12bc0b47dSJoe Wallwork #include <petsc/private/dmpleximpl.h> /*I "petscdmplex.h" I*/ 22bc0b47dSJoe Wallwork #include <parmmg/libparmmg.h> 32bc0b47dSJoe Wallwork 49fe9e680SJoe Wallwork PETSC_EXTERN PetscErrorCode DMAdaptMetric_ParMmg_Plex(DM dm, Vec vertexMetric, DMLabel bdLabel, DMLabel rgLabel, DM *dmNew) 52bc0b47dSJoe Wallwork { 62bc0b47dSJoe Wallwork MPI_Comm comm, tmpComm; 72bc0b47dSJoe Wallwork const char *bdName = "_boundary_"; 89fe9e680SJoe Wallwork const char *rgName = "_regions_"; 92bc0b47dSJoe Wallwork DM udm, cdm; 10c1dc6da0SJoe Wallwork DMLabel bdLabelNew, rgLabelNew; 119fe9e680SJoe Wallwork const char *bdLabelName, *rgLabelName; 12c1dc6da0SJoe Wallwork IS globalVertexNum; 132bc0b47dSJoe Wallwork PetscSection coordSection; 142bc0b47dSJoe Wallwork Vec coordinates; 152bc0b47dSJoe Wallwork PetscSF sf; 162bc0b47dSJoe Wallwork const PetscScalar *coords, *met; 17c1dc6da0SJoe Wallwork PetscReal *vertices, *metric, *verticesNew, *verticesNewLoc, gradationFactor; 18c1dc6da0SJoe Wallwork PetscInt *cells, *cellsNew, *cellTags, *cellTagsNew, *verTags, *verTagsNew; 19c1dc6da0SJoe Wallwork PetscInt *bdFaces, *faceTags, *facesNew, *faceTagsNew; 20c1dc6da0SJoe Wallwork PetscInt *corners, *requiredCells, *requiredVer, *ridges, *requiredFaces; 21c1dc6da0SJoe Wallwork PetscInt cStart, cEnd, c, numCells, fStart, fEnd, f, numFaceTags, vStart, vEnd, v, numVertices; 22c1dc6da0SJoe Wallwork PetscInt dim, off, coff, maxConeSize, bdSize, i, j, k, Neq, verbosity, numIter; 232bc0b47dSJoe Wallwork PetscInt *numVerInterfaces, *ngbRanks, *verNgbRank, *interfaces_lv, *interfaces_gv, *intOffset; 24c1dc6da0SJoe Wallwork PetscInt niranks, nrranks, numNgbRanks, numVerNgbRanksTotal, count, sliceSize, p, r, n, lv, gv; 25c1dc6da0SJoe Wallwork PetscInt *gv_new, *owners, *verticesNewSorted, pStart, pEnd; 262bc0b47dSJoe Wallwork PetscInt numCellsNew, numVerticesNew, numCornersNew, numFacesNew, numVerticesNewLoc; 27c1dc6da0SJoe Wallwork const PetscInt *gV, *ioffset, *irootloc, *roffset, *rmine, *rremote; 28*93520041SJoe Wallwork PetscBool flg = PETSC_FALSE, noInsert, noSwap, noMove, isotropic, uniform; 292bc0b47dSJoe Wallwork const PetscMPIInt *iranks, *rranks; 302bc0b47dSJoe Wallwork PetscMPIInt numProcs, rank; 312bc0b47dSJoe Wallwork PMMG_pParMesh parmesh = NULL; 322bc0b47dSJoe Wallwork PetscErrorCode ierr; 332bc0b47dSJoe Wallwork 342bc0b47dSJoe Wallwork PetscFunctionBegin; 352bc0b47dSJoe Wallwork ierr = PetscObjectGetComm((PetscObject) dm, &comm);CHKERRQ(ierr); 362bc0b47dSJoe Wallwork ierr = MPI_Comm_size(comm, &numProcs);CHKERRMPI(ierr); 372bc0b47dSJoe Wallwork ierr = MPI_Comm_rank(comm, &rank);CHKERRMPI(ierr); 382bc0b47dSJoe Wallwork ierr = MPI_Comm_dup(comm, &tmpComm);CHKERRMPI(ierr); 392bc0b47dSJoe Wallwork if (bdLabel) { 402bc0b47dSJoe Wallwork ierr = PetscObjectGetName((PetscObject) bdLabel, &bdLabelName);CHKERRQ(ierr); 412bc0b47dSJoe Wallwork ierr = PetscStrcmp(bdLabelName, bdName, &flg);CHKERRQ(ierr); 422bc0b47dSJoe Wallwork if (flg) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "\"%s\" cannot be used as label for boundary facets", bdLabelName); 432bc0b47dSJoe Wallwork } 449fe9e680SJoe Wallwork if (rgLabel) { 459fe9e680SJoe Wallwork ierr = PetscObjectGetName((PetscObject) rgLabel, &rgLabelName);CHKERRQ(ierr); 469fe9e680SJoe Wallwork ierr = PetscStrcmp(rgLabelName, rgName, &flg);CHKERRQ(ierr); 479fe9e680SJoe Wallwork if (flg) SETERRQ1(comm, PETSC_ERR_ARG_WRONG, "\"%s\" cannot be used as label for element tags", rgLabelName); 489fe9e680SJoe Wallwork } 492bc0b47dSJoe Wallwork 502bc0b47dSJoe Wallwork /* Get mesh information */ 512bc0b47dSJoe Wallwork ierr = DMGetDimension(dm, &dim);CHKERRQ(ierr); 52546078acSJacob Faibussowitsch if (dim != 3) SETERRQ(comm, PETSC_ERR_ARG_OUTOFRANGE, "ParMmg only works in 3D."); 532bc0b47dSJoe Wallwork Neq = (dim*(dim+1))/2; 542bc0b47dSJoe Wallwork ierr = DMPlexGetHeightStratum(dm, 0, &cStart, &cEnd);CHKERRQ(ierr); 55c1dc6da0SJoe Wallwork ierr = DMPlexGetHeightStratum(dm, 1, &fStart, &fEnd);CHKERRQ(ierr); 562bc0b47dSJoe Wallwork ierr = DMPlexGetDepthStratum(dm, 0, &vStart, &vEnd);CHKERRQ(ierr); 572bc0b47dSJoe Wallwork ierr = DMPlexUninterpolate(dm, &udm);CHKERRQ(ierr); 582bc0b47dSJoe Wallwork ierr = DMPlexGetMaxSizes(udm, &maxConeSize, NULL);CHKERRQ(ierr); 592bc0b47dSJoe Wallwork numCells = cEnd - cStart; 602bc0b47dSJoe Wallwork numVertices = vEnd - vStart; 612bc0b47dSJoe Wallwork 622bc0b47dSJoe Wallwork /* Get cell offsets */ 632bc0b47dSJoe Wallwork ierr = PetscMalloc1(numCells*maxConeSize, &cells);CHKERRQ(ierr); 642bc0b47dSJoe Wallwork for (c = 0, coff = 0; c < numCells; ++c) { 652bc0b47dSJoe Wallwork const PetscInt *cone; 662bc0b47dSJoe Wallwork PetscInt coneSize, cl; 672bc0b47dSJoe Wallwork 682bc0b47dSJoe Wallwork ierr = DMPlexGetConeSize(udm, c, &coneSize);CHKERRQ(ierr); 692bc0b47dSJoe Wallwork ierr = DMPlexGetCone(udm, c, &cone);CHKERRQ(ierr); 702bc0b47dSJoe Wallwork for (cl = 0; cl < coneSize; ++cl) cells[coff++] = cone[cl] - vStart+1; 712bc0b47dSJoe Wallwork } 722bc0b47dSJoe Wallwork 732bc0b47dSJoe Wallwork /* Get vertex coordinate array */ 742bc0b47dSJoe Wallwork ierr = DMGetCoordinateDM(dm, &cdm);CHKERRQ(ierr); 752bc0b47dSJoe Wallwork ierr = DMGetLocalSection(cdm, &coordSection);CHKERRQ(ierr); 762bc0b47dSJoe Wallwork ierr = DMGetCoordinatesLocal(dm, &coordinates);CHKERRQ(ierr); 772bc0b47dSJoe Wallwork ierr = VecGetArrayRead(coordinates, &coords);CHKERRQ(ierr); 782bc0b47dSJoe Wallwork ierr = PetscMalloc2(numVertices*Neq, &metric, dim*numVertices, &vertices);CHKERRQ(ierr); 792bc0b47dSJoe Wallwork for (v = 0; v < vEnd-vStart; ++v) { 802bc0b47dSJoe Wallwork ierr = PetscSectionGetOffset(coordSection, v+vStart, &off);CHKERRQ(ierr); 812bc0b47dSJoe Wallwork for (i = 0; i < dim; ++i) vertices[dim*v+i] = PetscRealPart(coords[off+i]); 822bc0b47dSJoe Wallwork } 832bc0b47dSJoe Wallwork ierr = VecRestoreArrayRead(coordinates, &coords);CHKERRQ(ierr); 842bc0b47dSJoe Wallwork 85c1dc6da0SJoe Wallwork /* Get face tags */ 86c1dc6da0SJoe Wallwork if (!bdLabel) { 87c1dc6da0SJoe Wallwork flg = PETSC_TRUE; 88c1dc6da0SJoe Wallwork ierr = DMLabelCreate(PETSC_COMM_SELF, bdName, &bdLabel);CHKERRQ(ierr); 89c1dc6da0SJoe Wallwork ierr = DMPlexMarkBoundaryFaces(dm, 1, bdLabel);CHKERRQ(ierr); 90c1dc6da0SJoe Wallwork } 91c1dc6da0SJoe Wallwork ierr = DMLabelGetBounds(bdLabel, &pStart, &pEnd);CHKERRQ(ierr); 92c1dc6da0SJoe Wallwork for (f = pStart, bdSize = 0, numFaceTags = 0; f < pEnd; ++f) { 93c1dc6da0SJoe Wallwork PetscBool hasPoint; 94c1dc6da0SJoe Wallwork PetscInt *closure = NULL, closureSize, cl; 952bc0b47dSJoe Wallwork 96c1dc6da0SJoe Wallwork ierr = DMLabelHasPoint(bdLabel, f, &hasPoint);CHKERRQ(ierr); 97c1dc6da0SJoe Wallwork if ((!hasPoint) || (f < fStart) || (f >= fEnd)) continue; 98c1dc6da0SJoe Wallwork numFaceTags++; 99c1dc6da0SJoe Wallwork 100c1dc6da0SJoe Wallwork ierr = DMPlexGetTransitiveClosure(dm, f, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1012bc0b47dSJoe Wallwork for (cl = 0; cl < closureSize*2; cl += 2) { 1022bc0b47dSJoe Wallwork if ((closure[cl] >= vStart) && (closure[cl] < vEnd)) ++bdSize; 1032bc0b47dSJoe Wallwork } 104c1dc6da0SJoe Wallwork ierr = DMPlexRestoreTransitiveClosure(dm, f, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1052bc0b47dSJoe Wallwork } 106c1dc6da0SJoe Wallwork ierr = PetscMalloc2(bdSize, &bdFaces, numFaceTags, &faceTags);CHKERRQ(ierr); 107c1dc6da0SJoe Wallwork for (f = pStart, bdSize = 0, numFaceTags = 0; f < pEnd; ++f) { 108c1dc6da0SJoe Wallwork PetscBool hasPoint; 109c1dc6da0SJoe Wallwork PetscInt *closure = NULL, closureSize, cl; 1102bc0b47dSJoe Wallwork 111c1dc6da0SJoe Wallwork ierr = DMLabelHasPoint(bdLabel, f, &hasPoint);CHKERRQ(ierr); 112c1dc6da0SJoe Wallwork if ((!hasPoint) || (f < fStart) || (f >= fEnd)) continue; 113c1dc6da0SJoe Wallwork 114c1dc6da0SJoe Wallwork ierr = DMPlexGetTransitiveClosure(dm, f, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 1152bc0b47dSJoe Wallwork for (cl = 0; cl < closureSize*2; cl += 2) { 1162bc0b47dSJoe Wallwork if ((closure[cl] >= vStart) && (closure[cl] < vEnd)) bdFaces[bdSize++] = closure[cl] - vStart+1; 1172bc0b47dSJoe Wallwork } 118c1dc6da0SJoe Wallwork ierr = DMPlexRestoreTransitiveClosure(dm, f, PETSC_TRUE, &closureSize, &closure);CHKERRQ(ierr); 119c1dc6da0SJoe Wallwork ierr = DMLabelGetValue(bdLabel, f, &faceTags[numFaceTags++]);CHKERRQ(ierr); 1202bc0b47dSJoe Wallwork } 1212bc0b47dSJoe Wallwork 1229fe9e680SJoe Wallwork /* Get cell tags */ 1239fe9e680SJoe Wallwork ierr = PetscCalloc2(numVertices, &verTags, numCells, &cellTags);CHKERRQ(ierr); 1249fe9e680SJoe Wallwork if (rgLabel) { 1259fe9e680SJoe Wallwork for (c = cStart; c < cEnd; ++c) { ierr = DMLabelGetValue(rgLabel, c, &cellTags[c]);CHKERRQ(ierr); } 1269fe9e680SJoe Wallwork } 1279fe9e680SJoe Wallwork 1282bc0b47dSJoe Wallwork /* Get metric */ 1292bc0b47dSJoe Wallwork ierr = VecViewFromOptions(vertexMetric, NULL, "-adapt_metric_view");CHKERRQ(ierr); 1302bc0b47dSJoe Wallwork ierr = VecGetArrayRead(vertexMetric, &met);CHKERRQ(ierr); 131*93520041SJoe Wallwork ierr = DMPlexMetricIsIsotropic(dm, &isotropic);CHKERRQ(ierr); 132*93520041SJoe Wallwork ierr = DMPlexMetricIsUniform(dm, &uniform);CHKERRQ(ierr); 1332bc0b47dSJoe Wallwork for (v = 0; v < (vEnd-vStart); ++v) { 1342bc0b47dSJoe Wallwork for (i = 0, k = 0; i < dim; ++i) { 1352bc0b47dSJoe Wallwork for (j = i; j < dim; ++j) { 136*93520041SJoe Wallwork if (isotropic) { 137*93520041SJoe Wallwork if (i == j) { 138*93520041SJoe Wallwork if (uniform) metric[Neq*v+k] = PetscRealPart(met[0]); 139*93520041SJoe Wallwork else metric[Neq*v+k] = PetscRealPart(met[v]); 140*93520041SJoe Wallwork } else metric[Neq*v+k] = 0.0; 