253 itmp=vertices[INDEX2(9,e,MAX_numNodes_gmsh)];
254 vertices[INDEX2(9,e,MAX_numNodes_gmsh)]=vertices[INDEX2(8,e,MAX_numNodes_gmsh)];
255 vertices[INDEX2(8,e,MAX_numNodes_gmsh)]=itmp;
256 }
257 }
258 /* all elements have been read, now we have to identify the elements for finley */
259
260 if (Finley_noError()) {
261 /* first we have to identify the elements to define Elementis and FaceElements */
262 if (final_element_type == NoType) {
263 if (numDim==1) {
264 final_element_type=Line2;
265 } else if (numDim==2) {
266 final_element_type=Tri3;
267 } else if (numDim==3) {
268 final_element_type=Tet4;
269 }
270 }
271 if (final_face_element_type == NoType) {
272 if (numDim==1) {
273 final_face_element_type=Point1;
274 } else if (numDim==2) {
275 final_face_element_type=Line2;
276 } else if (numDim==3) {
277 final_face_element_type=Tri3;
278 }
279 }
280 if (final_face_element_type == Line2) {
281 contact_element_type=Line2_Contact;
282 } else if (final_face_element_type == Line3) {
283 contact_element_type=Line3_Contact;
284 } else if (final_face_element_type == Tri3) {
285 contact_element_type=Tri3_Contact;
286 } else if (final_face_element_type == Tri6) {
287 contact_element_type=Tri6_Contact;
288 } else {
289 contact_element_type=Point1_Contact;
290 }
291
292 mesh_p->Elements=Finley_ElementFile_alloc(final_element_type,mesh_p->order, mesh_p->reduced_order, mpi_info);
293 mesh_p->FaceElements=Finley_ElementFile_alloc(final_face_element_type,mesh_p->order, mesh_p->reduced_order, mpi_info);
294 mesh_p->ContactElements=Finley_ElementFile_alloc(contact_element_type,mesh_p->order, mesh_p->reduced_order, mpi_info);
295 mesh_p->Points=Finley_ElementFile_alloc(Point1,mesh_p->order, mesh_p->reduced_order, mpi_info);
296 if (Finley_noError()) {
297 Finley_ElementFile_allocTable(mesh_p->Elements, numElements);
298 Finley_ElementFile_allocTable(mesh_p->FaceElements, numFaceElements);
299 Finley_ElementFile_allocTable(mesh_p->ContactElements, 0);
300 Finley_ElementFile_allocTable(mesh_p->Points, 0);
301 if (Finley_noError()) {
302 mesh_p->Elements->minColor=0;
303 mesh_p->Elements->maxColor=numElements-1;
304 mesh_p->FaceElements->minColor=0;
305 mesh_p->FaceElements->maxColor=numFaceElements-1;
306 mesh_p->ContactElements->minColor=0;
307 mesh_p->ContactElements->maxColor=0;
308 mesh_p->Points->minColor=0;
309 mesh_p->Points->maxColor=0;
310 numElements=0;
311 numFaceElements=0;
312 for(e = 0; e < totalNumElements; e++) {
313 if (element_type[e] == final_element_type) {
314 mesh_p->Elements->Id[numElements]=id[e];
315 mesh_p->Elements->Tag[numElements]=tag[e];
316 mesh_p->Elements->Color[numElements]=numElements;
317 mesh_p->Elements->Owner[numElements]=0;
318 for (j = 0; j< mesh_p->Elements->ReferenceElement->Type->numNodes; ++j) {
319 mesh_p->Elements->Nodes[INDEX2(j, numElements, mesh_p->Elements->ReferenceElement->Type->numNodes)]=vertices[INDEX2(j,e,MAX_numNodes_gmsh)];
320 }
321 numElements++;
322 } else if (element_type[e] == final_face_element_type) {
323 mesh_p->FaceElements->Id[numFaceElements]=id[e];
324 mesh_p->FaceElements->Tag[numFaceElements]=tag[e];
325 mesh_p->FaceElements->Color[numFaceElements]=numFaceElements;
326 mesh_p->FaceElements->Owner[numElements]=0;
327 for (j = 0; j< mesh_p->FaceElements->ReferenceElement->Type->numNodes; ++j) {
328 mesh_p->FaceElements->Nodes[INDEX2(j, numFaceElements, mesh_p->FaceElements->ReferenceElement->Type->numNodes)]=vertices[INDEX2(j,e,MAX_numNodes_gmsh)];
329 }
330 numFaceElements++;
331 }
332 }
333 }
334 }
335 }
336 }
337 /* and clean up */
338 TMPMEMFREE(id);
339 TMPMEMFREE(tag);
340 TMPMEMFREE(element_type);
341 TMPMEMFREE(vertices);
342 }
343 /* serach for end of data block */
344 do {
345 if (!fgets(line, sizeof(line), fileHandle_p)) {
346 sprintf(error_msg,"Unexected end of file in %s",fname);
347 Finley_setError(IO_ERROR,error_msg);
348 }
349 if (feof(fileHandle_p)) {
350 sprintf(error_msg,"Unexected end of file in %s",fname);
351 Finley_setError(IO_ERROR,error_msg);
352 }
353 if (! Finley_noError()) break;
354 } while(line[0] != '$');
355 }
356
357 /* close file */
358 fclose(fileHandle_p);
359 /* clean up */
360 if (! Finley_noError()) {
361 Finley_Mesh_free(mesh_p);
362 return NULL;
363 }
364 /* resolve id's : */
365 Finley_Mesh_resolveNodeIds(mesh_p);
366 /* rearrange elements: */
367 Finley_Mesh_prepare(mesh_p, optimize);
368 /* that's it */
369 #ifdef Finley_TRACE
370 printf("timing: reading mesh: %.4e sec\n",Finley_timer()-time0);
371 #endif
372 Paso_MPIInfo_free( mpi_info );
373 return mesh_p;
374 }
375 }

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