1 #include <petsc/private/dmpleximpl.h> 2 #include <../src/sys/classes/viewer/impls/vtk/vtkvimpl.h> 3 4 typedef struct { 5 PetscInt nvertices; 6 PetscInt ncells; 7 PetscInt nconn; /* number of entries in cell->vertex connectivity array */ 8 } PieceInfo; 9 10 #if defined(PETSC_USE_REAL_SINGLE) 11 static const char precision[] = "Float32"; 12 #elif defined(PETSC_USE_REAL_DOUBLE) 13 static const char precision[] = "Float64"; 14 #else 15 static const char precision[] = "UnknownPrecision"; 16 #endif 17 18 static PetscErrorCode TransferWrite(PetscViewer viewer,FILE *fp,PetscMPIInt srank,PetscMPIInt root,const void *send,void *recv,PetscMPIInt count,PetscDataType datatype,PetscMPIInt tag) 19 { 20 PetscMPIInt rank; 21 PetscErrorCode ierr; 22 MPI_Comm comm; 23 MPI_Datatype mpidatatype; 24 25 PetscFunctionBegin; 26 ierr = PetscObjectGetComm((PetscObject)viewer,&comm);CHKERRQ(ierr); 27 ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 28 ierr = PetscDataTypeToMPIDataType(datatype,&mpidatatype);CHKERRQ(ierr); 29 30 if (rank == srank && rank != root) { 31 ierr = MPI_Send((void*)send,count,mpidatatype,root,tag,comm);CHKERRQ(ierr); 32 } else if (rank == root) { 33 const void *buffer; 34 if (root == srank) { /* self */ 35 buffer = send; 36 } else { 37 MPI_Status status; 38 PetscMPIInt nrecv; 39 ierr = MPI_Recv(recv,count,mpidatatype,srank,tag,comm,&status);CHKERRQ(ierr); 40 ierr = MPI_Get_count(&status,mpidatatype,&nrecv);CHKERRQ(ierr); 41 if (count != nrecv) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Array size mismatch"); 42 buffer = recv; 43 } 44 ierr = PetscViewerVTKFWrite(viewer,fp,buffer,count,datatype);CHKERRQ(ierr); 45 } 46 PetscFunctionReturn(0); 47 } 48 49 static PetscErrorCode DMPlexGetVTKConnectivity(DM dm, PetscBool localized, PieceInfo *piece,PetscVTKInt **oconn,PetscVTKInt **ooffsets,PetscVTKType **otypes) 50 { 51 PetscErrorCode ierr; 52 PetscSection coordSection; 53 PetscVTKInt *conn,*offsets; 54 PetscVTKType *types; 55 PetscInt dim,vStart,vEnd,cStart,cEnd,pStart,pEnd,cellHeight,cMax,numLabelCells,hasLabel,c,v,countcell,countconn; 56 57 PetscFunctionBegin; 58 ierr = PetscMalloc3(piece->nconn,&conn,piece->ncells,&offsets,piece->ncells,&types);CHKERRQ(ierr); 59 ierr = DMGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr); 60 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 61 ierr = DMPlexGetChart(dm,&pStart,&pEnd);CHKERRQ(ierr); 62 ierr = DMPlexGetVTKCellHeight(dm, &cellHeight);CHKERRQ(ierr); 63 ierr = DMPlexGetHeightStratum(dm, cellHeight, &cStart, &cEnd);CHKERRQ(ierr); 64 ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr); 65 ierr = DMPlexGetHybridBounds(dm, &cMax, NULL, NULL, NULL);CHKERRQ(ierr); 66 if (cMax >= 0) cEnd = PetscMin(cEnd, cMax); 67 ierr = DMGetStratumSize(dm, "vtk", 1, &numLabelCells);CHKERRQ(ierr); 68 hasLabel = numLabelCells > 0 ? PETSC_TRUE : PETSC_FALSE; 69 70 countcell = 0; 71 countconn = 0; 72 for (c = cStart; c < cEnd; ++c) { 73 PetscInt nverts,celltype,startoffset,nC=0; 74 75 if (hasLabel) { 76 PetscInt value; 77 78 ierr = DMGetLabelValue(dm, "vtk", c, &value);CHKERRQ(ierr); 79 if (value != 1) continue; 80 } 81 startoffset = countconn; 82 if (!localized) { 83 PetscInt *closure = NULL; 84 PetscInt closureSize; 85 86 ierr = DMPlexGetTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 87 for (v = 0; v < closureSize*2; v += 2) { 88 if ((closure[v] >= vStart) && (closure[v] < vEnd)) { 89 conn[countconn++] = closure[v] - vStart; 90 ++nC; 91 } 92 } 93 ierr = DMPlexRestoreTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 94 } else { 95 PetscInt dof; 96 97 ierr = PetscSectionGetDof(coordSection, c, &dof);CHKERRQ(ierr); 98 for (nC = 0; nC < dof/dim; nC++) conn[countconn++] = startoffset + nC; 99 } 100 ierr = DMPlexInvertCell(dim, nC, &conn[countconn-nC]);CHKERRQ(ierr); 101 102 offsets[countcell] = countconn; 103 104 nverts = countconn - startoffset; 105 ierr = DMPlexVTKGetCellType_Internal(dm,dim,nverts,&celltype);CHKERRQ(ierr); 106 107 types[countcell] = celltype; 108 countcell++; 109 } 110 if (countcell != piece->ncells) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Inconsistent cell count"); 111 if (countconn != piece->nconn) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Inconsistent connectivity count"); 112 *oconn = conn; 113 *ooffsets = offsets; 114 *otypes = types; 115 PetscFunctionReturn(0); 116 } 117 118 /* 119 Write all fields that have been provided to the viewer 120 Multi-block XML format with binary appended data. 121 */ 122 PetscErrorCode DMPlexVTKWriteAll_VTU(DM dm,PetscViewer viewer) 123 { 124 MPI_Comm comm; 125 PetscSection coordSection; 126 PetscViewer_VTK *vtk = (PetscViewer_VTK*)viewer->data; 127 PetscViewerVTKObjectLink link; 128 FILE *fp; 129 PetscMPIInt rank,size,tag; 130 PetscErrorCode ierr; 131 PetscInt dim, dimEmbed,cellHeight,cStart,cEnd,vStart,vEnd,cMax,numLabelCells,hasLabel,c,v,r,i; 132 PetscBool localized; 133 PieceInfo piece,*gpiece = NULL; 134 void *buffer = NULL; 135 136 PetscFunctionBegin; 137 ierr = PetscObjectGetComm((PetscObject)dm,&comm);CHKERRQ(ierr); 138 #if defined(PETSC_USE_COMPLEX) 139 SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Complex values not supported"); 140 #endif 141 ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 142 ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 143 tag = ((PetscObject)viewer)->tag; 144 145 ierr = PetscFOpen(comm,vtk->filename,"wb",&fp);CHKERRQ(ierr); 146 ierr = PetscFPrintf(comm,fp,"<?xml version=\"1.0\"?>\n");CHKERRQ(ierr); 147 #if defined(PETSC_WORDS_BIGENDIAN) 148 ierr = PetscFPrintf(comm,fp,"<VTKFile type=\"UnstructuredGrid\" version=\"0.1\" byte_order=\"BigEndian\">\n");CHKERRQ(ierr); 149 #else 150 ierr = PetscFPrintf(comm,fp,"<VTKFile type=\"UnstructuredGrid\" version=\"0.1\" byte_order=\"LittleEndian\">\n");CHKERRQ(ierr); 151 #endif 152 ierr = PetscFPrintf(comm,fp," <UnstructuredGrid>\n");CHKERRQ(ierr); 153 154 ierr = DMGetCoordinateDim(dm, &dimEmbed);CHKERRQ(ierr); 155 ierr = DMPlexGetVTKCellHeight(dm, &cellHeight);CHKERRQ(ierr); 156 ierr = DMPlexGetHeightStratum(dm, cellHeight, &cStart, &cEnd);CHKERRQ(ierr); 