18a729477SBarry Smith 270f55243SBarry Smith #include "src/mat/impls/aij/mpi/mpiaij.h" 3d9942c19SSatish Balay #include "src/inline/spops.h" 48a729477SBarry Smith 50f5bd95cSBarry Smith /* 60f5bd95cSBarry Smith Local utility routine that creates a mapping from the global column 79e25ed09SBarry Smith number to the local number in the off-diagonal part of the local 80f5bd95cSBarry Smith storage of the matrix. When PETSC_USE_CTABLE is used this is scalable at 90f5bd95cSBarry Smith a slightly higher hash table cost; without it it is not scalable (each processor 100f5bd95cSBarry Smith has an order N integer array but is fast to acess. 119e25ed09SBarry Smith */ 124a2ae208SSatish Balay #undef __FUNCT__ 134a2ae208SSatish Balay #define __FUNCT__ "CreateColmap_MPIAIJ_Private" 14dfbe8321SBarry Smith PetscErrorCode CreateColmap_MPIAIJ_Private(Mat mat) 159e25ed09SBarry Smith { 1644a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 176849ba73SBarry Smith PetscErrorCode ierr; 18b1d57f15SBarry Smith PetscInt n = aij->B->n,i; 19dbb450caSBarry Smith 203a40ed3dSBarry Smith PetscFunctionBegin; 21aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 22273d9f13SBarry Smith ierr = PetscTableCreate(n,&aij->colmap);CHKERRQ(ierr); 23b1fc9764SSatish Balay for (i=0; i<n; i++){ 240f5bd95cSBarry Smith ierr = PetscTableAdd(aij->colmap,aij->garray[i]+1,i+1);CHKERRQ(ierr); 25b1fc9764SSatish Balay } 26b1fc9764SSatish Balay #else 27b1d57f15SBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscInt),&aij->colmap);CHKERRQ(ierr); 28b1d57f15SBarry Smith PetscLogObjectMemory(mat,mat->N*sizeof(PetscInt)); 29b1d57f15SBarry Smith ierr = PetscMemzero(aij->colmap,mat->N*sizeof(PetscInt));CHKERRQ(ierr); 30905e6a2fSBarry Smith for (i=0; i<n; i++) aij->colmap[aij->garray[i]] = i+1; 31b1fc9764SSatish Balay #endif 323a40ed3dSBarry Smith PetscFunctionReturn(0); 339e25ed09SBarry Smith } 349e25ed09SBarry Smith 350520107fSSatish Balay #define CHUNKSIZE 15 3630770e4dSSatish Balay #define MatSetValues_SeqAIJ_A_Private(row,col,value,addv) \ 370520107fSSatish Balay { \ 380520107fSSatish Balay \ 390520107fSSatish Balay rp = aj + ai[row] + shift; ap = aa + ai[row] + shift; \ 4030770e4dSSatish Balay rmax = aimax[row]; nrow = ailen[row]; \ 41f5e9677aSSatish Balay col1 = col - shift; \ 42f5e9677aSSatish Balay \ 43ba4e3ef2SSatish Balay low = 0; high = nrow; \ 44ba4e3ef2SSatish Balay while (high-low > 5) { \ 45ba4e3ef2SSatish Balay t = (low+high)/2; \ 46ba4e3ef2SSatish Balay if (rp[t] > col) high = t; \ 47ba4e3ef2SSatish Balay else low = t; \ 48ba4e3ef2SSatish Balay } \ 492335bdd2SSatish Balay for (_i=low; _i<high; _i++) { \ 50f5e9677aSSatish Balay if (rp[_i] > col1) break; \ 51f5e9677aSSatish Balay if (rp[_i] == col1) { \ 520520107fSSatish Balay if (addv == ADD_VALUES) ap[_i] += value; \ 530520107fSSatish Balay else ap[_i] = value; \ 5430770e4dSSatish Balay goto a_noinsert; \ 550520107fSSatish Balay } \ 560520107fSSatish Balay } \ 57abc0a331SBarry Smith if (value == 0.0 && ignorezeroentries) goto a_noinsert; \ 5889280ab3SLois Curfman McInnes if (nonew == 1) goto a_noinsert; \ 5977431f27SBarry Smith else if (nonew == -1) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", row, col); \ 600520107fSSatish Balay if (nrow >= rmax) { \ 610520107fSSatish Balay /* there is no extra room in row, therefore enlarge */ \ 62b1d57f15SBarry Smith PetscInt new_nz = ai[am] + CHUNKSIZE,len,*new_i,*new_j; \ 6387828ca2SBarry Smith PetscScalar *new_a; \ 640520107fSSatish Balay \ 6577431f27SBarry Smith if (nonew == -2) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) in the matrix", row, col); \ 6689280ab3SLois Curfman McInnes \ 670520107fSSatish Balay /* malloc new storage space */ \ 68b1d57f15SBarry Smith len = new_nz*(sizeof(PetscInt)+sizeof(PetscScalar))+(am+1)*sizeof(PetscInt); \ 69b0a32e0cSBarry Smith ierr = PetscMalloc(len,&new_a);CHKERRQ(ierr); \ 70b1d57f15SBarry Smith new_j = (PetscInt*)(new_a + new_nz); \ 710520107fSSatish Balay new_i = new_j + new_nz; \ 720520107fSSatish Balay \ 730520107fSSatish Balay /* copy over old data into new slots */ \ 740520107fSSatish Balay for (ii=0; ii<row+1; ii++) {new_i[ii] = ai[ii];} \ 75273d9f13SBarry Smith for (ii=row+1; ii<am+1; ii++) {new_i[ii] = ai[ii]+CHUNKSIZE;} \ 76b1d57f15SBarry Smith ierr = PetscMemcpy(new_j,aj,(ai[row]+nrow+shift)*sizeof(PetscInt));CHKERRQ(ierr); \ 770520107fSSatish Balay len = (new_nz - CHUNKSIZE - ai[row] - nrow - shift); \ 78549d3d68SSatish Balay ierr = PetscMemcpy(new_j+ai[row]+shift+nrow+CHUNKSIZE,aj+ai[row]+shift+nrow, \ 79b1d57f15SBarry Smith len*sizeof(PetscInt));CHKERRQ(ierr); \ 8087828ca2SBarry Smith ierr = PetscMemcpy(new_a,aa,(ai[row]+nrow+shift)*sizeof(PetscScalar));CHKERRQ(ierr); \ 81549d3d68SSatish Balay ierr = PetscMemcpy(new_a+ai[row]+shift+nrow+CHUNKSIZE,aa+ai[row]+shift+nrow, \ 8287828ca2SBarry Smith len*sizeof(PetscScalar));CHKERRQ(ierr); \ 830520107fSSatish Balay /* free up old matrix storage */ \ 84f5e9677aSSatish Balay \ 85606d414cSSatish Balay ierr = PetscFree(a->a);CHKERRQ(ierr); \ 86606d414cSSatish Balay if (!a->singlemalloc) { \ 87606d414cSSatish Balay ierr = PetscFree(a->i);CHKERRQ(ierr); \ 88606d414cSSatish Balay ierr = PetscFree(a->j);CHKERRQ(ierr); \ 89606d414cSSatish Balay } \ 900520107fSSatish Balay aa = a->a = new_a; ai = a->i = new_i; aj = a->j = new_j; \ 917c922b88SBarry Smith a->singlemalloc = PETSC_TRUE; \ 920520107fSSatish Balay \ 930520107fSSatish Balay rp = aj + ai[row] + shift; ap = aa + ai[row] + shift; \ 9430770e4dSSatish Balay rmax = aimax[row] = aimax[row] + CHUNKSIZE; \ 95b1d57f15SBarry Smith PetscLogObjectMemory(A,CHUNKSIZE*(sizeof(PetscInt) + sizeof(PetscScalar))); \ 960520107fSSatish Balay a->maxnz += CHUNKSIZE; \ 970520107fSSatish Balay a->reallocs++; \ 980520107fSSatish Balay } \ 990520107fSSatish Balay N = nrow++ - 1; a->nz++; \ 1000520107fSSatish Balay /* shift up all the later entries in this row */ \ 1010520107fSSatish Balay for (ii=N; ii>=_i; ii--) { \ 1020520107fSSatish Balay rp[ii+1] = rp[ii]; \ 1030520107fSSatish Balay ap[ii+1] = ap[ii]; \ 1040520107fSSatish Balay } \ 105f5e9677aSSatish Balay rp[_i] = col1; \ 1060520107fSSatish Balay ap[_i] = value; \ 10730770e4dSSatish Balay a_noinsert: ; \ 1080520107fSSatish Balay ailen[row] = nrow; \ 1090520107fSSatish Balay } 1100a198c4cSBarry Smith 11130770e4dSSatish Balay #define MatSetValues_SeqAIJ_B_Private(row,col,value,addv) \ 11230770e4dSSatish Balay { \ 11330770e4dSSatish Balay \ 11430770e4dSSatish Balay rp = bj + bi[row] + shift; ap = ba + bi[row] + shift; \ 11530770e4dSSatish Balay rmax = bimax[row]; nrow = bilen[row]; \ 11630770e4dSSatish Balay col1 = col - shift; \ 11730770e4dSSatish Balay \ 118ba4e3ef2SSatish Balay low = 0; high = nrow; \ 119ba4e3ef2SSatish Balay while (high-low > 5) { \ 120ba4e3ef2SSatish Balay t = (low+high)/2; \ 121ba4e3ef2SSatish Balay if (rp[t] > col) high = t; \ 122ba4e3ef2SSatish Balay else low = t; \ 123ba4e3ef2SSatish Balay } \ 1242335bdd2SSatish Balay for (_i=low; _i<high; _i++) { \ 12530770e4dSSatish Balay if (rp[_i] > col1) break; \ 12630770e4dSSatish Balay if (rp[_i] == col1) { \ 12730770e4dSSatish Balay if (addv == ADD_VALUES) ap[_i] += value; \ 12830770e4dSSatish Balay else ap[_i] = value; \ 12930770e4dSSatish Balay goto b_noinsert; \ 13030770e4dSSatish Balay } \ 13130770e4dSSatish Balay } \ 132abc0a331SBarry Smith if (value == 0.0 && ignorezeroentries) goto b_noinsert; \ 13389280ab3SLois Curfman McInnes if (nonew == 1) goto b_noinsert; \ 13477431f27SBarry Smith else if (nonew == -1) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", row, col); \ 13530770e4dSSatish Balay if (nrow >= rmax) { \ 13630770e4dSSatish Balay /* there is no extra room in row, therefore enlarge */ \ 137b1d57f15SBarry Smith PetscInt new_nz = bi[bm] + CHUNKSIZE,len,*new_i,*new_j; \ 13887828ca2SBarry Smith PetscScalar *new_a; \ 13930770e4dSSatish Balay \ 14077431f27SBarry Smith if (nonew == -2) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) in the matrix", row, col); \ 14189280ab3SLois Curfman McInnes \ 14230770e4dSSatish Balay /* malloc new storage space */ \ 143b1d57f15SBarry Smith len = new_nz*(sizeof(PetscInt)+sizeof(PetscScalar))+(bm+1)*sizeof(PetscInt); \ 144b0a32e0cSBarry Smith ierr = PetscMalloc(len,&new_a);CHKERRQ(ierr); \ 145b1d57f15SBarry Smith new_j = (PetscInt*)(new_a + new_nz); \ 14630770e4dSSatish Balay new_i = new_j + new_nz; \ 14730770e4dSSatish Balay \ 