Date: 2021-03-03T22:27:09+00:00

Actual source code: partptscotch.c
petsc-3.14.5 2021-03-03
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      1: #include <petsc/private/partitionerimpl.h>

      3: #if defined(PETSC_HAVE_PTSCOTCH)
      4: EXTERN_C_BEGIN
      5: #include <ptscotch.h>
      6: EXTERN_C_END
      7: #endif

      9: PetscBool  PTScotchPartitionerCite = PETSC_FALSE;
     10: const char PTScotchPartitionerCitation[] =
     11:   "@article{PTSCOTCH,\n"
     12:   "  author  = {C. Chevalier and F. Pellegrini},\n"
     13:   "  title   = {{PT-SCOTCH}: a tool for efficient parallel graph ordering},\n"
     14:   "  journal = {Parallel Computing},\n"
     15:   "  volume  = {34},\n"
     16:   "  number  = {6},\n"
     17:   "  pages   = {318--331},\n"
     18:   "  year    = {2008},\n"
     19:   "  doi     = {https://doi.org/10.1016/j.parco.2007.12.001}\n"
     20:   "}\n";

     22: typedef struct {
     23:   MPI_Comm  pcomm;
     24:   PetscInt  strategy;
     25:   PetscReal imbalance;
     26: } PetscPartitioner_PTScotch;

     28: #if defined(PETSC_HAVE_PTSCOTCH)

     30: #define CHKERRPTSCOTCH(ierr) do { if (ierr) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_LIB,"Error calling PT-Scotch library"); } while (0)

     32: static int PTScotch_Strategy(PetscInt strategy)
     33: {
     34:   switch (strategy) {
     35:   case  0: return SCOTCH_STRATDEFAULT;
     36:   case  1: return SCOTCH_STRATQUALITY;
     37:   case  2: return SCOTCH_STRATSPEED;
     38:   case  3: return SCOTCH_STRATBALANCE;
     39:   case  4: return SCOTCH_STRATSAFETY;
     40:   case  5: return SCOTCH_STRATSCALABILITY;
     41:   case  6: return SCOTCH_STRATRECURSIVE;
     42:   case  7: return SCOTCH_STRATREMAP;
     43:   default: return SCOTCH_STRATDEFAULT;
     44:   }
     45: }

     47: static PetscErrorCode PTScotch_PartGraph_Seq(SCOTCH_Num strategy, double imbalance, SCOTCH_Num n, SCOTCH_Num xadj[], SCOTCH_Num adjncy[],
     48:                                              SCOTCH_Num vtxwgt[], SCOTCH_Num adjwgt[], SCOTCH_Num nparts, SCOTCH_Num tpart[], SCOTCH_Num part[])
     49: {
     50:   SCOTCH_Arch    archdat;
     51:   SCOTCH_Graph   grafdat;
     52:   SCOTCH_Strat   stradat;
     53:   SCOTCH_Num     vertnbr = n;
     54:   SCOTCH_Num     edgenbr = xadj[n];
     55:   SCOTCH_Num*    velotab = vtxwgt;
     56:   SCOTCH_Num*    edlotab = adjwgt;
     57:   SCOTCH_Num     flagval = strategy;
     58:   double         kbalval = imbalance;

     62:   {
     63:     PetscBool flg = PETSC_TRUE;
     64:     PetscOptionsDeprecatedNoObject("-petscpartititoner_ptscotch_vertex_weight",NULL,"3.13","Use -petscpartitioner_use_vertex_weights");
     65:     PetscOptionsGetBool(NULL, NULL, "-petscpartititoner_ptscotch_vertex_weight", &flg, NULL);
     66:     if (!flg) velotab = NULL;
     67:   }
     68:   SCOTCH_graphInit(&grafdat);CHKERRPTSCOTCH(ierr);
     69:   SCOTCH_graphBuild(&grafdat, 0, vertnbr, xadj, xadj + 1, velotab, NULL, edgenbr, adjncy, edlotab);CHKERRPTSCOTCH(ierr);
     70:   SCOTCH_stratInit(&stradat);CHKERRPTSCOTCH(ierr);
     71:   SCOTCH_stratGraphMapBuild(&stradat, flagval, nparts, kbalval);CHKERRPTSCOTCH(ierr);
     72:   SCOTCH_archInit(&archdat);CHKERRPTSCOTCH(ierr);
     73:   if (tpart) {
     74:     SCOTCH_archCmpltw(&archdat, nparts, tpart);CHKERRPTSCOTCH(ierr);
     75:   } else {
     76:     SCOTCH_archCmplt(&archdat, nparts);CHKERRPTSCOTCH(ierr);
     77:   }
     78:   SCOTCH_graphMap(&grafdat, &archdat, &stradat, part);CHKERRPTSCOTCH(ierr);
     79:   SCOTCH_archExit(&archdat);
     80:   SCOTCH_stratExit(&stradat);
     81:   SCOTCH_graphExit(&grafdat);
     82:   return(0);
     83: }

