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 = DMGetDefaultSection(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 = VecScatterCreate(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 = VecScatterCreate(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 ierr = DMGetCoordinateDim(dm,&sdim);CHKERRQ(ierr); 282 ierr = PetscSectionGetOffset(csec,vStart,&off);CHKERRQ(ierr); 283 off = off/sdim; 284 ierr = PetscSectionGetDof(csec,p,&dof);CHKERRQ(ierr); 285 } 286 if (!dof) { 287 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&numPoints,&points);CHKERRQ(ierr); 288 for (i=0,q=0;i<numPoints*2;i+= 2) 289 if ((points[i] >= vStart) && (points[i] < vEnd)) 290 vids[q++] = points[i]-vStart+off; 291 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&numPoints,&points);CHKERRQ(ierr); 292 } else { 293 ierr = PetscSectionGetOffset(csec,p,&off);CHKERRQ(ierr); 294 ierr = PetscSectionGetDof(csec,p,&dof);CHKERRQ(ierr); 295 for (q=0;q<dof/sdim;q++) vids[q] = off/sdim + q; 296 } 297 *nv = q; 298 PetscFunctionReturn(0); 299 } 300 301 /* 302 ASCII visualization/dump: full support for simplices and tensor product cells. It supports AMR 303 Higher order meshes are also supported 304 */ 305 static PetscErrorCode DMPlexView_GLVis_ASCII(DM dm, PetscViewer viewer) 306 { 307 DMLabel label; 308 PetscSection coordSection,parentSection; 309 Vec coordinates,hovec; 310 const PetscScalar *array; 311 PetscInt bf,p,sdim,dim,depth,novl; 312 PetscInt cStart,cEnd,cEndInterior,vStart,vEnd,nvert; 313 PetscMPIInt size; 314 PetscBool localized,isascii; 315 PetscBool enable_mfem,enable_boundary,enable_ncmesh; 316 PetscBT pown,vown; 317 PetscErrorCode ierr; 318 PetscContainer glvis_container; 319 PetscBool cellvertex = PETSC_FALSE, periodic, enabled = PETSC_TRUE; 320 const char *fmt; 321 char emark[64] = "",bmark[64] = ""; 322 323 PetscFunctionBegin; 324 PetscValidHeaderSpecific(dm,DM_CLASSID,1); 325 PetscValidHeaderSpecific(viewer,PETSC_VIEWER_CLASSID,2); 326 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&isascii);CHKERRQ(ierr); 327 if (!isascii) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Viewer must be of type VIEWERASCII"); 328 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)viewer),&size);CHKERRQ(ierr); 329 if (size > 1) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Use single sequential viewers for parallel visualization"); 330 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 331 332 /* get container: determines if a process visualizes is portion of the data or not */ 333 ierr = PetscObjectQuery((PetscObject)viewer,"_glvis_info_container",(PetscObject*)&glvis_container);CHKERRQ(ierr); 334 if (!glvis_container) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_PLIB,"Missing GLVis container"); 335 { 336 PetscViewerGLVisInfo glvis_info; 337 ierr = PetscContainerGetPointer(glvis_container,(void**)&glvis_info);CHKERRQ(ierr); 338 enabled = glvis_info->enabled; 339 fmt = glvis_info->fmt; 340 } 341 ierr = DMPlexGetHybridBounds(dm, &cEndInterior, NULL, NULL, NULL);CHKERRQ(ierr); 342 ierr = DMPlexGetHeightStratum(dm,0,&cStart,&cEnd);CHKERRQ(ierr); 343 cEnd = cEndInterior < 0 ? cEnd : cEndInterior; 344 ierr = DMPlexGetDepthStratum(dm,0,&vStart,&vEnd);CHKERRQ(ierr); 345 ierr = DMGetPeriodicity(dm,&periodic,NULL,NULL,NULL);CHKERRQ(ierr); 346 ierr = DMGetCoordinatesLocalized(dm,&localized);CHKERRQ(ierr); 347 if (periodic && !localized) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Coordinates need to be localized"); 348 ierr = DMGetCoordinateSection(dm,&coordSection);CHKERRQ(ierr); 349 ierr = DMGetCoordinateDim(dm,&sdim);CHKERRQ(ierr); 350 ierr = DMGetCoordinatesLocal(dm,&coordinates);CHKERRQ(ierr); 351 