Actual source code: mmbaij.c

      2: /*
      3:    Support for the parallel BAIJ matrix vector multiply
      4: */
      5: #include <../src/mat/impls/baij/mpi/mpibaij.h>
      6: #include <petsc/private/isimpl.h>

      8: PetscErrorCode MatSetUpMultiply_MPIBAIJ(Mat mat)
      9: {
     10:   Mat_MPIBAIJ    *baij = (Mat_MPIBAIJ*)mat->data;
     11:   Mat_SeqBAIJ    *B    = (Mat_SeqBAIJ*)(baij->B->data);
     13:   PetscInt       i,j,*aj = B->j,ec = 0,*garray;
     14:   PetscInt       bs = mat->rmap->bs,*stmp;
     15:   IS             from,to;
     16:   Vec            gvec;
     17: #if defined(PETSC_USE_CTABLE)
     18:   PetscTable         gid1_lid1;
     19:   PetscTablePosition tpos;
     20:   PetscInt           gid,lid;
     21: #else
     22:   PetscInt Nbs = baij->Nbs,*indices;
     23: #endif

     26: #if defined(PETSC_USE_CTABLE)
     27:   /* use a table - Mark Adams */
     28:   PetscTableCreate(B->mbs,baij->Nbs+1,&gid1_lid1);
     29:   for (i=0; i<B->mbs; i++) {
     30:     for (j=0; j<B->ilen[i]; j++) {
     31:       PetscInt data,gid1 = aj[B->i[i]+j] + 1;
     32:       PetscTableFind(gid1_lid1,gid1,&data);
     33:       if (!data) {
     34:         /* one based table */
     35:         PetscTableAdd(gid1_lid1,gid1,++ec,INSERT_VALUES);
     36:       }
     37:     }
     38:   }
     39:   /* form array of columns we need */
     40:   PetscMalloc1(ec+1,&garray);
     41:   PetscTableGetHeadPosition(gid1_lid1,&tpos);
     42:   while (tpos) {
     43:     PetscTableGetNext(gid1_lid1,&tpos,&gid,&lid);
     44:     gid--; lid--;
     45:     garray[lid] = gid;
     46:   }
     47:   PetscSortInt(ec,garray);
     48:   PetscTableRemoveAll(gid1_lid1);
     49:   for (i=0; i<ec; i++) {
     50:     PetscTableAdd(gid1_lid1,garray[i]+1,i+1,INSERT_VALUES);
     51:   }
     52:   /* compact out the extra columns in B */
     53:   for (i=0; i<B->mbs; i++) {
     54:     for (j=0; j<B->ilen[i]; j++) {
     55:       PetscInt gid1 = aj[B->i[i] + j] + 1;
     56:       PetscTableFind(gid1_lid1,gid1,&lid);
     57:       lid--;
     58:       aj[B->i[i]+j] = lid;
     59:     }
     60:   }
     61:   B->nbs           = ec;
     62:   PetscLayoutDestroy(&baij->B->cmap);
     63:   PetscLayoutCreateFromSizes(PetscObjectComm((PetscObject)baij->B),ec*mat->rmap->bs,ec*mat->rmap->bs,mat->rmap->bs,&baij->B->cmap);
     64:   PetscTableDestroy(&gid1_lid1);
     65: #else
     66:   /* Make an array as long as the number of columns */
     67:   /* mark those columns that are in baij->B */
     68:   PetscCalloc1(Nbs+1,&indices);
     69:   for (i=0; i<B->mbs; i++) {
     70:     for (j=0; j<B->ilen[i]; j++) {
     71:       if (!indices[aj[B->i[i] + j]]) ec++;
     72:       indices[aj[B->i[i] + j]] = 1;
     73:     }
     74:   }

     76:   /* form array of columns we need */
     77:   PetscMalloc1(ec+1,&garray);
     78:   ec   = 0;
     79:   for (i=0; i<Nbs; i++) {
     80:     if (indices[i]) {
     81:       garray[ec++] = i;
     82:     }
     83:   }

