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,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 = PetscObjectQuery((PetscObject)dm,"_glvis_plex_gnum",(PetscObject*)&globalNum);CHKERRQ(ierr); 65 if (!globalNum) { 66 ierr = DMPlexCreateCellNumbering_Internal(dm,PETSC_TRUE,&globalNum);CHKERRQ(ierr); 67 ierr = PetscObjectCompose((PetscObject)dm,"_glvis_plex_gnum",(PetscObject)globalNum);CHKERRQ(ierr); 68 ierr = PetscObjectDereference((PetscObject)globalNum);CHKERRQ(ierr); 69 } 70 ierr = ISGetIndices(globalNum,&gNum);CHKERRQ(ierr); 71 ierr = PetscBTCreate(vEnd-vStart,&vown);CHKERRQ(ierr); 72 for (c = cStart, totc = 0; c < cEnd; c++) { 73 if (gNum[c-cStart] >= 0) { 74 PetscInt i,numPoints,*points = NULL; 75 76 totc++; 77 ierr = DMPlexGetTransitiveClosure(dm,c,PETSC_TRUE,&numPoints,&points);CHKERRQ(ierr); 78 for (i=0;i<numPoints*2;i+= 2) { 79 if ((points[i] >= vStart) && (points[i] < vEnd)) { 80 ierr = PetscBTSet(vown,points[i]-vStart);CHKERRQ(ierr); 81 } 82 } 83 ierr = DMPlexRestoreTransitiveClosure(dm,c,PETSC_TRUE,&numPoints,&points);CHKERRQ(ierr); 84 } 85 } 86 for (f=0,Nv=0;f<vEnd-vStart;f++) if (PetscLikely(PetscBTLookup(vown,f))) Nv++; 87 88 ierr = DMCreateLocalVector(dm,&xlocal);CHKERRQ(ierr); 89 ierr = VecGetLocalSize(xlocal,&totdofs);CHKERRQ(ierr); 90 ierr = DMGetSection(dm,&s);CHKERRQ(ierr); 91 ierr = PetscSectionGetNumFields(s,&nfields);CHKERRQ(ierr); 92 for (f=0,maxfields=0;f<nfields;f++) { 93 PetscInt bs; 94 95 ierr = PetscSectionGetFieldComponents(s,f,&bs);CHKERRQ(ierr); 96 maxfields += bs; 97 } 98 ierr = PetscCalloc7(maxfields,&fieldname,maxfields,&nlocal,maxfields,&bs,maxfields,&dims,maxfields,&fec_type,totdofs,&idxs,maxfields,&Ufield);CHKERRQ(ierr); 99 ierr = PetscNew(&ctx);CHKERRQ(ierr); 100 ierr = PetscCalloc1(maxfields,&ctx->scctx);CHKERRQ(ierr); 101 ierr = DMGetDS(dm,&ds);CHKERRQ(ierr); 102 if (ds) { 103 for (f=0;f<nfields;f++) { 104 const char* fname; 105 char name[256]; 106 PetscObject disc; 107 size_t len; 108 109 ierr = PetscSectionGetFieldName(s,f,&fname);CHKERRQ(ierr); 110 ierr = PetscStrlen(fname,&len);CHKERRQ(ierr); 111 if (len) { 112 ierr = PetscStrcpy(name,fname);CHKERRQ(ierr); 113 } else { 114 ierr = PetscSNPrintf(name,256,"Field%D",f);CHKERRQ(ierr); 115 } 116 ierr = PetscDSGetDiscretization(ds,f,&disc);CHKERRQ(ierr); 117 if (disc) { 118 PetscClassId id; 119 PetscInt Nc; 120 char fec[64]; 121 122 ierr = PetscObjectGetClassId(disc, &id);CHKERRQ(ierr); 123 if (id == PETSCFE_CLASSID) { 124 PetscFE fem = (PetscFE)disc; 125 PetscDualSpace sp; 126 PetscDualSpaceType spname; 127 PetscInt order; 128 PetscBool islag,continuous,H1 = PETSC_TRUE; 129 130 ierr = PetscFEGetNumComponents(fem,&Nc);CHKERRQ(ierr); 131 ierr = PetscFEGetDualSpace(fem,&sp);CHKERRQ(ierr); 132 ierr = PetscDualSpaceGetType(sp,&spname);CHKERRQ(ierr); 133 ierr = PetscStrcmp(spname,PETSCDUALSPACELAGRANGE,&islag);CHKERRQ(ierr); 134 if (!islag) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Unsupported dual space"); 135 ierr = PetscDualSpaceLagrangeGetContinuity(sp,&continuous);CHKERRQ(ierr); 136 if (!continuous) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Discontinuous space visualization currently unsupported"); 137 ierr = PetscDualSpaceGetOrder(sp,&order);CHKERRQ(ierr); 138 if (continuous && order > 0) { 139 ierr = PetscSNPrintf(fec,64,"FiniteElementCollection: H1_%DD_P1",dim);CHKERRQ(ierr); 140 } else { 141 H1 = PETSC_FALSE; 142 ierr = PetscSNPrintf(fec,64,"FiniteElementCollection: L2_%DD_P%D",dim,order);CHKERRQ(ierr); 143 } 144 ierr = PetscStrallocpy(name,&fieldname[ctx->nf]);CHKERRQ(ierr); 145 bs[ctx->nf] = Nc; 146 dims[ctx->nf] = dim; 147 if (H1) { 148 nlocal[ctx->nf] = Nc * Nv; 149 ierr = PetscStrallocpy(fec,&fec_type[ctx->nf]);CHKERRQ(ierr); 150 ierr = VecCreateSeq(PETSC_COMM_SELF,Nv*Nc,&xfield);CHKERRQ(ierr); 151 for (i=0,cum=0;i<vEnd-vStart;i++) { 152 PetscInt j,off; 153 154 if (PetscUnlikely(!PetscBTLookup(vown,i))) continue; 155 ierr = PetscSectionGetFieldOffset(s,i+vStart,f,&off);CHKERRQ(ierr); 156 for (j=0;j<Nc;j++) idxs[cum++] = off + j; 157 } 158 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)xlocal),Nv*Nc,idxs,PETSC_USE_POINTER,&isfield);CHKERRQ(ierr); 159 } else { 160 nlocal[ctx->nf] = Nc * totc; 161 ierr = PetscStrallocpy(fec,&fec_type[ctx->nf]);CHKERRQ(ierr); 162 ierr = VecCreateSeq(PETSC_COMM_SELF,Nc*totc,&xfield);CHKERRQ(ierr); 163 for (i=0,cum=0;i<cEnd-cStart;i++) { 164 PetscInt j,off; 165 166 if (PetscUnlikely(gNum[i] < 0)) continue; 167 ierr = PetscSectionGetFieldOffset(s,i+cStart,f,&off);CHKERRQ(ierr); 168 for (j=0;j<Nc;j++) idxs[cum++] = off + j; 169 } 170 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)xlocal),totc*Nc,idxs,PETSC_USE_POINTER,&isfield);CHKERRQ(ierr); 171 } 172 ierr = VecScatterCreate(xlocal,isfield,xfield,NULL,&ctx->scctx[ctx->nf]);CHKERRQ(ierr); 173 ierr = VecDestroy(&xfield);CHKERRQ(ierr); 174 ierr = ISDestroy(&isfield);CHKERRQ(ierr); 175 ctx->nf++; 176 } else if (id == PETSCFV_CLASSID) { 177 PetscInt c; 178 179 ierr = PetscFVGetNumComponents((PetscFV)disc,&Nc);CHKERRQ(ierr); 180 ierr = PetscSNPrintf(fec,64,"FiniteElementCollection: L2_%DD_P0",dim);CHKERRQ(ierr); 181 for (c = 0; c < Nc; c++) { 182 char comp[256]; 183 ierr = PetscSNPrintf(comp,256,"%s-Comp%D",name,c);CHKERRQ(ierr); 184 ierr = PetscStrallocpy(comp,&fieldname[ctx->nf]);CHKERRQ(ierr); 185 bs[ctx->nf] = 1; /* Does PetscFV support components