Actual source code: mmbaij.c

  1: /*
  2:    Support for the parallel BAIJ matrix vector multiply
  3: */
 4:  #include src/mat/impls/baij/mpi/mpibaij.h

  6: EXTERN PetscErrorCode MatSetValuesBlocked_SeqBAIJ(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[],const PetscScalar[],InsertMode);

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


 29: #if defined (PETSC_USE_CTABLE)
 30:   /* use a table - Mark Adams */
 31:   PetscTableCreate(B->mbs,&gid1_lid1);
 32:   for (i=0; i<B->mbs; i++) {
 33:     for (j=0; j<B->ilen[i]; j++) {
 34:       PetscInt data,gid1 = aj[B->i[i]+j] + 1;
 35:       PetscTableFind(gid1_lid1,gid1,&data);
 36:       if (!data) {
 37:         /* one based table */
 38:         PetscTableAdd(gid1_lid1,gid1,++ec);
 39:       }
 40:     }
 41:   }
 42:   /* form array of columns we need */
 43:   PetscMalloc((ec+1)*sizeof(PetscInt),&garray);
 44:   PetscTableGetHeadPosition(gid1_lid1,&tpos);
 45:   while (tpos) {
 46:     PetscTableGetNext(gid1_lid1,&tpos,&gid,&lid);
 47:     gid--; lid--;
 48:     garray[lid] = gid;
 49:   }
 50:   PetscSortInt(ec,garray);
 51:   PetscTableRemoveAll(gid1_lid1);
 52:   for (i=0; i<ec; i++) {
 53:     PetscTableAdd(gid1_lid1,garray[i]+1,i+1);
 54:   }
 55:   /* compact out the extra columns in B */
 56:   for (i=0; i<B->mbs; i++) {
 57:     for (j=0; j<B->ilen[i]; j++) {
 58:       PetscInt gid1 = aj[B->i[i] + j] + 1;
 59:       PetscTableFind(gid1_lid1,gid1,&lid);
 60:       lid --;
 61:       aj[B->i[i]+j] = lid;
 62:     }
 63:   }
 64:   B->nbs     = ec;
 65:   baij->B->n = ec*mat->bs;
 66:   PetscTableDelete(gid1_lid1);
 67:   /* Mark Adams */
 68: #else
 69:   /* Make an array as long as the number of columns */
 70:   /* mark those columns that are in baij->B */
 71:   PetscMalloc((Nbs+1)*sizeof(PetscInt),&indices);
 72:   PetscMemzero(indices,Nbs*sizeof(PetscInt));
 73:   for (i=0; i<B->mbs; i++) {
 74:     for (j=0; j<B->ilen[i]; j++) {
 75:       if (!indices[aj[B->i[i] + j]]) ec++;
 76:       indices[aj[B->i[i] + j]] = 1;
 77:     }
 78:   }

 80:   /* form array of columns we need */
 81:   PetscMalloc((ec+1)*sizeof(PetscInt),&garray);
 82:   ec = 0;
 83:   for (i=0; i<Nbs; i++) {
 84:     if (indices[i]) {
 85:       garray[ec++] = i;
 86:     }
 87:   }

 89:   /* make indices now point into garray */
 90:   for (i=0; i<ec; i++) {
 91:     indices[garray[i]] = i;
 92:   }

 94:   /* compact out the extra columns in B */
 95:   for (i=0; i<B->mbs; i++) {
 96:     for (j=0; j<B->ilen[i]; j++) {
 97:       aj[B->i[i] + j] = indices[aj[B->i[i] + j]];
 98:     }
 99:   }
100:   B->nbs       = ec;
101:   baij->B->n   = ec*mat->bs;
102:   PetscFree(indices);
103: #endif  

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

108:   /* create two temporary index sets for building scatter-gather */
109:   for (i=0; i<ec; i++) {
110:     garray[i] = bs*garray[i];
111:   }
112:   ISCreateBlock(PETSC_COMM_SELF,bs,ec,garray,&from);
113:   for (i=0; i<ec; i++) {
114:     garray[i] = garray[i]/bs;
115:   }

117:   PetscMalloc((ec+1)*sizeof(PetscInt),&stmp);
118:   for (i=0; i<ec; i++) { stmp[i] = bs*i; }
119:   ISCreateBlock(PETSC_COMM_SELF,bs,ec,stmp,&to);
120:   PetscFree(stmp);

122:   /* create temporary global vector to generate scatter context */
123:   /* this is inefficient, but otherwise we must do either 
124:      1) save garray until the first actual scatter when the vector is known or
125:      2) have another way of generating a scatter context without a vector.*/
126:   VecCreateMPI(mat->comm,mat->n,mat->N,&gvec);

128:   /* gnerate the scatter context */
129:   VecScatterCreate(gvec,from,baij->lvec,to,&baij->Mvctx);

131:   /*
132:       Post the receives for the first matrix vector product. We sync-chronize after
133:     this on the chance that the user immediately calls MatMult() after assemblying 
134:     the matrix.
135:   */
136:   VecScatterPostRecvs(gvec,baij->lvec,INSERT_VALUES,SCATTER_FORWARD,baij->Mvctx);
137:   MPI_Barrier(mat->comm);

