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 = DMGetLocalSection(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 ierr = PetscDualSpaceGetOrder(sp,&order);CHKERRQ(ierr); 137 if (continuous && order > 0) { /* no support for high-order viz, still have to figure out the numbering */ 138 ierr = PetscSNPrintf(fec,64,"FiniteElementCollection: H1_%DD_P1",dim);CHKERRQ(ierr); 139 } else { 140 if (!continuous && order) SETERRQ1(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Discontinuous space visualization currently unsupported for order %D",order); 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 (dim < 0 || dim > 3) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Dimension %D",dim); 260 if (csize > 8) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Found cone size %D for point %D",csize,p); 261 if (depth != 1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Found depth %D for point %D. You should interpolate the mesh first",depth,p); 262 *cid = mfem_table_cid_unint[dim][csize]; 263 } else { 264 if (csize > 6) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Cone size %D for point %D",csize,p); 265 if (pdepth < 0 || pdepth > 3) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Depth %D for point %D",csize,p); 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, PetscInt 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++] = 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] = 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,minl; 317 PetscInt cStart,cEnd,vStart,vEnd,nvert; 318 PetscMPIInt size; 319 PetscBool localized,isascii; 320 PetscBool enable_mfem,enable_boundary,enable_ncmesh,view_ovl = PETSC_FALSE; 321 PetscBT pown,vown; 322 PetscErrorCode ierr; 323 PetscContainer glvis_container; 324 PetscBool cellvertex = PETSC_FALSE, periodic, enabled = PETSC_TRUE; 325 PetscBool enable_emark,enable_bmark; 326 const char *fmt; 327 char emark[64] = "",bmark[64] = ""; 328 329 PetscFunctionBegin; 330 PetscValidHeaderSpecific(dm,DM_CLASSID,1); 331 PetscValidHeaderSpecific(viewer,PETSC_VIEWER_CLASSID,2); 332 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&isascii);CHKERRQ(ierr); 333 if (!isascii) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Viewer must be of type VIEWERASCII"); 334 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)viewer),&size);CHKERRQ(ierr); 335 if (size > 1) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Use single sequential viewers for parallel visualization"); 336 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 337 338 /* get container: determines if a process visualizes is portion of the data or not */ 339 ierr = PetscObjectQuery((PetscObject)viewer,"_glvis_info_container",(PetscObject*)&glvis_container);CHKERRQ(ierr); 340 if (!glvis_container) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_PLIB,"Missing GLVis container"); 341 { 342 PetscViewerGLVisInfo glvis_info; 343 ierr = PetscContainerGetPointer(glvis_container,(void**)&glvis_info);CHKERRQ(ierr); 344 enabled = glvis_info->enabled; 345 fmt = glvis_info->fmt; 346 } 347 348 /* Users can attach a coordinate vector to the DM in case they have a higher-order mesh 349 DMPlex does not currently support HO meshes, so there's no API for this */ 350 ierr = PetscObjectQuery((PetscObject)dm,"_glvis_mesh_coords",(PetscObject*)&hovec);CHKERRQ(ierr); 351 352 ierr = DMPlexGetHeightStratum(dm,0,&cStart,&cEnd);CHKERRQ(ierr); 353 ierr = DMPlexGetGhostCellStratum(dm,&p,NULL);CHKERRQ(ierr); 354 if (p >= 0) cEnd = p; 355 ierr = DMPlexGetDepthStratum(dm,0,&vStart,&vEnd);CHKERRQ(ierr); 356 ierr = DMGetPeriodicity(dm,&periodic,NULL,NULL,NULL);CHKERRQ(ierr); 357 ierr = DMGetCoordinatesLocalized(dm,&localized);CHKERRQ(ierr); 358 if (periodic && !localized && !hovec) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Coordinates need to be localized"); 359 ierr = DMGetCoordinateSection(dm,&coordSection);CHKERRQ(ierr); 360 ierr = DMGetCoordinateDim(dm,&sdim);CHKERRQ(ierr); 361 ierr = DMGetCoordinatesLocal(dm,&coordinates);CHKERRQ(ierr); 362 if (!coordinates && !hovec) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Missing local coordinates vector"); 363 364 /* 365 a couple of sections of the mesh specification are disabled 366 - 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) 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 = PETSC_FALSE; 371 enable_ncmesh = PETSC_FALSE; 372 enable_mfem = PETSC_FALSE; 373 enable_emark = PETSC_FALSE; 374 enable_bmark = PETSC_FALSE; 375 /* I'm tired of problems with negative values in the markers, disable them */ 376 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)dm),((PetscObject)dm)->prefix,"GLVis PetscViewer DMPlex Options","PetscViewer");CHKERRQ(ierr); 377 ierr = PetscOptionsBool("-viewer_glvis_dm_plex_enable_boundary","Enable boundary section in mesh representation",NULL,enable_boundary,&enable_boundary,NULL);CHKERRQ(ierr); 378 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); 379 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); 380 ierr = PetscOptionsBool("-viewer_glvis_dm_plex_overlap","Include overlap region in local meshes",NULL,view_ovl,&view_ovl,NULL);CHKERRQ(ierr); 381 ierr = PetscOptionsString("-viewer_glvis_dm_plex_emarker","String for the material id label",NULL,emark,emark,sizeof(emark),&enable_emark);CHKERRQ(ierr); 382 ierr = PetscOptionsString("-viewer_glvis_dm_plex_bmarker","String for the boundary id label",NULL,bmark,bmark,sizeof(bmark),&enable_bmark);CHKERRQ(ierr); 383 ierr = PetscOptionsEnd();CHKERRQ(ierr); 384 if (enable_bmark) enable_boundary = PETSC_TRUE; 385 386 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)dm),&size);CHKERRQ(ierr); 387 if (enable_ncmesh && size > 1) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Not supported in parallel"); 388 ierr = DMPlexGetDepth(dm,&depth);CHKERRQ(ierr); 389 if (enable_boundary && depth >= 0 && dim != depth) SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Mesh must be interpolated. " 390 "Alternatively, run with -viewer_glvis_dm_plex_enable_boundary 0"); 391 if (enable_ncmesh && depth >= 0 && dim != depth) SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Mesh must be interpolated. " 392 "Alternatively, run with -viewer_glvis_dm_plex_enable_ncmesh 0"); 393 if (depth >=0 && dim != depth) { /* not interpolated, it assumes cell-vertex mesh */ 394 if (depth != 1) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unsupported depth %D. You should interpolate the mesh first",depth); 395 cellvertex = PETSC_TRUE; 396 } 397 398 /* Identify possible cells in the overlap */ 399 novl = 0; 400 pown = NULL; 401 if (size > 1) { 402 IS globalNum = NULL; 403 const PetscInt *gNum; 404 PetscBool ovl = PETSC_FALSE; 405 406 ierr = PetscObjectQuery((PetscObject)dm,"_glvis_plex_gnum",(PetscObject*)&globalNum);CHKERRQ(ierr); 407 if (!globalNum) { 408 if (view_ovl) { 409 ierr = ISCreateStride(PetscObjectComm((PetscObject)dm),cEnd-cStart,0,1,&globalNum);CHKERRQ(ierr); 410 } else { 411 ierr = DMPlexCreateCellNumbering_Internal(dm,PETSC_TRUE,&globalNum);CHKERRQ(ierr); 412 } 413 ierr = PetscObjectCompose((PetscObject)dm,"_glvis_plex_gnum",(PetscObject)globalNum);CHKERRQ(ierr); 414 ierr = PetscObjectDereference((PetscObject)globalNum);CHKERRQ(ierr); 415 } 416 ierr = ISGetIndices(globalNum,&gNum);CHKERRQ(ierr); 417 for (p=cStart; p<cEnd; p++) { 418 if (gNum[p-cStart] < 0) { 419 ovl = PETSC_TRUE; 420 novl++; 421 } 422 } 423 if (ovl) { 424 /* it may happen that pown get not destroyed, if the user closes the window while this function is running. 