with different block size? */ 186 nlocal[ctx->nf] = totc; 187 dims[ctx->nf] = dim; 188 ierr = PetscStrallocpy(fec,&fec_type[ctx->nf]);CHKERRQ(ierr); 189 ierr = VecCreateSeq(PETSC_COMM_SELF,totc,&xfield);CHKERRQ(ierr); 190 for (i=0,cum=0;i<cEnd-cStart;i++) { 191 PetscInt off; 192 193 if (PetscUnlikely(gNum[i])<0) continue; 194 ierr = PetscSectionGetFieldOffset(s,i+cStart,f,&off);CHKERRQ(ierr); 195 idxs[cum++] = off + c; 196 } 197 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)xlocal),totc,idxs,PETSC_USE_POINTER,&isfield);CHKERRQ(ierr); 198 ierr = VecScatterCreate(xlocal,isfield,xfield,NULL,&ctx->scctx[ctx->nf]);CHKERRQ(ierr); 199 ierr = VecDestroy(&xfield);CHKERRQ(ierr); 200 ierr = ISDestroy(&isfield);CHKERRQ(ierr); 201 ctx->nf++; 202 } 203 } else SETERRQ1(PetscObjectComm((PetscObject)dm),PETSC_ERR_ARG_WRONG,"Unknown discretization type for field %D",f); 204 } else SETERRQ1(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Missing discretization for field %D",f); 205 } 206 } else SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Needs a DS attached to the DM"); 207 ierr = PetscBTDestroy(&vown);CHKERRQ(ierr); 208 ierr = VecDestroy(&xlocal);CHKERRQ(ierr); 209 ierr = ISRestoreIndices(globalNum,&gNum);CHKERRQ(ierr); 210 211 /* create work vectors */ 212 for (f=0;f<ctx->nf;f++) { 213 ierr = VecCreateMPI(PetscObjectComm((PetscObject)dm),nlocal[f],PETSC_DECIDE,&Ufield[f]);CHKERRQ(ierr); 214 ierr = PetscObjectSetName((PetscObject)Ufield[f],fieldname[f]);CHKERRQ(ierr); 215 ierr = VecSetBlockSize(Ufield[f],bs[f]);CHKERRQ(ierr); 216 ierr = VecSetDM(Ufield[f],dm);CHKERRQ(ierr); 217 } 218 219 /* customize the viewer */ 220 ierr = PetscViewerGLVisSetFields(viewer,ctx->nf,(const char**)fec_type,dims,DMPlexSampleGLVisFields_Private,(PetscObject*)Ufield,ctx,DestroyGLVisViewerCtx_Private);CHKERRQ(ierr); 221 for (f=0;f<ctx->nf;f++) { 222 ierr = PetscFree(fieldname[f]);CHKERRQ(ierr); 223 ierr = PetscFree(fec_type[f]);CHKERRQ(ierr); 224 ierr = VecDestroy(&Ufield[f]);CHKERRQ(ierr); 225 } 226 ierr = PetscFree7(fieldname,nlocal,bs,dims,fec_type,idxs,Ufield);CHKERRQ(ierr); 227 PetscFunctionReturn(0); 228 } 229 230 typedef enum {MFEM_POINT=0,MFEM_SEGMENT,MFEM_TRIANGLE,MFEM_SQUARE,MFEM_TETRAHEDRON,MFEM_CUBE,MFEM_PRISM,MFEM_UNDEF} MFEM_cid; 231 232 MFEM_cid mfem_table_cid[4][7] = { {MFEM_POINT,MFEM_UNDEF,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF,MFEM_UNDEF}, 233 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF,MFEM_UNDEF}, 234 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_TRIANGLE,MFEM_SQUARE ,MFEM_UNDEF,MFEM_UNDEF}, 235 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_UNDEF ,MFEM_TETRAHEDRON,MFEM_PRISM,MFEM_CUBE } }; 236 237 MFEM_cid mfem_table_cid_unint[4][9] = { {MFEM_POINT,MFEM_UNDEF,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF,MFEM_PRISM,MFEM_UNDEF,MFEM_UNDEF}, 238 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_UNDEF ,MFEM_UNDEF ,MFEM_UNDEF,MFEM_PRISM,MFEM_UNDEF,MFEM_UNDEF}, 239 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_TRIANGLE,MFEM_SQUARE ,MFEM_UNDEF,MFEM_PRISM,MFEM_UNDEF,MFEM_UNDEF}, 240 {MFEM_POINT,MFEM_UNDEF,MFEM_SEGMENT,MFEM_UNDEF ,MFEM_TETRAHEDRON,MFEM_UNDEF,MFEM_PRISM,MFEM_UNDEF,MFEM_CUBE } }; 241 242 static PetscErrorCode DMPlexGetPointMFEMCellID_Internal(DM dm, DMLabel label, PetscInt minl, PetscInt p, PetscInt *mid, PetscInt *cid) 243 { 244 DMLabel dlabel; 245 PetscInt depth,csize,pdepth,dim; 246 PetscErrorCode ierr; 247 248 PetscFunctionBegin; 249 ierr = DMPlexGetDepthLabel(dm,&dlabel);CHKERRQ(ierr); 250 ierr = DMLabelGetValue(dlabel,p,&pdepth);CHKERRQ(ierr); 251 ierr = DMPlexGetConeSize(dm,p,&csize);CHKERRQ(ierr); 252 ierr = DMPlexGetDepth(dm,&depth);CHKERRQ(ierr); 253 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 254 if (label) { 255 ierr = DMLabelGetValue(label,p,mid);CHKERRQ(ierr); 256 *mid = *mid - minl + 1; /* MFEM does not like negative markers */ 257 } else *mid = 1; 258 if (depth >=0 && dim != depth) { /* not interpolated, it assumes cell-vertex mesh */ 259 #if defined PETSC_USE_DEBUG 260 if (dim < 0 || dim > 3) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Dimension %D",dim); 261 if (csize > 8) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Found cone size %D for point %D",csize,p); 262 if (depth != 1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Found depth %D for point %D. You should interpolate the mesh first",depth,p); 263 #endif 264 *cid = mfem_table_cid_unint[dim][csize]; 265 } else { 266 #if defined PETSC_USE_DEBUG 267 if (csize > 6) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cone size %D for point %D",csize,p); 268 if (pdepth < 0 || pdepth > 3) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Depth %D for point %D",csize,p); 269 #endif 270 *cid = mfem_table_cid[pdepth][csize]; 271 } 272 PetscFunctionReturn(0); 273 } 274 275 static PetscErrorCode DMPlexGetPointMFEMVertexIDs_Internal(DM dm, PetscInt p, PetscSection csec, PetscInt *nv, int vids[]) 276 { 277 PetscInt dim,sdim,dof = 0,off = 0,i,q,vStart,vEnd,numPoints,*points = NULL; 278 PetscErrorCode ierr; 279 280 PetscFunctionBegin; 281 ierr = DMPlexGetDepthStratum(dm,0,&vStart,&vEnd);CHKERRQ(ierr); 282 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 283 sdim = dim; 284 if (csec) { 285 PetscInt sStart,sEnd; 286 287 ierr = DMGetCoordinateDim(dm,&sdim);CHKERRQ(ierr); 288 ierr = PetscSectionGetChart(csec,&sStart,&sEnd);CHKERRQ(ierr); 289 ierr = PetscSectionGetOffset(csec,vStart,&off);CHKERRQ(ierr); 290 off = off/sdim; 291 if (p >= sStart && p < sEnd) { 292 ierr = PetscSectionGetDof(csec,p,&dof);CHKERRQ(ierr); 293 } 294 } 295 if (!dof) { 296 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&numPoints,&points);CHKERRQ(ierr); 297 for (i=0,q=0;i<numPoints*2;i+= 2) 298 if ((points[i] >= vStart) && (points[i] < vEnd)) 299 vids[q++] = (int)(points[i]-vStart+off); 300 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&numPoints,&points);CHKERRQ(ierr); 301 } else { 302 ierr = PetscSectionGetOffset(csec,p,&off);CHKERRQ(ierr); 303 ierr = PetscSectionGetDof(csec,p,&dof);CHKERRQ(ierr); 304 for (q=0;q<dof/sdim;q++) vids[q] = (int)(off/sdim + q); 305 } 306 *nv = q; 307 PetscFunctionReturn(0); 308 } 309 310 static PetscErrorCode DMPlexGlvisInvertHybrid(PetscInt cid,int vids[]) 311 { 312 int tmp; 313 314 PetscFunctionBegin; 315 if (cid == MFEM_SQUARE) { /* PETSc stores hybrid quads not as counter-clockwise quad */ 316 tmp = vids[2]; 317 vids[2] = vids[3]; 318 vids[3] = tmp; 319 } else if (cid == MFEM_PRISM) { /* MFEM uses a different orientation for the base and top triangles of the wedge */ 320 tmp = vids[1]; 321 vids[1] = vids[2]; 322 vids[2] = tmp; 323 tmp = vids[4]; 324 vids[4] = vids[5]; 325 vids[5] = tmp; 326 } 327 PetscFunctionReturn(0); 328 } 329 330 /* 331 ASCII visualization/dump: full support for simplices and tensor product cells. It supports AMR 332 Higher order meshes are also supported 333 */ 334 static PetscErrorCode DMPlexView_GLVis_ASCII(DM dm, PetscViewer viewer) 335 { 336 DMLabel label; 337 PetscSection coordSection,parentSection; 338 Vec coordinates,hovec; 339 const PetscScalar *array; 340 PetscInt bf,p,sdim,dim,depth,novl,minl; 341 PetscInt cStart,cEnd,cEndInterior,vStart,vEnd,nvert; 342 PetscMPIInt size; 343 PetscBool localized,isascii; 344 PetscBool enable_mfem,enable_boundary,enable_ncmesh; 345 PetscBT pown,vown; 346 PetscErrorCode ierr; 347 PetscContainer glvis_container; 348 PetscBool cellvertex = PETSC_FALSE, periodic, enabled = PETSC_TRUE; 349 PetscBool enable_emark,enable_bmark; 350 const char *fmt; 351 char emark[64] = "",bmark[64] = ""; 352 353 PetscFunctionBegin; 354 PetscValidHeaderSpecific(dm,DM_CLASSID,1); 355 PetscValidHeaderSpecific(viewer,PETSC_VIEWER_CLASSID,2); 356 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&isascii);CHKERRQ(ierr); 357 if (!isascii) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Viewer must be of type VIEWERASCII"); 358 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)viewer),&size);CHKERRQ(ierr); 359 if (size > 1) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Use single sequential viewers for parallel visualization"); 360 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 361 362 /* get container: determines if a process visualizes is portion of the data or not */ 363 ierr = PetscObjectQuery((PetscObject)viewer,"_glvis_info_container",(PetscObject*)&glvis_container);CHKERRQ(ierr); 364 if (!glvis_container) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_PLIB,"Missing GLVis container"); 365 { 366 PetscViewerGLVisInfo glvis_info; 367 ierr = PetscContainerGetPointer(glvis_container,(void**)&glvis_info);CHKERRQ(ierr); 368 enabled = glvis_info->enabled; 369 fmt = glvis_info->fmt; 370 } 371 372 /* Users can attach a coordinate vector to the DM in case they have a higher-order mesh 373 DMPlex does not currently support HO meshes, so there's no API for this */ 374 ierr = PetscObjectQuery((PetscObject)dm,"_glvis_mesh_coords",(PetscObject*)&hovec);CHKERRQ(ierr); 375 376 ierr = DMPlexGetHybridBounds(dm, &cEndInterior, NULL, NULL, NULL);CHKERRQ(ierr); 377 ierr = DMPlexGetHeightStratum(dm,0,&cStart,&cEnd);CHKERRQ(ierr); 378 cEndInterior = cEndInterior < 0 ? cEnd : cEndInterior; 379 ierr = DMPlexGetDepthStratum(dm,0,&vStart,&vEnd);CHKERRQ(ierr); 380 ierr = DMGetPeriodicity(dm,&periodic,NULL,NULL,NULL);CHKERRQ(ierr); 381 ierr = DMGetCoordinatesLocalized(dm,&localized);CHKERRQ(ierr); 382 if (periodic && !localized && !hovec) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Coordinates need to be localized"); 383 ierr = DMGetCoordinateSection(dm,&coordSection);CHKERRQ(ierr); 384 ierr = DMGetCoordinateDim(dm,&sdim);CHKERRQ(ierr); 385 ierr = DMGetCoordinatesLocal(dm,&coordinates);CHKERRQ(ierr); 386 if (!coordinates && !hovec) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Missing local coordinates vector"); 387 388 /* 389 a couple of sections of the mesh specification are disabled 390 - boundary: the boundary is not needed for proper mesh visualization unless we want to visualize boundary attributes or we have high-order coordinates in 3D (topologically) 391 - vertex_parents: used for non-conforming meshes only when we want to use MFEM as a discretization package 392 and be able to derefine the mesh (MFEM does not currently have to ability to read ncmeshes in parallel) 393 */ 394 enable_boundary = PETSC_FALSE; 395 enable_ncmesh = PETSC_FALSE; 396 enable_mfem = PETSC_FALSE; 397 enable_emark = PETSC_FALSE; 398 enable_bmark = PETSC_FALSE; 399 /* I'm tired of problems with negative values in the markers, disable them */ 400 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)dm),((PetscObject)dm)->prefix,"GLVis PetscViewer DMPlex Options","PetscViewer");CHKERRQ(ierr); 401 ierr = PetscOptionsBool("-viewer_glvis_dm_plex_enable_boundary","Enable boundary section in mesh representation",NULL,enable_boundary,&enable_boundary,NULL);CHKERRQ(ierr); 402 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); 403 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); 404 ierr = PetscOptionsString("-viewer_glvis_dm_plex_emarker","String for the material id label",NULL,emark,emark,sizeof(emark),&enable_emark);CHKERRQ(ierr); 405 ierr = PetscOptionsString("-viewer_glvis_dm_plex_bmarker","String for the boundary id label",NULL,bmark,bmark,sizeof(bmark),&enable_bmark);CHKERRQ(ierr); 406 ierr = PetscOptionsEnd();CHKERRQ(ierr); 407 if (enable_bmark) enable_boundary = PETSC_TRUE; 408 409 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)dm),&size);CHKERRQ(ierr); 410 if (enable_ncmesh && size > 1) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Not supported in parallel"); 411 ierr = DMPlexGetDepth(dm,&depth);CHKERRQ(ierr); 412 if (enable_boundary && depth >= 0 && dim != depth) SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Mesh must be interpolated. " 413 "Alternatively, run with -viewer_glvis_dm_plex_enable_boundary 0"); 414 if (enable_ncmesh && depth >= 0 && dim != depth) SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Mesh must be interpolated. " 415 "Alternatively, run with -viewer_glvis_dm_plex_enable_ncmesh 0"); 416 if (depth >=0 && dim != depth) { /* not interpolated, it assumes cell-vertex mesh */ 417 if (depth != 1) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unsupported depth %D. You should interpolate the mesh first",depth); 418 cellvertex = PETSC_TRUE; 419 } 420 421 /* Identify possible cells in the overlap */ 422 novl = 0; 423 pown = NULL; 424 if (size > 1) { 425 IS globalNum = NULL; 426 const PetscInt *gNum; 427 PetscBool ovl = PETSC_FALSE; 428 429 ierr = PetscObjectQuery((PetscObject)dm,"_glvis_plex_gnum",(PetscObject*)&globalNum);CHKERRQ(ierr); 430 if (!globalNum) { 431 ierr = DMPlexCreateCellNumbering_Internal(dm,PETSC_TRUE,&globalNum);CHKERRQ(ierr); 432 ierr = PetscObjectCompose((PetscObject)dm,"_glvis_plex_gnum",(PetscObject)globalNum);CHKERRQ(ierr); 433 ierr = PetscObjectDereference((PetscObject)globalNum);CHKERRQ(ierr); 434 } 435 ierr = ISGetIndices(globalNum,&gNum);CHKERRQ(ierr); 436 for (p=cStart; p<cEnd; p++) { 437 if (gNum[p-cStart] < 0) { 438 ovl = PETSC_TRUE; 439 novl++; 440 } 441 } 442 if (ovl) { 443 /* it may happen that pown get not destroyed, if the user closes the window while this function is running. 444 TODO: garbage collector? attach pown to dm? */ 445 ierr = PetscBTCreate(cEnd-cStart,&pown);CHKERRQ(ierr); 446 for (p=cStart; p<cEnd; p++) { 447 if (gNum[p-cStart] < 0) continue; 448 else { 449 ierr = PetscBTSet(pown,p-cStart);CHKERRQ(ierr); 450 } 451 } 452 } 453 ierr = ISRestoreIndices(globalNum,&gNum);CHKERRQ(ierr); 454 } 455 456 /* return if this process is disabled */ 457 if (!enabled) { 458 ierr = PetscViewerASCIIPrintf(viewer,"MFEM mesh v1.1\n");CHKERRQ(ierr); 459 ierr = PetscViewerASCIIPrintf(viewer,"\ndimension\n");CHKERRQ(ierr); 460 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",dim);CHKERRQ(ierr); 461 ierr = PetscViewerASCIIPrintf(viewer,"\nelements\n");CHKERRQ(ierr); 462 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 463 ierr = PetscViewerASCIIPrintf(viewer,"\nboundary\n");CHKERRQ(ierr); 464 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 465 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 466 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 467 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",sdim);CHKERRQ(ierr); 468 ierr = PetscBTDestroy(&pown);CHKERRQ(ierr); 469 PetscFunctionReturn(0); 470 } 471 472 if (enable_mfem) { 473 if (periodic && !hovec) { /* we need to generate a vector of L2 coordinates, as this is how MFEM handles periodic meshes */ 474 PetscInt vpc = 0; 475 char fec[64]; 476 int vids[8] = {0,1,2,3,4,5,6,7}; 477 int hexv[8] = {0,1,3,2,4,5,7,6}, tetv[4] = {0,1,2,3}; 478 int quadv[8] = {0,1,3,2}, triv[3] = {0,1,2}; 479 int *dof = NULL; 480 PetscScalar *array,*ptr; 481 482 ierr = PetscSNPrintf(fec,sizeof(fec),"FiniteElementCollection: L2_T1_%DD_P1",dim);CHKERRQ(ierr); 483 if (cEndInterior < cEnd) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Support for hybrid meshed not currently implemented"); 484 if (cEnd-cStart) { 485 PetscInt fpc; 486 487 ierr = DMPlexGetConeSize(dm,cStart,&fpc);CHKERRQ(ierr); 488 switch(dim) { 489 case 1: 490 vpc = 2; 491 dof = hexv; 492 break; 493 case 2: 494 switch (fpc) { 495 case 3: 496 vpc = 3; 497 dof = triv; 498 break; 499 case 4: 500 vpc = 4; 501 dof = quadv; 502 break; 503 default: 504 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 505 break; 506 } 507 break; 508 case 3: 509 switch (fpc) { 510 case 4: /* TODO: still need to understand L2 ordering for tets */ 511 vpc = 4; 512 dof = tetv; 513 SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled tethraedral case"); 514 break; 515 case 6: 516 if (cellvertex) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: vertices per cell %D",fpc); 517 vpc = 8; 518 dof = hexv; 519 break; 520 case 8: 521 if (!cellvertex) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 522 vpc = 8; 523 dof = hexv; 524 break; 525 default: 526 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 527 break; 528 } 529 break; 530 default: 531 SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Unhandled dim"); 532 break; 533 } 534 ierr = DMPlexInvertCell(dim,vpc,vids);CHKERRQ(ierr); 535 } 536 if (!dof) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_PLIB,"Missing dofs"); 537 ierr = VecCreateSeq(PETSC_COMM_SELF,(cEnd-cStart-novl)*vpc*sdim,&hovec);CHKERRQ(ierr); 538 ierr = PetscObjectCompose((PetscObject)dm,"_glvis_mesh_coords",(PetscObject)hovec);CHKERRQ(ierr); 539 ierr = PetscObjectDereference((PetscObject)hovec);CHKERRQ(ierr); 540 ierr = PetscObjectSetName((PetscObject)hovec,fec);CHKERRQ(ierr); 541 ierr = VecGetArray(hovec,&array);CHKERRQ(ierr); 542 ptr = array; 543 for (p=cStart;p<cEnd;p++) { 544 PetscInt csize,v,d; 545 PetscScalar *vals = NULL; 546 547 if (PetscUnlikely(pown && !PetscBTLookup(pown,p-cStart))) continue; 548 ierr = DMPlexVecGetClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 549 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); 550 for (v=0;v<vpc;v++) { 551 for (d=0;d<sdim;d++) { 552 ptr[sdim*dof[v]+d] = vals[sdim*vids[v]+d]; 553 } 554 } 555 ptr += vpc*sdim; 556 ierr = DMPlexVecRestoreClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 557 } 558 ierr = VecRestoreArray(hovec,&array);CHKERRQ(ierr); 559 } 560 } 561 /* if we have high-order coordinates in 3D, we need to specify the boundary */ 562 if (hovec && dim == 3) enable_boundary = PETSC_TRUE; 563 564 /* header */ 565 ierr = PetscViewerASCIIPrintf(viewer,"MFEM mesh v1.1\n");CHKERRQ(ierr); 566 567 /* topological dimension */ 568 ierr = PetscViewerASCIIPrintf(viewer,"\ndimension\n");CHKERRQ(ierr); 569 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",dim);CHKERRQ(ierr); 570 571 /* elements */ 572 minl = 1; 573 label = NULL; 574 if (enable_emark) { 575 PetscInt lminl = PETSC_MAX_INT; 576 577 ierr = DMGetLabel(dm,emark,&label);CHKERRQ(ierr); 578 if (label) { 579 IS vals; 580 PetscInt ldef; 581 582 ierr = DMLabelGetDefaultValue(label,&ldef);CHKERRQ(ierr); 583 ierr = DMLabelGetValueIS(label,&vals);CHKERRQ(ierr); 584 ierr = ISGetMinMax(vals,&lminl,NULL);CHKERRQ(ierr); 585 ierr = ISDestroy(&vals);CHKERRQ(ierr); 586 lminl = PetscMin(ldef,lminl); 587 } 588 ierr = MPIU_Allreduce(&lminl,&minl,1,MPIU_INT,MPI_MIN,PetscObjectComm((PetscObject)dm));CHKERRQ(ierr); 589 if (minl == PETSC_MAX_INT) minl = 1; 590 } 591 ierr = PetscViewerASCIIPrintf(viewer,"\nelements\n");CHKERRQ(ierr); 592 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",cEnd-cStart-novl);CHKERRQ(ierr); 593 for (p=cStart;p<cEnd;p++) { 594 int vids[8]; 595 PetscInt i,nv = 0,cid = -1,mid = 1; 596 597 if (PetscUnlikely(pown && !PetscBTLookup(pown,p-cStart))) continue; 598 ierr = DMPlexGetPointMFEMCellID_Internal(dm,label,minl,p,&mid,&cid);CHKERRQ(ierr); 599 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,p,(localized && !hovec) ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 600 ierr = DMPlexInvertCell(dim,nv,vids);CHKERRQ(ierr); 601 if (p >= cEndInterior) { 602 ierr = DMPlexGlvisInvertHybrid(cid,vids);CHKERRQ(ierr); 603 } 604 ierr = PetscViewerASCIIPrintf(viewer,"%D %D",mid,cid);CHKERRQ(ierr); 605 for (i=0;i<nv;i++) { 606 ierr = PetscViewerASCIIPrintf(viewer," %D",(PetscInt)vids[i]);CHKERRQ(ierr); 607 } 608 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 609 } 610 611 /* boundary */ 612 ierr = PetscViewerASCIIPrintf(viewer,"\nboundary\n");CHKERRQ(ierr); 613 if (!enable_boundary) { 614 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 615 } else { 616 DMLabel perLabel; 617 PetscBT bfaces; 618 PetscInt fStart,fEnd,*fcells; 619 PetscInt *faces = NULL,fpc = 0,vpf = 0, vpc = 0; 620 PetscInt *facesH = NULL,fpcH = 0,vpfH = 0, vpcH = 0; 621 PetscInt fv1[] = {0,1}, 622 fv2tri[] = {0,1, 623 1,2, 624 2,0}, 625 fv2quad[] = {0,1, 626 1,2, 627 2,3, 628 3,0}, 629 fv2quadH[] = {0,1, 630 2,3, 631 0,2, 632 1,3}, 633 fv3tet[] = {0,1,2, 634 0,3,1, 635 0,2,3, 636 2,1,3}, 637 fv3wedge[] = {0,1,2,-1, 638 3,4,5,-1, 639 0,1,3,4, 640 1,2,4,5, 641 2,0,5,3}, 642 fv3hex[] = {0,1,2,3, 643 4,5,6,7, 644 0,3,5,4, 645 2,1,7,6, 646 3,2,6,5, 647 0,4,7,1}; 648 649 /* determine orientation of boundary mesh */ 650 if (cEnd-cStart) { 651 if (cEndInterior < cEnd) { 652 ierr = DMPlexGetConeSize(dm,cEndInterior,&fpcH);CHKERRQ(ierr); 653 } 654 if (cEndInterior > cStart) { 655 ierr = DMPlexGetConeSize(dm,cStart,&fpc);CHKERRQ(ierr); 656 } 657 switch(dim) { 658 case 1: 659 if (fpc != 2) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case faces per cell %D",fpc); 660 faces = fv1; 661 vpf = 1; 662 vpc = 2; 663 break; 664 case 2: 665 switch (fpc) { 666 case 0: 667 case 3: 668 faces = fv2tri; 669 vpf = 2; 670 vpc = 3; 671 if (fpcH == 4) { 672 facesH = fv2quadH; 673 vpfH = 2; 674 vpcH = 4; 675 } else if (fpcH) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case hybrid faces per cell %D",fpcH); 676 break; 677 case 4: 678 faces = fv2quad; 679 vpf = 2; 680 vpc = 4; 681 if (fpcH) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case hybrid faces per cell %D",fpcH); 682 break; 683 default: 684 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 685 break; 686 } 687 break; 688 case 3: 689 switch (fpc) { 690 case 0: 691 case 4: 692 faces = fv3tet; 693 vpf = 3; 694 vpc = 4; 695 if (fpcH == 5) { 696 facesH = fv3wedge; 697 vpfH = -4; 698 vpcH = 6; 699 } else if (fpcH) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case hybrid faces per cell %D",fpcH); 700 break; 701 case 6: 702 faces = fv3hex; 