     85:   /* make indices now point into garray */
     86:   for (i=0; i<ec; i++) {
     87:     indices[garray[i]] = i;
     88:   }

     90:   /* compact out the extra columns in B */
     91:   for (i=0; i<B->mbs; i++) {
     92:     for (j=0; j<B->ilen[i]; j++) {
     93:       aj[B->i[i] + j] = indices[aj[B->i[i] + j]];
     94:     }
     95:   }
     96:   B->nbs           = ec;
     97:   PetscLayoutDestroy(&baij->B->cmap);
     98:   PetscLayoutCreateFromSizes(PetscObjectComm((PetscObject)baij->B),ec*mat->rmap->bs,ec*mat->rmap->bs,mat->rmap->bs,&baij->B->cmap);
     99:   PetscFree(indices);
    100: #endif

    102:   /* create local vector that is used to scatter into */
    103:   VecCreateSeq(PETSC_COMM_SELF,ec*bs,&baij->lvec);

    105:   /* create two temporary index sets for building scatter-gather */
    106:   ISCreateBlock(PETSC_COMM_SELF,bs,ec,garray,PETSC_COPY_VALUES,&from);

    108:   PetscMalloc1(ec+1,&stmp);
    109:   for (i=0; i<ec; i++) stmp[i] = i;
    110:   ISCreateBlock(PETSC_COMM_SELF,bs,ec,stmp,PETSC_OWN_POINTER,&to);

    112:   /* create temporary global vector to generate scatter context */
    113:   VecCreateMPIWithArray(PetscObjectComm((PetscObject)mat),1,mat->cmap->n,mat->cmap->N,NULL,&gvec);

    115:   VecScatterCreate(gvec,from,baij->lvec,to,&baij->Mvctx);

    117:   PetscLogObjectParent((PetscObject)mat,(PetscObject)baij->Mvctx);
    118:   PetscLogObjectParent((PetscObject)mat,(PetscObject)baij->lvec);
    119:   PetscLogObjectParent((PetscObject)mat,(PetscObject)from);
    120:   PetscLogObjectParent((PetscObject)mat,(PetscObject)to);

    122:   baij->garray = garray;

    124:   PetscLogObjectMemory((PetscObject)mat,(ec+1)*sizeof(PetscInt));
    125:   ISDestroy(&from);
    126:   ISDestroy(&to);
    127:   VecDestroy(&gvec);
    128:   return(0);
    129: }

    131: /*
    132:      Takes the local part of an already assembled MPIBAIJ matrix
    133:    and disassembles it. This is to allow new nonzeros into the matrix
    134:    that require more communication in the matrix vector multiply.
    135:    Thus certain data-structures must be rebuilt.

    137:    Kind of slow! But that's what application programmers get when
    138:    they are sloppy.
    139: */
    140: PetscErrorCode MatDisAssemble_MPIBAIJ(Mat A)
    141: {
    142:   Mat_MPIBAIJ    *baij  = (Mat_MPIBAIJ*)A->data;
    143:   Mat            B      = baij->B,Bnew;
    144:   Mat_SeqBAIJ    *Bbaij = (Mat_SeqBAIJ*)B->data;
    146:   PetscInt       i,j,mbs=Bbaij->mbs,n = A->cmap->N,col,*garray=baij->garray;
    147:   PetscInt       bs2 = baij->bs2,*nz,ec,m = A->rmap->n;
    148:   MatScalar      *a  = Bbaij->a;
    149:   MatScalar      *atmp;

    153:   /* free stuff related to matrix-vec multiply */
    154:   VecGetSize(baij->lvec,&ec); /* needed for PetscLogObjectMemory below */
    155:   VecDestroy(&baij->lvec); baij->lvec = NULL;
    156:   VecScatterDestroy(&baij->Mvctx); baij->Mvctx = NULL;
    157:   if (baij->colmap) {
    158: #if defined(PETSC_USE_CTABLE)
    159:     PetscTableDestroy(&baij->colmap);
    160: #else
    161:     PetscFree(baij->colmap);
    162:     PetscLogObjectMemory((PetscObject)A,-Bbaij->nbs*sizeof(PetscInt));
    163: #endif
    164:   }