     85: static PetscErrorCode PTScotch_PartGraph_MPI(SCOTCH_Num strategy, double imbalance, SCOTCH_Num vtxdist[], SCOTCH_Num xadj[], SCOTCH_Num adjncy[],
     86:                                              SCOTCH_Num vtxwgt[], SCOTCH_Num adjwgt[], SCOTCH_Num nparts, SCOTCH_Num tpart[], SCOTCH_Num part[], MPI_Comm comm)
     87: {
     88:   PetscMPIInt     procglbnbr;
     89:   PetscMPIInt     proclocnum;
     90:   SCOTCH_Arch     archdat;
     91:   SCOTCH_Dgraph   grafdat;
     92:   SCOTCH_Dmapping mappdat;
     93:   SCOTCH_Strat    stradat;
     94:   SCOTCH_Num      vertlocnbr;
     95:   SCOTCH_Num      edgelocnbr;
     96:   SCOTCH_Num*     veloloctab = vtxwgt;
     97:   SCOTCH_Num*     edloloctab = adjwgt;
     98:   SCOTCH_Num      flagval = strategy;
     99:   double          kbalval = imbalance;
    100:   PetscErrorCode  ierr;

    103:   {
    104:     PetscBool flg = PETSC_TRUE;
    105:     PetscOptionsDeprecatedNoObject("-petscpartititoner_ptscotch_vertex_weight",NULL,"3.13","Use -petscpartitioner_use_vertex_weights");
    106:     PetscOptionsGetBool(NULL, NULL, "-petscpartititoner_ptscotch_vertex_weight", &flg, NULL);
    107:     if (!flg) veloloctab = NULL;
    108:   }
    109:   MPI_Comm_size(comm, &procglbnbr);
    110:   MPI_Comm_rank(comm, &proclocnum);
    111:   vertlocnbr = vtxdist[proclocnum + 1] - vtxdist[proclocnum];
    112:   edgelocnbr = xadj[vertlocnbr];

    114:   SCOTCH_dgraphInit(&grafdat, comm);CHKERRPTSCOTCH(ierr);
    115:   SCOTCH_dgraphBuild(&grafdat, 0, vertlocnbr, vertlocnbr, xadj, xadj + 1, veloloctab, NULL, edgelocnbr, edgelocnbr, adjncy, NULL, edloloctab);CHKERRPTSCOTCH(ierr);
    116:   SCOTCH_stratInit(&stradat);CHKERRPTSCOTCH(ierr);
    117:   SCOTCH_stratDgraphMapBuild(&stradat, flagval, procglbnbr, nparts, kbalval);
    118:   SCOTCH_archInit(&archdat);CHKERRPTSCOTCH(ierr);
    119:   if (tpart) { /* target partition weights */
    120:     SCOTCH_archCmpltw(&archdat, nparts, tpart);CHKERRPTSCOTCH(ierr);
    121:   } else {
    122:     SCOTCH_archCmplt(&archdat, nparts);CHKERRPTSCOTCH(ierr);
    123:   }
    124:   SCOTCH_dgraphMapInit(&grafdat, &mappdat, &archdat, part);CHKERRPTSCOTCH(ierr);
    125:   SCOTCH_dgraphMapCompute(&grafdat, &mappdat, &stradat);CHKERRPTSCOTCH(ierr);
    126:   SCOTCH_dgraphMapExit(&grafdat, &mappdat);
    127:   SCOTCH_archExit(&archdat);
    128:   SCOTCH_stratExit(&stradat);
    129:   SCOTCH_dgraphExit(&grafdat);
    130:   return(0);
    131: }

    133: #endif /* PETSC_HAVE_PTSCOTCH */

    135: static const char *const
    136: PTScotchStrategyList[] = {
    137:   "DEFAULT",
    138:   "QUALITY",
    139:   "SPEED",
    140:   "BALANCE",
    141:   "SAFETY",
    142:   "SCALABILITY",
    143:   "RECURSIVE",
    144:   "REMAP"
    145: };

    147: static PetscErrorCode PetscPartitionerDestroy_PTScotch(PetscPartitioner part)
    148: {
    149:   PetscPartitioner_PTScotch *p = (PetscPartitioner_PTScotch *) part->data;
    150:   PetscErrorCode             ierr;

    153:   MPI_Comm_free(&p->pcomm);
    154:   PetscFree(part->data);
    155:   return(0);
    156: }

    158: static PetscErrorCode PetscPartitionerView_PTScotch_ASCII(PetscPartitioner part, PetscViewer viewer)
    159: {
    160:   PetscPartitioner_PTScotch *p = (PetscPartitioner_PTScotch *) part->data;
    161:   PetscErrorCode            ierr;