141*93520041SJoe Wallwork } else { 1422bc0b47dSJoe Wallwork metric[Neq*v+k] = PetscRealPart(met[dim*dim*v+dim*i+j]); 143*93520041SJoe Wallwork } 1442bc0b47dSJoe Wallwork k++; 1452bc0b47dSJoe Wallwork } 1462bc0b47dSJoe Wallwork } 1472bc0b47dSJoe Wallwork } 1482bc0b47dSJoe Wallwork ierr = VecRestoreArrayRead(vertexMetric, &met);CHKERRQ(ierr); 1492bc0b47dSJoe Wallwork 1502bc0b47dSJoe Wallwork /* Build ParMMG communicators: the list of vertices between two partitions */ 1512bc0b47dSJoe Wallwork niranks = nrranks = 0; 1522bc0b47dSJoe Wallwork numNgbRanks = 0; 1532bc0b47dSJoe Wallwork if (numProcs > 1) { 1542bc0b47dSJoe Wallwork ierr = DMGetPointSF(dm, &sf);CHKERRQ(ierr); 1552bc0b47dSJoe Wallwork ierr = PetscSFSetUp(sf);CHKERRQ(ierr); 1562bc0b47dSJoe Wallwork ierr = PetscSFGetLeafRanks(sf, &niranks, &iranks, &ioffset, &irootloc);CHKERRQ(ierr); 1572bc0b47dSJoe Wallwork ierr = PetscSFGetRootRanks(sf, &nrranks, &rranks, &roffset, &rmine, &rremote);CHKERRQ(ierr); 1582bc0b47dSJoe Wallwork ierr = PetscCalloc1(numProcs, &numVerInterfaces);CHKERRQ(ierr); 1592bc0b47dSJoe Wallwork 160c51fff1bSJoe Wallwork /* Count number of roots associated with each leaf */ 1612bc0b47dSJoe Wallwork for (r = 0; r < niranks; ++r) { 1622bc0b47dSJoe Wallwork for (i=ioffset[r], count=0; i<ioffset[r+1]; ++i) { 1632bc0b47dSJoe Wallwork if (irootloc[i] >= vStart && irootloc[i] < vEnd) count++; 1642bc0b47dSJoe Wallwork } 1652bc0b47dSJoe Wallwork numVerInterfaces[iranks[r]] += count; 1662bc0b47dSJoe Wallwork } 167c51fff1bSJoe Wallwork 168c51fff1bSJoe Wallwork /* Count number of leaves associated with each root */ 1692bc0b47dSJoe Wallwork for (r = 0; r < nrranks; ++r) { 1702bc0b47dSJoe Wallwork for (i=roffset[r], count=0; i<roffset[r+1]; ++i) { 1712bc0b47dSJoe Wallwork if (rmine[i] >= vStart && rmine[i] < vEnd) count++; 1722bc0b47dSJoe Wallwork } 1732bc0b47dSJoe Wallwork numVerInterfaces[rranks[r]] += count; 1742bc0b47dSJoe Wallwork } 175c51fff1bSJoe Wallwork 176c51fff1bSJoe Wallwork /* Count global number of ranks */ 1772bc0b47dSJoe Wallwork for (p = 0; p < numProcs; ++p) { 1782bc0b47dSJoe Wallwork if (numVerInterfaces[p]) numNgbRanks++; 1792bc0b47dSJoe Wallwork } 180c51fff1bSJoe Wallwork 181c51fff1bSJoe Wallwork /* Provide numbers of vertex interfaces */ 1822bc0b47dSJoe Wallwork ierr = PetscMalloc2(numNgbRanks, &ngbRanks, numNgbRanks, &verNgbRank);CHKERRQ(ierr); 1832bc0b47dSJoe Wallwork for (p = 0, n = 0; p < numProcs; ++p) { 1842bc0b47dSJoe Wallwork if (numVerInterfaces[p]) { 1852bc0b47dSJoe Wallwork ngbRanks[n] = p; 1862bc0b47dSJoe Wallwork verNgbRank[n] = numVerInterfaces[p]; 1872bc0b47dSJoe Wallwork n++; 1882bc0b47dSJoe Wallwork } 1892bc0b47dSJoe Wallwork } 1902bc0b47dSJoe Wallwork numVerNgbRanksTotal = 0; 1912bc0b47dSJoe Wallwork for (p = 0; p < numNgbRanks; ++p) numVerNgbRanksTotal += verNgbRank[p]; 1922bc0b47dSJoe Wallwork 1932bc0b47dSJoe Wallwork /* For each neighbor, fill in interface arrays */ 1942bc0b47dSJoe Wallwork ierr = PetscMalloc3(numVerNgbRanksTotal, &interfaces_lv, numVerNgbRanksTotal, &interfaces_gv, numNgbRanks+1, &intOffset);CHKERRQ(ierr); 1952bc0b47dSJoe Wallwork intOffset[0] = 0; 1962bc0b47dSJoe Wallwork for (p = 0, r = 0, i = 0; p < numNgbRanks; ++p) { 