    166:   /* make sure that B is assembled so we can access its values */
    167:   MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);
    168:   MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);

    170:   /* invent new B and copy stuff over */
    171:   PetscMalloc1(mbs,&nz);
    172:   for (i=0; i<mbs; i++) {
    173:     nz[i] = Bbaij->i[i+1]-Bbaij->i[i];
    174:   }
    175:   MatCreate(PetscObjectComm((PetscObject)B),&Bnew);
    176:   MatSetSizes(Bnew,m,n,m,n);
    177:   MatSetType(Bnew,((PetscObject)B)->type_name);
    178:   MatSeqBAIJSetPreallocation(Bnew,B->rmap->bs,0,nz);
    179:   if (Bbaij->nonew >= 0) { /* Inherit insertion error options (if positive). */
    180:     ((Mat_SeqBAIJ*)Bnew->data)->nonew = Bbaij->nonew;
    181:   }

    183:   MatSetOption(Bnew,MAT_ROW_ORIENTED,PETSC_FALSE);
    184:   /*
    185:    Ensure that B's nonzerostate is monotonically increasing.
    186:    Or should this follow the MatSetValuesBlocked() loop to preserve B's nonzerstate across a MatDisAssemble() call?
    187:    */
    188:   Bnew->nonzerostate = B->nonzerostate;

    190:   for (i=0; i<mbs; i++) {
    191:     for (j=Bbaij->i[i]; j<Bbaij->i[i+1]; j++) {
    192:       col  = garray[Bbaij->j[j]];
    193:       atmp = a + j*bs2;
    194:       MatSetValuesBlocked_SeqBAIJ(Bnew,1,&i,1,&col,atmp,B->insertmode);
    195:     }
    196:   }
    197:   MatSetOption(Bnew,MAT_ROW_ORIENTED,PETSC_TRUE);

    199:   PetscFree(nz);
    200:   PetscFree(baij->garray);
    201:   PetscLogObjectMemory((PetscObject)A,-ec*sizeof(PetscInt));
    202:   MatDestroy(&B);
    203:   PetscLogObjectParent((PetscObject)A,(PetscObject)Bnew);

    205:   baij->B          = Bnew;
    206:   A->was_assembled = PETSC_FALSE;
    207:   A->assembled     = PETSC_FALSE;
    208:   return(0);
    209: }

    211: /*      ugly stuff added for Glenn someday we should fix this up */

    213: static PetscInt *uglyrmapd = NULL,*uglyrmapo = NULL;  /* mapping from the local ordering to the "diagonal" and "off-diagonal" parts of the local matrix */
    214: static Vec      uglydd     = NULL,uglyoo     = NULL;  /* work vectors used to scale the two parts of the local matrix */

    217: PetscErrorCode MatMPIBAIJDiagonalScaleLocalSetUp(Mat inA,Vec scale)
    218: {
    219:   Mat_MPIBAIJ    *ina = (Mat_MPIBAIJ*) inA->data; /*access private part of matrix */
    220:   Mat_SeqBAIJ    *B   = (Mat_SeqBAIJ*)ina->B->data;
    222:   PetscInt       bs = inA->rmap->bs,i,n,nt,j,cstart,cend,no,*garray = ina->garray,*lindices;
    223:   PetscInt       *r_rmapd,*r_rmapo;

    226:   MatGetOwnershipRange(inA,&cstart,&cend);
    227:   MatGetSize(ina->A,NULL,&n);
    228:   PetscCalloc1(inA->rmap->mapping->n+1,&r_rmapd);
    229:   nt   = 0;
    230:   for (i=0; i<inA->rmap->mapping->n; i++) {
    231:     if (inA->rmap->mapping->indices[i]*bs >= cstart && inA->rmap->mapping->indices[i]*bs < cend) {
    232:       nt++;
    233:       r_rmapd[i] = inA->rmap->mapping->indices[i] + 1;
    234:     }
    235:   }
    236:   if (nt*bs != n) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Hmm nt*bs %D n %D",nt*bs,n);
    237:   PetscMalloc1(n+1,&uglyrmapd);
    238:   for (i=0; i<inA->rmap->mapping->n; i++) {
    239:     if (r_rmapd[i]) {
    240:       for (j=0; j<bs; j++) {
    241:         uglyrmapd[(r_rmapd[i]-1)*bs+j-cstart] = i*bs + j;
    242:       }
    243:     }
    244:   }
    245:   PetscFree(r_rmapd);
    246:   VecCreateSeq(PETSC_COMM_SELF,n,&uglydd);