703 vpf = 4; 704 vpc = 8; 705 if (fpcH) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case hybrid faces per cell %D",fpcH); 706 break; 707 default: 708 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 709 break; 710 } 711 break; 712 default: 713 SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Unhandled dim"); 714 break; 715 } 716 } 717 ierr = DMPlexGetHeightStratum(dm,1,&fStart,&fEnd);CHKERRQ(ierr); 718 ierr = PetscBTCreate(fEnd-fStart,&bfaces);CHKERRQ(ierr); 719 ierr = DMPlexGetMaxSizes(dm,NULL,&p);CHKERRQ(ierr); 720 ierr = PetscMalloc1(p,&fcells);CHKERRQ(ierr); 721 ierr = DMGetLabel(dm,"glvis_periodic_cut",&perLabel);CHKERRQ(ierr); 722 if (!perLabel && localized) { /* this periodic cut can be moved up to DMPlex setup */ 723 ierr = DMCreateLabel(dm,"glvis_periodic_cut");CHKERRQ(ierr); 724 ierr = DMGetLabel(dm,"glvis_periodic_cut",&perLabel);CHKERRQ(ierr); 725 ierr = DMLabelSetDefaultValue(perLabel,1);CHKERRQ(ierr); 726 for (p=cStart;p<cEnd;p++) { 727 PetscInt dof, uvpc; 728 729 ierr = PetscSectionGetDof(coordSection,p,&dof);CHKERRQ(ierr); 730 if (dof) { 731 PetscInt v,csize,cellClosureSize,*cellClosure = NULL,*vidxs = NULL; 732 PetscScalar *vals = NULL; 733 if (p < cEndInterior) uvpc = vpc; 734 else uvpc = vpcH; 735 if (dof%sdim) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_USER,"Incompatible number of cell dofs %D and space dimension %D",dof,sdim); 736 if (dof/sdim != uvpc) SETERRQ3(PETSC_COMM_SELF,PETSC_ERR_SUP,"Incompatible number of cell dofs %D, vertices %D and space dim %D",dof/sdim,uvpc,sdim); 737 ierr = DMPlexVecGetClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 738 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&cellClosureSize,&cellClosure);CHKERRQ(ierr); 739 for (v=0;v<cellClosureSize;v++) 740 if (cellClosure[2*v] >= vStart && cellClosure[2*v] < vEnd) { 741 vidxs = cellClosure + 2*v; 742 break; 743 } 744 if (!vidxs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Missing vertices"); 745 for (v=0;v<uvpc;v++) { 746 PetscInt s; 747 748 for (s=0;s<sdim;s++) { 749 if (PetscAbsScalar(vals[v*sdim+s]-vals[v*sdim+s+uvpc*sdim])>PETSC_MACHINE_EPSILON) { 750 ierr = DMLabelSetValue(perLabel,vidxs[2*v],2);CHKERRQ(ierr); 751 } 752 } 753 } 754 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&cellClosureSize,&cellClosure);CHKERRQ(ierr); 755 ierr = DMPlexVecRestoreClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 756 } 757 } 758 if (dim > 1) { 759 PetscInt eEnd,eStart; 760 761 ierr = DMPlexGetDepthStratum(dm,1,&eStart,&eEnd);CHKERRQ(ierr); 762 for (p=eStart;p<eEnd;p++) { 763 const PetscInt *cone; 764 PetscInt coneSize,i; 765 PetscBool ispe = PETSC_TRUE; 766 767 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 768 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 769 for (i=0;i<coneSize;i++) { 770 PetscInt v; 771 772 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 773 ispe = (PetscBool)(ispe && (v==2)); 774 } 775 if (ispe && coneSize) { 776 PetscInt ch, numChildren; 777 const PetscInt *children; 778 779 ierr = DMLabelSetValue(perLabel,p,2);CHKERRQ(ierr); 780 ierr = DMPlexGetTreeChildren(dm,p,&numChildren,&children);CHKERRQ(ierr); 781 for (ch = 0; ch < numChildren; ch++) { 782 ierr = DMLabelSetValue(perLabel,children[ch],2);CHKERRQ(ierr); 783 } 784 } 785 } 786 if (dim > 2) { 787 for (p=fStart;p<fEnd;p++) { 788 const PetscInt *cone; 789 PetscInt coneSize,i; 790 PetscBool ispe = PETSC_TRUE; 791 792 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 793 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 794 for (i=0;i<coneSize;i++) { 795 PetscInt v; 796 797 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 798 ispe = (PetscBool)(ispe && (v==2)); 799 } 800 if (ispe && coneSize) { 801 PetscInt ch, numChildren; 802 const PetscInt *children; 803 804 ierr = DMLabelSetValue(perLabel,p,2);CHKERRQ(ierr); 805 ierr = DMPlexGetTreeChildren(dm,p,&numChildren,&children);CHKERRQ(ierr); 806 for (ch = 0; ch < numChildren; ch++) { 807 ierr = DMLabelSetValue(perLabel,children[ch],2);CHKERRQ(ierr); 808 } 809 } 810 } 811 } 812 } 813 } 814 for (p=fStart;p<fEnd;p++) { 815 const PetscInt *support; 816 PetscInt supportSize; 817 PetscBool isbf = PETSC_FALSE; 818 819 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 820 if (pown) { 821 PetscBool has_owned = PETSC_FALSE, has_ghost = PETSC_FALSE; 822 PetscInt i; 823 824 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 825 for (i=0;i<supportSize;i++) { 826 if (PetscLikely(PetscBTLookup(pown,support[i]-cStart))) has_owned = PETSC_TRUE; 827 else has_ghost = PETSC_TRUE; 828 } 829 isbf = (PetscBool)((supportSize == 1 && has_owned) || (supportSize > 1 && has_owned && has_ghost)); 830 } else { 831 isbf = (PetscBool)(supportSize == 1); 832 } 833 if (!isbf && perLabel) { 834 const PetscInt *cone; 835 PetscInt coneSize,i; 836 837 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 838 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 839 isbf = PETSC_TRUE; 840 for (i=0;i<coneSize;i++) { 841 PetscInt v,d; 842 843 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 844 ierr = DMLabelGetDefaultValue(perLabel,&d);CHKERRQ(ierr); 845 isbf = (PetscBool)(isbf && v != d); 846 } 847 } 848 if (isbf) { 849 ierr = PetscBTSet(bfaces,p-fStart);CHKERRQ(ierr); 850 } 851 } 852 /* count boundary faces */ 853 for (p=fStart,bf=0;p<fEnd;p++) { 854 if (PetscUnlikely(PetscBTLookup(bfaces,p-fStart))) { 