1972bc0b47dSJoe Wallwork intOffset[p+1] = intOffset[p]; 198c51fff1bSJoe Wallwork 199c51fff1bSJoe Wallwork /* Leaf case */ 2002bc0b47dSJoe Wallwork if (iranks && iranks[i] == ngbRanks[p]) { 2012bc0b47dSJoe Wallwork 2022bc0b47dSJoe Wallwork /* Add the right slice of irootloc at the right place */ 2032bc0b47dSJoe Wallwork sliceSize = ioffset[i+1]-ioffset[i]; 2042bc0b47dSJoe Wallwork for (j = 0, count = 0; j < sliceSize; ++j) { 205c51fff1bSJoe Wallwork if (ioffset[i]+j >= ioffset[niranks]) SETERRQ2(comm, PETSC_ERR_ARG_OUTOFRANGE, "Leaf index %" PetscInt_FMT " out of range (expected < %" PetscInt_FMT ")", ioffset[i]+j, ioffset[niranks]); 2062bc0b47dSJoe Wallwork v = irootloc[ioffset[i]+j]; 2072bc0b47dSJoe Wallwork if (v >= vStart && v < vEnd) { 208c51fff1bSJoe Wallwork if (intOffset[p+1]+count >= numVerNgbRanksTotal) SETERRQ2(comm, PETSC_ERR_ARG_OUTOFRANGE, "Leaf interface index %" PetscInt_FMT " out of range (expected < %" PetscInt_FMT ")", intOffset[p+1]+count, numVerNgbRanksTotal); 2092bc0b47dSJoe Wallwork interfaces_lv[intOffset[p+1]+count] = v-vStart; 2102bc0b47dSJoe Wallwork count++; 2112bc0b47dSJoe Wallwork } 2122bc0b47dSJoe Wallwork } 2132bc0b47dSJoe Wallwork intOffset[p+1] += count; 2142bc0b47dSJoe Wallwork i++; 2152bc0b47dSJoe Wallwork } 216c51fff1bSJoe Wallwork 217c51fff1bSJoe Wallwork /* Root case */ 2182bc0b47dSJoe Wallwork if (rranks && rranks[r] == ngbRanks[p]) { 2192bc0b47dSJoe Wallwork 2202bc0b47dSJoe Wallwork /* Add the right slice of rmine at the right place */ 2212bc0b47dSJoe Wallwork sliceSize = roffset[r+1]-roffset[r]; 2222bc0b47dSJoe Wallwork for (j = 0, count = 0; j < sliceSize; ++j) { 223c51fff1bSJoe Wallwork if (roffset[r]+j >= roffset[nrranks]) SETERRQ2(comm, PETSC_ERR_ARG_OUTOFRANGE, "Root index %" PetscInt_FMT " out of range (expected < %" PetscInt_FMT ")", roffset[r]+j, roffset[nrranks]); 2242bc0b47dSJoe Wallwork v = rmine[roffset[r]+j]; 2252bc0b47dSJoe Wallwork if (v >= vStart && v < vEnd) { 226c51fff1bSJoe Wallwork if (intOffset[p+1]+count >= numVerNgbRanksTotal) SETERRQ2(comm, PETSC_ERR_ARG_OUTOFRANGE, "Root interface index %" PetscInt_FMT " out of range (expected < %" PetscInt_FMT ")", intOffset[p+1]+count, numVerNgbRanksTotal); 2272bc0b47dSJoe Wallwork interfaces_lv[intOffset[p+1]+count] = v-vStart; 2282bc0b47dSJoe Wallwork count++; 2292bc0b47dSJoe Wallwork } 2302bc0b47dSJoe Wallwork } 2312bc0b47dSJoe Wallwork intOffset[p+1] += count; 2322bc0b47dSJoe Wallwork r++; 2332bc0b47dSJoe Wallwork } 234c51fff1bSJoe Wallwork 235c51fff1bSJoe Wallwork /* Check validity of offsets */ 236c51fff1bSJoe Wallwork if (intOffset[p+1] != intOffset[p]+verNgbRank[p]) SETERRQ2(comm, PETSC_ERR_ARG_OUTOFRANGE, "Missing offsets (expected %" PetscInt_FMT ", got %" PetscInt_FMT ")", intOffset[p]+verNgbRank[p], intOffset[p+1]); 2372bc0b47dSJoe Wallwork } 2382bc0b47dSJoe Wallwork ierr = DMPlexGetVertexNumbering(udm, &globalVertexNum);CHKERRQ(ierr); 2392bc0b47dSJoe Wallwork ierr = ISGetIndices(globalVertexNum, &gV);CHKERRQ(ierr); 2402bc0b47dSJoe Wallwork for (i = 0; i < numVerNgbRanksTotal; ++i) { 2412bc0b47dSJoe Wallwork v = gV[interfaces_lv[i]]; 2422bc0b47dSJoe Wallwork interfaces_gv[i] = v < 0 ? -v-1 : v; 2432bc0b47dSJoe Wallwork