if (!coordinates) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Missing local coordinates vector"); 352 353 /* Users can attach a coordinate vector to the DM in case they have a higher-order mesh 354 DMPlex does not currently support HO meshes, so there's no API for this */ 355 ierr = PetscObjectQuery((PetscObject)dm,"_glvis_mesh_coords",(PetscObject*)&hovec);CHKERRQ(ierr); 356 357 /* 358 a couple of sections of the mesh specification are disabled 359 - boundary: unless we want to visualize boundary attributes or we have a periodic mesh 360 the boundary is not needed for proper mesh visualization 361 - vertex_parents: used for non-conforming meshes only when we want to use MFEM as a discretization package 362 and be able to derefine the mesh (MFEM does not currently have to ability to read ncmeshes in parallel) 363 */ 364 enable_boundary = periodic; 365 enable_ncmesh = PETSC_FALSE; 366 enable_mfem = PETSC_FALSE; 367 /* I'm tired of problems with negative values in the markers, disable them */ 368 ierr = PetscOptionsBegin(PetscObjectComm((PetscObject)dm),((PetscObject)dm)->prefix,"GLVis PetscViewer DMPlex Options","PetscViewer");CHKERRQ(ierr); 369 ierr = PetscOptionsBool("-viewer_glvis_dm_plex_enable_boundary","Enable boundary section in mesh representation",NULL,enable_boundary,&enable_boundary,NULL);CHKERRQ(ierr); 370 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); 371 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); 372 ierr = PetscOptionsString("-viewer_glvis_dm_plex_emarker","String for the material id label",NULL,emark,emark,sizeof(emark),NULL);CHKERRQ(ierr); 373 ierr = PetscOptionsString("-viewer_glvis_dm_plex_bmarker","String for the boundary id label",NULL,bmark,bmark,sizeof(bmark),NULL);CHKERRQ(ierr); 374 ierr = PetscOptionsEnd();CHKERRQ(ierr); 375 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)dm),&size);CHKERRQ(ierr); 376 if (enable_ncmesh && size > 1) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Not supported in parallel"); 377 ierr = DMPlexGetDepth(dm,&depth);CHKERRQ(ierr); 378 if (enable_boundary && depth >= 0 && dim != depth) SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Mesh must be interpolated. " 379 "Alternatively, run with -viewer_glvis_dm_plex_enable_boundary 0"); 380 if (enable_ncmesh && depth >= 0 && dim != depth) SETERRQ(PetscObjectComm((PetscObject)dm), PETSC_ERR_ARG_WRONG, "Mesh must be interpolated. " 381 "Alternatively, run with -viewer_glvis_dm_plex_enable_ncmesh 0"); 382 if (depth >=0 && dim != depth) { /* not interpolated, it assumes cell-vertex mesh */ 383 if (depth != 1) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unsupported depth %D. You should interpolate the mesh first",depth); 384 cellvertex = PETSC_TRUE; 385 } 386 387 /* Identify possible cells in the overlap */ 388 novl = 0; 389 pown = NULL; 390 if (size > 1) { 391 IS globalNum = NULL; 392 const PetscInt *gNum; 393 PetscBool ovl = PETSC_FALSE; 394 395 ierr = DMPlexGetCellNumbering(dm,&globalNum);CHKERRQ(ierr); 396 ierr = ISGetIndices(globalNum,&gNum);CHKERRQ(ierr); 397 for (p=cStart; p<cEnd; p++) { 398 if (gNum[p-cStart] < 0) { 399 ovl = PETSC_TRUE; 400 novl++; 401 } 402 } 403 if (ovl) { 404 /* it may happen that pown get not destroyed, if the user closes the window while this function is running. 