157 ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr); 158 ierr = DMPlexGetHybridBounds(dm, &cMax, NULL, NULL, NULL);CHKERRQ(ierr); 159 if (cMax >= 0) cEnd = PetscMin(cEnd, cMax); 160 ierr = DMGetStratumSize(dm, "vtk", 1, &numLabelCells);CHKERRQ(ierr); 161 ierr = DMGetCoordinatesLocalized(dm, &localized);CHKERRQ(ierr); 162 ierr = DMGetCoordinateSection(dm, &coordSection);CHKERRQ(ierr); 163 164 hasLabel = numLabelCells > 0 ? PETSC_TRUE : PETSC_FALSE; 165 piece.nvertices = 0; 166 piece.ncells = 0; 167 piece.nconn = 0; 168 if (!localized) piece.nvertices = vEnd - vStart; 169 for (c = cStart; c < cEnd; ++c) { 170 if (hasLabel) { 171 PetscInt value; 172 173 ierr = DMGetLabelValue(dm, "vtk", c, &value);CHKERRQ(ierr); 174 if (value != 1) continue; 175 } 176 if (!localized) { 177 PetscInt *closure = NULL; 178 PetscInt closureSize; 179 180 ierr = DMPlexGetTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 181 for (v = 0; v < closureSize*2; v += 2) { 182 if ((closure[v] >= vStart) && (closure[v] < vEnd)) { 183 piece.nconn++; 184 } 185 } 186 ierr = DMPlexRestoreTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 187 } else { 188 PetscInt dof; 189 190 ierr = PetscSectionGetDof(coordSection, c, &dof);CHKERRQ(ierr); 191 piece.nvertices += dof/dimEmbed; 192 piece.nconn += dof/dimEmbed; 193 } 194 piece.ncells++; 195 } 196 if (!rank) {ierr = PetscMalloc1(size,&gpiece);CHKERRQ(ierr);} 197 ierr = MPI_Gather((PetscInt*)&piece,sizeof(piece)/sizeof(PetscInt),MPIU_INT,(PetscInt*)gpiece,sizeof(piece)/sizeof(PetscInt),MPIU_INT,0,comm);CHKERRQ(ierr); 198 199 /* 200 * Write file header 201 */ 202 if (!rank) { 203 PetscInt boffset = 0; 204 205 for (r=0; r<size; r++) { 206 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," <Piece NumberOfPoints=\"%D\" NumberOfCells=\"%D\">\n",gpiece[r].nvertices,gpiece[r].ncells);CHKERRQ(ierr); 207 /* Coordinate positions */ 208 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," <Points>\n");CHKERRQ(ierr); 209 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," <DataArray type=\"%s\" Name=\"Position\" NumberOfComponents=\"3\" format=\"appended\" offset=\"%D\" />\n",precision,boffset);CHKERRQ(ierr); 210 boffset += gpiece[r].nvertices*3*sizeof(PetscScalar) + sizeof(int); 211 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," </Points>\n");CHKERRQ(ierr); 212 /* Cell connectivity */ 213 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," <Cells>\n");CHKERRQ(ierr); 214 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," <DataArray type=\"Int32\" Name=\"connectivity\" NumberOfComponents=\"1\" format=\"appended\" offset=\"%D\" />\n",boffset);CHKERRQ(ierr); 215 boffset += gpiece[r].nconn*sizeof(PetscInt) + sizeof(int); 216 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," <DataArray type=\"Int32\" Name=\"offsets\" NumberOfComponents=\"1\" format=\"appended\" offset=\"%D\" />\n",boffset);CHKERRQ(ierr); 217 boffset += gpiece[r].ncells*sizeof(PetscInt) + sizeof(int); 218 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," <DataArray