    248:   PetscCalloc1(ina->Nbs+1,&lindices);
    249:   for (i=0; i<B->nbs; i++) {
    250:     lindices[garray[i]] = i+1;
    251:   }
    252:   no   = inA->rmap->mapping->n - nt;
    253:   PetscCalloc1(inA->rmap->mapping->n+1,&r_rmapo);
    254:   nt   = 0;
    255:   for (i=0; i<inA->rmap->mapping->n; i++) {
    256:     if (lindices[inA->rmap->mapping->indices[i]]) {
    257:       nt++;
    258:       r_rmapo[i] = lindices[inA->rmap->mapping->indices[i]];
    259:     }
    260:   }
    261:   if (nt > no) SETERRQ2(PETSC_COMM_SELF,PETSC_ERR_PLIB,"Hmm nt %D no %D",nt,n);
    262:   PetscFree(lindices);
    263:   PetscMalloc1(nt*bs+1,&uglyrmapo);
    264:   for (i=0; i<inA->rmap->mapping->n; i++) {
    265:     if (r_rmapo[i]) {
    266:       for (j=0; j<bs; j++) {
    267:         uglyrmapo[(r_rmapo[i]-1)*bs+j] = i*bs + j;
    268:       }
    269:     }
    270:   }
    271:   PetscFree(r_rmapo);
    272:   VecCreateSeq(PETSC_COMM_SELF,nt*bs,&uglyoo);
    273:   return(0);
    274: }

    276: PetscErrorCode  MatMPIBAIJDiagonalScaleLocal(Mat A,Vec scale)
    277: {
    278:   /* This routine should really be abandoned as it duplicates MatDiagonalScaleLocal */

    282:   PetscTryMethod(A,"MatDiagonalScaleLocal_C",(Mat,Vec),(A,scale));
    283:   return(0);
    284: }

    286: PetscErrorCode  MatDiagonalScaleLocal_MPIBAIJ(Mat A,Vec scale)
    287: {
    288:   Mat_MPIBAIJ       *a = (Mat_MPIBAIJ*) A->data; /*access private part of matrix */
    289:   PetscErrorCode    ierr;
    290:   PetscInt          n,i;
    291:   PetscScalar       *d,*o;
    292:   const PetscScalar *s;

    295:   if (!uglyrmapd) {
    296:     MatMPIBAIJDiagonalScaleLocalSetUp(A,scale);
    297:   }

    299:   VecGetArrayRead(scale,&s);

    301:   VecGetLocalSize(uglydd,&n);
    302:   VecGetArray(uglydd,&d);
    303:   for (i=0; i<n; i++) {
    304:     d[i] = s[uglyrmapd[i]]; /* copy "diagonal" (true local) portion of scale into dd vector */
    305:   }
    306:   VecRestoreArray(uglydd,&d);
    307:   /* column scale "diagonal" portion of local matrix */
    308:   MatDiagonalScale(a->A,NULL,uglydd);

    310:   VecGetLocalSize(uglyoo,&n);
    311:   VecGetArray(uglyoo,&o);
    312:   for (i=0; i<n; i++) {
    313:     o[i] = s[uglyrmapo[i]]; /* copy "off-diagonal" portion of scale into oo vector */
    314:   }
    315:   VecRestoreArrayRead(scale,&s);
    316:   VecRestoreArray(uglyoo,&o);
    317:   /* column scale "off-diagonal" portion of local matrix */
    318:   MatDiagonalScale(a->B,NULL,uglyoo);
    319:   return(0);
    320: }