139:   PetscLogObjectParent(mat,baij->Mvctx);
140:   PetscLogObjectParent(mat,baij->lvec);
141:   PetscLogObjectParent(mat,from);
142:   PetscLogObjectParent(mat,to);
143:   baij->garray = garray;
144:   PetscLogObjectMemory(mat,(ec+1)*sizeof(PetscInt));
145:   ISDestroy(from);
146:   ISDestroy(to);
147:   VecDestroy(gvec);
148:   return(0);
149: }

151: /*
152:      Takes the local part of an already assembled MPIBAIJ matrix
153:    and disassembles it. This is to allow new nonzeros into the matrix
154:    that require more communication in the matrix vector multiply. 
155:    Thus certain data-structures must be rebuilt.

157:    Kind of slow! But that's what application programmers get when 
158:    they are sloppy.
159: */
162: PetscErrorCode DisAssemble_MPIBAIJ(Mat A)
163: {
164:   Mat_MPIBAIJ    *baij = (Mat_MPIBAIJ*)A->data;
165:   Mat            B = baij->B,Bnew;
166:   Mat_SeqBAIJ    *Bbaij = (Mat_SeqBAIJ*)B->data;
168:   PetscInt       i,j,mbs=Bbaij->mbs,n = A->N,col,*garray=baij->garray;
169:   PetscInt       bs2 = baij->bs2,*nz,ec,m = A->m;
170:   MatScalar      *a = Bbaij->a;
171:   PetscScalar    *atmp;
172: #if defined(PETSC_USE_MAT_SINGLE)
173:   PetscInt       k;
174: #endif

177:   /* free stuff related to matrix-vec multiply */
178:   VecGetSize(baij->lvec,&ec); /* needed for PetscLogObjectMemory below */
179:   VecDestroy(baij->lvec); baij->lvec = 0;
180:   VecScatterDestroy(baij->Mvctx); baij->Mvctx = 0;
181:   if (baij->colmap) {
182: #if defined (PETSC_USE_CTABLE)
183:     PetscTableDelete(baij->colmap); baij->colmap = 0;
184: #else
185:     PetscFree(baij->colmap);
186:     baij->colmap = 0;
187:     PetscLogObjectMemory(A,-Bbaij->nbs*sizeof(PetscInt));
188: #endif
189:   }

191:   /* make sure that B is assembled so we can access its values */
192:   MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);
193:   MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);

195:   /* invent new B and copy stuff over */
196:   PetscMalloc(mbs*sizeof(PetscInt),&nz);
197:   for (i=0; i<mbs; i++) {
198:     nz[i] = Bbaij->i[i+1]-Bbaij->i[i];
199:   }
200:   MatCreate(B->comm,m,n,m,n,&Bnew);
201:   MatSetType(Bnew,B->type_name);
202:   MatSeqBAIJSetPreallocation(Bnew,B->bs,0,nz);
203:   MatSetOption(Bnew,MAT_COLUMN_ORIENTED);

205: #if defined(PETSC_USE_MAT_SINGLE)
206:   PetscMalloc(bs2*sizeof(PetscScalar),&atmp);
207: #endif
208:     for (i=0; i<mbs; i++) {
209:       for (j=Bbaij->i[i]; j<Bbaij->i[i+1]; j++) {
210:         col  = garray[Bbaij->j[j]];
211: #if defined(PETSC_USE_MAT_SINGLE)
212:         for (k=0; k<bs2; k++) atmp[k] = a[j*bs2+k];
213: #else
214:         atmp = a + j*bs2;
215: #endif
216:         MatSetValuesBlocked_SeqBAIJ(Bnew,1,&i,1,&col,atmp,B->insertmode);
217:       }
218:     }
219:   MatSetOption(Bnew,MAT_ROW_ORIENTED);

221: #if defined(PETSC_USE_MAT_SINGLE)
222:   PetscFree(atmp);
223: #endif

225:   PetscFree(nz);
226:   PetscFree(baij->garray);
227:   baij->garray = 0;
228:   PetscLogObjectMemory(A,-ec*sizeof(PetscInt));
229:   MatDestroy(B);
230:   PetscLogObjectParent(A,Bnew);
231:   baij->B = Bnew;
232:   A->was_assembled = PETSC_FALSE;
233:   return(0);
234: }

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

238: static PetscInt *uglyrmapd = 0,*uglyrmapo = 0;  /* mapping from the local ordering to the "diagonal" and "off-diagonal"
239:                                       parts of the local matrix */
240: static Vec uglydd = 0,uglyoo = 0;   /* work vectors used to scale the two parts of the local matrix */