type=\"UInt8\" Name=\"types\" NumberOfComponents=\"1\" format=\"appended\" offset=\"%D\" />\n",boffset);CHKERRQ(ierr); 219 boffset += gpiece[r].ncells*sizeof(unsigned char) + sizeof(int); 220 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," </Cells>\n");CHKERRQ(ierr); 221 222 /* 223 * Cell Data headers 224 */ 225 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," <CellData>\n");CHKERRQ(ierr); 226 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," <DataArray type=\"Int32\" Name=\"Rank\" NumberOfComponents=\"1\" format=\"appended\" offset=\"%D\" />\n",boffset);CHKERRQ(ierr); 227 boffset += gpiece[r].ncells*sizeof(int) + sizeof(int); 228 /* all the vectors */ 229 for (link=vtk->link; link; link=link->next) { 230 Vec X = (Vec)link->vec; 231 PetscInt bs,nfields,field; 232 const char *vecname = ""; 233 if ((link->ft != PETSC_VTK_CELL_FIELD) && (link->ft != PETSC_VTK_CELL_VECTOR_FIELD)) continue; 234 if (((PetscObject)X)->name || link != vtk->link) { /* If the object is already named, use it. If it is past the first link, name it to disambiguate. */ 235 ierr = PetscObjectGetName((PetscObject)X,&vecname);CHKERRQ(ierr); 236 } 237 ierr = PetscSectionGetDof(dm->defaultSection,cStart,&bs);CHKERRQ(ierr); 238 ierr = PetscSectionGetNumFields(dm->defaultSection,&nfields);CHKERRQ(ierr); 239 for (field=0,i=0; field<(nfields?nfields:1); field++) { 240 PetscInt fbs,j; 241 PetscFV fv = NULL; 242 PetscObject f; 243 PetscClassId fClass; 244 const char *fieldname = NULL; 245 char buf[256]; 246 if (nfields) { /* We have user-defined fields/components */ 247 ierr = PetscSectionGetFieldDof(dm->defaultSection,cStart,field,&fbs);CHKERRQ(ierr); 248 ierr = PetscSectionGetFieldName(dm->defaultSection,field,&fieldname);CHKERRQ(ierr); 249 } else fbs = bs; /* Say we have one field with 'bs' components */ 250 ierr = DMGetField(dm,field,&f);CHKERRQ(ierr); 251 ierr = PetscObjectGetClassId(f,&fClass);CHKERRQ(ierr); 252 if (fClass == PETSCFV_CLASSID) { 253 fv = (PetscFV) f; 254 } 255 if (!fieldname) { 256 ierr = PetscSNPrintf(buf,sizeof(buf),"CellField%D",field);CHKERRQ(ierr); 257 fieldname = buf; 258 } 259 for (j=0; j<fbs; j++) { 260 const char *compName = NULL; 261 if (fv) { 262 ierr = PetscFVGetComponentName(fv,j,&compName);CHKERRQ(ierr); 263 } 264 if (compName) { 265 ierr = PetscFPrintf(comm,fp," <DataArray type=\"%s\" Name=\"%s%s.%s\" NumberOfComponents=\"1\" format=\"appended\" offset=\"%D\" />\n",precision,vecname,fieldname,compName,boffset);CHKERRQ(ierr); 266 } 267 else { 268 ierr = PetscFPrintf(comm,fp," <DataArray type=\"%s\" Name=\"%s%s.%D\" NumberOfComponents=\"1\" format=\"appended\" offset=\"%D\" />\n",precision,vecname,fieldname,j,boffset);CHKERRQ(ierr); 269 } 270 boffset += gpiece[r].ncells*sizeof(PetscScalar) + sizeof(int); 271 i++; 272 } 273 } 274 if (i != bs) SETERRQ2(comm,PETSC_ERR_PLIB,"Total number of field components %D != block size %D",i,bs); 275 } 276 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," </CellData>\n");CHKERRQ(ierr); 277 278 /* 279 * Point Data headers 280 */ 