1 #include <petsc/private/glvisviewerimpl.h> 2 #include <petsc/private/petscimpl.h> 3 #include <petsc/private/dmpleximpl.h> 4 #include <petscbt.h> 5 #include <petscdmplex.h> 6 #include <petscsf.h> 7 #include <petscds.h> 8 9 typedef struct { 10 PetscInt nf; 11 VecScatter *scctx; 12 } GLVisViewerCtx; 13 14 static PetscErrorCode DestroyGLVisViewerCtx_Private(void *vctx) 15 { 16 GLVisViewerCtx *ctx = (GLVisViewerCtx*)vctx; 17 PetscInt i; 18 PetscErrorCode ierr; 19 20 PetscFunctionBegin; 21 for (i=0;i<ctx->nf;i++) { 22 ierr = VecScatterDestroy(&ctx->scctx[i]);CHKERRQ(ierr); 23 } 24 ierr = PetscFree(ctx->scctx);CHKERRQ(ierr); 25 ierr = PetscFree(vctx);CHKERRQ(ierr); 26 PetscFunctionReturn(0); 27 } 28 29 static PetscErrorCode DMPlexSampleGLVisFields_Private(PetscObject oX, PetscInt nf, PetscObject oXfield[], void *vctx) 30 { 31 GLVisViewerCtx *ctx = (GLVisViewerCtx*)vctx; 32 PetscInt f; 33 PetscErrorCode ierr; 34 35 PetscFunctionBegin; 36 for (f=0;f<nf;f++) { 37 ierr = VecScatterBegin(ctx->scctx[f],(Vec)oX,(Vec)oXfield[f],INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 38 ierr = VecScatterEnd(ctx->scctx[f],(Vec)oX,(Vec)oXfield[f],INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 39 } 40 PetscFunctionReturn(0); 41 } 42 43 /* for FEM, it works for H1 fields only and extracts dofs at cell vertices, discarding any other dof */ 44 PetscErrorCode DMSetUpGLVisViewer_Plex(PetscObject odm, PetscViewer viewer) 45 { 46 DM dm = (DM)odm; 47 Vec xlocal,xfield,*Ufield; 48 PetscDS ds; 49 IS globalNum,isfield; 50 PetscBT vown; 51 char **fieldname = NULL,**fec_type = NULL; 52 const PetscInt *gNum; 53 PetscInt *nlocal,*bs,*idxs,*dims; 54 PetscInt f,maxfields,nfields,c,totc,totdofs,Nv,cum,i; 55 PetscInt dim,cStart,cEnd,cEndInterior,vStart,vEnd; 56 GLVisViewerCtx *ctx; 57 PetscSection s; 58 PetscErrorCode ierr; 59 60 PetscFunctionBegin; 61 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 62 ierr = DMPlexGetDepthStratum(dm,0,&vStart,&vEnd);CHKERRQ(ierr); 63 ierr = DMPlexGetHeightStratum(dm,0,&cStart,&cEnd);CHKERRQ(ierr); 64 ierr = DMPlexGetHybridBounds(dm, &cEndInterior, NULL, NULL, NULL);CHKERRQ(ierr); 65 cEnd = cEndInterior < 0 ? cEnd : cEndInterior; 66 ierr = DMPlexGetCellNumbering(dm,&globalNum);CHKERRQ(ierr); 67 ierr = ISGetIndices(globalNum,&gNum);CHKERRQ(ierr); 68 ierr = PetscBTCreate(vEnd-vStart,&vown);CHKERRQ(ierr); 69 for (c = cStart, totc = 0; c < cEnd; c++) { 70 if (gNum[c-cStart] >= 0) { 71 PetscInt i,numPoints,*points = NULL; 72 73 totc++; 74 ierr = DMPlexGetTransitiveClosure(dm,c,PETSC_TRUE,&numPoints,&points);CHKERRQ(ierr); 75 for (i=0;i<numPoints*2;i+= 2) { 76 if ((points[i] >= vStart) && (points[i] < vEnd)) { 77 ierr = PetscBTSet(vown,points[i]-vStart);CHKERRQ(ierr); 78 } 79 } 80 ierr = DMPlexRestoreTransitiveClosure(dm,c,PETSC_TRUE,&numPoints,&points);CHKERRQ(ierr); 81 } 82 } 83 for (f=0,Nv=0;f<vEnd-vStart;f++) if (PetscLikely(PetscBTLookup(vown,f))) Nv++; 84 85 ierr = DMCreateLocalVector(dm,&xlocal);CHKERRQ(ierr); 86 ierr = VecGetLocalSize(xlocal,&totdofs);CHKERRQ(ierr); 87 ierr = DMGetSection(dm,&s);CHKERRQ(ierr); 88 ierr = PetscSectionGetNumFields(s,&nfields);CHKERRQ(ierr); 89 for (f=0,maxfields=0;f<nfields;f++) { 90 PetscInt bs; 91 92 ierr = PetscSectionGetFieldComponents(s,f,&bs);CHKERRQ(ierr); 93 maxfields += bs; 94 } 95 ierr = PetscCalloc7(maxfields,&fieldname,maxfields,&nlocal,maxfields,&bs,maxfields,&dims,maxfields,&fec_type,totdofs,&idxs,maxfields,&Ufield);CHKERRQ(ierr); 96 ierr = PetscNew(&ctx);CHKERRQ(ierr); 97 ierr = PetscCalloc1(maxfields,&ctx->scctx);CHKERRQ(ierr); 98 ierr = DMGetDS(dm,&ds);CHKERRQ(ierr); 99 if (ds) { 100 for (f=0;f<nfields;f++) { 101 const char* fname; 102 char name[256]; 103 PetscObject disc; 104 size_t len; 105 106 ierr = PetscSectionGetFieldName(s,f,&fname);CHKERRQ(ierr); 107 ierr = PetscStrlen(fname,&len);CHKERRQ(ierr); 108 if (len) { 109 ierr = PetscStrcpy(name,fname);CHKERRQ(ierr); 110 } else { 111 ierr = PetscSNPrintf(name,256,"Field%D",f);CHKERRQ(ierr); 112 } 113 ierr = PetscDSGetDiscretization(ds,f,&disc);CHKERRQ(ierr); 114 if (disc) { 115 PetscClassId id; 116 PetscInt Nc; 117 char fec[64]; 118 119 ierr = PetscObjectGetClassId(disc, &id);CHKERRQ(ierr); 120 if (id == PETSCFE_CLASSID) { 121 PetscFE fem = (PetscFE)disc; 122 PetscDualSpace sp; 123 PetscDualSpaceType spname; 124 PetscInt order; 125 PetscBool islag,continuous,H1 = PETSC_TRUE; 126 127 ierr = PetscFEGetNumComponents(fem,&Nc);CHKERRQ(ierr); 128 ierr = PetscFEGetDualSpace(fem,&sp);CHKERRQ(ierr); 129 ierr = PetscDualSpaceGetType(sp,&spname);CHKERRQ(ierr); 130 ierr = PetscStrcmp(spname,PETSCDUALSPACELAGRANGE,&islag);CHKERRQ(ierr); 131 if (!islag) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Unsupported dual space"); 132 ierr = PetscDualSpaceLagrangeGetContinuity(sp,&continuous);CHKERRQ(ierr); 133 if (!continuous) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Discontinuous space visualization currently unsupported"); 134 ierr = PetscDualSpaceGetOrder(sp,&order);CHKERRQ(ierr); 135 if (continuous && order > 0) { 136 ierr = PetscSNPrintf(fec,64,"FiniteElementCollection: H1_%DD_P1",dim);CHKERRQ(ierr); 137 } else { 138 H1 = PETSC_FALSE; 139 ierr = PetscSNPrintf(fec,64,"FiniteElementCollection: L2_%DD_P%D",dim,order);CHKERRQ(ierr); 140 } 141 ierr = PetscStrallocpy(name,&fieldname[ctx->nf]);CHKERRQ(ierr); 142 bs[ctx->nf] = Nc; 143 dims[ctx->nf] = dim; 144 if (H1) { 145 nlocal[ctx->nf] = Nc * Nv; 146 ierr = PetscStrallocpy(fec,&fec_type[ctx->nf]);CHKERRQ(ierr); 147 ierr = VecCreateSeq(PETSC_COMM_SELF,Nv*Nc,&xfield);CHKERRQ(ierr); 148 for (i=0,cum=0;i<vEnd-vStart;i++) { 149 PetscInt j,off; 150 151 if (PetscUnlikely(!PetscBTLookup(vown,i))) continue; 152 ierr = PetscSectionGetFieldOffset(s,i+vStart,f,&off);CHKERRQ(ierr); 153 for (j=0;j<Nc;j++) idxs[cum++] = off + j; 154 } 155 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)xlocal),Nv*Nc,idxs,PETSC_USE_POINTER,&isfield);CHKERRQ(ierr); 156 } else { 157 nlocal[ctx->nf] = Nc * totc; 158 ierr = PetscStrallocpy(fec,&fec_type[ctx->nf]);CHKERRQ(ierr); 159 ierr = VecCreateSeq(PETSC_COMM_SELF,Nc*totc,&xfield);CHKERRQ(ierr); 160 for (i=0,cum=0;i<cEnd-cStart;i++) { 161 PetscInt j,off; 162 163 if (PetscUnlikely(gNum[i] < 0)) continue; 164 ierr = PetscSectionGetFieldOffset(s,i+cStart,f,&off);CHKERRQ(ierr); 165 for (j=0;j<Nc;j++) idxs[cum++] = off + j; 166 } 167 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)xlocal),totc*Nc,idxs,PETSC_USE_POINTER,&isfield);CHKERRQ(ierr); 168 } 169 ierr = VecScatterCreateWithData(xlocal,isfield,xfield,NULL,&ctx->scctx[ctx->nf]);CHKERRQ(ierr); 170 ierr = VecDestroy(&xfield);CHKERRQ(ierr); 171 ierr = ISDestroy(&isfield);CHKERRQ(ierr); 172 ctx->nf++; 173 } else if (id == PETSCFV_CLASSID) { 174 PetscInt c; 175 176 ierr = PetscFVGetNumComponents((PetscFV)disc,&Nc);CHKERRQ(ierr); 177 ierr = PetscSNPrintf(fec,64,"FiniteElementCollection: L2_%DD_P0",dim);CHKERRQ(ierr); 178 for (c = 0; c < Nc; c++) { 179 char comp[256]; 180 ierr = PetscSNPrintf(comp,256,"%s-Comp%D",name,c);CHKERRQ(ierr); 181 ierr = PetscStrallocpy(comp,&fieldname[ctx->nf]);CHKERRQ(ierr); 182 bs[ctx->nf] = 1; /* Does PetscFV support components with different block size? */ 183 nlocal[ctx->nf] = totc; 184 dims[ctx->nf] = dim; 185 ierr = PetscStrallocpy(fec,&fec_type[ctx->nf]);CHKERRQ(ierr); 186 ierr = VecCreateSeq(PETSC_COMM_SELF,totc,&xfield);CHKERRQ(ierr); 187 for (i=0,cum=0;i<cEnd-cStart;i++) { 188 PetscInt off; 189 190 if (PetscUnlikely(gNum[i])<0) continue; 191 ierr = PetscSectionGetFieldOffset(s,i+cStart,f,&off);CHKERRQ(ierr); 192 idxs[cum++] = off + c; 193 } 194 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)xlocal),totc,idxs,PETSC_USE_POINTER,&isfield);CHKERRQ(ierr); 195 ierr = VecScatterCreateWithData(xlocal,isfield,xfield,NULL,&ctx->scctx[ctx->nf]);CHKERRQ(ierr); 196 ierr = VecDestroy(&xfield);CHKERRQ(ierr); 197 ierr = ISDestroy(&isfield);CHKERRQ(ierr); 198 ctx->nf++; 199 } 200 } else SETERRQ1(PetscObjectComm((PetscObject)dm),PETSC_ERR_ARG_WRONG,"Unknown discretization type for field %D",f); 201 } else SETERRQ1(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Missing discretization for field %D",f); 202 } 203 } else SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Needs a DS attached to the DM"); 204 ierr = PetscBTDestroy(&vown);CHKERRQ(ierr); 205 ierr = VecDestroy(&xlocal);CHKERRQ(ierr); 206 ierr = ISRestoreIndices(globalNum,&gNum);CHKERRQ(ierr); 207 208 /* create work vectors */ 209 for (f=0;f<ctx->nf;f++) { 210 ierr = VecCreateMPI(PetscObjectComm((PetscObject)dm),nlocal[f],PETSC_DECIDE,&Ufield[f]);CHKERRQ(ierr); 211 ierr = PetscObjectSetName((PetscObject)Ufield[f],fieldname[f]);CHKERRQ(ierr); 212 ierr = VecSetBlockSize(Ufield[f],bs[f]);CHKERRQ(ierr); 213 ierr = VecSetDM(Ufield[f],dm);CHKERRQ(ierr); 214 } 215 216 /* customize the viewer */ 217 ierr = PetscViewerGLVisSetFields(viewer,ctx->nf,(const char**)fec_type,dims,DMPlexSampleGLVisFields_Private,(PetscObject*)Ufield,ctx,DestroyGLVisViewerCtx_Private);CHKERRQ(ierr); 218 for (f=0;f<ctx->nf;f++) { 219 ierr = PetscFree(fieldname[f]);CHKERRQ(ierr); 220 ierr = PetscFree(fec_type[f]);CHKERRQ(ierr); 221 ierr = VecDestroy(&Ufield[f]);CHKERRQ(ierr); 222 } 223 ierr = PetscFree7(fieldname,nlocal,bs,dims,fec_type,idxs,Ufield);CHKERRQ(ierr); 224 PetscFunctionReturn(0); 225 } 226 227 typedef enum {MFEM_POINT=0,MFEM_SEGMENT,MFEM_TRIANGLE,MFEM_SQUARE,MFEM_TETRAHEDRON,MFEM_CUBE,MFEM_UNDEF} MFEM_cid; 228 229 MFEM_cid mfem_table_cid[4][7] = { {MFEM_POINT,MFEM_UNDEF,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF,MFEM_UNDEF}, 230 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF,MFEM_UNDEF}, 231 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_TRIANGLE,MFEM_SQUARE ,MFEM_UNDEF,MFEM_UNDEF}, 232 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_UNDEF ,MFEM_TETRAHEDRON,MFEM_UNDEF,MFEM_CUBE } }; 233 234 MFEM_cid mfem_table_cid_unint[4][9] = { {MFEM_POINT,MFEM_UNDEF,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF,MFEM_UNDEF,MFEM_UNDEF,MFEM_UNDEF}, 235 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF,MFEM_UNDEF,MFEM_UNDEF,MFEM_UNDEF}, 