405 TODO: garbage collector? attach pown to dm? */ 406 ierr = PetscBTCreate(cEnd-cStart,&pown);CHKERRQ(ierr); 407 for (p=cStart; p<cEnd; p++) { 408 if (gNum[p-cStart] < 0) continue; 409 else { 410 ierr = PetscBTSet(pown,p-cStart);CHKERRQ(ierr); 411 } 412 } 413 } 414 ierr = ISRestoreIndices(globalNum,&gNum);CHKERRQ(ierr); 415 } 416 417 /* return if this process is disabled */ 418 if (!enabled) { 419 ierr = PetscViewerASCIIPrintf(viewer,"MFEM mesh v1.1\n");CHKERRQ(ierr); 420 ierr = PetscViewerASCIIPrintf(viewer,"\ndimension\n");CHKERRQ(ierr); 421 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",dim);CHKERRQ(ierr); 422 ierr = PetscViewerASCIIPrintf(viewer,"\nelements\n");CHKERRQ(ierr); 423 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 424 ierr = PetscViewerASCIIPrintf(viewer,"\nboundary\n");CHKERRQ(ierr); 425 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 426 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 427 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 428 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",sdim);CHKERRQ(ierr); 429 ierr = PetscBTDestroy(&pown);CHKERRQ(ierr); 430 PetscFunctionReturn(0); 431 } 432 433 if (enable_mfem) { 434 if (periodic && !hovec) { /* we need to generate a vector of L2 coordinates, as this is how MFEM handles periodic meshes */ 435 PetscInt vpc = 0; 436 char fec[64]; 437 int vids[8] = {0,1,2,3,4,5,6,7}; 438 int hexv[8] = {0,1,3,2,4,5,7,6}, tetv[4] = {0,1,2,3}; 439 int quadv[8] = {0,1,3,2}, triv[3] = {0,1,2}; 440 int *dof = NULL; 441 PetscScalar *array,*ptr; 442 443 ierr = PetscSNPrintf(fec,sizeof(fec),"FiniteElementCollection: L2_T1_%DD_P1",dim);CHKERRQ(ierr); 444 if (cEnd-cStart) { 445 PetscInt fpc; 446 447 ierr = DMPlexGetConeSize(dm,cStart,&fpc);CHKERRQ(ierr); 448 switch(dim) { 449 case 1: 450 vpc = 2; 451 dof = hexv; 452 break; 453 case 2: 454 switch (fpc) { 455 case 3: 456 vpc = 3; 457 dof = triv; 458 break; 459 case 4: 460 vpc = 4; 461 dof = quadv; 462 break; 463 default: 464 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 465 break; 466 } 467 break; 468 case 3: 469 switch (fpc) { 470 case 4: /* TODO: still need to understand L2 ordering for tets */ 471 vpc = 4; 472 dof = tetv; 473 SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled tethraedral case"); 474 break; 475 case 6: 476 if (cellvertex) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: vertices per cell %D",fpc); 477 vpc = 8; 478 dof = hexv; 479 break; 480 case 8: 481 if (!cellvertex) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 482 vpc = 8; 483 dof = hexv; 484 break; 485 default: 486 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 487 break; 488 } 489 break; 490 default: 491 SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Unhandled dim"); 492 break; 493 } 494 ierr = DMPlexInvertCell(dim,vpc,vids);CHKERRQ(ierr); 495 } 496 if (!dof) SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_PLIB,"Missing dofs"); 497 ierr = VecCreateSeq(PETSC_COMM_SELF,(cEnd-cStart-novl)*vpc*sdim,&hovec);CHKERRQ(ierr); 498 ierr = PetscObjectCompose((PetscObject)dm,"_glvis_mesh_coords",(PetscObject)hovec);CHKERRQ(ierr); 499 ierr = PetscObjectDereference((PetscObject)hovec);CHKERRQ(ierr); 500 ierr = PetscObjectSetName((PetscObject)hovec,fec);CHKERRQ(ierr); 501 ierr = VecGetArray(hovec,&array);CHKERRQ(ierr); 502 ptr = array; 503 for (p=cStart;p<cEnd;p++) { 504 PetscInt csize,v,d; 505 PetscScalar *vals = NULL; 506 507 if (PetscUnlikely(pown && !PetscBTLookup(pown,p-cStart))) continue; 508 ierr = DMPlexVecGetClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 509 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); 510 for (v=0;v<vpc;v++) { 511 for (d=0;d<sdim;d++) { 512 ptr[sdim*dof[v]+d] = vals[sdim*vids[v]+d]; 513 } 514 } 515 ptr += vpc*sdim; 516 ierr = DMPlexVecRestoreClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 517 } 518 ierr = VecRestoreArray(hovec,&array);CHKERRQ(ierr); 519 } 520 } 521 522 523 /* header */ 524 ierr = PetscViewerASCIIPrintf(viewer,"MFEM mesh v1.1\n");CHKERRQ(ierr); 525 526 /* topological dimension */ 527 