855 const PetscInt *support; 856 PetscInt supportSize,c; 857 858 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 859 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 860 for (c=0;c<supportSize;c++) { 861 const PetscInt *cone; 862 PetscInt cell,cl,coneSize; 863 864 cell = support[c]; 865 if (pown && PetscUnlikely(!PetscBTLookup(pown,cell-cStart))) continue; 866 ierr = DMPlexGetCone(dm,cell,&cone);CHKERRQ(ierr); 867 ierr = DMPlexGetConeSize(dm,cell,&coneSize);CHKERRQ(ierr); 868 for (cl=0;cl<coneSize;cl++) { 869 if (cone[cl] == p) { 870 bf += 1; 871 break; 872 } 873 } 874 } 875 } 876 } 877 minl = 1; 878 label = NULL; 879 if (enable_bmark) { 880 PetscInt lminl = PETSC_MAX_INT; 881 882 ierr = DMGetLabel(dm,bmark,&label);CHKERRQ(ierr); 883 if (label) { 884 IS vals; 885 PetscInt ldef; 886 887 ierr = DMLabelGetDefaultValue(label,&ldef);CHKERRQ(ierr); 888 ierr = DMLabelGetValueIS(label,&vals);CHKERRQ(ierr); 889 ierr = ISGetMinMax(vals,&lminl,NULL);CHKERRQ(ierr); 890 ierr = ISDestroy(&vals);CHKERRQ(ierr); 891 lminl = PetscMin(ldef,lminl); 892 } 893 ierr = MPIU_Allreduce(&lminl,&minl,1,MPIU_INT,MPI_MIN,PetscObjectComm((PetscObject)dm));CHKERRQ(ierr); 894 if (minl == PETSC_MAX_INT) minl = 1; 895 } 896 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",bf);CHKERRQ(ierr); 897 for (p=fStart;p<fEnd;p++) { 898 if (PetscUnlikely(PetscBTLookup(bfaces,p-fStart))) { 899 const PetscInt *support; 900 PetscInt supportSize,c,nc = 0; 901 902 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 903 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 904 if (pown) { 905 for (c=0;c<supportSize;c++) { 906 if (PetscLikely(PetscBTLookup(pown,support[c]-cStart))) { 907 fcells[nc++] = support[c]; 908 } 909 } 910 } else for (c=0;c<supportSize;c++) fcells[nc++] = support[c]; 911 for (c=0;c<nc;c++) { 912 const PetscInt *cone; 913 int vids[8]; 914 PetscInt i,coneSize,cell,cl,nv,cid = -1,mid = -1; 915 916 cell = fcells[c]; 917 ierr = DMPlexGetCone(dm,cell,&cone);CHKERRQ(ierr); 918 ierr = DMPlexGetConeSize(dm,cell,&coneSize);CHKERRQ(ierr); 919 for (cl=0;cl<coneSize;cl++) 920 if (cone[cl] == p) 921 break; 922 if (cl == coneSize) continue; 923 924 /* face material id and type */ 925 ierr = DMPlexGetPointMFEMCellID_Internal(dm,label,minl,p,&mid,&cid);CHKERRQ(ierr); 926 ierr = PetscViewerASCIIPrintf(viewer,"%D %D",mid,cid);CHKERRQ(ierr); 927 /* vertex ids */ 928 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,cell,(localized && !hovec) ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 929 if (cell >= cEndInterior) { 930 PetscInt nv = vpfH, inc = vpfH; 931 if (vpfH < 0) { /* Wedge */ 932 if (cl == 0 || cl == 1) nv = 3; 933 else nv = 4; 934 inc = -vpfH; 935 } 936 for (i=0;i<nv;i++) { 937 ierr = PetscViewerASCIIPrintf(viewer," %d",vids[facesH[cl*inc+i]]);CHKERRQ(ierr); 938 } 939 } else { 940 for (i=0;i<vpf;i++) { 941 ierr = PetscViewerASCIIPrintf(viewer," %d",vids[faces[cl*vpf+i]]);CHKERRQ(ierr); 942 } 943 } 944 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 945 bf -= 1; 946 } 947 } 948 } 949 if (bf) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Remaining boundary faces %D",bf); 950 ierr = PetscBTDestroy(&bfaces);CHKERRQ(ierr); 951 ierr = PetscFree(fcells);CHKERRQ(ierr); 952 } 953 954 /* mark owned vertices */ 955 vown = NULL; 956 if (pown) { 957 ierr = PetscBTCreate(vEnd-vStart,&vown);CHKERRQ(ierr); 958 for (p=cStart;p<cEnd;p++) { 959 PetscInt i,closureSize,*closure = NULL; 960 961 if (PetscUnlikely(!PetscBTLookup(pown,p-cStart))) continue; 962 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&closureSize,&closure);CHKERRQ(ierr); 963 for (i=0;i<closureSize;i++) { 964 const PetscInt pp = closure[2*i]; 965 966 if (pp >= vStart && pp < vEnd) { 967 ierr = PetscBTSet(vown,pp-vStart);CHKERRQ(ierr); 968 } 969 } 970 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&closureSize,&closure);CHKERRQ(ierr); 971 } 972 } 973 974 /* vertex_parents (Non-conforming meshes) */ 975 parentSection = NULL; 976 if (enable_ncmesh) { 977 ierr = DMPlexGetTree(dm,&parentSection,NULL,NULL,NULL,NULL);CHKERRQ(ierr); 978 } 979 if (parentSection) { 980 PetscInt vp,gvp; 981 982 for (vp=0,p=vStart;p<vEnd;p++) { 983 DMLabel dlabel; 984 PetscInt parent,depth; 985 986 if (PetscUnlikely(vown && !PetscBTLookup(vown,p-vStart))) continue; 987 ierr = DMPlexGetDepthLabel(dm,&dlabel);CHKERRQ(ierr); 988 ierr = DMLabelGetValue(dlabel,p,&depth);CHKERRQ(ierr); 989 ierr = DMPlexGetTreeParent(dm,p,&parent,NULL);CHKERRQ(ierr); 990 if (parent != p) vp++; 991 } 992 ierr = MPIU_Allreduce(&vp,&gvp,1,MPIU_INT,MPI_SUM,PetscObjectComm((PetscObject)dm));CHKERRQ(ierr); 993 if (gvp) { 994 PetscInt maxsupp; 995 PetscBool *skip = NULL; 996 997 ierr = PetscViewerASCIIPrintf(viewer,"\nvertex_parents\n");CHKERRQ(ierr); 998 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",vp);CHKERRQ(ierr); 999 ierr = DMPlexGetMaxSizes(dm,NULL,&maxsupp);CHKERRQ(ierr); 1000 ierr = PetscMalloc1(maxsupp,&skip);CHKERRQ(ierr); 1001 for (p=vStart;p<vEnd;p++) { 1002 DMLabel dlabel; 1003 PetscInt parent; 1004 1005 if (PetscUnlikely(vown && !PetscBTLookup(vown,p-vStart))) continue; 1006 ierr = DMPlexGetDepthLabel(dm,&dlabel);CHKERRQ(ierr); 1007 ierr = DMPlexGetTreeParent(dm,p,&parent,NULL);CHKERRQ(ierr); 1008 if (parent != p) { 1009 int vids[8] = { -1, -1, -1, -1, -1, -1, -1, -1 }; /* silent overzealous clang static analyzer */ 1010 