236 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_TRIANGLE,MFEM_SQUARE ,MFEM_UNDEF,MFEM_UNDEF,MFEM_UNDEF,MFEM_UNDEF}, 237 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_UNDEF ,MFEM_TETRAHEDRON,MFEM_UNDEF,MFEM_UNDEF,MFEM_UNDEF,MFEM_CUBE } }; 238 239 static PetscErrorCode DMPlexGetPointMFEMCellID_Internal(DM dm, DMLabel label, PetscInt p, PetscInt *mid, PetscInt *cid) 240 { 241 DMLabel dlabel; 242 PetscInt depth,csize,pdepth,dim; 243 PetscErrorCode ierr; 244 245 PetscFunctionBegin; 246 ierr = DMPlexGetDepthLabel(dm,&dlabel);CHKERRQ(ierr); 247 ierr = DMLabelGetValue(dlabel,p,&pdepth);CHKERRQ(ierr); 248 ierr = DMPlexGetConeSize(dm,p,&csize);CHKERRQ(ierr); 249 ierr = DMPlexGetDepth(dm,&depth);CHKERRQ(ierr); 250 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 251 if (label) { 252 ierr = DMLabelGetValue(label,p,mid);CHKERRQ(ierr); 253 } else *mid = 1; 254 if (depth >=0 && dim != depth) { /* not interpolated, it assumes cell-vertex mesh */ 255 #if defined PETSC_USE_DEBUG 256 if (dim < 0 || dim > 3) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Dimension %D",dim); 257 if (csize > 8) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Found cone size %D for point %D",csize,p); 258 if (depth != 1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Found depth %D for point %D. You should interpolate the mesh first",depth,p); 259 #endif 260 *cid = mfem_table_cid_unint[dim][csize]; 261 } else { 262 #if defined PETSC_USE_DEBUG 263 if (csize > 6) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cone size %D for point %D",csize,p); 264 if (pdepth < 0 || pdepth > 3) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Depth %D for point %D",csize,p); 265 #endif 266 *cid = mfem_table_cid[pdepth][csize]; 267 } 268 PetscFunctionReturn(0); 269 } 270 271 static PetscErrorCode DMPlexGetPointMFEMVertexIDs_Internal(DM dm, PetscInt p, PetscSection csec, PetscInt *nv, int vids[]) 272 { 273 PetscInt dim,sdim,dof = 0,off = 0,i,q,vStart,vEnd,numPoints,*points = NULL; 274 PetscErrorCode ierr; 275 276 PetscFunctionBegin; 277 ierr = DMPlexGetDepthStratum(dm,0,&vStart,&vEnd);CHKERRQ(ierr); 278 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 279 sdim = dim; 280 if (csec) { 281 PetscInt sStart,sEnd; 282 283 ierr = DMGetCoordinateDim(dm,&sdim);CHKERRQ(ierr); 284 ierr = PetscSectionGetChart(csec,&sStart,&sEnd);CHKERRQ(ierr); 285 ierr = PetscSectionGetOffset(csec,vStart,&off);CHKERRQ(ierr); 286 off = off/sdim; 287 if (p >= sStart && p < sEnd) { 288 ierr = PetscSectionGetDof(csec,p,&dof);CHKERRQ(ierr); 289 } 290 } 291 if (!dof) { 292 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&numPoints,&points);CHKERRQ(ierr); 293 for (i=0,q=0;i<numPoints*2;i+= 2) 294 if ((points[i] >= vStart) && (points[i] < vEnd)) 295 vids[q++] = (int)(points[i]-vStart+off); 296 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&numPoints,&points);CHKERRQ(ierr); 297 } else { 298 ierr = PetscSectionGetOffset(csec,p,&off);CHKERRQ(ierr); 299 ierr = PetscSectionGetDof(csec,p,&dof);CHKERRQ(ierr); 300 for (q=0;q<dof/sdim;q++) vids[q] = (int)(off/sdim + q); 301 } 302 *nv = q; 303 PetscFunctionReturn(0); 304 } 305 306 /* 307 ASCII visualization/dump: full support for simplices and tensor product cells. It supports AMR 308 Higher order meshes are also supported 309 */ 310 static PetscErrorCode DMPlexView_GLVis_ASCII(DM dm, PetscViewer viewer) 311 { 312 DMLabel label; 313 PetscSection coordSection,parentSection; 314 Vec coordinates,hovec; 315 const PetscScalar *array; 316 PetscInt bf,p,sdim,dim,depth,novl; 317 PetscInt cStart,cEnd,cEndInterior,vStart,vEnd,nvert; 318 PetscMPIInt size; 319 PetscBool localized,isascii; 320 PetscBool enable_mfem,enable_boundary,enable_ncmesh; 321 PetscBT pown,vown; 322 PetscErrorCode ierr; 323 PetscContainer glvis_container; 324 PetscBool cellvertex = PETSC_FALSE, periodic, enabled = PETSC_TRUE; 325 const char *fmt; 326 char emark[64] = "",bmark[64] = ""; 327 328 PetscFunctionBegin; 329 PetscValidHeaderSpecific(dm,DM_CLASSID,1); 330 PetscValidHeaderSpecific(viewer,PETSC_VIEWER_CLASSID,2); 331 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&isascii);CHKERRQ(ierr); 332 if (!isascii) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Viewer must be of type VIEWERASCII"); 333 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)viewer),&size);CHKERRQ(ierr); 334 if (size > 1) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Use single sequential viewers for parallel visualization"); 335 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 336 337 /* get container: determines if a process visualizes is portion of the data or not */ 338 ierr = PetscObjectQuery((PetscObject)viewer,"_glvis_info_container",(PetscObject*)&glvis_container);CHKERRQ(ierr); 339 if (!glvis_container) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_PLIB,"Missing GLVis container"); 340 { 341 PetscViewerGLVisInfo glvis_info; 342 ierr = PetscContainerGetPointer(glvis_container,(void**)&glvis_info);CHKERRQ(ierr); 343 enabled = glvis_info->enabled; 344 fmt = glvis_info->fmt; 345 } 346 347 /* Users can attach a coordinate vector to the DM in case they have a higher-order mesh 348 DMPlex does not currently support HO meshes, so there's no API for this */ 349 ierr = PetscObjectQuery((PetscObject)dm,"_glvis_mesh_coords",(PetscObject*)&hovec);CHKERRQ(ierr); 350 351 ierr = DMPlexGetHybridBounds(dm, &cEndInterior, NULL, NULL, NULL);CHKERRQ(ierr); 352 ierr = DMPlexGetHeightStratum(dm,0,&cStart,&cEnd);CHKERRQ(ierr); 353 cEnd = cEndInterior < 0 ? cEnd : cEndInterior; 354 ierr = DMPlexGetDepthStratum(dm,0,&vStart,&vEnd);CHKERRQ(ierr); 355 ierr = DMGetPeriodicity(dm,&periodic,NULL,NULL,NULL);CHKERRQ(ierr); 356 ierr = DMGetCoordinatesLocalized(dm,&localized);CHKERRQ(ierr); 357 if (periodic && !localized && !hovec) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Coordinates need to be localized"); 358 ierr = DMGetCoordinateSection(dm,&coordSection);CHKERRQ(ierr); 359 ierr = DMGetCoordinateDim(dm,&sdim);CHKERRQ(ierr); 360 ierr = DMGetCoordinatesLocal(dm,&coordinates);CHKERRQ(ierr); 361 if (!coordinates && !hovec) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Missing local coordinates vector"); 362 363 /* 364 a couple of sections of the mesh specification are disabled 365 - boundary: unless we want to visualize boundary attributes or we have a periodic mesh 366 the boundary is not needed for proper mesh visualization 367 - vertex_parents: used for non-conforming meshes only when we want to use MFEM as a discretization package 368 and be able to derefine the mesh (MFEM does not currently have to ability to read ncmeshes in parallel) 369 */ 370 enable_boundary = periodic; 371 enable_ncmesh = PETSC_FALSE; 372 enable_mfem = PETSC_FALSE; 373 /* I'm tired of problems with negative values in the markers, disable them */ 374 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)dm),((PetscObject)dm)->prefix,"GLVis PetscViewer DMPlex Options","PetscViewer");CHKERRQ(ierr); 375 ierr = PetscOptionsBool("-viewer_glvis_dm_plex_enable_boundary","Enable boundary section in mesh representation",NULL,enable_boundary,&enable_boundary,NULL);CHKERRQ(ierr); 376 ierr = PetscOptionsBool("-viewer_glvis_dm_plex_enable_ncmesh","Enable vertex_parents section in mesh representation (allows derefinement)",NULL,enable_ncmesh,&enable_ncmesh,NULL);CHKERRQ(ierr); 377 ierr = PetscOptionsBool("-viewer_glvis_dm_plex_enable_mfem","Dump a mesh that can be used with MFEM's FiniteElementSpaces",NULL,enable_mfem,&enable_mfem,NULL);CHKERRQ(ierr); 378 ierr = PetscOptionsString("-viewer_glvis_dm_plex_emarker","String for the material id label",NULL,emark,emark,sizeof(emark),NULL);CHKERRQ(ierr); 379 ierr = PetscOptionsString("-viewer_glvis_dm_plex_bmarker","String for the boundary id label",NULL,bmark,bmark,sizeof(bmark),NULL);CHKERRQ(ierr); 380 ierr = PetscOptionsEnd();CHKERRQ(ierr); 381 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)dm),&size);CHKERRQ(ierr); 382 if (enable_ncmesh && size > 1) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Not supported in parallel"); 383 ierr = DMPlexGetDepth(dm,&depth);CHKERRQ(ierr); 384 if (enable_boundary && depth >= 0 && dim != depth) SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Mesh must be interpolated. " 385 "Alternatively, run with -viewer_glvis_dm_plex_enable_boundary 0"); 386 if (enable_ncmesh && depth >= 0 && dim != depth) SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Mesh must be interpolated. " 387 "Alternatively, run with -viewer_glvis_dm_plex_enable_ncmesh 0"); 388 if (depth >=0 && dim != depth) { /* not interpolated, it assumes cell-vertex mesh */ 389 if (depth != 1) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unsupported depth %D. You should interpolate the mesh first",depth); 390 cellvertex = PETSC_TRUE; 391 } 392 393 /* Identify possible cells in the overlap */ 394 novl = 0; 395 pown = NULL; 396 if (size > 1) { 397 IS globalNum = NULL; 398 const PetscInt *gNum; 399 PetscBool ovl = PETSC_FALSE; 400 401 ierr = DMPlexGetCellNumbering(dm,&globalNum);CHKERRQ(ierr); 402 ierr = ISGetIndices(globalNum,&gNum);CHKERRQ(ierr); 403 for (p=cStart; p<cEnd; p++) { 404 if (gNum[p-cStart] < 0) { 405 ovl = PETSC_TRUE; 406 novl++; 407 } 408 } 409 if (ovl) { 410 /* it may happen that pown get not destroyed, if the user closes the window while this function is running. 