14830770e4dSSatish Balay /* copy over old data into new slots */ \ 14930770e4dSSatish Balay for (ii=0; ii<row+1; ii++) {new_i[ii] = bi[ii];} \ 150273d9f13SBarry Smith for (ii=row+1; ii<bm+1; ii++) {new_i[ii] = bi[ii]+CHUNKSIZE;} \ 151b1d57f15SBarry Smith ierr = PetscMemcpy(new_j,bj,(bi[row]+nrow+shift)*sizeof(PetscInt));CHKERRQ(ierr); \ 15230770e4dSSatish Balay len = (new_nz - CHUNKSIZE - bi[row] - nrow - shift); \ 153549d3d68SSatish Balay ierr = PetscMemcpy(new_j+bi[row]+shift+nrow+CHUNKSIZE,bj+bi[row]+shift+nrow, \ 154b1d57f15SBarry Smith len*sizeof(PetscInt));CHKERRQ(ierr); \ 15587828ca2SBarry Smith ierr = PetscMemcpy(new_a,ba,(bi[row]+nrow+shift)*sizeof(PetscScalar));CHKERRQ(ierr); \ 156549d3d68SSatish Balay ierr = PetscMemcpy(new_a+bi[row]+shift+nrow+CHUNKSIZE,ba+bi[row]+shift+nrow, \ 15787828ca2SBarry Smith len*sizeof(PetscScalar));CHKERRQ(ierr); \ 15830770e4dSSatish Balay /* free up old matrix storage */ \ 15930770e4dSSatish Balay \ 160606d414cSSatish Balay ierr = PetscFree(b->a);CHKERRQ(ierr); \ 161606d414cSSatish Balay if (!b->singlemalloc) { \ 162606d414cSSatish Balay ierr = PetscFree(b->i);CHKERRQ(ierr); \ 163606d414cSSatish Balay ierr = PetscFree(b->j);CHKERRQ(ierr); \ 164606d414cSSatish Balay } \ 16574c639caSSatish Balay ba = b->a = new_a; bi = b->i = new_i; bj = b->j = new_j; \ 1667c922b88SBarry Smith b->singlemalloc = PETSC_TRUE; \ 16730770e4dSSatish Balay \ 16830770e4dSSatish Balay rp = bj + bi[row] + shift; ap = ba + bi[row] + shift; \ 16930770e4dSSatish Balay rmax = bimax[row] = bimax[row] + CHUNKSIZE; \ 170b1d57f15SBarry Smith PetscLogObjectMemory(B,CHUNKSIZE*(sizeof(PetscInt) + sizeof(PetscScalar))); \ 17174c639caSSatish Balay b->maxnz += CHUNKSIZE; \ 17274c639caSSatish Balay b->reallocs++; \ 17330770e4dSSatish Balay } \ 17474c639caSSatish Balay N = nrow++ - 1; b->nz++; \ 17530770e4dSSatish Balay /* shift up all the later entries in this row */ \ 17630770e4dSSatish Balay for (ii=N; ii>=_i; ii--) { \ 17730770e4dSSatish Balay rp[ii+1] = rp[ii]; \ 17830770e4dSSatish Balay ap[ii+1] = ap[ii]; \ 17930770e4dSSatish Balay } \ 18030770e4dSSatish Balay rp[_i] = col1; \ 18130770e4dSSatish Balay ap[_i] = value; \ 18230770e4dSSatish Balay b_noinsert: ; \ 18330770e4dSSatish Balay bilen[row] = nrow; \ 18430770e4dSSatish Balay } 18530770e4dSSatish Balay 1864a2ae208SSatish Balay #undef __FUNCT__ 1874a2ae208SSatish Balay #define __FUNCT__ "MatSetValues_MPIAIJ" 188b1d57f15SBarry Smith PetscErrorCode MatSetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode addv) 1898a729477SBarry Smith { 19044a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 19187828ca2SBarry Smith PetscScalar value; 192dfbe8321SBarry Smith PetscErrorCode ierr; 19357809a77SBarry Smith PetscInt i,j,rstart = aij->rstart,rend = aij->rend; 19457809a77SBarry Smith PetscInt cstart = aij->cstart,cend = aij->cend,row,col; 195273d9f13SBarry Smith PetscTruth roworiented = aij->roworiented; 1968a729477SBarry Smith 1970520107fSSatish Balay /* Some Variables required in the macro */ 1984ee7247eSSatish Balay Mat A = aij->A; 1994ee7247eSSatish Balay Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 20057809a77SBarry Smith PetscInt *aimax = a->imax,*ai = a->i,*ailen = a->ilen,*aj = a->j; 20187828ca2SBarry Smith PetscScalar *aa = a->a; 202329f5518SBarry Smith PetscTruth ignorezeroentries = (((a->ignorezeroentries)&&(addv==ADD_VALUES))?PETSC_TRUE:PETSC_FALSE); 20330770e4dSSatish Balay Mat B = aij->B; 20430770e4dSSatish Balay Mat_SeqAIJ *b = (Mat_SeqAIJ*)B->data; 20557809a77SBarry Smith PetscInt *bimax = b->imax,*bi = b->i,*bilen = b->ilen,*bj = b->j,bm = aij->B->m,am = aij->A->m; 20687828ca2SBarry Smith PetscScalar *ba = b->a; 20730770e4dSSatish Balay 20857809a77SBarry Smith PetscInt *rp,ii,nrow,_i,rmax,N,col1,low,high,t; 20957809a77SBarry Smith PetscInt nonew = a->nonew,shift=0; 21087828ca2SBarry Smith PetscScalar *ap; 2114ee7247eSSatish Balay 2123a40ed3dSBarry Smith PetscFunctionBegin; 2138a729477SBarry Smith for (i=0; i<m; i++) { 2145ef9f2a5SBarry Smith if (im[i] < 0) continue; 2152515c552SBarry Smith #if defined(PETSC_USE_DEBUG) 21677431f27SBarry Smith if (im[i] >= mat->M) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",im[i],mat->M-1); 