PetscInt i,nv,ssize,n,numChildren,depth = -1; 1011 const PetscInt *children; 1012 1013 ierr = DMPlexGetConeSize(dm,parent,&ssize);CHKERRQ(ierr); 1014 switch (ssize) { 1015 case 2: /* edge */ 1016 nv = 0; 1017 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,parent,localized ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 1018 ierr = DMPlexInvertCell(dim,nv,vids);CHKERRQ(ierr); 1019 ierr = PetscViewerASCIIPrintf(viewer,"%D",p-vStart);CHKERRQ(ierr); 1020 for (i=0;i<nv;i++) { 1021 ierr = PetscViewerASCIIPrintf(viewer," %D",(PetscInt)vids[i]);CHKERRQ(ierr); 1022 } 1023 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 1024 vp--; 1025 break; 1026 case 4: /* face */ 1027 ierr = DMPlexGetTreeChildren(dm,parent,&numChildren,&children);CHKERRQ(ierr); 1028 for (n=0;n<numChildren;n++) { 1029 ierr = DMLabelGetValue(dlabel,children[n],&depth);CHKERRQ(ierr); 1030 if (!depth) { 1031 const PetscInt *hvsupp,*hesupp,*cone; 1032 PetscInt hvsuppSize,hesuppSize,coneSize; 1033 PetscInt hv = children[n],he = -1,f; 1034 1035 ierr = PetscArrayzero(skip,maxsupp);CHKERRQ(ierr); 1036 ierr = DMPlexGetSupportSize(dm,hv,&hvsuppSize);CHKERRQ(ierr); 1037 ierr = DMPlexGetSupport(dm,hv,&hvsupp);CHKERRQ(ierr); 1038 for (i=0;i<hvsuppSize;i++) { 1039 PetscInt ep; 1040 ierr = DMPlexGetTreeParent(dm,hvsupp[i],&ep,NULL);CHKERRQ(ierr); 1041 if (ep != hvsupp[i]) { 1042 he = hvsupp[i]; 1043 } else { 1044 skip[i] = PETSC_TRUE; 1045 } 1046 } 1047 if (he == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Vertex %D support size %D: hanging edge not found",hv,hvsuppSize); 1048 ierr = DMPlexGetCone(dm,he,&cone);CHKERRQ(ierr); 1049 vids[0] = (int)((cone[0] == hv) ? cone[1] : cone[0]); 1050 ierr = DMPlexGetSupportSize(dm,he,&hesuppSize);CHKERRQ(ierr); 1051 ierr = DMPlexGetSupport(dm,he,&hesupp);CHKERRQ(ierr); 1052 for (f=0;f<hesuppSize;f++) { 1053 PetscInt j; 1054 1055 ierr = DMPlexGetCone(dm,hesupp[f],&cone);CHKERRQ(ierr); 1056 ierr = DMPlexGetConeSize(dm,hesupp[f],&coneSize);CHKERRQ(ierr); 1057 for (j=0;j<coneSize;j++) { 1058 PetscInt k; 1059 for (k=0;k<hvsuppSize;k++) { 1060 if (hvsupp[k] == cone[j]) { 1061 skip[k] = PETSC_TRUE; 1062 break; 1063 } 1064 } 1065 } 1066 } 1067 for (i=0;i<hvsuppSize;i++) { 1068 if (!skip[i]) { 1069 ierr = DMPlexGetCone(dm,hvsupp[i],&cone);CHKERRQ(ierr); 1070 vids[1] = (int)((cone[0] == hv) ? cone[1] : cone[0]); 1071 } 1072 } 1073 ierr = PetscViewerASCIIPrintf(viewer,"%D",hv-vStart);CHKERRQ(ierr); 1074 for (i=0;i<2;i++) { 1075 ierr = PetscViewerASCIIPrintf(viewer," %D",(PetscInt)(vids[i]-vStart));CHKERRQ(ierr); 1076 } 1077 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 1078 vp--; 1079 } 1080 } 1081 break; 1082 default: 1083 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Don't know how to deal with support size %D",ssize); 1084 } 1085 } 1086 } 1087 ierr = PetscFree(skip);CHKERRQ(ierr); 1088 } 1089 if (vp) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Unexpected %D hanging vertices",vp); 1090 } 1091 ierr = PetscBTDestroy(&pown);CHKERRQ(ierr); 1092 ierr = PetscBTDestroy(&vown);CHKERRQ(ierr); 1093 1094 /* vertices */ 1095 if (hovec) { /* higher-order meshes */ 1096 const char *fec; 1097 PetscInt i,n,s; 1098 1099 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 1100 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",vEnd-vStart);CHKERRQ(ierr); 1101 ierr = PetscViewerASCIIPrintf(viewer,"nodes\n");CHKERRQ(ierr); 1102 ierr = PetscObjectGetName((PetscObject)hovec,&fec);CHKERRQ(ierr); 1103 ierr = PetscViewerASCIIPrintf(viewer,"FiniteElementSpace\n");CHKERRQ(ierr); 1104 ierr = PetscViewerASCIIPrintf(viewer,"%s\n",fec);CHKERRQ(ierr); 1105 ierr = PetscViewerASCIIPrintf(viewer,"VDim: %D\n",sdim);CHKERRQ(ierr); 1106 ierr = PetscViewerASCIIPrintf(viewer,"Ordering: 1\n\n");CHKERRQ(ierr); /*Ordering::byVDIM*/ 1107 ierr = VecGetArrayRead(hovec,&array);CHKERRQ(ierr); 1108 ierr = VecGetLocalSize(hovec,&n);CHKERRQ(ierr); 1109 if (n%sdim) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_USER,"Size of local coordinate vector %D incompatible with space dimension %D",n,sdim); 1110 for (i=0;i<n/sdim;i++) { 1111 for (s=0;s<sdim;s++) { 1112 ierr = PetscViewerASCIIPrintf(viewer,fmt,PetscRealPart(array[i*sdim+s]));CHKERRQ(ierr); 1113 } 1114 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 1115 } 1116 ierr = VecRestoreArrayRead(hovec,&array);CHKERRQ(ierr); 1117 } else { 1118 ierr = VecGetLocalSize(coordinates,&nvert);CHKERRQ(ierr); 1119 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 1120 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",nvert/sdim);CHKERRQ(ierr); 1121 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",sdim);CHKERRQ(ierr); 1122 ierr = VecGetArrayRead(coordinates,&array);CHKERRQ(ierr); 1123 for (p=0;p<nvert/sdim;p++) { 1124 PetscInt s; 1125 for (s=0;s<sdim;s++) { 1126 PetscReal v = PetscRealPart(array[p*sdim+s]); 1127 1128 ierr = PetscViewerASCIIPrintf(viewer,fmt,PetscIsInfOrNanReal(v) ? 0.0 : v);CHKERRQ(ierr); 1129 } 1130 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 1131 } 1132 ierr = VecRestoreArrayRead(coordinates,&array);CHKERRQ(ierr); 1133 } 1134 PetscFunctionReturn(0); 1135 } 1136 1137 PetscErrorCode DMPlexView_GLVis(DM dm, PetscViewer viewer) 1138 { 1139 PetscErrorCode ierr; 1140 PetscFunctionBegin; 1141 ierr = DMView_GLVis(dm,viewer,DMPlexView_GLVis_ASCII);CHKERRQ(ierr); 1142 PetscFunctionReturn(0); 1143 } 1144