411 TODO: garbage collector? attach pown to dm? */ 412 ierr = PetscBTCreate(cEnd-cStart,&pown);CHKERRQ(ierr); 413 for (p=cStart; p<cEnd; p++) { 414 if (gNum[p-cStart] < 0) continue; 415 else { 416 ierr = PetscBTSet(pown,p-cStart);CHKERRQ(ierr); 417 } 418 } 419 } 420 ierr = ISRestoreIndices(globalNum,&gNum);CHKERRQ(ierr); 421 } 422 423 /* return if this process is disabled */ 424 if (!enabled) { 425 ierr = PetscViewerASCIIPrintf(viewer,"MFEM mesh v1.1\n");CHKERRQ(ierr); 426 ierr = PetscViewerASCIIPrintf(viewer,"\ndimension\n");CHKERRQ(ierr); 427 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",dim);CHKERRQ(ierr); 428 ierr = PetscViewerASCIIPrintf(viewer,"\nelements\n");CHKERRQ(ierr); 429 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 430 ierr = PetscViewerASCIIPrintf(viewer,"\nboundary\n");CHKERRQ(ierr); 431 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 432 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 433 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 434 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",sdim);CHKERRQ(ierr); 435 ierr = PetscBTDestroy(&pown);CHKERRQ(ierr); 436 PetscFunctionReturn(0); 437 } 438 439 if (enable_mfem) { 440 if (periodic && !hovec) { /* we need to generate a vector of L2 coordinates, as this is how MFEM handles periodic meshes */ 441 PetscInt vpc = 0; 442 char fec[64]; 443 int vids[8] = {0,1,2,3,4,5,6,7}; 444 int hexv[8] = {0,1,3,2,4,5,7,6}, tetv[4] = {0,1,2,3}; 445 int quadv[8] = {0,1,3,2}, triv[3] = {0,1,2}; 446 int *dof = NULL; 447 PetscScalar *array,*ptr; 448 449 ierr = PetscSNPrintf(fec,sizeof(fec),"FiniteElementCollection: L2_T1_%DD_P1",dim);CHKERRQ(ierr); 450 if (cEnd-cStart) { 451 PetscInt fpc; 452 453 ierr = DMPlexGetConeSize(dm,cStart,&fpc);CHKERRQ(ierr); 454 switch(dim) { 455 case 1: 456 vpc = 2; 457 dof = hexv; 458 break; 459 case 2: 460 switch (fpc) { 461 case 3: 462 vpc = 3; 463 dof = triv; 464 break; 465 case 4: 466 vpc = 4; 467 dof = quadv; 468 break; 469 default: 470 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 471 break; 472 } 473 break; 474 case 3: 475 switch (fpc) { 476 case 4: /* TODO: still need to understand L2 ordering for tets */ 477 vpc = 4; 478 dof = tetv; 479 SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled tethraedral case"); 480 break; 481 case 6: 482 if (cellvertex) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: vertices per cell %D",fpc); 483 vpc = 8; 484 dof = hexv; 485 break; 486 case 8: 487 if (!cellvertex) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 488 vpc = 8; 489 dof = hexv; 490 break; 491 default: 492 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 493 break; 494 } 495 break; 496 default: 497 SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Unhandled dim"); 498 break; 499 } 500 ierr = DMPlexInvertCell(dim,vpc,vids);CHKERRQ(ierr); 501 } 502 if (!dof) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_PLIB,"Missing dofs"); 503 ierr = VecCreateSeq(PETSC_COMM_SELF,(cEnd-cStart-novl)*vpc*sdim,&hovec);CHKERRQ(ierr); 504 ierr = PetscObjectCompose((PetscObject)dm,"_glvis_mesh_coords",(PetscObject)hovec);CHKERRQ(ierr); 505 ierr = PetscObjectDereference((PetscObject)hovec);CHKERRQ(ierr); 506 ierr = PetscObjectSetName((PetscObject)hovec,fec);CHKERRQ(ierr); 507 ierr = VecGetArray(hovec,&array);CHKERRQ(ierr); 508 ptr = array; 509 for (p=cStart;p<cEnd;p++) { 510 PetscInt csize,v,d; 511 PetscScalar *vals = NULL; 512 513 if (PetscUnlikely(pown && !PetscBTLookup(pown,p-cStart))) continue; 514 ierr = DMPlexVecGetClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 515 if (csize != vpc*sdim && csize != vpc*sdim*2) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unsupported closure size %D (vpc %D, sdim %D)",csize,vpc,sdim); 516 for (v=0;v<vpc;v++) { 517 for (d=0;d<sdim;d++) { 518 ptr[sdim*dof[v]+d] = vals[sdim*vids[v]+d]; 519 } 520 } 521 ptr += vpc*sdim; 522 ierr = DMPlexVecRestoreClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 523 } 524 ierr = VecRestoreArray(hovec,&array);CHKERRQ(ierr); 525 } 526 } 527 528 529 /* header */ 530 ierr = PetscViewerASCIIPrintf(viewer,"MFEM mesh v1.1\n");CHKERRQ(ierr); 531 532 /* topological dimension */ 533 ierr = PetscViewerASCIIPrintf(viewer,"\ndimension\n");CHKERRQ(ierr); 534 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",dim);CHKERRQ(ierr); 535 536 /* elements */ 537 ierr = DMGetLabel(dm,emark,&label);CHKERRQ(ierr); 538 ierr = PetscViewerASCIIPrintf(viewer,"\nelements\n");CHKERRQ(ierr); 539 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",cEnd-cStart-novl);CHKERRQ(ierr); 540 for (p=cStart;p<cEnd;p++) { 541 int vids[8]; 542 PetscInt i,nv = 0,cid = -1,mid = 1; 543 544 if (PetscUnlikely(pown && !PetscBTLookup(pown,p-cStart))) continue; 545 ierr = DMPlexGetPointMFEMCellID_Internal(dm,label,p,&mid,&cid);CHKERRQ(ierr); 546 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,p,(localized && !hovec) ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 547 ierr = DMPlexInvertCell(dim,nv,vids);CHKERRQ(ierr); 548 ierr = PetscViewerASCIIPrintf(viewer,"%D %D",mid,cid);CHKERRQ(ierr); 549 for (i=0;i<nv;i++) { 550 ierr = PetscViewerASCIIPrintf(viewer," %D",(PetscInt)vids[i]);CHKERRQ(ierr); 551 } 552 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 553 } 554 555 /* boundary */ 556 ierr = PetscViewerASCIIPrintf(viewer,"\nboundary\n");CHKERRQ(ierr); 557 if (!enable_boundary) { 558 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 559 } else { 560 DMLabel perLabel; 561 PetscBT bfaces; 562 PetscInt fStart,fEnd,fEndInterior,*fcells; 563 PetscInt *faces = NULL,fpc = 0,vpf = 0, vpc = 0; 564 PetscInt fv1[] = {0,1}, 565 fv2tri[] = {0,1, 566 1,2, 567 2,0}, 568 fv2quad[] = {0,1, 569 1,2, 570 2,3, 571 3,0}, 572 fv3tet[] = {0,1,2, 573 0,3,1, 574 0,2,3, 575 2,1,3}, 