281 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," <PointData>\n");CHKERRQ(ierr); 282 for (link=vtk->link; link; link=link->next) { 283 Vec X = (Vec)link->vec; 284 PetscInt bs,nfields,field; 285 const char *vecname = ""; 286 if ((link->ft != PETSC_VTK_POINT_FIELD) && (link->ft != PETSC_VTK_POINT_VECTOR_FIELD)) continue; 287 if (((PetscObject)X)->name || link != vtk->link) { /* If the object is already named, use it. If it is past the first link, name it to disambiguate. */ 288 ierr = PetscObjectGetName((PetscObject)X,&vecname);CHKERRQ(ierr); 289 } 290 ierr = PetscSectionGetDof(dm->defaultSection,vStart,&bs);CHKERRQ(ierr); 291 ierr = PetscSectionGetNumFields(dm->defaultSection,&nfields);CHKERRQ(ierr); 292 for (field=0,i=0; field<(nfields?nfields:1); field++) { 293 PetscInt fbs,j; 294 const char *fieldname = NULL; 295 char buf[256]; 296 if (nfields) { /* We have user-defined fields/components */ 297 ierr = PetscSectionGetFieldDof(dm->defaultSection,vStart,field,&fbs);CHKERRQ(ierr); 298 ierr = PetscSectionGetFieldName(dm->defaultSection,field,&fieldname);CHKERRQ(ierr); 299 } else fbs = bs; /* Say we have one field with 'bs' components */ 300 if (!fieldname) { 301 ierr = PetscSNPrintf(buf,sizeof(buf),"PointField%D",field);CHKERRQ(ierr); 302 fieldname = buf; 303 } 304 for (j=0; j<fbs; j++) { 305 ierr = PetscFPrintf(comm,fp," <DataArray type=\"%s\" Name=\"%s%s.%D\" NumberOfComponents=\"1\" format=\"appended\" offset=\"%D\" />\n",precision,vecname,fieldname,j,boffset);CHKERRQ(ierr); 306 boffset += gpiece[r].nvertices*sizeof(PetscScalar) + sizeof(int); 307 } 308 } 309 } 310 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," </PointData>\n");CHKERRQ(ierr); 311 312 ierr = PetscFPrintf(PETSC_COMM_SELF,fp," </Piece>\n");CHKERRQ(ierr); 313 } 314 } 315 316 ierr = PetscFPrintf(comm,fp," </UnstructuredGrid>\n");CHKERRQ(ierr); 317 ierr = PetscFPrintf(comm,fp," <AppendedData encoding=\"raw\">\n");CHKERRQ(ierr); 318 ierr = PetscFPrintf(comm,fp,"_");CHKERRQ(ierr); 319 320 if (!rank) { 321 PetscInt maxsize = 0; 322 for (r=0; r<size; r++) { 323 maxsize = PetscMax(maxsize, (PetscInt) (gpiece[r].nvertices*3*sizeof(PetscScalar))); 324 maxsize = PetscMax(maxsize, (PetscInt) (gpiece[r].ncells*sizeof(PetscScalar))); 325 maxsize = PetscMax(maxsize, (PetscInt) (gpiece[r].nconn*sizeof(PetscVTKInt))); 326 } 327 ierr = PetscMalloc(maxsize,&buffer);CHKERRQ(ierr); 328 } 329 for (r=0; r<size; r++) { 330 if (r == rank) { 331 PetscInt nsend; 332 { /* Position */ 333 const PetscScalar *x; 334 PetscScalar *y = NULL; 335 Vec coords; 336 337 ierr = DMGetCoordinatesLocal(dm,&coords);CHKERRQ(ierr); 338 ierr = VecGetArrayRead(coords,&x);CHKERRQ(ierr); 339 if (dimEmbed != 3) { 340 ierr = PetscMalloc1(piece.nvertices*3,&y);CHKERRQ(ierr); 341 for (i=0; i<piece.nvertices; i++) { 342 y[i*3+0] = x[i*dimEmbed+0]; 343 y[i*3+1] = (dimEmbed > 1) ? x[i*dimEmbed+1] : 0; 344 y[i*3+2] = 0; 345 } 346 } 347 if (localized) { 348 PetscInt cnt = 0; 349 if (!y) { 350 PetscInt off; 351 352 ierr = PetscMalloc1(piece.nvertices*3,&y);CHKERRQ(ierr); 