2170a198c4cSBarry Smith #endif 2184b0e389bSBarry Smith if (im[i] >= rstart && im[i] < rend) { 2194b0e389bSBarry Smith row = im[i] - rstart; 2201eb62cbbSBarry Smith for (j=0; j<n; j++) { 2214b0e389bSBarry Smith if (in[j] >= cstart && in[j] < cend){ 2224b0e389bSBarry Smith col = in[j] - cstart; 2234b0e389bSBarry Smith if (roworiented) value = v[i*n+j]; else value = v[i+j*m]; 224abc0a331SBarry Smith if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES)) continue; 22530770e4dSSatish Balay MatSetValues_SeqAIJ_A_Private(row,col,value,addv); 2260520107fSSatish Balay /* ierr = MatSetValues_SeqAIJ(aij->A,1,&row,1,&col,&value,addv);CHKERRQ(ierr); */ 227273d9f13SBarry Smith } else if (in[j] < 0) continue; 2282515c552SBarry Smith #if defined(PETSC_USE_DEBUG) 22977431f27SBarry Smith else if (in[j] >= mat->N) {SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",in[j],mat->N-1);} 2300a198c4cSBarry Smith #endif 2311eb62cbbSBarry Smith else { 232abc0a331SBarry Smith if (roworiented) value = v[i*n+j]; else value = v[i+j*m]; 233abc0a331SBarry Smith if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES)) continue; 234227d817aSBarry Smith if (mat->was_assembled) { 235905e6a2fSBarry Smith if (!aij->colmap) { 236905e6a2fSBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 237905e6a2fSBarry Smith } 238aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 2390f5bd95cSBarry Smith ierr = PetscTableFind(aij->colmap,in[j]+1,&col);CHKERRQ(ierr); 240fa46199cSSatish Balay col--; 241b1fc9764SSatish Balay #else 242905e6a2fSBarry Smith col = aij->colmap[in[j]] - 1; 243b1fc9764SSatish Balay #endif 244ec8511deSBarry Smith if (col < 0 && !((Mat_SeqAIJ*)(aij->A->data))->nonew) { 2452493cbb0SBarry Smith ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 2464b0e389bSBarry Smith col = in[j]; 2479bf004c3SSatish Balay /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 248f9508a3cSSatish Balay B = aij->B; 249f9508a3cSSatish Balay b = (Mat_SeqAIJ*)B->data; 250f9508a3cSSatish Balay bimax = b->imax; bi = b->i; bilen = b->ilen; bj = b->j; 251f9508a3cSSatish Balay ba = b->a; 252d6dfbf8fSBarry Smith } 253c48de900SBarry Smith } else col = in[j]; 25430770e4dSSatish Balay MatSetValues_SeqAIJ_B_Private(row,col,value,addv); 25530770e4dSSatish Balay /* ierr = MatSetValues_SeqAIJ(aij->B,1,&row,1,&col,&value,addv);CHKERRQ(ierr); */ 2561eb62cbbSBarry Smith } 2571eb62cbbSBarry Smith } 2585ef9f2a5SBarry Smith } else { 25990f02eecSBarry Smith if (!aij->donotstash) { 260d36fbae8SSatish Balay if (roworiented) { 2615b8514ebSBarry Smith if (ignorezeroentries && v[i*n] == 0.0) continue; 2628798bf22SSatish Balay ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n);CHKERRQ(ierr); 263d36fbae8SSatish Balay } else { 2645b8514ebSBarry Smith if (ignorezeroentries && v[i] == 0.0) continue; 2658798bf22SSatish Balay ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m);CHKERRQ(ierr); 2664b0e389bSBarry Smith } 2671eb62cbbSBarry Smith } 2688a729477SBarry Smith } 26990f02eecSBarry Smith } 2703a40ed3dSBarry Smith PetscFunctionReturn(0); 2718a729477SBarry Smith } 2728a729477SBarry Smith 2734a2ae208SSatish Balay #undef __FUNCT__ 2744a2ae208SSatish Balay #define __FUNCT__ "MatGetValues_MPIAIJ" 275b1d57f15SBarry Smith PetscErrorCode MatGetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt idxm[],PetscInt n,const PetscInt idxn[],PetscScalar v[]) 276b49de8d1SLois Curfman McInnes { 277b49de8d1SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 278dfbe8321SBarry Smith PetscErrorCode ierr; 279b1d57f15SBarry Smith PetscInt i,j,rstart = aij->rstart,rend = aij->rend; 280b1d57f15SBarry Smith PetscInt cstart = aij->cstart,cend = aij->cend,row,col; 281b49de8d1SLois Curfman McInnes 2823a40ed3dSBarry Smith PetscFunctionBegin; 283b49de8d1SLois Curfman McInnes for (i=0; i<m; i++) { 28477431f27SBarry Smith if (idxm[i] < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative row: %D",idxm[i]); 28577431f27SBarry Smith if (idxm[i] >= mat->M) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",idxm[i],mat->M-1); 286b49de8d1SLois Curfman McInnes if (idxm[i] >= rstart && idxm[i] < rend) { 287b49de8d1SLois Curfman McInnes row = idxm[i] - rstart; 288b49de8d1SLois