    164:   PetscViewerASCIIPushTab(viewer);
    165:   PetscViewerASCIIPrintf(viewer,"using partitioning strategy %s\n",PTScotchStrategyList[p->strategy]);
    166:   PetscViewerASCIIPrintf(viewer,"using load imbalance ratio %g\n",(double)p->imbalance);
    167:   PetscViewerASCIIPopTab(viewer);
    168:   return(0);
    169: }

    171: static PetscErrorCode PetscPartitionerView_PTScotch(PetscPartitioner part, PetscViewer viewer)
    172: {
    173:   PetscBool      iascii;

    179:   PetscObjectTypeCompare((PetscObject) viewer, PETSCVIEWERASCII, &iascii);
    180:   if (iascii) {PetscPartitionerView_PTScotch_ASCII(part, viewer);}
    181:   return(0);
    182: }

    184: static PetscErrorCode PetscPartitionerSetFromOptions_PTScotch(PetscOptionItems *PetscOptionsObject, PetscPartitioner part)
    185: {
    186:   PetscPartitioner_PTScotch *p = (PetscPartitioner_PTScotch *) part->data;
    187:   const char *const         *slist = PTScotchStrategyList;
    188:   PetscInt                  nlist = (PetscInt)(sizeof(PTScotchStrategyList)/sizeof(PTScotchStrategyList[0]));
    189:   PetscBool                 flag;
    190:   PetscErrorCode            ierr;

    193:   PetscOptionsHead(PetscOptionsObject, "PetscPartitioner PTScotch Options");
    194:   PetscOptionsEList("-petscpartitioner_ptscotch_strategy","Partitioning strategy","",slist,nlist,slist[p->strategy],&p->strategy,&flag);
    195:   PetscOptionsReal("-petscpartitioner_ptscotch_imbalance","Load imbalance ratio","",p->imbalance,&p->imbalance,&flag);
    196:   PetscOptionsTail();
    197:   return(0);
    198: }

    200: static PetscErrorCode PetscPartitionerPartition_PTScotch(PetscPartitioner part, PetscInt nparts, PetscInt numVertices, PetscInt start[], PetscInt adjacency[], PetscSection vertSection, PetscSection targetSection, PetscSection partSection, IS *partition)
    201: {
    202: #if defined(PETSC_HAVE_PTSCOTCH)
    203:   MPI_Comm       comm;
    204:   PetscInt       nvtxs = numVertices;   /* The number of vertices in full graph */
    205:   PetscInt       *vtxdist;              /* Distribution of vertices across processes */
    206:   PetscInt       *xadj   = start;       /* Start of edge list for each vertex */
    207:   PetscInt       *adjncy = adjacency;   /* Edge lists for all vertices */
    208:   PetscInt       *vwgt   = NULL;        /* Vertex weights */
    209:   PetscInt       *adjwgt = NULL;        /* Edge weights */
    210:   PetscInt       v, i, *assignment, *points;
    211:   PetscMPIInt    size, rank, p;
    212:   PetscBool      hasempty = PETSC_FALSE;
    213:   PetscInt       *tpwgts = NULL;

    217:   PetscObjectGetComm((PetscObject)part,&comm);
    218:   MPI_Comm_size(comm, &size);
    219:   MPI_Comm_rank(comm, &rank);
    220:   PetscMalloc2(size+1,&vtxdist,PetscMax(nvtxs,1),&assignment);
    221:   /* Calculate vertex distribution */
    222:   vtxdist[0] = 0;
    223:   MPI_Allgather(&nvtxs, 1, MPIU_INT, &vtxdist[1], 1, MPIU_INT, comm);
    224:   for (p = 2; p <= size; ++p) {
    225:     hasempty = (PetscBool)(hasempty || !vtxdist[p-1] || !vtxdist[p]);
    226:     vtxdist[p] += vtxdist[p-1];
    227:   }
    228:   /* null graph */
    229:   if (vtxdist[size] == 0) {
    230:     PetscFree2(vtxdist, assignment);
    231:     ISCreateGeneral(comm, 0, NULL, PETSC_OWN_POINTER, partition);
    232:     return(0);
    233:   }

    235:   /* Calculate vertex weights */
    236:   if (vertSection) {
    237:     PetscMalloc1(nvtxs,&vwgt);
    238:     for (v = 0; v < nvtxs; ++v) {
    239:       PetscSectionGetDof(vertSection, v, &vwgt[v]);
    240:     }
    241:   }

    243:   /* Calculate partition weights */
    244:   if (targetSection) {
    245:     PetscInt sumw;