353 ierr = PetscSectionGetOffset(coordSection, cStart, &off);CHKERRQ(ierr); 354 ierr = PetscMemcpy(y,x+off,piece.nvertices*3*sizeof(PetscScalar));CHKERRQ(ierr); 355 } 356 for (c=cStart; c<cEnd; c++) { 357 PetscInt dof, off; 358 359 ierr = PetscSectionGetDof(coordSection, c, &dof);CHKERRQ(ierr); 360 ierr = PetscSectionGetOffset(coordSection, c, &off);CHKERRQ(ierr); 361 cnt += dof/dimEmbed; 362 } 363 if (cnt != piece.nvertices) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Count does not match %D != %D",cnt,piece.nvertices); 364 } 365 nsend = piece.nvertices*3; 366 ierr = TransferWrite(viewer,fp,r,0,y ? y : x,buffer,nsend,PETSC_SCALAR,tag);CHKERRQ(ierr); 367 ierr = PetscFree(y);CHKERRQ(ierr); 368 ierr = VecRestoreArrayRead(coords,&x);CHKERRQ(ierr); 369 } 370 { /* Connectivity, offsets, types */ 371 PetscVTKInt *connectivity = NULL, *offsets = NULL; 372 PetscVTKType *types = NULL; 373 ierr = DMPlexGetVTKConnectivity(dm,localized,&piece,&connectivity,&offsets,&types);CHKERRQ(ierr); 374 ierr = TransferWrite(viewer,fp,r,0,connectivity,buffer,piece.nconn,PETSC_INT32,tag);CHKERRQ(ierr); 375 ierr = TransferWrite(viewer,fp,r,0,offsets,buffer,piece.ncells,PETSC_INT32,tag);CHKERRQ(ierr); 376 ierr = TransferWrite(viewer,fp,r,0,types,buffer,piece.ncells,PETSC_UINT8,tag);CHKERRQ(ierr); 377 ierr = PetscFree3(connectivity,offsets,types);CHKERRQ(ierr); 378 } 379 { /* Owners (cell data) */ 380 PetscVTKInt *owners; 381 ierr = PetscMalloc1(piece.ncells,&owners);CHKERRQ(ierr); 382 for (i=0; i<piece.ncells; i++) owners[i] = rank; 383 ierr = TransferWrite(viewer,fp,r,0,owners,buffer,piece.ncells,PETSC_INT32,tag);CHKERRQ(ierr); 384 ierr = PetscFree(owners);CHKERRQ(ierr); 385 } 386 /* Cell data */ 387 for (link=vtk->link; link; link=link->next) { 388 Vec X = (Vec)link->vec; 389 const PetscScalar *x; 390 PetscScalar *y; 391 PetscInt bs; 392 if ((link->ft != PETSC_VTK_CELL_FIELD) && (link->ft != PETSC_VTK_CELL_VECTOR_FIELD)) continue; 393 ierr = PetscSectionGetDof(dm->defaultSection,cStart,&bs);CHKERRQ(ierr); 394 ierr = VecGetArrayRead(X,&x);CHKERRQ(ierr); 395 ierr = PetscMalloc1(piece.ncells,&y);CHKERRQ(ierr); 396 for (i=0; i<bs; i++) { 397 PetscInt cnt; 398 for (c=cStart,cnt=0; c<cEnd; c++) { 399 PetscScalar *xpoint; 400 if (hasLabel) { /* Ignore some cells */ 401 PetscInt value; 402 ierr = DMGetLabelValue(dm, "vtk", c, &value);CHKERRQ(ierr); 403 if (value != 1) continue; 404 } 405 ierr = DMPlexPointLocalRead(dm,c,x,&xpoint);CHKERRQ(ierr); 406 y[cnt++] = xpoint[i]; 407 } 408 if (cnt != piece.ncells) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Count does not match"); 409 ierr = TransferWrite(viewer,fp,r,0,y,buffer,piece.ncells,PETSC_SCALAR,tag);CHKERRQ(ierr); 410 } 411 ierr = PetscFree(y);CHKERRQ(ierr); 412 ierr = VecRestoreArrayRead(X,&x);CHKERRQ(ierr); 413 } 414 415 for (link=vtk->link; link; link=link->next) { 416 Vec X = (Vec)link->vec; 417 const PetscScalar *x; 418 PetscScalar *y; 419 PetscInt bs; 420 if ((link->ft != PETSC_VTK_POINT_FIELD) && (link->ft != PETSC_VTK_POINT_VECTOR_FIELD)) continue; 