425 TODO: garbage collector? attach pown to dm? */ 426 ierr = PetscBTCreate(cEnd-cStart,&pown);CHKERRQ(ierr); 427 for (p=cStart; p<cEnd; p++) { 428 if (gNum[p-cStart] < 0) continue; 429 else { 430 ierr = PetscBTSet(pown,p-cStart);CHKERRQ(ierr); 431 } 432 } 433 } 434 ierr = ISRestoreIndices(globalNum,&gNum);CHKERRQ(ierr); 435 } 436 437 /* return if this process is disabled */ 438 if (!enabled) { 439 ierr = PetscViewerASCIIPrintf(viewer,"MFEM mesh v1.1\n");CHKERRQ(ierr); 440 ierr = PetscViewerASCIIPrintf(viewer,"\ndimension\n");CHKERRQ(ierr); 441 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",dim);CHKERRQ(ierr); 442 ierr = PetscViewerASCIIPrintf(viewer,"\nelements\n");CHKERRQ(ierr); 443 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 444 ierr = PetscViewerASCIIPrintf(viewer,"\nboundary\n");CHKERRQ(ierr); 445 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 446 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 447 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 448 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",sdim);CHKERRQ(ierr); 449 ierr = PetscBTDestroy(&pown);CHKERRQ(ierr); 450 PetscFunctionReturn(0); 451 } 452 453 if (enable_mfem) { 454 if (periodic && !hovec) { /* we need to generate a vector of L2 coordinates, as this is how MFEM handles periodic meshes */ 455 PetscInt vpc = 0; 456 char fec[64]; 457 PetscInt vids[8] = {0,1,2,3,4,5,6,7}; 458 PetscInt hexv[8] = {0,1,3,2,4,5,7,6}, tetv[4] = {0,1,2,3}; 459 PetscInt quadv[8] = {0,1,3,2}, triv[3] = {0,1,2}; 460 PetscInt *dof = NULL; 461 PetscScalar *array,*ptr; 462 463 ierr = PetscSNPrintf(fec,sizeof(fec),"FiniteElementCollection: L2_T1_%DD_P1",dim);CHKERRQ(ierr); 464 if (cEnd-cStart) { 465 PetscInt fpc; 466 467 ierr = DMPlexGetConeSize(dm,cStart,&fpc);CHKERRQ(ierr); 468 switch(dim) { 469 case 1: 470 vpc = 2; 471 dof = hexv; 472 break; 473 case 2: 474 switch (fpc) { 475 case 3: 476 vpc = 3; 477 dof = triv; 478 break; 479 case 4: 480 vpc = 4; 481 dof = quadv; 482 break; 483 default: 484 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 485 break; 486 } 487 break; 488 case 3: 489 switch (fpc) { 490 case 4: /* TODO: still need to understand L2 ordering for tets */ 491 vpc = 4; 492 dof = tetv; 493 SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled tethraedral case"); 494 break; 495 case 6: 496 if (cellvertex) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: vertices per cell %D",fpc); 497 vpc = 8; 498 dof = hexv; 499 break; 500 case 8: 501 if (!cellvertex) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 502 vpc = 8; 503 dof = hexv; 504 break; 505 default: 506 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 507 break; 508 } 509 break; 510 default: 511 SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Unhandled dim"); 512 break; 513 } 514 ierr = DMPlexReorderCell(dm,cStart,vids);CHKERRQ(ierr); 515 } 516 if (!dof) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_PLIB,"Missing dofs"); 517 ierr = VecCreateSeq(PETSC_COMM_SELF,(cEnd-cStart-novl)*vpc*sdim,&hovec);CHKERRQ(ierr); 518 ierr = PetscObjectCompose((PetscObject)dm,"_glvis_mesh_coords",(PetscObject)hovec);CHKERRQ(ierr); 519 ierr = PetscObjectDereference((PetscObject)hovec);CHKERRQ(ierr); 520 ierr = PetscObjectSetName((PetscObject)hovec,fec);CHKERRQ(ierr); 521 ierr = VecGetArray(hovec,&array);CHKERRQ(ierr); 522 ptr = array; 523 for (p=cStart;p<cEnd;p++) { 524 PetscInt csize,v,d; 525 PetscScalar *vals = NULL; 526 527 if (PetscUnlikely(pown && !PetscBTLookup(pown,p-cStart))) continue; 528 ierr = DMPlexVecGetClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 529 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); 530 for (v=0;v<vpc;v++) { 531 for (d=0;d<sdim;d++) { 532 ptr[sdim*dof[v]+d] = vals[sdim*vids[v]+d]; 533 } 534 } 535 ptr += vpc*sdim; 536 ierr = DMPlexVecRestoreClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 537 } 538 ierr = VecRestoreArray(hovec,&array);CHKERRQ(ierr); 539 } 540 } 541 /* if we have high-order coordinates in 3D, we need to specify the boundary */ 542 if (hovec && dim == 3) enable_boundary = PETSC_TRUE; 543 544 /* header */ 545 ierr = PetscViewerASCIIPrintf(viewer,"MFEM mesh v1.1\n");CHKERRQ(ierr); 546 547 /* topological dimension */ 548 ierr = PetscViewerASCIIPrintf(viewer,"\ndimension\n");CHKERRQ(ierr); 549 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",dim);CHKERRQ(ierr); 550 551 /* elements */ 552 minl = 1; 553 label = NULL; 554 if (enable_emark) { 555 PetscInt lminl = PETSC_MAX_INT; 556 557 ierr = DMGetLabel(dm,emark,&label);CHKERRQ(ierr); 558 if (label) { 559 IS vals; 560 PetscInt ldef; 561 562 ierr = DMLabelGetDefaultValue(label,&ldef);CHKERRQ(ierr); 563 ierr = DMLabelGetValueIS(label,&vals);CHKERRQ(ierr); 564 ierr = ISGetMinMax(vals,&lminl,NULL);CHKERRQ(ierr); 565 ierr = ISDestroy(&vals);CHKERRQ(ierr); 566 lminl = PetscMin(ldef,lminl); 567 } 568 ierr = MPIU_Allreduce(&lminl,&minl,1,MPIU_INT,MPI_MIN,PetscObjectComm((PetscObject)dm));CHKERRQ(ierr); 569 if (minl == PETSC_MAX_INT) minl = 1; 570 } 571 ierr = PetscViewerASCIIPrintf(viewer,"\nelements\n");CHKERRQ(ierr); 572 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",cEnd-cStart-novl);CHKERRQ(ierr); 573 for (p=cStart;p<cEnd;p++) { 574 PetscInt vids[8]; 575 PetscInt i,nv = 0,cid = -1,mid = 1; 576 577 if (PetscUnlikely(pown && !PetscBTLookup(pown,p-cStart))) continue; 578 ierr = DMPlexGetPointMFEMCellID_Internal(dm,label,minl,p,&mid,&cid);CHKERRQ(ierr); 579 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,p,(localized && !hovec) ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 580 ierr = DMPlexReorderCell(dm,p,vids);CHKERRQ(ierr); 581 ierr = PetscViewerASCIIPrintf(viewer,"%D %D",mid,cid);CHKERRQ(ierr); 582 for (i=0;i<nv;i++) { 583 ierr = PetscViewerASCIIPrintf(viewer," %D",vids[i]);CHKERRQ(ierr); 584 } 585 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 586 } 587 588 /* boundary */ 589 ierr = PetscViewerASCIIPrintf(viewer,"\nboundary\n");CHKERRQ(ierr); 590 if (!enable_boundary) { 591 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 592 } else { 593 DMLabel perLabel; 594 PetscBT bfaces; 595 PetscInt fStart,fEnd,*fcells; 596 597 ierr = DMPlexGetHeightStratum(dm,1,&fStart,&fEnd);CHKERRQ(ierr); 598 ierr = PetscBTCreate(fEnd-fStart,&bfaces);CHKERRQ(ierr); 599 ierr = DMPlexGetMaxSizes(dm,NULL,&p);CHKERRQ(ierr); 600 ierr = PetscMalloc1(p,&fcells);CHKERRQ(ierr); 601 ierr = DMGetLabel(dm,"glvis_periodic_cut",&perLabel);CHKERRQ(ierr); 602 if (!perLabel && localized) { /* this periodic cut can be moved up to DMPlex setup */ 603 ierr = DMCreateLabel(dm,"glvis_periodic_cut");CHKERRQ(ierr); 604 ierr = DMGetLabel(dm,"glvis_periodic_cut",&perLabel);CHKERRQ(ierr); 605 ierr = DMLabelSetDefaultValue(perLabel,1);CHKERRQ(ierr); 606 for (p=cStart;p<cEnd;p++) { 607 DMPolytopeType cellType; 608 PetscInt dof; 609 610 ierr = DMPlexGetCellType(dm,p,&cellType);CHKERRQ(ierr); 611 ierr = PetscSectionGetDof(coordSection,p,&dof);CHKERRQ(ierr); 612 if (dof) { 613 PetscInt uvpc, v,csize,cellClosureSize,*cellClosure = NULL,*vidxs = NULL; 614 PetscScalar *vals = NULL; 615 616 uvpc = DMPolytopeTypeGetNumVertices(cellType); 617 if (dof%sdim) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_USER,"Incompatible number of cell dofs %D and space dimension %D",dof,sdim); 618 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); 619 ierr = DMPlexVecGetClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 620 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&cellClosureSize,&cellClosure);CHKERRQ(ierr); 621 for (v=0;v<cellClosureSize;v++) 622 if (cellClosure[2*v] >= vStart && cellClosure[2*v] < vEnd) { 623 vidxs = cellClosure + 2*v; 624 break; 625 } 626 if (!vidxs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Missing vertices"); 627 for (v=0;v<uvpc;v++) { 628 PetscInt s; 629 630 for (s=0;s<sdim;s++) { 631 if (PetscAbsScalar(vals[v*sdim+s]-vals[v*sdim+s+uvpc*sdim])>PETSC_MACHINE_EPSILON) { 632 ierr = DMLabelSetValue(perLabel,vidxs[2*v],2);CHKERRQ(ierr); 633 } 634 } 635 } 636 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&cellClosureSize,&cellClosure);CHKERRQ(ierr); 637 ierr = DMPlexVecRestoreClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 638 } 639 } 640 if (dim > 1) { 641 PetscInt eEnd,eStart; 642 643 ierr = DMPlexGetDepthStratum(dm,1,&eStart,&eEnd);CHKERRQ(ierr); 644 for (p=eStart;p<eEnd;p++) { 645 const PetscInt *cone; 646 PetscInt coneSize,i; 647 PetscBool ispe = PETSC_TRUE; 648 649 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 650 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 651 for (i=0;i<coneSize;i++) { 652 PetscInt v; 653 654 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 655 ispe = (PetscBool)(ispe && (v==2)); 656 } 657 if (ispe && coneSize) { 658 PetscInt ch, numChildren; 659 const PetscInt *children; 660 661 ierr = DMLabelSetValue(perLabel,p,2);CHKERRQ(ierr); 662 ierr = DMPlexGetTreeChildren(dm,p,&numChildren,&children);CHKERRQ(ierr); 663 for (ch = 0; ch < numChildren; ch++) { 664 ierr = DMLabelSetValue(perLabel,children[ch],2);CHKERRQ(ierr); 665 } 666 } 667 } 668 if (dim > 2) { 669 for (p=fStart;p<fEnd;p++) { 670 const PetscInt *cone; 671 PetscInt coneSize,i; 672 PetscBool ispe = PETSC_TRUE; 673 674 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 675 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 676 for (i=0;i<coneSize;i++) { 677 PetscInt v; 678 679 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 680 ispe = (PetscBool)(ispe && (v==2)); 681 } 682 if (ispe && coneSize) { 683 PetscInt ch, numChildren; 684 const PetscInt *children; 685 686 ierr = DMLabelSetValue(perLabel,p,2);CHKERRQ(ierr); 687 ierr = DMPlexGetTreeChildren(dm,p,&numChildren,&children);CHKERRQ(ierr); 688 for (ch = 0; ch < numChildren; ch++) { 689 ierr = DMLabelSetValue(perLabel,children[ch],2);CHKERRQ(ierr); 690 } 691 } 692 } 693 } 694 } 695 } 696 for (p=fStart;p<fEnd;p++) { 697 const PetscInt *support; 698 PetscInt supportSize; 699 PetscBool isbf = PETSC_FALSE; 700 701 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 702 if (pown) { 703 PetscBool has_owned = PETSC_FALSE, has_ghost = PETSC_FALSE; 704 PetscInt i; 705 706 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 707 for (i=0;i<supportSize;i++) { 708 if (PetscLikely(PetscBTLookup(pown,support[i]-cStart))) has_owned = PETSC_TRUE; 709 else has_ghost = PETSC_TRUE; 710 } 711 isbf = (PetscBool)((supportSize == 1 && has_owned) || (supportSize > 1 && has_owned && has_ghost)); 712 } else { 713 isbf = (PetscBool)(supportSize == 1); 714 } 715 if (!isbf && perLabel) { 716 const PetscInt *cone; 717 PetscInt coneSize,i; 718 719 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 720 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 721 isbf = PETSC_TRUE; 722 for (i=0;i<coneSize;i++) { 723 PetscInt v,d; 724 725 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 726 ierr = DMLabelGetDefaultValue(perLabel,&d);CHKERRQ(ierr); 727 isbf = (PetscBool)(isbf && v != d); 728 } 729 } 730 if (isbf) { 731 ierr = PetscBTSet(bfaces,p-fStart);CHKERRQ(ierr); 732 } 733 } 734 /* count boundary faces */ 735 for (p=fStart,bf=0;p<fEnd;p++) { 736 if (PetscUnlikely(PetscBTLookup(bfaces,p-fStart))) { 737 const PetscInt *support; 738 PetscInt supportSize,c; 739 740 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 741 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 742 for (c=0;c<supportSize;c++) { 743 const PetscInt *cone; 744 PetscInt cell,cl,coneSize; 745 746 cell = support[c]; 747 if (pown && PetscUnlikely(!PetscBTLookup(pown,cell-cStart))) continue; 748 ierr = DMPlexGetCone(dm,cell,&cone);CHKERRQ(ierr); 749 ierr = DMPlexGetConeSize(dm,cell,&coneSize);CHKERRQ(ierr); 750 for (cl=0;cl<coneSize;cl++) { 751 if (cone[cl] == p) { 752 bf += 1; 753 break; 754 } 755 } 756 } 757 } 758 } 759 minl = 1; 760 label = NULL; 761 if (enable_bmark) { 762 PetscInt lminl = PETSC_MAX_INT; 763 764 ierr = DMGetLabel(dm,bmark,&label);CHKERRQ(ierr); 765 if (label) { 766 IS vals; 767 PetscInt ldef; 768 769 ierr = DMLabelGetDefaultValue(label,&ldef);CHKERRQ(ierr); 770 ierr = DMLabelGetValueIS(label,&vals);CHKERRQ(ierr); 771 ierr = ISGetMinMax(vals,&lminl,NULL);CHKERRQ(ierr); 772 ierr = ISDestroy(&vals);CHKERRQ(ierr); 773 lminl = PetscMin(ldef,lminl); 774 } 775 ierr = MPIU_Allreduce(&lminl,&minl,1,MPIU_INT,MPI_MIN,PetscObjectComm((PetscObject)dm));CHKERRQ(ierr); 776 if (minl == PETSC_MAX_INT) minl = 1; 777 } 778 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",bf);CHKERRQ(ierr); 779 for (p=fStart;p<fEnd;p++) { 780 if (PetscUnlikely(PetscBTLookup(bfaces,p-fStart))) { 781 const PetscInt *support; 782 PetscInt supportSize,c,nc = 0; 783 784 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 785 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 786 if (pown) { 787 for (c=0;c<supportSize;c++) { 788 if (PetscLikely(PetscBTLookup(pown,support[c]-cStart))) { 789 fcells[nc++] = support[c]; 790 } 791 } 792 } else for (c=0;c<supportSize;c++) fcells[nc++] = support[c]; 793 for (c=0;c<nc;c++) { 794 const DMPolytopeType *faceTypes; 795 DMPolytopeType cellType; 796 const PetscInt *faceSizes,*cone; 797 PetscInt vids[8],*faces,st,i,coneSize,cell,cl,nv,cid = -1,mid = -1; 798 799 cell = fcells[c]; 800 ierr = DMPlexGetCone(dm,cell,&cone);CHKERRQ(ierr); 801 ierr = DMPlexGetConeSize(dm,cell,&coneSize);CHKERRQ(ierr); 802 for (cl=0;cl<coneSize;cl++) 803 if (cone[cl] == p) 804 break; 805 if (cl == coneSize) continue; 806 807 /* face material id and type */ 808 ierr = DMPlexGetPointMFEMCellID_Internal(dm,label,minl,p,&mid,&cid);CHKERRQ(ierr); 809 ierr = PetscViewerASCIIPrintf(viewer,"%D %D",mid,cid);CHKERRQ(ierr); 810 /* vertex ids */ 811 ierr = DMPlexGetCellType(dm,cell,&cellType);CHKERRQ(ierr); 812 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,cell,(localized && !hovec) ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 813 ierr = DMPlexGetRawFaces_Internal(dm,cellType,vids,NULL,&faceTypes,&faceSizes,(const PetscInt**)&faces);CHKERRQ(ierr); 814 st = 0; 815 for (i=0;i<cl;i++) st += faceSizes[i]; 816 ierr = DMPlexInvertCell(faceTypes[cl],faces + st);CHKERRQ(ierr); 817 for (i=0;i<faceSizes[cl];i++) { 818 ierr = PetscViewerASCIIPrintf(viewer," %d",faces[st+i]);CHKERRQ(ierr); 819 } 820 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 821 ierr = DMPlexRestoreRawFaces_Internal(dm,cellType,vids,NULL,&faceTypes,&faceSizes,(const PetscInt**)&faces);CHKERRQ(ierr); 822 bf -= 1; 823 } 824 } 825 } 826 if (bf) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Remaining boundary faces %D",bf); 827 ierr = PetscBTDestroy(&bfaces);CHKERRQ(ierr); 828 ierr = PetscFree(fcells);CHKERRQ(ierr); 829 } 830 831 /* mark owned vertices */ 832 vown = NULL; 833 if (pown) { 834 ierr = PetscBTCreate(vEnd-vStart,&vown);CHKERRQ(ierr); 835 for (p=cStart;p<cEnd;p++) { 836 PetscInt i,closureSize,*closure = NULL; 837 838 if (PetscUnlikely(!PetscBTLookup(pown,p-cStart))) continue; 839 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&closureSize,&closure);CHKERRQ(ierr); 840 for (i=0;i<closureSize;i++) { 841 const PetscInt pp = closure[2*i]; 842 843 if (pp >= vStart && pp < vEnd) { 844 ierr = PetscBTSet(vown,pp-vStart);CHKERRQ(ierr); 845 } 846 } 847 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&closureSize,&closure);CHKERRQ(ierr); 848 } 849 } 850 851 /* vertex_parents (Non-conforming meshes) */ 852 parentSection = NULL; 853 if (enable_ncmesh) { 854 ierr = DMPlexGetTree(dm,&parentSection,NULL,NULL,NULL,NULL);CHKERRQ(ierr); 855 } 856 if (parentSection) { 857 PetscInt vp,gvp; 858 859 for (vp=0,p=vStart;p<vEnd;p++) { 860 DMLabel dlabel; 861 PetscInt parent,depth; 862 863 if (PetscUnlikely(vown && !PetscBTLookup(vown,p-vStart))) continue; 864 ierr = DMPlexGetDepthLabel(dm,&dlabel);CHKERRQ(ierr); 865 ierr = DMLabelGetValue(dlabel,p,&depth);CHKERRQ(ierr); 866 ierr = DMPlexGetTreeParent(dm,p,&parent,NULL);CHKERRQ(ierr); 867 if (parent != p) vp++; 868 } 869 ierr = MPIU_Allreduce(&vp,&gvp,1,MPIU_INT,MPI_SUM,PetscObjectComm((PetscObject)dm));CHKERRQ(ierr); 870 if (gvp) { 871 PetscInt maxsupp; 872 PetscBool *skip = NULL; 873 874 ierr = PetscViewerASCIIPrintf(viewer,"\nvertex_parents\n");CHKERRQ(ierr); 875 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",vp);CHKERRQ(ierr); 876 ierr = DMPlexGetMaxSizes(dm,NULL,&maxsupp);CHKERRQ(ierr); 877 ierr = PetscMalloc1(maxsupp,&skip);CHKERRQ(ierr); 878 for (p=vStart;p<vEnd;p++) { 879 DMLabel dlabel; 880 PetscInt parent; 881 882 if (PetscUnlikely(vown && !PetscBTLookup(vown,p-vStart))) continue; 883 ierr = DMPlexGetDepthLabel(dm,&dlabel);CHKERRQ(ierr); 884 ierr = DMPlexGetTreeParent(dm,p,&parent,NULL);CHKERRQ(ierr); 885 if (parent != p) { 886 PetscInt vids[8] = { -1, -1, -1, -1, -1, -1, -1, -1 }; /* silent overzealous clang static analyzer */ 887 PetscInt i,nv,ssize,n,numChildren,depth = -1; 888 const PetscInt *children; 889 890 ierr = DMPlexGetConeSize(dm,parent,&ssize);CHKERRQ(ierr); 891 switch (ssize) { 892 case 2: /* edge */ 893 nv = 0; 894 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,parent,localized ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 895 ierr = PetscViewerASCIIPrintf(viewer,"%D",p-vStart);CHKERRQ(ierr); 896 for (i=0;i<nv;i++) { 897 ierr = PetscViewerASCIIPrintf(viewer," %D",vids[i]);CHKERRQ(ierr); 898 } 899 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 900 vp--; 901 break; 902 case 4: /* face */ 903 ierr = DMPlexGetTreeChildren(dm,parent,&numChildren,&children);CHKERRQ(ierr); 904 for (n=0;n<numChildren;n++) { 905 ierr = DMLabelGetValue(dlabel,children[n],&depth);CHKERRQ(ierr); 906 if (!depth) { 907 const PetscInt *hvsupp,*hesupp,*cone; 908 PetscInt hvsuppSize,hesuppSize,coneSize; 909 PetscInt hv = children[n],he = -1,f; 910 911 ierr = PetscArrayzero(skip,maxsupp);CHKERRQ(ierr); 912 ierr = DMPlexGetSupportSize(dm,hv,&hvsuppSize);CHKERRQ(ierr); 913 ierr = DMPlexGetSupport(dm,hv,&hvsupp);CHKERRQ(ierr); 914 for (i=0;i<hvsuppSize;i++) { 915 PetscInt ep; 916 ierr = DMPlexGetTreeParent(dm,hvsupp[i],&ep,NULL);CHKERRQ(ierr); 917 if (ep != hvsupp[i]) { 918 he = hvsupp[i]; 919 } else { 920 skip[i] = PETSC_TRUE; 921 } 922 } 923 if (he == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Vertex %D support size %D: hanging edge not found",hv,hvsuppSize); 924 ierr = DMPlexGetCone(dm,he,&cone);CHKERRQ(ierr); 925 vids[0] = (cone[0] == hv) ? cone[1] : cone[0]; 926 ierr = DMPlexGetSupportSize(dm,he,&hesuppSize);CHKERRQ(ierr); 927 ierr = DMPlexGetSupport(dm,he,&hesupp);CHKERRQ(ierr); 928 for (f=0;f<hesuppSize;f++) { 929 PetscInt j; 930 931 ierr = DMPlexGetCone(dm,hesupp[f],&cone);CHKERRQ(ierr); 932 ierr = DMPlexGetConeSize(dm,hesupp[f],&coneSize);CHKERRQ(ierr); 933 for (j=0;j<coneSize;j++) { 934 PetscInt k; 935 for (k=0;k<hvsuppSize;k++) { 936 if (hvsupp[k] == cone[j]) { 937 skip[k] = PETSC_TRUE; 938 break; 939 } 940 } 941 } 942 } 943 for (i=0;i<hvsuppSize;i++) { 944 if (!skip[i]) { 945 ierr = DMPlexGetCone(dm,hvsupp[i],&cone);CHKERRQ(ierr); 946 vids[1] = (cone[0] == hv) ? cone[1] : cone[0]; 947 } 948 } 949 ierr = PetscViewerASCIIPrintf(viewer,"%D",hv-vStart);CHKERRQ(ierr); 950 for (i=0;i<2;i++) { 951 ierr = PetscViewerASCIIPrintf(viewer," %D",vids[i]-vStart);CHKERRQ(ierr); 952 } 953 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 954 vp--; 955 } 956 } 957 break; 958 default: 959 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Don't know how to deal with support size %D",ssize); 960 } 961 } 962 } 963 ierr = PetscFree(skip);CHKERRQ(ierr); 964 } 965 if (vp) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Unexpected %D hanging vertices",vp); 966 } 967 ierr = PetscBTDestroy(&pown);CHKERRQ(ierr); 968 ierr = PetscBTDestroy(&vown);CHKERRQ(ierr); 969 970 /* vertices */ 971 if (hovec) { /* higher-order meshes */ 972 const char *fec; 973 PetscInt i,n,s; 974 975 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 976 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",vEnd-vStart);CHKERRQ(ierr); 977 ierr = PetscViewerASCIIPrintf(viewer,"nodes\n");CHKERRQ(ierr); 978 ierr = PetscObjectGetName((PetscObject)hovec,&fec);CHKERRQ(ierr); 979 ierr = PetscViewerASCIIPrintf(viewer,"FiniteElementSpace\n");CHKERRQ(ierr); 980 ierr = PetscViewerASCIIPrintf(viewer,"%s\n",fec);CHKERRQ(ierr); 981 ierr = PetscViewerASCIIPrintf(viewer,"VDim: %D\n",sdim);CHKERRQ(ierr); 982 ierr = PetscViewerASCIIPrintf(viewer,"Ordering: 1\n\n");CHKERRQ(ierr); /*Ordering::byVDIM*/ 983 ierr = VecGetArrayRead(hovec,&array);CHKERRQ(ierr); 984 ierr = VecGetLocalSize(hovec,&n);CHKERRQ(ierr); 985 if (n%sdim) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_USER,"Size of local coordinate vector %D incompatible with space dimension %D",n,sdim); 986 for (i=0;i<n/sdim;i++) { 987 for (s=0;s<sdim;s++) { 988 ierr = PetscViewerASCIIPrintf(viewer,fmt,PetscRealPart(array[i*sdim+s]));CHKERRQ(ierr); 989 } 990 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 991 } 992 ierr = VecRestoreArrayRead(hovec,&array);CHKERRQ(ierr); 993 } else { 994 ierr = VecGetLocalSize(coordinates,&nvert);CHKERRQ(ierr); 995 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 996 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",nvert/sdim);CHKERRQ(ierr); 997 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",sdim);CHKERRQ(ierr); 998 ierr = VecGetArrayRead(coordinates,&array);CHKERRQ(ierr); 999 for (p=0;p<nvert/sdim;p++) { 1000 PetscInt s; 1001 for (s=0;s<sdim;s++) { 1002 PetscReal v = PetscRealPart(array[p*sdim+s]); 1003 1004 ierr = PetscViewerASCIIPrintf(viewer,fmt,PetscIsInfOrNanReal(v) ? 0.0 : v);CHKERRQ(ierr); 1005 } 1006 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 1007 } 1008 ierr = VecRestoreArrayRead(coordinates,&array);CHKERRQ(ierr); 1009 } 1010 PetscFunctionReturn(0); 1011 } 1012 1013 PetscErrorCode DMPlexView_GLVis(DM dm, PetscViewer viewer) 1014 { 1015 PetscErrorCode ierr; 1016 PetscFunctionBegin; 1017 ierr = DMView_GLVis(dm,viewer,DMPlexView_GLVis_ASCII);CHKERRQ(ierr); 1018 PetscFunctionReturn(0); 1019 } 1020