Curfman McInnes for (j=0; j<n; j++) { 28977431f27SBarry Smith if (idxn[j] < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative column: %D",idxn[j]); 29077431f27SBarry Smith if (idxn[j] >= mat->N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",idxn[j],mat->N-1); 291b49de8d1SLois Curfman McInnes if (idxn[j] >= cstart && idxn[j] < cend){ 292b49de8d1SLois Curfman McInnes col = idxn[j] - cstart; 293b49de8d1SLois Curfman McInnes ierr = MatGetValues(aij->A,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 294fa852ad4SSatish Balay } else { 295905e6a2fSBarry Smith if (!aij->colmap) { 296905e6a2fSBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 297905e6a2fSBarry Smith } 298aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 2990f5bd95cSBarry Smith ierr = PetscTableFind(aij->colmap,idxn[j]+1,&col);CHKERRQ(ierr); 300fa46199cSSatish Balay col --; 301b1fc9764SSatish Balay #else 302905e6a2fSBarry Smith col = aij->colmap[idxn[j]] - 1; 303b1fc9764SSatish Balay #endif 304e60e1c95SSatish Balay if ((col < 0) || (aij->garray[col] != idxn[j])) *(v+i*n+j) = 0.0; 305d9d09a02SSatish Balay else { 306b49de8d1SLois Curfman McInnes ierr = MatGetValues(aij->B,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 307b49de8d1SLois Curfman McInnes } 308b49de8d1SLois Curfman McInnes } 309b49de8d1SLois Curfman McInnes } 310a8c6a408SBarry Smith } else { 31129bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Only local values currently supported"); 312b49de8d1SLois Curfman McInnes } 313b49de8d1SLois Curfman McInnes } 3143a40ed3dSBarry Smith PetscFunctionReturn(0); 315b49de8d1SLois Curfman McInnes } 316bc5ccf88SSatish Balay 3174a2ae208SSatish Balay #undef __FUNCT__ 3184a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyBegin_MPIAIJ" 319dfbe8321SBarry Smith PetscErrorCode MatAssemblyBegin_MPIAIJ(Mat mat,MatAssemblyType mode) 320bc5ccf88SSatish Balay { 321bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 322dfbe8321SBarry Smith PetscErrorCode ierr; 323b1d57f15SBarry Smith PetscInt nstash,reallocs; 324bc5ccf88SSatish Balay InsertMode addv; 325bc5ccf88SSatish Balay 326bc5ccf88SSatish Balay PetscFunctionBegin; 327bc5ccf88SSatish Balay if (aij->donotstash) { 328bc5ccf88SSatish Balay PetscFunctionReturn(0); 329bc5ccf88SSatish Balay } 330bc5ccf88SSatish Balay 331bc5ccf88SSatish Balay /* make sure all processors are either in INSERTMODE or ADDMODE */ 332bc5ccf88SSatish Balay ierr = MPI_Allreduce(&mat->insertmode,&addv,1,MPI_INT,MPI_BOR,mat->comm);CHKERRQ(ierr); 333bc5ccf88SSatish Balay if (addv == (ADD_VALUES|INSERT_VALUES)) { 33429bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Some processors inserted others added"); 335bc5ccf88SSatish Balay } 336bc5ccf88SSatish Balay mat->insertmode = addv; /* in case this processor had no cache */ 337bc5ccf88SSatish Balay 3388798bf22SSatish Balay ierr = MatStashScatterBegin_Private(&mat->stash,aij->rowners);CHKERRQ(ierr); 3398798bf22SSatish Balay ierr = MatStashGetInfo_Private(&mat->stash,&nstash,&reallocs);CHKERRQ(ierr); 34077431f27SBarry Smith PetscLogInfo(aij->A,"MatAssemblyBegin_MPIAIJ:Stash has %D entries, uses %D mallocs.\n",nstash,reallocs); 341bc5ccf88SSatish Balay PetscFunctionReturn(0); 342bc5ccf88SSatish Balay } 343bc5ccf88SSatish Balay 3444a2ae208SSatish Balay #undef __FUNCT__ 3454a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyEnd_MPIAIJ" 346dfbe8321SBarry Smith PetscErrorCode MatAssemblyEnd_MPIAIJ(Mat mat,MatAssemblyType mode) 347bc5ccf88SSatish Balay { 348bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 34924f910e3SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ *)aij->A->data,*b= (Mat_SeqAIJ *)aij->B->data; 3506849ba73SBarry Smith PetscErrorCode ierr; 351b1d57f15SBarry Smith PetscMPIInt n; 352b1d57f15SBarry Smith PetscInt i,j,rstart,ncols,flg; 353b1d57f15SBarry Smith PetscInt *row,*col,other_disassembled; 35487828ca2SBarry Smith PetscScalar *val; 355bc5ccf88SSatish Balay InsertMode addv = mat->insertmode; 356bc5ccf88SSatish Balay 357bc5ccf88SSatish Balay PetscFunctionBegin; 358bc5ccf88SSatish Balay if (!aij->donotstash) { 359a2d1c673SSatish Balay while (1) { 3608798bf22SSatish Balay ierr = MatStashScatterGetMesg_Private(&mat->stash,&n,&row,&col,&val,&flg);CHKERRQ(ierr); 361a2d1c673SSatish Balay if (!flg) break; 362a2d1c673SSatish Balay 363bc5ccf88SSatish Balay for (i=0; i<n;) { 364bc5ccf88SSatish Balay /* Now identify the consecutive vals belonging to the same row */ 365bc5ccf88SSatish Balay for (j=i,rstart=row[j]; j<n; j++) { if (row[j] != rstart) break; } 366bc5ccf88SSatish Balay if (j < n) ncols = j-i; 367bc5ccf88SSatish Balay else ncols = n-i; 368bc5ccf88SSatish Balay /* Now assemble all these values with a single function call */ 369bc5ccf88SSatish Balay ierr = MatSetValues_MPIAIJ(mat,1,row+i,ncols,col+i,val+i,addv);CHKERRQ(ierr); 370bc5ccf88SSatish Balay i = j; 371bc5ccf88SSatish Balay } 372bc5ccf88SSatish Balay } 3738798bf22SSatish Balay ierr = MatStashScatterEnd_Private(&mat->stash);CHKERRQ(ierr); 374bc5ccf88SSatish Balay } 3752f53aa61SHong Zhang a->compressedrow.use = PETSC_FALSE; 376bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->A,mode);CHKERRQ(ierr); 377bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->A,mode);CHKERRQ(ierr); 378bc5ccf88SSatish Balay 379bc5ccf88SSatish Balay /* determine if any processor has disassembled, if so we must 380bc5ccf88SSatish Balay also disassemble ourselfs, in order that we may reassemble. */ 381bc5ccf88SSatish Balay /* 382bc5ccf88SSatish Balay if nonzero structure of submatrix B cannot change then we know that 383bc5ccf88SSatish Balay no processor disassembled thus we can skip this stuff 384bc5ccf88SSatish Balay */ 385bc5ccf88SSatish Balay if (!((Mat_SeqAIJ*)aij->B->data)->nonew) { 386bc5ccf88SSatish Balay ierr = MPI_Allreduce(&mat->was_assembled,&other_disassembled,1,MPI_INT,MPI_PROD,mat->comm);CHKERRQ(ierr); 387bc5ccf88SSatish Balay if (mat->was_assembled && !other_disassembled) { 388bc5ccf88SSatish Balay ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 389f8a12787SBarry Smith /* reaccess the b because aij->B was changed */ 390f8a12787SBarry Smith b = (Mat_SeqAIJ *)aij->B->data; 391bc5ccf88SSatish Balay } 392bc5ccf88SSatish Balay } 393bc5ccf88SSatish Balay 394bc5ccf88SSatish Balay if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) { 395bc5ccf88SSatish Balay ierr = MatSetUpMultiply_MPIAIJ(mat);CHKERRQ(ierr); 396bc5ccf88SSatish Balay } 39773e7a558SHong Zhang 39873e7a558SHong Zhang b->inode.use = PETSC_FALSE; 39946f35f0bSHong Zhang b->compressedrow.use = PETSC_TRUE; 400bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->B,mode);CHKERRQ(ierr); 401bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->B,mode);CHKERRQ(ierr); 402bc5ccf88SSatish Balay 403606d414cSSatish Balay if (aij->rowvalues) { 404606d414cSSatish Balay ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr); 405606d414cSSatish Balay aij->rowvalues = 0; 406606d414cSSatish Balay } 407a30b2313SHong Zhang 408a30b2313SHong Zhang /* used by MatAXPY() */ 409a30b2313SHong Zhang a->xtoy = 0; b->xtoy = 0; 410a30b2313SHong Zhang a->XtoY = 0; b->XtoY = 0; 411a30b2313SHong Zhang 412bc5ccf88SSatish Balay PetscFunctionReturn(0); 413bc5ccf88SSatish Balay } 414bc5ccf88SSatish Balay 4154a2ae208SSatish Balay #undef __FUNCT__ 4164a2ae208SSatish Balay #define __FUNCT__ "MatZeroEntries_MPIAIJ" 417dfbe8321SBarry Smith PetscErrorCode MatZeroEntries_MPIAIJ(Mat A) 4181eb62cbbSBarry Smith { 41944a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 420dfbe8321SBarry Smith PetscErrorCode ierr; 4213a40ed3dSBarry Smith 4223a40ed3dSBarry Smith PetscFunctionBegin; 42378b31e54SBarry Smith ierr = MatZeroEntries(l->A);CHKERRQ(ierr); 42478b31e54SBarry Smith ierr = MatZeroEntries(l->B);CHKERRQ(ierr); 4253a40ed3dSBarry Smith PetscFunctionReturn(0); 4261eb62cbbSBarry Smith } 4271eb62cbbSBarry Smith 4284a2ae208SSatish Balay #undef __FUNCT__ 4294a2ae208SSatish Balay #define __FUNCT__ "MatZeroRows_MPIAIJ" 430dfbe8321SBarry Smith PetscErrorCode MatZeroRows_MPIAIJ(Mat A,IS is,const PetscScalar *diag) 4311eb62cbbSBarry Smith { 43244a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 4336849ba73SBarry Smith PetscErrorCode ierr; 434b1d57f15SBarry Smith PetscMPIInt size = l->size,imdex,n,rank = l->rank,tag = A->tag; 435b1d57f15SBarry Smith PetscInt i,N,*rows,*owners = l->rowners; 436b1d57f15SBarry Smith PetscInt *nprocs,j,idx,nsends,row; 