interfaces_lv[i] += 1; 2442bc0b47dSJoe Wallwork interfaces_gv[i] += 1; 2452bc0b47dSJoe Wallwork } 2462bc0b47dSJoe Wallwork ierr = ISRestoreIndices(globalVertexNum, &gV);CHKERRQ(ierr); 2472bc0b47dSJoe Wallwork ierr = PetscFree(numVerInterfaces);CHKERRQ(ierr); 2482bc0b47dSJoe Wallwork } 2492bc0b47dSJoe Wallwork ierr = DMDestroy(&udm);CHKERRQ(ierr); 2502bc0b47dSJoe Wallwork 2512bc0b47dSJoe Wallwork /* Send the data to ParMmg and remesh */ 2522bc0b47dSJoe Wallwork ierr = DMPlexMetricNoInsertion(dm, &noInsert);CHKERRQ(ierr); 2532bc0b47dSJoe Wallwork ierr = DMPlexMetricNoSwapping(dm, &noSwap);CHKERRQ(ierr); 2542bc0b47dSJoe Wallwork ierr = DMPlexMetricNoMovement(dm, &noMove);CHKERRQ(ierr); 2552bc0b47dSJoe Wallwork ierr = DMPlexMetricGetVerbosity(dm, &verbosity);CHKERRQ(ierr); 2562bc0b47dSJoe Wallwork ierr = DMPlexMetricGetNumIterations(dm, &numIter);CHKERRQ(ierr); 2572bc0b47dSJoe Wallwork ierr = DMPlexMetricGetGradationFactor(dm, &gradationFactor);CHKERRQ(ierr); 2582bc0b47dSJoe Wallwork ierr = PMMG_Init_parMesh(PMMG_ARG_start, PMMG_ARG_ppParMesh, &parmesh, PMMG_ARG_pMesh, PMMG_ARG_pMet, PMMG_ARG_dim, 3, PMMG_ARG_MPIComm, tmpComm, PMMG_ARG_end); 259c1dc6da0SJoe Wallwork ierr = PMMG_Set_meshSize(parmesh, numVertices, numCells, 0, numFaceTags, 0, 0); 2602bc0b47dSJoe Wallwork ierr = PMMG_Set_iparameter(parmesh, PMMG_IPARAM_APImode, PMMG_APIDISTRIB_nodes); 2612bc0b47dSJoe Wallwork ierr = PMMG_Set_iparameter(parmesh, PMMG_IPARAM_noinsert, noInsert); 2622bc0b47dSJoe Wallwork ierr = PMMG_Set_iparameter(parmesh, PMMG_IPARAM_noswap, noSwap); 2632bc0b47dSJoe Wallwork ierr = PMMG_Set_iparameter(parmesh, PMMG_IPARAM_nomove, noMove); 2642bc0b47dSJoe Wallwork ierr = PMMG_Set_iparameter(parmesh, PMMG_IPARAM_verbose, verbosity); 2652bc0b47dSJoe Wallwork ierr = PMMG_Set_iparameter(parmesh, PMMG_IPARAM_globalNum, 1); 2662bc0b47dSJoe Wallwork ierr = PMMG_Set_iparameter(parmesh, PMMG_IPARAM_niter, numIter); 2672bc0b47dSJoe Wallwork ierr = PMMG_Set_dparameter(parmesh, PMMG_DPARAM_hgrad, gradationFactor); 2682bc0b47dSJoe Wallwork ierr = PMMG_Set_vertices(parmesh, vertices, verTags); 269cf6859d0SJoe Wallwork ierr = PMMG_Set_tetrahedra(parmesh, cells, cellTags); 270c1dc6da0SJoe Wallwork ierr = PMMG_Set_triangles(parmesh, bdFaces, faceTags); 2712bc0b47dSJoe Wallwork ierr = PMMG_Set_metSize(parmesh, MMG5_Vertex, numVertices, MMG5_Tensor); 272cf6859d0SJoe Wallwork ierr = PMMG_Set_tensorMets(parmesh, metric); 2732bc0b47dSJoe Wallwork ierr = PMMG_Set_numberOfNodeCommunicators(parmesh, numNgbRanks); 2742bc0b47dSJoe Wallwork for (c = 0; c < numNgbRanks; ++c) { 2752bc0b47dSJoe Wallwork ierr = PMMG_Set_ithNodeCommunicatorSize(parmesh, c, ngbRanks[c], intOffset[c+1]-intOffset[c]); 2762bc0b47dSJoe Wallwork ierr = PMMG_Set_ithNodeCommunicator_nodes(parmesh, c, &interfaces_lv[intOffset[c]], &interfaces_gv[intOffset[c]], 1); 2772bc0b47dSJoe Wallwork } 2782bc0b47dSJoe Wallwork ierr = PMMG_parmmglib_distributed(parmesh); 2792bc0b47dSJoe Wallwork ierr = PetscFree(cells);CHKERRQ(ierr); 2802bc0b47dSJoe Wallwork ierr = PetscFree2(metric, vertices);CHKERRQ(ierr); 281c1dc6da0SJoe Wallwork ierr = PetscFree2(bdFaces, faceTags);CHKERRQ(ierr); 2822bc0b47dSJoe Wallwork ierr = PetscFree2(verTags, cellTags);CHKERRQ(ierr); 