ierr = PetscViewerASCIIPrintf(viewer,"\ndimension\n");CHKERRQ(ierr); 528 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",dim);CHKERRQ(ierr); 529 530 /* elements */ 531 ierr = DMGetLabel(dm,emark,&label);CHKERRQ(ierr); 532 ierr = PetscViewerASCIIPrintf(viewer,"\nelements\n");CHKERRQ(ierr); 533 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",cEnd-cStart-novl);CHKERRQ(ierr); 534 for (p=cStart;p<cEnd;p++) { 535 int vids[8]; 536 PetscInt i,nv = 0,cid = -1,mid = 1; 537 538 if (PetscUnlikely(pown && !PetscBTLookup(pown,p-cStart))) continue; 539 ierr = DMPlexGetPointMFEMCellID_Internal(dm,label,p,&mid,&cid);CHKERRQ(ierr); 540 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,p,(localized && !hovec) ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 541 ierr = DMPlexInvertCell(dim,nv,vids);CHKERRQ(ierr); 542 ierr = PetscViewerASCIIPrintf(viewer,"%D %D",mid,cid);CHKERRQ(ierr); 543 for (i=0;i<nv;i++) { 544 ierr = PetscViewerASCIIPrintf(viewer," %D",(PetscInt)vids[i]);CHKERRQ(ierr); 545 } 546 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 547 } 548 549 /* boundary */ 550 ierr = PetscViewerASCIIPrintf(viewer,"\nboundary\n");CHKERRQ(ierr); 551 if (!enable_boundary) { 552 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",0);CHKERRQ(ierr); 553 } else { 554 DMLabel perLabel; 555 PetscBT bfaces; 556 PetscInt fStart,fEnd,fEndInterior,*fcells; 557 PetscInt *faces = NULL,fpc = 0,vpf = 0, vpc = 0; 558 PetscInt fv1[] = {0,1}, 559 fv2tri[] = {0,1, 560 1,2, 561 2,0}, 562 fv2quad[] = {0,1, 563 1,2, 564 2,3, 565 3,0}, 566 fv3tet[] = {0,1,2, 567 0,3,1, 568 0,2,3, 569 2,1,3}, 570 fv3hex[] = {0,1,2,3, 571 4,5,6,7, 572 0,3,5,4, 573 2,1,7,6, 574 3,2,6,5, 575 0,4,7,1}; 576 577 /* determine orientation of boundary mesh */ 578 if (cEnd-cStart) { 579 ierr = DMPlexGetConeSize(dm,cStart,&fpc);CHKERRQ(ierr); 580 switch(dim) { 581 case 1: 582 if (fpc != 2) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case faces per cell %D",fpc); 583 faces = fv1; 584 vpf = 1; 585 vpc = 2; 586 break; 587 case 2: 588 switch (fpc) { 589 case 3: 590 faces = fv2tri; 591 vpf = 2; 592 vpc = 3; 593 break; 594 case 4: 595 faces = fv2quad; 596 vpf = 2; 597 vpc = 4; 598 break; 599 default: 600 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 601 break; 602 } 603 break; 604 case 3: 605 switch (fpc) { 606 case 4: 607 faces = fv3tet; 608 vpf = 3; 609 vpc = 4; 610 break; 611 case 6: 612 faces = fv3hex; 613 vpf = 4; 614 vpc = 8; 615 break; 616 default: 617 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Unhandled case: faces per cell %D",fpc); 618 break; 619 } 620 break; 621 default: 622 SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Unhandled dim"); 623 break; 624 } 625 } 626 ierr = DMPlexGetHybridBounds(dm,NULL,&fEndInterior,NULL,NULL);CHKERRQ(ierr); 627 ierr = DMPlexGetHeightStratum(dm,1,&fStart,&fEnd);CHKERRQ(ierr); 628 fEnd = fEndInterior < 0 ? fEnd : fEndInterior; 629 ierr = PetscBTCreate(fEnd-fStart,&bfaces);CHKERRQ(ierr); 630 ierr = DMPlexGetMaxSizes(dm,NULL,&p);CHKERRQ(ierr); 631 ierr = PetscMalloc1(p,&fcells);CHKERRQ(ierr); 632 ierr = DMGetLabel(dm,"glvis_periodic_cut",&perLabel);CHKERRQ(ierr); 633 if (!perLabel && localized) { /* this periodic cut can be moved up to DMPlex setup */ 634 ierr = DMCreateLabel(dm,"glvis_periodic_cut");CHKERRQ(ierr); 635 ierr = DMGetLabel(dm,"glvis_periodic_cut",&perLabel);CHKERRQ(ierr); 636 ierr = DMLabelSetDefaultValue(perLabel,1);CHKERRQ(ierr); 637 for (p=cStart;p<cEnd;p++) { 638 PetscInt dof; 639 ierr = PetscSectionGetDof(coordSection,p,&dof);CHKERRQ(ierr); 640 if (dof) { 641 PetscInt v,csize,cellClosureSize,*cellClosure = NULL,*vidxs = NULL; 642 PetscScalar *vals = NULL; 643 644 if (dof%sdim) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_USER,"Incompatible number of cell dofs %D and space dimension %D",dof,sdim); 645 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); 646 ierr = DMPlexVecGetClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 647 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&cellClosureSize,&cellClosure);CHKERRQ(ierr); 648 for (v=0;v<cellClosureSize;v++) 649 if (cellClosure[2*v] >= vStart && cellClosure[2*v] < vEnd) { 650 vidxs = cellClosure + 2*v; 651 break; 652 } 653 if (!vidxs) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Missing vertices"); 654 for (v=0;v<vpc;v++) { 655 PetscInt s; 656 657 for (s=0;s<sdim;s++) { 658 if (PetscAbsScalar(vals[v*sdim+s]-vals[v*sdim+s+vpc*sdim])>PETSC_MACHINE_EPSILON) { 659 ierr = DMLabelSetValue(perLabel,vidxs[2*v],2);CHKERRQ(ierr); 660 } 661 } 662 } 663 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&cellClosureSize,&cellClosure);CHKERRQ(ierr); 664 ierr = DMPlexVecRestoreClosure(dm,coordSection,coordinates,p,&csize,&vals);CHKERRQ(ierr); 665 } 666 } 667 if (dim > 1) { 668 PetscInt eEnd,eStart,eEndInterior; 669 670 ierr = DMPlexGetHybridBounds(dm,NULL,NULL,&eEndInterior,NULL);CHKERRQ(ierr); 671 ierr = DMPlexGetDepthStratum(dm,1,&eStart,&eEnd);CHKERRQ(ierr); 672 eEnd = eEndInterior < 0 ? eEnd : eEndInterior; 673 for (p=eStart;p<eEnd;p++) { 674 const PetscInt *cone; 675 PetscInt coneSize,i; 676 PetscBool ispe = PETSC_TRUE; 677 678 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 679 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 680 for (i=0;i<coneSize;i++) { 681 PetscInt v; 682 683 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 684 ispe = (PetscBool)(ispe && (v==2)); 685 } 686 if (ispe && coneSize) { 687 ierr = DMLabelSetValue(perLabel,p,2);CHKERRQ(ierr); 688 } 689 } 690 if (dim > 2) { 691 for (p=fStart;p<fEnd;p++) { 692 const PetscInt *cone; 693 PetscInt coneSize,i; 694 PetscBool ispe = PETSC_TRUE; 695 696 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 697 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 698 for (i=0;i<coneSize;i++) { 699 PetscInt v; 700 701 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 702 ispe = (PetscBool)(ispe && (v==2)); 703 } 704 if (ispe && coneSize) { 705 ierr = DMLabelSetValue(perLabel,p,2);CHKERRQ(ierr); 706 } 707 } 708 } 709 } 710 } 711 for (p=fStart;p<fEnd;p++) { 712 const PetscInt *support; 713 PetscInt supportSize; 714 PetscBool isbf = PETSC_FALSE; 715 716 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 717 if (pown) { 718 PetscBool has_owned = PETSC_FALSE, has_ghost = PETSC_FALSE; 719 PetscInt i; 720 721 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 722 for (i=0;i<supportSize;i++) { 723 if (PetscLikely(PetscBTLookup(pown,support[i]-cStart))) has_owned = PETSC_TRUE; 724 else has_ghost = PETSC_TRUE; 725 } 726 isbf = (PetscBool)((supportSize == 1 && has_owned) || (supportSize > 1 && has_owned && has_ghost)); 727 } else { 728 isbf = (PetscBool)(supportSize == 1); 729 } 730 if (!isbf && perLabel) { 731 const PetscInt *cone; 732 PetscInt coneSize,i; 733 734 ierr = DMPlexGetCone(dm,p,&cone);CHKERRQ(ierr); 735 ierr = DMPlexGetConeSize(dm,p,&coneSize);CHKERRQ(ierr); 736 isbf = PETSC_TRUE; 737 for (i=0;i<coneSize;i++) { 738 PetscInt v,d; 739 740 ierr = DMLabelGetValue(perLabel,cone[i],&v);CHKERRQ(ierr); 741 ierr = DMLabelGetDefaultValue(perLabel,&d);CHKERRQ(ierr); 742 isbf = (PetscBool)(isbf && v != d); 743 } 744 } 745 if (isbf) { 746 ierr = PetscBTSet(bfaces,p-fStart);CHKERRQ(ierr); 747 } 748 } 749 /* count boundary faces */ 750 for (p=fStart,bf=0;p<fEnd;p++) { 751 if (PetscUnlikely(PetscBTLookup(bfaces,p-fStart))) { 752 const PetscInt *support; 753 PetscInt supportSize,c; 754 755 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 756 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 757 if (pown) { 758 for (c=0;c<supportSize;c++) { 759 if (PetscLikely(PetscBTLookup(pown,support[c]-cStart))) { 760 bf++; 761 } 762 } 763 } else bf += supportSize; 764 } 765 } 766 ierr = DMGetLabel(dm,bmark,&label);CHKERRQ(ierr); 767 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",bf);CHKERRQ(ierr); 768 for (p=fStart;p<fEnd;p++) { 769 if (PetscUnlikely(PetscBTLookup(bfaces,p-fStart))) { 770 const PetscInt *support; 771 PetscInt supportSize,c,nc = 0; 772 773 ierr = DMPlexGetSupportSize(dm,p,&supportSize);CHKERRQ(ierr); 774 ierr = DMPlexGetSupport(dm,p,&support);CHKERRQ(ierr); 775 if (pown) { 776 for (c=0;c<supportSize;c++) { 777 if (PetscLikely(PetscBTLookup(pown,support[c]-cStart))) { 778 fcells[nc++] = support[c]; 779 } 780 } 781 } else for (c=0;c<supportSize;c++) fcells[nc++] = support[c]; 782 for (c=0;c<nc;c++) { 783 const PetscInt *cone; 784 int vids[8]; 785 PetscInt i,cell,cl,nv,cid = -1,mid = -1; 786 787 cell = fcells[c]; 788 ierr = DMPlexGetCone(dm,cell,&cone);CHKERRQ(ierr); 789 for (cl=0;cl<fpc;cl++) 790 if (cone[cl] == p) 791 break; 792 793 /* face material id and type */ 794 ierr = DMPlexGetPointMFEMCellID_Internal(dm,label,p,&mid,&cid);CHKERRQ(ierr); 795 ierr = PetscViewerASCIIPrintf(viewer,"%D %D",mid,cid);CHKERRQ(ierr); 796 /* vertex ids */ 797 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,cell,(localized && !hovec) ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 798 for (i=0;i<vpf;i++) { 799 ierr = PetscViewerASCIIPrintf(viewer," %D",vids[faces[cl*vpf+i]]);CHKERRQ(ierr); 800 } 801 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 802 } 803 bf = bf-nc; 804 } 805 } 806 if (bf) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Remaining boundary faces %D",bf); 807 ierr = PetscBTDestroy(&bfaces);CHKERRQ(ierr); 808 ierr = PetscFree(fcells);CHKERRQ(ierr); 809 } 810 811 /* mark owned vertices */ 812 vown = NULL; 813 if (pown) { 814 ierr = PetscBTCreate(vEnd-vStart,&vown);CHKERRQ(ierr); 815 for (p=cStart;p<cEnd;p++) { 816 PetscInt i,closureSize,*closure = NULL; 817 818 if (PetscUnlikely(!PetscBTLookup(pown,p-cStart))) continue; 819 ierr = DMPlexGetTransitiveClosure(dm,p,PETSC_TRUE,&closureSize,&closure);CHKERRQ(ierr); 820 for (i=0;i<closureSize;i++) { 821 const PetscInt pp = closure[2*i]; 822 823 if (pp >= vStart && pp < vEnd) { 824 ierr = PetscBTSet(vown,pp-vStart);CHKERRQ(ierr); 825 } 826 } 827 ierr = DMPlexRestoreTransitiveClosure(dm,p,PETSC_TRUE,&closureSize,&closure);CHKERRQ(ierr); 828 } 829 } 830 831 /* vertex_parents (Non-conforming meshes) */ 832 parentSection = NULL; 833 if (enable_ncmesh) { 834 ierr = DMPlexGetTree(dm,&parentSection,NULL,NULL,NULL,NULL);CHKERRQ(ierr); 835 } 836 if (parentSection) { 837 PetscInt vp,gvp; 838 839 for (vp=0,p=vStart;p<vEnd;p++) { 840 DMLabel dlabel; 841 PetscInt parent,depth; 842 843 if (PetscUnlikely(vown && !PetscBTLookup(vown,p-vStart))) continue; 844 ierr = DMPlexGetDepthLabel(dm,&dlabel);CHKERRQ(ierr); 845 ierr = DMLabelGetValue(dlabel,p,&depth);CHKERRQ(ierr); 846 ierr = DMPlexGetTreeParent(dm,p,&parent,NULL);CHKERRQ(ierr); 847 if (parent != p) vp++; 848 } 849 ierr = MPIU_Allreduce(&vp,&gvp,1,MPIU_INT,MPI_SUM,PetscObjectComm((PetscObject)dm));CHKERRQ(ierr); 850 if (gvp) { 851 PetscInt maxsupp; 852 PetscBool *skip = NULL; 853 854 ierr = PetscViewerASCIIPrintf(viewer,"\nvertex_parents\n");CHKERRQ(ierr); 855 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",vp);CHKERRQ(ierr); 856 ierr = DMPlexGetMaxSizes(dm,NULL,&maxsupp);CHKERRQ(ierr); 857 ierr = PetscMalloc1(maxsupp,&skip);CHKERRQ(ierr); 