576 fv3hex[] = {0,1,2,3, 577 4,5,6,7, 578 0,3,5,4, 579 2,1,7,6, 580 3,2,6,5, 581 0,4,7,1}; 582 583 /* determine orientation of boundary mesh */ 584 if (cEnd-cStart) { 585 ierr = DMPlexGetConeSize(dm,cStart,&fpc);CHKERRQ(ierr); 586 switch(dim) { 587 case 1: 588 if (fpc != 2) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case faces per cell %D",fpc); 589 faces = fv1; 590 vpf = 1; 591 vpc = 2; 592 break; 593 case 2: 594 switch (fpc) { 595 case 3: 596 faces = fv2tri; 597 vpf = 2; 598 vpc = 3; 599 break; 600 case 4: 601 faces = fv2quad; 602 vpf = 2; 603 vpc = 4; 604 break; 605 default: 606 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 607 break; 608 } 609 break; 610 case 3: 611 switch (fpc) { 612 case 4: 613 faces = fv3tet; 614 vpf = 3; 615 vpc = 4; 616 break; 617 case 6: 618 faces = fv3hex; 619 vpf = 4; 620 vpc = 8; 621 break; 622 default: 623 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 624 break; 625 } 626 break; 627 default: 628 SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Unhandled dim"); 629 break; 630 } 631 } 632 ierr = DMPlexGetHybridBounds(dm,NULL,&fEndInterior,NULL,NULL);CHKERRQ(ierr); 633 ierr = DMPlexGetHeightStratum(dm,1,&fStart,&fEnd);CHKERRQ(ierr); 634 fEnd = fEndInterior < 0 ? fEnd : fEndInterior; 635 ierr = PetscBTCreate(fEnd-fStart,&bfaces);CHKERRQ(ierr); 636 ierr = DMPlexGetMaxSizes(dm,NULL,&p);CHKERRQ(ierr); 637 ierr = PetscMalloc1(p,&fcells);CHKERRQ(ierr); 638 ierr = DMGetLabel(dm,"glvis_periodic_cut",&perLabel);CHKERRQ(ierr); 639 if (!perLabel && localized) { /* this periodic cut can be moved up to DMPlex setup */ 640 ierr = DMCreateLabel(dm,"glvis_periodic_cut");CHKERRQ(ierr); 641 ierr = DMGetLabel(dm,"glvis_periodic_cut",&perLabel);CHKERRQ(ierr); 642 ierr = DMLabelSetDefaultValue(perLabel,1);CHKERRQ(ierr); 643 for (p=cStart;p<cEnd;p++) { 644 PetscInt dof; 645 ierr = PetscSectionGetDof(coordSection,p,&dof);CHKERRQ(ierr); 646 if (dof) { 647 PetscInt v,csize,cellClosureSize,*cellClosure = NULL,*vidxs = NULL; 648 PetscScalar *vals = NULL; 649 650 if (dof%sdim) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_USER,"Incompatible number of cell dofs %D and space dimension %D",dof,sdim); 651 if (dof/sdim != vpc) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_SUP,"Incompatible number of cell dofs %D, vertices %D and space dim %D",dof/sdim,vpc,sdim); 652 ierr = DMPlexVecGetClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 653 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&cellClosureSize,&cellClosure);CHKERRQ(ierr); 654 for (v=0;v<cellClosureSize;v++) 655 if (cellClosure[2*v] >= vStart && cellClosure[2*v] < vEnd) { 656 vidxs = cellClosure + 2*v; 657 break; 658 } 659 if (!vidxs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Missing vertices"); 660 for (v=0;v<vpc;v++) { 661 PetscInt s; 662 663 for (s=0;s<sdim;s++) { 664 if (PetscAbsScalar(vals[v*sdim+s]-vals[v*sdim+s+vpc*sdim])>PETSC_MACHINE_EPSILON) { 665 ierr = DMLabelSetValue(perLabel,vidxs[2*v],2);CHKERRQ(ierr); 666 } 667 } 668 } 669 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&cellClosureSize,&cellClosure);CHKERRQ(ierr); 670 ierr = DMPlexVecRestoreClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 671 } 672 } 673 if (dim > 1) { 674 PetscInt eEnd,eStart,eEndInterior; 675 676 ierr = DMPlexGetHybridBounds(dm,NULL,NULL,&eEndInterior,NULL);CHKERRQ(ierr); 677 ierr = DMPlexGetDepthStratum(dm,1,&eStart,&eEnd);CHKERRQ(ierr); 678 eEnd = eEndInterior < 0 ? eEnd : eEndInterior; 679 for (p=eStart;p<eEnd;p++) { 680 const PetscInt *cone; 681 PetscInt coneSize,i; 682 PetscBool ispe = PETSC_TRUE; 683 684 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 685 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 686 for (i=0;i<coneSize;i++) { 687 PetscInt v; 688 689 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 690 ispe = (PetscBool)(ispe && (v==2)); 691 } 692 if (ispe && coneSize) { 693 ierr = DMLabelSetValue(perLabel,p,2);CHKERRQ(ierr); 694 } 695 } 696 if (dim > 2) { 697 for (p=fStart;p<fEnd;p++) { 698 const PetscInt *cone; 699 PetscInt coneSize,i; 700 PetscBool ispe = PETSC_TRUE; 701 702 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 703 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 704 for (i=0;i<coneSize;i++) { 705 PetscInt v; 706 707 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 708 ispe = (PetscBool)(ispe && (v==2)); 709 } 710 if (ispe && coneSize) { 711 ierr = DMLabelSetValue(perLabel,p,2);CHKERRQ(ierr); 712 } 713 } 714 } 715 } 716 } 717 for (p=fStart;p<fEnd;p++) { 718 const PetscInt *support; 719 PetscInt supportSize; 720 PetscBool isbf = PETSC_FALSE; 721 722 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 723 if (pown) { 724 PetscBool has_owned = PETSC_FALSE, has_ghost = PETSC_FALSE; 725 PetscInt i; 726 727 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 728 for (i=0;i<supportSize;i++) { 729 if (PetscLikely(PetscBTLookup(pown,support[i]-cStart))) has_owned = PETSC_TRUE; 730 else has_ghost = PETSC_TRUE; 731 } 732 isbf = (PetscBool)((supportSize == 1 && has_owned) || (supportSize > 1 && has_owned && has_ghost)); 733 } else { 734 isbf = (PetscBool)(supportSize == 1); 735 } 736 if (!isbf && perLabel) { 737 const PetscInt *cone; 738 PetscInt coneSize,i; 739 740 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 741 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 742 isbf = PETSC_TRUE; 743 for (i=0;i<coneSize;i++) { 744 PetscInt v,d; 745 746 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 747 ierr = DMLabelGetDefaultValue(perLabel,&d);CHKERRQ(ierr); 748 isbf = (PetscBool)(isbf && v != d); 749 } 750 } 751 if (isbf) { 752 ierr = PetscBTSet(bfaces,p-fStart);CHKERRQ(ierr); 753 } 754 } 755 /* count boundary faces */ 756 for (p=fStart,bf=0;p<fEnd;p++) { 757 if (PetscUnlikely(PetscBTLookup(bfaces,p-fStart))) { 758 const PetscInt *support; 759 PetscInt supportSize,c; 760 761 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 762 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 763 if (pown) { 764 for (c=0;c<supportSize;c++) { 765 if (PetscLikely(PetscBTLookup(pown,support[c]-cStart))) { 766 bf++; 767 } 768 } 769 } else bf += supportSize; 770 } 771 } 772 ierr = DMGetLabel(dm,bmark,&label);CHKERRQ(ierr); 773 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",bf);CHKERRQ(ierr); 774 for (p=fStart;p<fEnd;p++) { 775 if (PetscUnlikely(PetscBTLookup(bfaces,p-fStart))) { 776 const PetscInt *support; 777 PetscInt supportSize,c,nc = 0; 778 779 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 780 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 781 if (pown) { 782 for (c=0;c<supportSize;c++) { 783 if (PetscLikely(PetscBTLookup(pown,support[c]-cStart))) { 784 fcells[nc++] = support[c]; 785 } 786 } 787 } else for (c=0;c<supportSize;c++) fcells[nc++] = support[c]; 788 for (c=0;c<nc;c++) { 789 const PetscInt *cone; 790 int vids[8]; 791 PetscInt i,cell,cl,nv,cid = -1,mid = -1; 792 793 cell = fcells[c]; 794 ierr = DMPlexGetCone(dm,cell,&cone);CHKERRQ(ierr); 795 for (cl=0;cl<fpc;cl++) 796 if (cone[cl] == p) 797 break; 798 799 /* face material id and type */ 800 ierr = DMPlexGetPointMFEMCellID_Internal(dm,label,p,&mid,&cid);CHKERRQ(ierr); 801 ierr = PetscViewerASCIIPrintf(viewer,"%D %D",mid,cid);CHKERRQ(ierr); 802 /* vertex ids */ 803 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,cell,(localized && !hovec) ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 804 for (i=0;i<vpf;i++) { 805 ierr = PetscViewerASCIIPrintf(viewer," %d",vids[faces[cl*vpf+i]]);CHKERRQ(ierr); 806 } 807 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 808 } 809 bf = bf-nc; 810 } 811 } 812 if (bf) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Remaining boundary faces %D",bf); 813 ierr = PetscBTDestroy(&bfaces);CHKERRQ(ierr); 814 ierr = PetscFree(fcells);CHKERRQ(ierr); 815 } 816 817 /* mark owned vertices */ 818 vown = NULL; 819 if (pown) { 820 ierr = PetscBTCreate(vEnd-vStart,&vown);CHKERRQ(ierr); 821 for (p=cStart;p<cEnd;p++) { 822 PetscInt i,closureSize,*closure = NULL; 823 824 if (PetscUnlikely(!PetscBTLookup(pown,p-cStart))) continue; 825 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&closureSize,&closure);CHKERRQ(ierr); 826 for (i=0;i<closureSize;i++) { 827 const PetscInt pp = closure[2*i]; 828 829 if (pp >= vStart && pp < vEnd) { 830 ierr = PetscBTSet(vown,pp-vStart);CHKERRQ(ierr); 831 } 832 } 833 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&closureSize,&closure);CHKERRQ(ierr); 834 } 835 } 836 837 /* vertex_parents (Non-conforming meshes) */ 838 parentSection = NULL; 839 if (enable_ncmesh) { 840 ierr = DMPlexGetTree(dm,&parentSection,NULL,NULL,NULL,NULL);CHKERRQ(ierr); 841 } 842 if (parentSection) { 843 PetscInt vp,gvp; 844 845 for (vp=0,p=vStart;p<vEnd;p++) { 846 DMLabel dlabel; 847 PetscInt parent,depth; 848 849 if (PetscUnlikely(vown && !PetscBTLookup(vown,p-vStart))) continue; 850 ierr = DMPlexGetDepthLabel(dm,&dlabel);CHKERRQ(ierr); 851 ierr = DMLabelGetValue(dlabel,p,&depth);CHKERRQ(ierr); 852 ierr = DMPlexGetTreeParent(dm,p,&parent,NULL);CHKERRQ(ierr); 853 if (parent != p) vp++; 854 } 855 ierr = MPIU_Allreduce(&vp,&gvp,1,MPIU_INT,MPI_SUM,PetscObjectComm((PetscObject)dm));CHKERRQ(ierr); 856 if (gvp) { 857 PetscInt maxsupp; 858 PetscBool *skip = NULL; 859 860 ierr = PetscViewerASCIIPrintf(viewer,"\nvertex_parents\n");CHKERRQ(ierr); 861 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",vp);CHKERRQ(ierr); 862 ierr = DMPlexGetMaxSizes(dm,NULL,&maxsupp);CHKERRQ(ierr); 863 ierr = PetscMalloc1(maxsupp,&skip);CHKERRQ(ierr); 864 for (p=vStart;p<vEnd;p++) { 865 DMLabel dlabel; 866 PetscInt parent; 867 868 if (PetscUnlikely(vown && !PetscBTLookup(vown,p-vStart))) continue; 869 ierr = DMPlexGetDepthLabel(dm,&dlabel);CHKERRQ(ierr); 870 ierr = DMPlexGetTreeParent(dm,p,&parent,NULL);CHKERRQ(ierr); 871 if (parent != p) { 872 int vids[8] = { -1, -1, -1, -1, -1, -1, -1, -1 }; /* silent overzealous clang static analyzer */ 873 PetscInt i,nv,ssize,n,numChildren,depth = -1; 874 const PetscInt *children; 875 876 ierr = DMPlexGetConeSize(dm,parent,&ssize);CHKERRQ(ierr); 877 switch (ssize) { 