421 ierr = PetscSectionGetDof(dm->defaultSection,vStart,&bs);CHKERRQ(ierr); 422 ierr = VecGetArrayRead(X,&x);CHKERRQ(ierr); 423 ierr = PetscMalloc1(piece.nvertices,&y);CHKERRQ(ierr); 424 for (i=0; i<bs; i++) { 425 PetscInt cnt; 426 if (!localized) { 427 for (v=vStart,cnt=0; v<vEnd; v++) { 428 PetscScalar *xpoint; 429 ierr = DMPlexPointLocalRead(dm,v,x,&xpoint);CHKERRQ(ierr); 430 y[cnt++] = xpoint[i]; 431 } 432 } else { 433 for (c=cStart,cnt=0; c<cEnd; c++) { 434 PetscInt *closure = NULL; 435 PetscInt closureSize, off; 436 437 ierr = DMPlexGetTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 438 for (v = 0, off = 0; v < closureSize*2; v += 2) { 439 if ((closure[v] >= vStart) && (closure[v] < vEnd)) { 440 PetscScalar *xpoint; 441 442 ierr = DMPlexPointLocalRead(dm,v,x,&xpoint);CHKERRQ(ierr); 443 y[cnt + off++] = xpoint[i]; 444 } 445 } 446 ierr = DMPlexRestoreTransitiveClosure(dm, c, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 447 } 448 } 449 if (cnt != piece.nvertices) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Count does not match"); 450 ierr = TransferWrite(viewer,fp,r,0,y,buffer,piece.nvertices,PETSC_SCALAR,tag);CHKERRQ(ierr); 451 } 452 ierr = PetscFree(y);CHKERRQ(ierr); 453 ierr = VecRestoreArrayRead(X,&x);CHKERRQ(ierr); 454 } 455 } else if (!rank) { 456 ierr = TransferWrite(viewer,fp,r,0,NULL,buffer,gpiece[r].nvertices*3,PETSC_SCALAR,tag);CHKERRQ(ierr); /* positions */ 457 ierr = TransferWrite(viewer,fp,r,0,NULL,buffer,gpiece[r].nconn,PETSC_INT32,tag);CHKERRQ(ierr); /* connectivity */ 458 ierr = TransferWrite(viewer,fp,r,0,NULL,buffer,gpiece[r].ncells,PETSC_INT32,tag);CHKERRQ(ierr); /* offsets */ 459 ierr = TransferWrite(viewer,fp,r,0,NULL,buffer,gpiece[r].ncells,PETSC_UINT8,tag);CHKERRQ(ierr); /* types */ 460 ierr = TransferWrite(viewer,fp,r,0,NULL,buffer,gpiece[r].ncells,PETSC_INT32,tag);CHKERRQ(ierr); /* owner rank (cells) */ 461 /* all cell data */ 462 for (link=vtk->link; link; link=link->next) { 463 PetscInt bs; 464 if ((link->ft != PETSC_VTK_CELL_FIELD) && (link->ft != PETSC_VTK_CELL_VECTOR_FIELD)) continue; 465 ierr = PetscSectionGetDof(dm->defaultSection,cStart,&bs);CHKERRQ(ierr); 466 for (i=0; i<bs; i++) { 467 ierr = TransferWrite(viewer,fp,r,0,NULL,buffer,gpiece[r].ncells,PETSC_SCALAR,tag);CHKERRQ(ierr); 468 } 469 } 470 /* all point data */ 471 for (link=vtk->link; link; link=link->next) { 472 PetscInt bs; 473 if ((link->ft != PETSC_VTK_POINT_FIELD) && (link->ft != PETSC_VTK_POINT_VECTOR_FIELD)) continue; 474 ierr = PetscSectionGetDof(dm->defaultSection,vStart,&bs);CHKERRQ(ierr); 475 for (i=0; i<bs; i++) { 476 ierr = TransferWrite(viewer,fp,r,0,NULL,buffer,gpiece[r].nvertices,PETSC_SCALAR,tag);CHKERRQ(ierr); 477 } 478 } 479 } 480 } 481 ierr = PetscFree(gpiece);CHKERRQ(ierr); 482 ierr = PetscFree(buffer);CHKERRQ(ierr); 483 ierr = PetscFPrintf(comm,fp,"\n </AppendedData>\n");CHKERRQ(ierr); 484 ierr = PetscFPrintf(comm,fp,"</VTKFile>\n");CHKERRQ(ierr); 485 ierr = PetscFClose(comm,fp);CHKERRQ(ierr); 486 PetscFunctionReturn(0); 487 } 488