858 for (p=vStart;p<vEnd;p++) { 859 DMLabel dlabel; 860 PetscInt parent; 861 862 if (PetscUnlikely(vown && !PetscBTLookup(vown,p-vStart))) continue; 863 ierr = DMPlexGetDepthLabel(dm,&dlabel);CHKERRQ(ierr); 864 ierr = DMPlexGetTreeParent(dm,p,&parent,NULL);CHKERRQ(ierr); 865 if (parent != p) { 866 int vids[8] = { -1, -1, -1, -1, -1, -1, -1, -1 }; /* silent overzealous clang static analyzer */ 867 PetscInt i,nv,ssize,n,numChildren,depth = -1; 868 const PetscInt *children; 869 870 ierr = DMPlexGetConeSize(dm,parent,&ssize);CHKERRQ(ierr); 871 switch (ssize) { 872 case 2: /* edge */ 873 nv = 0; 874 ierr = DMPlexGetPointMFEMVertexIDs_Internal(dm,parent,localized ? coordSection : NULL,&nv,vids);CHKERRQ(ierr); 875 ierr = DMPlexInvertCell(dim,nv,vids);CHKERRQ(ierr); 876 ierr = PetscViewerASCIIPrintf(viewer,"%D",p-vStart);CHKERRQ(ierr); 877 for (i=0;i<nv;i++) { 878 ierr = PetscViewerASCIIPrintf(viewer," %D",(PetscInt)vids[i]);CHKERRQ(ierr); 879 } 880 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 881 vp--; 882 break; 883 case 4: /* face */ 884 ierr = DMPlexGetTreeChildren(dm,parent,&numChildren,&children);CHKERRQ(ierr); 885 for (n=0;n<numChildren;n++) { 886 ierr = DMLabelGetValue(dlabel,children[n],&depth);CHKERRQ(ierr); 887 if (!depth) { 888 const PetscInt *hvsupp,*hesupp,*cone; 889 PetscInt hvsuppSize,hesuppSize,coneSize; 890 PetscInt hv = children[n],he = -1,f; 891 892 ierr = PetscMemzero(skip,maxsupp*sizeof(PetscBool));CHKERRQ(ierr); 893 ierr = DMPlexGetSupportSize(dm,hv,&hvsuppSize);CHKERRQ(ierr); 894 ierr = DMPlexGetSupport(dm,hv,&hvsupp);CHKERRQ(ierr); 895 for (i=0;i<hvsuppSize;i++) { 896 PetscInt ep; 897 ierr = DMPlexGetTreeParent(dm,hvsupp[i],&ep,NULL);CHKERRQ(ierr); 898 if (ep != hvsupp[i]) { 899 he = hvsupp[i]; 900 } else { 901 skip[i] = PETSC_TRUE; 902 } 903 } 904 if (he == -1) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_SUP,"Vertex %D support size %D: hanging edge not found",hv,hvsuppSize); 905 ierr = DMPlexGetCone(dm,he,&cone);CHKERRQ(ierr); 906 vids[0] = (int)((cone[0] == hv) ? cone[1] : cone[0]); 907 ierr = DMPlexGetSupportSize(dm,he,&hesuppSize);CHKERRQ(ierr); 908 ierr = DMPlexGetSupport(dm,he,&hesupp);CHKERRQ(ierr); 909 for (f=0;f<hesuppSize;f++) { 910 PetscInt j; 911 912 ierr = DMPlexGetCone(dm,hesupp[f],&cone);CHKERRQ(ierr); 913 ierr = DMPlexGetConeSize(dm,hesupp[f],&coneSize);CHKERRQ(ierr); 914 for (j=0;j<coneSize;j++) { 915 PetscInt k; 916 for (k=0;k<hvsuppSize;k++) { 917 if (hvsupp[k] == cone[j]) { 918 skip[k] = PETSC_TRUE; 919 break; 920 } 921 } 922 } 923 } 924 for (i=0;i<hvsuppSize;i++) { 925 if (!skip[i]) { 926 ierr = DMPlexGetCone(dm,hvsupp[i],&cone);CHKERRQ(ierr); 927 vids[1] = (int)((cone[0] == hv) ? cone[1] : cone[0]); 928 } 929 } 930 ierr = PetscViewerASCIIPrintf(viewer,"%D",hv-vStart);CHKERRQ(ierr); 931 for (i=0;i<2;i++) { 932 ierr = PetscViewerASCIIPrintf(viewer," %D",(PetscInt)(vids[i]-vStart));CHKERRQ(ierr); 933 } 934 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 935 vp--; 936 } 937 } 938 break; 939 default: 940 SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Don't know how to deal with support size %D",ssize); 941 } 942 } 943 } 944 ierr = PetscFree(skip);CHKERRQ(ierr); 945 } 946 if (vp) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Unexpected %D hanging vertices",vp); 947 } 948 ierr = PetscBTDestroy(&pown);CHKERRQ(ierr); 949 ierr = PetscBTDestroy(&vown);CHKERRQ(ierr); 950 951 /* vertices */ 952 if (hovec) { /* higher-order meshes */ 953 const char *fec; 954 PetscInt i,n; 955 956 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 957 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",vEnd-vStart);CHKERRQ(ierr); 958 ierr = PetscViewerASCIIPrintf(viewer,"nodes\n");CHKERRQ(ierr); 959 ierr = PetscObjectGetName((PetscObject)hovec,&fec);CHKERRQ(ierr); 960 ierr = PetscViewerASCIIPrintf(viewer,"FiniteElementSpace\n");CHKERRQ(ierr); 961 ierr = PetscViewerASCIIPrintf(viewer,"%s\n",fec);CHKERRQ(ierr); 962 ierr = PetscViewerASCIIPrintf(viewer,"VDim: %D\n",sdim);CHKERRQ(ierr); 963 ierr = PetscViewerASCIIPrintf(viewer,"Ordering: 1\n\n");CHKERRQ(ierr); /*Ordering::byVDIM*/ 964 ierr = VecGetArrayRead(hovec,&array);CHKERRQ(ierr); 965 ierr = VecGetLocalSize(hovec,&n);CHKERRQ(ierr); 966 if (n%sdim) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_USER,"Size of local coordinate vector %D incompatible with space dimension %D",n,sdim); 967 for (i=0;i<n/sdim;i++) { 968 PetscInt s; 969 for (s=0;s<sdim;s++) { 970 ierr = PetscViewerASCIIPrintf(viewer,fmt,PetscRealPart(array[i*sdim+s]));CHKERRQ(ierr); 971 } 972 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 973 } 974 ierr = VecRestoreArrayRead(hovec,&array);CHKERRQ(ierr); 975 } else { 976 ierr = VecGetLocalSize(coordinates,&nvert);CHKERRQ(ierr); 977 ierr = PetscViewerASCIIPrintf(viewer,"\nvertices\n");CHKERRQ(ierr); 978 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",nvert/sdim);CHKERRQ(ierr); 979 ierr = PetscViewerASCIIPrintf(viewer,"%D\n",sdim);CHKERRQ(ierr); 980 ierr = VecGetArrayRead(coordinates,&array);CHKERRQ(ierr); 981 for (p=0;p<nvert/sdim;p++) { 982 PetscInt s; 983 for (s=0;s<sdim;s++) { 984 ierr = PetscViewerASCIIPrintf(viewer,fmt,PetscRealPart(array[p*sdim+s]));CHKERRQ(ierr); 985 } 986 ierr = PetscViewerASCIIPrintf(viewer,"\n");CHKERRQ(ierr); 987 } 988 ierr = VecRestoreArrayRead(coordinates,&array);CHKERRQ(ierr); 989 } 990 PetscFunctionReturn(0); 991 } 992 993 /* dispatching, prints through the socket by prepending the mesh keyword to the usual ASCII dump */ 994 PETSC_INTERN PetscErrorCode DMPlexView_GLVis(DM dm, PetscViewer viewer) 995 { 996 PetscErrorCode ierr; 997 PetscBool isglvis,isascii; 998 999 PetscFunctionBegin; 1000 PetscValidHeaderSpecific(dm,DM_CLASSID,1); 1001 PetscValidHeaderSpecific(viewer,PETSC_VIEWER_CLASSID,2); 1002 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERGLVIS,&isglvis);CHKERRQ(ierr); 1003 ierr = PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERASCII,&isascii);CHKERRQ(ierr); 1004 if (!isglvis && !isascii) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Viewer must be of type VIEWERGLVIS or VIEWERASCII"); 1005 if (isglvis) { 1006 PetscViewer view; 1007 PetscViewerGLVisType type; 1008 1009 ierr = PetscViewerGLVisGetType_Private(viewer,&type);CHKERRQ(ierr); 1010 ierr = PetscViewerGLVisGetDMWindow_Private(viewer,&view);CHKERRQ(ierr); 1011 if (view) { /* in the socket case, it may happen that the connection failed */ 1012 if (type == PETSC_VIEWER_GLVIS_SOCKET) { 1013 PetscMPIInt size,rank; 1014 1015 ierr = MPI_Comm_size(PetscObjectComm((PetscObject)dm),&size);CHKERRQ(ierr); 1016 ierr = MPI_Comm_rank(PetscObjectComm((PetscObject)dm),&rank);CHKERRQ(ierr); 1017 ierr = PetscViewerASCIIPrintf(view,"parallel %D %D\nmesh\n",size,rank);CHKERRQ(ierr); 1018 } 1019 ierr = DMPlexView_GLVis_ASCII(dm,view);CHKERRQ(ierr); 1020 ierr = PetscViewerFlush(view);CHKERRQ(ierr); 1021 if (type == PETSC_VIEWER_GLVIS_SOCKET) { 1022 PetscInt dim; 1023 const char* name; 1024 1025 ierr = PetscObjectGetName((PetscObject)dm,&name);CHKERRQ(ierr); 1026 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 1027 ierr = PetscViewerGLVisInitWindow_Private(view,PETSC_TRUE,dim,name);CHKERRQ(ierr); 1028 ierr = PetscBarrier((PetscObject)dm);CHKERRQ(ierr); 1029 } 1030 } 1031 } else { 1032 ierr = DMPlexView_GLVis_ASCII(dm,viewer);CHKERRQ(ierr); 1033 } 1034 PetscFunctionReturn(0); 1035 } 1036