437b1d57f15SBarry Smith PetscInt nmax,*svalues,*starts,*owner,nrecvs; 438b1d57f15SBarry Smith PetscInt *rvalues,count,base,slen,*source; 439b1d57f15SBarry Smith PetscInt *lens,*lrows,*values,rstart=l->rstart; 440d6dfbf8fSBarry Smith MPI_Comm comm = A->comm; 4411eb62cbbSBarry Smith MPI_Request *send_waits,*recv_waits; 4421eb62cbbSBarry Smith MPI_Status recv_status,*send_status; 4431eb62cbbSBarry Smith IS istmp; 44435d8aa7fSBarry Smith PetscTruth found; 4451eb62cbbSBarry Smith 4463a40ed3dSBarry Smith PetscFunctionBegin; 447e03a110bSBarry Smith ierr = ISGetLocalSize(is,&N);CHKERRQ(ierr); 44878b31e54SBarry Smith ierr = ISGetIndices(is,&rows);CHKERRQ(ierr); 4491eb62cbbSBarry Smith 4501eb62cbbSBarry Smith /* first count number of contributors to each processor */ 451b1d57f15SBarry Smith ierr = PetscMalloc(2*size*sizeof(PetscInt),&nprocs);CHKERRQ(ierr); 452b1d57f15SBarry Smith ierr = PetscMemzero(nprocs,2*size*sizeof(PetscInt));CHKERRQ(ierr); 453b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&owner);CHKERRQ(ierr); /* see note*/ 4541eb62cbbSBarry Smith for (i=0; i<N; i++) { 4551eb62cbbSBarry Smith idx = rows[i]; 45635d8aa7fSBarry Smith found = PETSC_FALSE; 45717699dbbSLois Curfman McInnes for (j=0; j<size; j++) { 4581eb62cbbSBarry Smith if (idx >= owners[j] && idx < owners[j+1]) { 459c1dc657dSBarry Smith nprocs[2*j]++; nprocs[2*j+1] = 1; owner[i] = j; found = PETSC_TRUE; break; 4601eb62cbbSBarry Smith } 4611eb62cbbSBarry Smith } 46229bbc08cSBarry Smith if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Index out of range"); 4631eb62cbbSBarry Smith } 464c1dc657dSBarry Smith nsends = 0; for (i=0; i<size; i++) { nsends += nprocs[2*i+1];} 4651eb62cbbSBarry Smith 4661eb62cbbSBarry Smith /* inform other processors of number of messages and max length*/ 467c1dc657dSBarry Smith ierr = PetscMaxSum(comm,nprocs,&nmax,&nrecvs);CHKERRQ(ierr); 4681eb62cbbSBarry Smith 4691eb62cbbSBarry Smith /* post receives: */ 470b1d57f15SBarry Smith ierr = PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(PetscInt),&rvalues);CHKERRQ(ierr); 471b0a32e0cSBarry Smith ierr = PetscMalloc((nrecvs+1)*sizeof(MPI_Request),&recv_waits);CHKERRQ(ierr); 4721eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 473b1d57f15SBarry Smith ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPIU_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr); 4741eb62cbbSBarry Smith } 4751eb62cbbSBarry Smith 4761eb62cbbSBarry Smith /* do sends: 4771eb62cbbSBarry Smith 1) starts[i] gives the starting index in svalues for stuff going to 4781eb62cbbSBarry Smith the ith processor 4791eb62cbbSBarry Smith */ 480b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&svalues);CHKERRQ(ierr); 481b0a32e0cSBarry Smith ierr = PetscMalloc((nsends+1)*sizeof(MPI_Request),&send_waits);CHKERRQ(ierr); 482b1d57f15SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&starts);CHKERRQ(ierr); 4831eb62cbbSBarry Smith starts[0] = 0; 484c1dc657dSBarry Smith for (i=1; i<size; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4851eb62cbbSBarry Smith for (i=0; i<N; i++) { 4861eb62cbbSBarry Smith svalues[starts[owner[i]]++] = rows[i]; 4871eb62cbbSBarry Smith } 4886831982aSBarry Smith ierr = ISRestoreIndices(is,&rows);CHKERRQ(ierr); 4891eb62cbbSBarry Smith 4901eb62cbbSBarry Smith starts[0] = 0; 491c1dc657dSBarry Smith for (i=1; i<size+1; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4921eb62cbbSBarry Smith count = 0; 49317699dbbSLois Curfman McInnes for (i=0; i<size; i++) { 494c1dc657dSBarry Smith if (nprocs[2*i+1]) { 495b1d57f15SBarry Smith ierr = MPI_Isend(svalues+starts[i],nprocs[2*i],MPIU_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr); 4961eb62cbbSBarry Smith } 4971eb62cbbSBarry Smith } 498606d414cSSatish Balay ierr = PetscFree(starts);CHKERRQ(ierr); 4991eb62cbbSBarry Smith 50017699dbbSLois Curfman McInnes base = owners[rank]; 5011eb62cbbSBarry Smith 5021eb62cbbSBarry Smith /* wait on receives */ 503b1d57f15SBarry Smith ierr = PetscMalloc(2*(nrecvs+1)*sizeof(PetscInt),&lens);CHKERRQ(ierr); 5041eb62cbbSBarry Smith source = lens + nrecvs; 5051eb62cbbSBarry Smith count = nrecvs; slen = 0; 5061eb62cbbSBarry Smith while (count) { 507ca161407SBarry