878 case 2: /* edge */ 879 nv = 0; 880 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,parent,localized ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 881 ierr = DMPlexInvertCell(dim,nv,vids);CHKERRQ(ierr); 882 ierr = PetscViewerASCIIPrintf(viewer,"%D",p-vStart);CHKERRQ(ierr); 883 for (i=0;i<nv;i++) { 884 ierr = PetscViewerASCIIPrintf(viewer," %D",(PetscInt)vids[i]);CHKERRQ(ierr); 885 } 886 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 887 vp--; 888 break; 889 case 4: /* face */ 890 ierr = DMPlexGetTreeChildren(dm,parent,&numChildren,&children);CHKERRQ(ierr); 891 for (n=0;n<numChildren;n++) { 892 ierr = DMLabelGetValue(dlabel,children[n],&depth);CHKERRQ(ierr); 893 if (!depth) { 894 const PetscInt *hvsupp,*hesupp,*cone; 895 PetscInt hvsuppSize,hesuppSize,coneSize; 896 PetscInt hv = children[n],he = -1,f; 897 898 ierr = PetscMemzero(skip,maxsupp*sizeof(PetscBool));CHKERRQ(ierr); 899 ierr = DMPlexGetSupportSize(dm,hv,&hvsuppSize);CHKERRQ(ierr); 900 ierr = DMPlexGetSupport(dm,hv,&hvsupp);CHKERRQ(ierr); 901 for (i=0;i<hvsuppSize;i++) { 902 PetscInt ep; 903 ierr = DMPlexGetTreeParent(dm,hvsupp[i],&ep,NULL);CHKERRQ(ierr); 904 if (ep != hvsupp[i]) { 905 he = hvsupp[i]; 906 } else { 907 skip[i] = PETSC_TRUE; 908 } 909 } 910 if (he == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Vertex %D support size %D: hanging edge not found",hv,hvsuppSize); 911 ierr = DMPlexGetCone(dm,he,&cone);CHKERRQ(ierr); 912 vids[0] = (int)((cone[0] == hv) ? cone[1] : cone[0]); 913 ierr = DMPlexGetSupportSize(dm,he,&hesuppSize);CHKERRQ(ierr); 914 ierr = DMPlexGetSupport(dm,he,&hesupp);CHKERRQ(ierr); 915 for (f=0;f<hesuppSize;f++) { 916 PetscInt j; 917 918 ierr = DMPlexGetCone(dm,hesupp[f],&cone);CHKERRQ(ierr); 919 ierr = DMPlexGetConeSize(dm,hesupp[f],&coneSize);CHKERRQ(ierr); 920 for (j=0;j<coneSize;j++) { 921 PetscInt k; 922 for (k=0;k<hvsuppSize;k++) { 923 if (hvsupp[k] == cone[j]) { 924 skip[k] = PETSC_TRUE; 925 break; 926 } 927 } 928 } 929 } 930 for (i=0;i<hvsuppSize;i++) { 931 if (!skip[i]) { 932 ierr = DMPlexGetCone(dm,hvsupp[i],&cone);CHKERRQ(ierr); 933 vids[1] = (int)((cone[0] == hv) ? cone[1] : cone[0]); 934 } 935 } 936 ierr = PetscViewerASCIIPrintf(viewer,"%D",hv-vStart);CHKERRQ(ierr); 937 for (i=0;i<2;i++) { 938 ierr = PetscViewerASCIIPrintf(viewer," %D",(PetscInt)(vids[i]-vStart));CHKERRQ(ierr); 939 } 940 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 941 vp--; 942 } 943 } 944 break; 945 default: 946 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Don't know how to deal with support size %D",ssize); 947 } 948 } 949 } 950 ierr = PetscFree(skip);CHKERRQ(ierr); 951 } 952 if (vp) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Unexpected %D hanging vertices",vp); 953 } 954 ierr = PetscBTDestroy(&pown);CHKERRQ(ierr); 955 ierr = PetscBTDestroy(&vown);CHKERRQ(ierr); 956 957 /* vertices */ 958 if (hovec) { /* higher-order meshes */ 959 const char *fec; 960 PetscInt i,n,s; 961 962 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 963 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",vEnd-vStart);CHKERRQ(ierr); 964 ierr = PetscViewerASCIIPrintf(viewer,"nodes\n");CHKERRQ(ierr); 965 ierr = PetscObjectGetName((PetscObject)hovec,&fec);CHKERRQ(ierr); 966 ierr = PetscViewerASCIIPrintf(viewer,"FiniteElementSpace\n");CHKERRQ(ierr); 967 ierr = PetscViewerASCIIPrintf(viewer,"%s\n",fec);CHKERRQ(ierr); 968 ierr = PetscViewerASCIIPrintf(viewer,"VDim: %D\n",sdim);CHKERRQ(ierr); 969 ierr = PetscViewerASCIIPrintf(viewer,"Ordering: 1\n\n");CHKERRQ(ierr); /*Ordering::byVDIM*/ 970 ierr = VecGetArrayRead(hovec,&array);CHKERRQ(ierr); 971 ierr = VecGetLocalSize(hovec,&n);CHKERRQ(ierr); 972 if (n%sdim) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_USER,"Size of local coordinate vector %D incompatible with space dimension %D",n,sdim); 973 for (i=0;i<n/sdim;i++) { 974 for (s=0;s<sdim;s++) { 975 ierr = PetscViewerASCIIPrintf(viewer,fmt,PetscRealPart(array[i*sdim+s]));CHKERRQ(ierr); 976 } 977 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 978 } 979 ierr = VecRestoreArrayRead(hovec,&array);CHKERRQ(ierr); 980 } else { 981 ierr = VecGetLocalSize(coordinates,&nvert);CHKERRQ(ierr); 982 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 983 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",nvert/sdim);CHKERRQ(ierr); 984 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",sdim);CHKERRQ(ierr); 985 ierr = VecGetArrayRead(coordinates,&array);CHKERRQ(ierr); 986 for (p=0;p<nvert/sdim;p++) { 987 PetscInt s; 988 for (s=0;s<sdim;s++) { 989 ierr = PetscViewerASCIIPrintf(viewer,fmt,PetscRealPart(array[p*sdim+s]));CHKERRQ(ierr); 990 } 991 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 992 } 993 ierr = VecRestoreArrayRead(coordinates,&array);CHKERRQ(ierr); 994 } 995 PetscFunctionReturn(0); 996 } 997 998 PetscErrorCode DMPlexView_GLVis(DM dm, PetscViewer viewer) 999 { 1000 PetscErrorCode ierr; 1001 PetscFunctionBegin; 1002 ierr = DMView_GLVis(dm,viewer,DMPlexView_GLVis_ASCII);CHKERRQ(ierr); 1003 PetscFunctionReturn(0); 1004 } 1005