2832bc0b47dSJoe Wallwork if (numProcs > 1) { 2842bc0b47dSJoe Wallwork ierr = PetscFree2(ngbRanks, verNgbRank);CHKERRQ(ierr); 2852bc0b47dSJoe Wallwork ierr = PetscFree3(interfaces_lv, interfaces_gv, intOffset);CHKERRQ(ierr); 2862bc0b47dSJoe Wallwork } 2872bc0b47dSJoe Wallwork 2882f583692SJoe Wallwork /* Retrieve mesh from Mmg */ 2892bc0b47dSJoe Wallwork numCornersNew = 4; 2902bc0b47dSJoe Wallwork ierr = PMMG_Get_meshSize(parmesh, &numVerticesNew, &numCellsNew, 0, &numFacesNew, 0, 0); 2912bc0b47dSJoe Wallwork ierr = PetscMalloc4(dim*numVerticesNew, &verticesNew, numVerticesNew, &verTagsNew, numVerticesNew, &corners, numVerticesNew, &requiredVer);CHKERRQ(ierr); 2922bc0b47dSJoe Wallwork ierr = PetscMalloc3((dim+1)*numCellsNew, &cellsNew, numCellsNew, &cellTagsNew, numCellsNew, &requiredCells);CHKERRQ(ierr); 2932bc0b47dSJoe Wallwork ierr = PetscMalloc4(dim*numFacesNew, &facesNew, numFacesNew, &faceTagsNew, numFacesNew, &ridges, numFacesNew, &requiredFaces);CHKERRQ(ierr); 2942bc0b47dSJoe Wallwork ierr = PMMG_Get_vertices(parmesh, verticesNew, verTagsNew, corners, requiredVer); 2952bc0b47dSJoe Wallwork ierr = PMMG_Get_tetrahedra(parmesh, cellsNew, cellTagsNew, requiredCells); 2962bc0b47dSJoe Wallwork ierr = PMMG_Get_triangles(parmesh, facesNew, faceTagsNew, requiredFaces); 2972bc0b47dSJoe Wallwork ierr = PetscMalloc2(numVerticesNew, &owners, numVerticesNew, &gv_new); 2982bc0b47dSJoe Wallwork ierr = PMMG_Set_iparameter(parmesh, PMMG_IPARAM_globalNum, 1); 2992bc0b47dSJoe Wallwork ierr = PMMG_Get_verticesGloNum(parmesh, gv_new, owners); 3002bc0b47dSJoe Wallwork for (i = 0; i < dim*numFacesNew; ++i) facesNew[i] -= 1; 3012bc0b47dSJoe Wallwork for (i = 0; i < (dim+1)*numCellsNew; ++i) { 3022bc0b47dSJoe Wallwork cellsNew[i] = gv_new[cellsNew[i]-1]-1; 3032bc0b47dSJoe Wallwork } 3042bc0b47dSJoe Wallwork numVerticesNewLoc = 0; 3052bc0b47dSJoe Wallwork for (i = 0; i < numVerticesNew; ++i) { 3062bc0b47dSJoe Wallwork if (owners[i] == rank) numVerticesNewLoc++; 3072bc0b47dSJoe Wallwork } 3082bc0b47dSJoe Wallwork ierr = PetscMalloc2(numVerticesNewLoc*dim, &verticesNewLoc, numVerticesNew, &verticesNewSorted);CHKERRQ(ierr); 3092bc0b47dSJoe Wallwork for (i = 0, c = 0; i < numVerticesNew; i++) { 3102bc0b47dSJoe Wallwork if (owners[i] == rank) { 3112bc0b47dSJoe Wallwork for (j=0; j<dim; ++j) verticesNewLoc[dim*c+j] = verticesNew[dim*i+j]; 3122bc0b47dSJoe Wallwork c++; 3132bc0b47dSJoe Wallwork } 3142bc0b47dSJoe Wallwork } 3152f583692SJoe Wallwork 3162f583692SJoe Wallwork /* Reorder for consistency with DMPlex */ 3172f583692SJoe Wallwork for (i = 0; i < numCellsNew; ++i) { ierr = DMPlexInvertCell(DM_POLYTOPE_TETRAHEDRON, &cellsNew[4*i]);CHKERRQ(ierr); } 3182f583692SJoe Wallwork 3192f583692SJoe Wallwork /* Create new plex */ 3202bc0b47dSJoe Wallwork ierr = DMPlexCreateFromCellListParallelPetsc(comm, dim, numCellsNew, numVerticesNewLoc, PETSC_DECIDE, numCornersNew, PETSC_TRUE, cellsNew, dim, verticesNewLoc, NULL, &verticesNewSorted, dmNew);CHKERRQ(ierr); 3212bc0b47dSJoe Wallwork ierr = PMMG_Free_all(PMMG_ARG_start, PMMG_ARG_ppParMesh, &parmesh, PMMG_ARG_end); 322c1dc6da0SJoe Wallwork ierr = PetscFree4(verticesNew, verTagsNew, corners, requiredVer);CHKERRQ(ierr); 