    247:     PetscCalloc1(nparts,&tpwgts);
    248:     for (p = 0, sumw = 0; p < nparts; ++p) {
    249:       PetscSectionGetDof(targetSection,p,&tpwgts[p]);
    250:       sumw += tpwgts[p];
    251:     }
    252:     if (!sumw) {PetscFree(tpwgts);}
    253:   }

    255:   {
    256:     PetscPartitioner_PTScotch *pts = (PetscPartitioner_PTScotch *) part->data;
    257:     int                       strat = PTScotch_Strategy(pts->strategy);
    258:     double                    imbal = (double)pts->imbalance;

    260:     for (p = 0; !vtxdist[p+1] && p < size; ++p);
    261:     if (vtxdist[p+1] == vtxdist[size]) {
    262:       if (rank == p) {
    263:         PTScotch_PartGraph_Seq(strat, imbal, nvtxs, xadj, adjncy, vwgt, adjwgt, nparts, tpwgts, assignment);
    264:       }
    265:     } else {
    266:       MPI_Comm pcomm = pts->pcomm;

    268:       if (hasempty) {
    269:         PetscInt cnt;

    271:         MPI_Comm_split(pts->pcomm,!!nvtxs,rank,&pcomm);
    272:         for (p=0,cnt=0;p<size;p++) {
    273:           if (vtxdist[p+1] != vtxdist[p]) {
    274:             vtxdist[cnt+1] = vtxdist[p+1];
    275:             cnt++;
    276:           }
    277:         }
    278:       };
    279:       if (nvtxs) {
    280:         PTScotch_PartGraph_MPI(strat, imbal, vtxdist, xadj, adjncy, vwgt, adjwgt, nparts, tpwgts, assignment, pcomm);
    281:       }
    282:       if (hasempty) {
    283:         MPI_Comm_free(&pcomm);
    284:       }
    285:     }
    286:   }
    287:   PetscFree(vwgt);
    288:   PetscFree(tpwgts);

    290:   /* Convert to PetscSection+IS */
    291:   for (v = 0; v < nvtxs; ++v) {PetscSectionAddDof(partSection, assignment[v], 1);}
    292:   PetscMalloc1(nvtxs, &points);
    293:   for (p = 0, i = 0; p < nparts; ++p) {
    294:     for (v = 0; v < nvtxs; ++v) {
    295:       if (assignment[v] == p) points[i++] = v;
    296:     }
    297:   }
    298:   if (i != nvtxs) SETERRQ2(comm, PETSC_ERR_PLIB, "Number of points %D should be %D", i, nvtxs);
    299:   ISCreateGeneral(comm, nvtxs, points, PETSC_OWN_POINTER, partition);

    301:   PetscFree2(vtxdist,assignment);
    302:   return(0);
    303: #else
    304:   SETERRQ(PetscObjectComm((PetscObject) part), PETSC_ERR_SUP, "Mesh partitioning needs external package support.\nPlease reconfigure with --download-ptscotch.");
    305: #endif
    306: }

    308: static PetscErrorCode PetscPartitionerInitialize_PTScotch(PetscPartitioner part)
    309: {
    311:   part->noGraph             = PETSC_FALSE;
    312:   part->ops->view           = PetscPartitionerView_PTScotch;
    313:   part->ops->destroy        = PetscPartitionerDestroy_PTScotch;
    314:   part->ops->partition      = PetscPartitionerPartition_PTScotch;
    315:   part->ops->setfromoptions = PetscPartitionerSetFromOptions_PTScotch;
    316:   return(0);
    317: }

    319: /*MC
    320:   PETSCPARTITIONERPTSCOTCH = "ptscotch" - A PetscPartitioner object using the PT-Scotch library

    322:   Level: intermediate

    324:   Options Database Keys:
    325: +  -petscpartitioner_ptscotch_strategy <string> - PT-Scotch strategy. Choose one of default quality speed balance safety scalability recursive remap
    326: -  -petscpartitioner_ptscotch_imbalance <val> - Load imbalance ratio

    328:   Notes: when the graph is on a single process, this partitioner actually uses Scotch and not PT-Scotch

    330: .seealso: PetscPartitionerType, PetscPartitionerCreate(), PetscPartitionerSetType()
    331: M*/

    333: PETSC_EXTERN PetscErrorCode PetscPartitionerCreate_PTScotch(PetscPartitioner part)
    334: {
    335:   PetscPartitioner_PTScotch *p;
    336:   PetscErrorCode          ierr;

    340:   PetscNewLog(part, &p);
    341:   part->data = p;

    343:   MPI_Comm_dup(PetscObjectComm((PetscObject)part),&p->pcomm);
    344:   p->strategy  = 0;
    345:   p->imbalance = 0.01;

    347:   PetscPartitionerInitialize_PTScotch(part);
    348:   PetscCitationsRegister(PTScotchPartitionerCitation, &PTScotchPartitionerCite);
    349:   return(0);
    350: }