245: PetscErrorCode MatMPIBAIJDiagonalScaleLocalSetUp(Mat inA,Vec scale)
246: {
247:   Mat_MPIBAIJ    *ina = (Mat_MPIBAIJ*) inA->data; /*access private part of matrix */
248:   Mat_SeqBAIJ    *B = (Mat_SeqBAIJ*)ina->B->data;
250:   PetscInt       bs = inA->bs,i,n,nt,j,cstart,cend,no,*garray = ina->garray,*lindices;
251:   PetscInt       *r_rmapd,*r_rmapo;
252: 
254:   MatGetOwnershipRange(inA,&cstart,&cend);
255:   MatGetSize(ina->A,PETSC_NULL,&n);
256:   PetscMalloc((inA->bmapping->n+1)*sizeof(PetscInt),&r_rmapd);
257:   PetscMemzero(r_rmapd,inA->bmapping->n*sizeof(PetscInt));
258:   nt   = 0;
259:   for (i=0; i<inA->bmapping->n; i++) {
260:     if (inA->bmapping->indices[i]*bs >= cstart && inA->bmapping->indices[i]*bs < cend) {
261:       nt++;
262:       r_rmapd[i] = inA->bmapping->indices[i] + 1;
263:     }
264:   }
265:   if (nt*bs != n) SETERRQ2(PETSC_ERR_PLIB,"Hmm nt*bs %D n %D",nt*bs,n);
266:   PetscMalloc((n+1)*sizeof(PetscInt),&uglyrmapd);
267:   for (i=0; i<inA->bmapping->n; i++) {
268:     if (r_rmapd[i]){
269:       for (j=0; j<bs; j++) {
270:         uglyrmapd[(r_rmapd[i]-1)*bs+j-cstart] = i*bs + j;
271:       }
272:     }
273:   }
274:   PetscFree(r_rmapd);
275:   VecCreateSeq(PETSC_COMM_SELF,n,&uglydd);

277:   PetscMalloc((ina->Nbs+1)*sizeof(PetscInt),&lindices);
278:   PetscMemzero(lindices,ina->Nbs*sizeof(PetscInt));
279:   for (i=0; i<B->nbs; i++) {
280:     lindices[garray[i]] = i+1;
281:   }
282:   no   = inA->bmapping->n - nt;
283:   PetscMalloc((inA->bmapping->n+1)*sizeof(PetscInt),&r_rmapo);
284:   PetscMemzero(r_rmapo,inA->bmapping->n*sizeof(PetscInt));
285:   nt   = 0;
286:   for (i=0; i<inA->bmapping->n; i++) {
287:     if (lindices[inA->bmapping->indices[i]]) {
288:       nt++;
289:       r_rmapo[i] = lindices[inA->bmapping->indices[i]];
290:     }
291:   }
292:   if (nt > no) SETERRQ2(PETSC_ERR_PLIB,"Hmm nt %D no %D",nt,n);
293:   PetscFree(lindices);
294:   PetscMalloc((nt*bs+1)*sizeof(PetscInt),&uglyrmapo);
295:   for (i=0; i<inA->bmapping->n; i++) {
296:     if (r_rmapo[i]){
297:       for (j=0; j<bs; j++) {
298:         uglyrmapo[(r_rmapo[i]-1)*bs+j] = i*bs + j;
299:       }
300:     }
301:   }
302:   PetscFree(r_rmapo);
303:   VecCreateSeq(PETSC_COMM_SELF,nt*bs,&uglyoo);

305:   return(0);
306: }

310: PetscErrorCode MatMPIBAIJDiagonalScaleLocal(Mat A,Vec scale)
311: {
312:   /* This routine should really be abandoned as it duplicates MatDiagonalScaleLocal */
313:   PetscErrorCode ierr,(*f)(Mat,Vec);

316:   PetscObjectQueryFunction((PetscObject)A,"MatDiagonalScaleLocal_C",(void (**)(void))&f);
317:   if (f) {
318:     (*f)(A,scale);
319:   }
320:   return(0);
321: }

326: PetscErrorCode MatDiagonalScaleLocal_MPIBAIJ(Mat A,Vec scale)
327: {
328:   Mat_MPIBAIJ    *a = (Mat_MPIBAIJ*) A->data; /*access private part of matrix */
330:   PetscInt       n,i;
331:   PetscScalar    *d,*o,*s;
332: 
334:   if (!uglyrmapd) {
335:     MatMPIBAIJDiagonalScaleLocalSetUp(A,scale);
336:   }

338:   VecGetArray(scale,&s);
339: 
340:   VecGetLocalSize(uglydd,&n);
341:   VecGetArray(uglydd,&d);
342:   for (i=0; i<n; i++) {
343:     d[i] = s[uglyrmapd[i]]; /* copy "diagonal" (true local) portion of scale into dd vector */
344:   }
345:   VecRestoreArray(uglydd,&d);
346:   /* column scale "diagonal" portion of local matrix */
347:   MatDiagonalScale(a->A,PETSC_NULL,uglydd);

349:   VecGetLocalSize(uglyoo,&n);
350:   VecGetArray(uglyoo,&o);
351:   for (i=0; i<n; i++) {
352:     o[i] = s[uglyrmapo[i]]; /* copy "off-diagonal" portion of scale into oo vector */
353:   }
354:   VecRestoreArray(scale,&s);
355:   VecRestoreArray(uglyoo,&o);
356:   /* column scale "off-diagonal" portion of local matrix */
357:   MatDiagonalScale(a->B,PETSC_NULL,uglyoo);

359:   return(0);
360: }