323c1dc6da0SJoe Wallwork 324c1dc6da0SJoe Wallwork /* Get adapted mesh information */ 325c1dc6da0SJoe Wallwork ierr = DMPlexGetHeightStratum(*dmNew, 0, &cStart, &cEnd);CHKERRQ(ierr); 326c1dc6da0SJoe Wallwork ierr = DMPlexGetHeightStratum(*dmNew, 1, &fStart, &fEnd);CHKERRQ(ierr); 327c1dc6da0SJoe Wallwork ierr = DMPlexGetDepthStratum(*dmNew, 0, &vStart, &vEnd);CHKERRQ(ierr); 3282bc0b47dSJoe Wallwork 3292bc0b47dSJoe Wallwork /* Rebuild boundary label */ 3307881f211SJoe Wallwork ierr = DMCreateLabel(*dmNew, flg ? bdName : bdLabelName);CHKERRQ(ierr); 3317881f211SJoe Wallwork ierr = DMGetLabel(*dmNew, flg ? bdName : bdLabelName, &bdLabelNew);CHKERRQ(ierr); 3322bc0b47dSJoe Wallwork for (i = 0; i < numFacesNew; i++) { 333c1dc6da0SJoe Wallwork PetscBool hasTag = PETSC_FALSE; 3342bc0b47dSJoe Wallwork PetscInt numCoveredPoints, numFaces = 0, facePoints[3]; 3352bc0b47dSJoe Wallwork const PetscInt *coveredPoints = NULL; 3362bc0b47dSJoe Wallwork 3372bc0b47dSJoe Wallwork for (j = 0; j < dim; ++j) { 3382bc0b47dSJoe Wallwork lv = facesNew[i*dim+j]; 3392bc0b47dSJoe Wallwork gv = gv_new[lv]-1; 3402bc0b47dSJoe Wallwork ierr = PetscFindInt(gv, numVerticesNew, verticesNewSorted, &lv);CHKERRQ(ierr); 3412bc0b47dSJoe Wallwork facePoints[j] = lv+vStart; 3422bc0b47dSJoe Wallwork } 3432bc0b47dSJoe Wallwork ierr = DMPlexGetFullJoin(*dmNew, dim, facePoints, &numCoveredPoints, &coveredPoints);CHKERRQ(ierr); 3442bc0b47dSJoe Wallwork for (j = 0; j < numCoveredPoints; ++j) { 3452bc0b47dSJoe Wallwork if (coveredPoints[j] >= fStart && coveredPoints[j] < fEnd) { 3462bc0b47dSJoe Wallwork numFaces++; 3472bc0b47dSJoe Wallwork f = j; 3482bc0b47dSJoe Wallwork } 3492bc0b47dSJoe Wallwork } 3502bc0b47dSJoe Wallwork if (numFaces != 1) SETERRQ2(comm, PETSC_ERR_ARG_OUTOFRANGE, "%d vertices cannot define more than 1 facet (%d)", dim, numFaces); 351c1dc6da0SJoe Wallwork ierr = DMLabelHasStratum(bdLabel, faceTagsNew[i], &hasTag);CHKERRQ(ierr); 352c1dc6da0SJoe Wallwork if (hasTag) { ierr = DMLabelSetValue(bdLabelNew, coveredPoints[f], faceTagsNew[i]);CHKERRQ(ierr); } 3532bc0b47dSJoe Wallwork ierr = DMPlexRestoreJoin(*dmNew, dim, facePoints, &numCoveredPoints, &coveredPoints);CHKERRQ(ierr); 3542bc0b47dSJoe Wallwork } 355c1dc6da0SJoe Wallwork ierr = PetscFree4(facesNew, faceTagsNew, ridges, requiredFaces);CHKERRQ(ierr); 356c1dc6da0SJoe Wallwork ierr = PetscFree2(owners, gv_new);CHKERRQ(ierr); 357c1dc6da0SJoe Wallwork ierr = PetscFree2(verticesNewLoc, verticesNewSorted);CHKERRQ(ierr); 358c1dc6da0SJoe Wallwork if (flg) { ierr = DMLabelDestroy(&bdLabel);CHKERRQ(ierr); } 3592bc0b47dSJoe Wallwork 3609fe9e680SJoe Wallwork /* Rebuild cell labels */ 3619fe9e680SJoe Wallwork ierr = DMCreateLabel(*dmNew, rgLabel ? rgLabelName : rgName);CHKERRQ(ierr); 3629fe9e680SJoe Wallwork ierr = DMGetLabel(*dmNew, rgLabel ? rgLabelName : rgName, &rgLabelNew);CHKERRQ(ierr); 3639fe9e680SJoe Wallwork for (c = cStart; c < cEnd; ++c) { ierr = DMLabelSetValue(rgLabelNew, c, cellTagsNew[c-cStart]);CHKERRQ(ierr); } 3642bc0b47dSJoe Wallwork ierr = PetscFree3(cellsNew, cellTagsNew, requiredCells);CHKERRQ(ierr); 365c1dc6da0SJoe Wallwork 3662bc0b47dSJoe Wallwork PetscFunctionReturn(0); 3672bc0b47dSJoe Wallwork } 368