Smith ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr); 5081eb62cbbSBarry Smith /* unpack receives into our local space */ 509b1d57f15SBarry Smith ierr = MPI_Get_count(&recv_status,MPIU_INT,&n);CHKERRQ(ierr); 510d6dfbf8fSBarry Smith source[imdex] = recv_status.MPI_SOURCE; 511d6dfbf8fSBarry Smith lens[imdex] = n; 5121eb62cbbSBarry Smith slen += n; 5131eb62cbbSBarry Smith count--; 5141eb62cbbSBarry Smith } 515606d414cSSatish Balay ierr = PetscFree(recv_waits);CHKERRQ(ierr); 5161eb62cbbSBarry Smith 5171eb62cbbSBarry Smith /* move the data into the send scatter */ 518b1d57f15SBarry Smith ierr = PetscMalloc((slen+1)*sizeof(PetscInt),&lrows);CHKERRQ(ierr); 5191eb62cbbSBarry Smith count = 0; 5201eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 5211eb62cbbSBarry Smith values = rvalues + i*nmax; 5221eb62cbbSBarry Smith for (j=0; j<lens[i]; j++) { 5231eb62cbbSBarry Smith lrows[count++] = values[j] - base; 5241eb62cbbSBarry Smith } 5251eb62cbbSBarry Smith } 526606d414cSSatish Balay ierr = PetscFree(rvalues);CHKERRQ(ierr); 527606d414cSSatish Balay ierr = PetscFree(lens);CHKERRQ(ierr); 528606d414cSSatish Balay ierr = PetscFree(owner);CHKERRQ(ierr); 529606d414cSSatish Balay ierr = PetscFree(nprocs);CHKERRQ(ierr); 5301eb62cbbSBarry Smith 5311eb62cbbSBarry Smith /* actually zap the local rows */ 532029af93fSBarry Smith ierr = ISCreateGeneral(PETSC_COMM_SELF,slen,lrows,&istmp);CHKERRQ(ierr); 533b0a32e0cSBarry Smith PetscLogObjectParent(A,istmp); 5346a5c57faSSatish Balay 5356eb55b6aSBarry Smith /* 5366eb55b6aSBarry Smith Zero the required rows. If the "diagonal block" of the matrix 5376eb55b6aSBarry Smith is square and the user wishes to set the diagonal we use seperate 5386eb55b6aSBarry Smith code so that MatSetValues() is not called for each diagonal allocating 5396eb55b6aSBarry Smith new memory, thus calling lots of mallocs and slowing things down. 5406eb55b6aSBarry Smith 5416eb55b6aSBarry Smith Contributed by: Mathew Knepley 5426eb55b6aSBarry Smith */ 543e2d53e46SBarry Smith /* must zero l->B before l->A because the (diag) case below may put values into l->B*/ 544e2d53e46SBarry Smith ierr = MatZeroRows(l->B,istmp,0);CHKERRQ(ierr); 5456eb55b6aSBarry Smith if (diag && (l->A->M == l->A->N)) { 5466eb55b6aSBarry Smith ierr = MatZeroRows(l->A,istmp,diag);CHKERRQ(ierr); 547e2d53e46SBarry Smith } else if (diag) { 548e2d53e46SBarry Smith ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr); 549fa46199cSSatish Balay if (((Mat_SeqAIJ*)l->A->data)->nonew) { 55029bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MatZeroRows() on rectangular matrices cannot be used with the Mat options\n\ 551fa46199cSSatish Balay MAT_NO_NEW_NONZERO_LOCATIONS,MAT_NEW_NONZERO_LOCATION_ERR,MAT_NEW_NONZERO_ALLOCATION_ERR"); 5526525c446SSatish Balay } 553e2d53e46SBarry Smith for (i = 0; i < slen; i++) { 554e2d53e46SBarry Smith row = lrows[i] + rstart; 555e2d53e46SBarry Smith ierr = MatSetValues(A,1,&row,1,&row,diag,INSERT_VALUES);CHKERRQ(ierr); 556e2d53e46SBarry Smith } 557e2d53e46SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 558e2d53e46SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 5596eb55b6aSBarry Smith } else { 5606a5c57faSSatish Balay ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr); 5616eb55b6aSBarry Smith } 56278b31e54SBarry Smith ierr = ISDestroy(istmp);CHKERRQ(ierr); 563606d414cSSatish Balay ierr = PetscFree(lrows);CHKERRQ(ierr); 56472dacd9aSBarry Smith 5651eb62cbbSBarry Smith /* wait on sends */ 5661eb62cbbSBarry Smith if (nsends) { 567b0a32e0cSBarry Smith ierr = PetscMalloc(nsends*sizeof(MPI_Status),&send_status);CHKERRQ(ierr); 568ca161407SBarry Smith ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr); 569606d414cSSatish Balay ierr = PetscFree(send_status);CHKERRQ(ierr); 5701eb62cbbSBarry Smith } 571606d414cSSatish Balay ierr = PetscFree(send_waits);CHKERRQ(ierr); 572606d414cSSatish Balay ierr = PetscFree(svalues);CHKERRQ(ierr); 5731eb62cbbSBarry Smith 5743a40ed3dSBarry Smith PetscFunctionReturn(0); 5751eb62cbbSBarry Smith } 5761eb62cbbSBarry Smith 5774a2ae208SSatish Balay #undef __FUNCT__ 5784a2ae208SSatish Balay #define __FUNCT__ "MatMult_MPIAIJ" 579dfbe8321SBarry Smith PetscErrorCode MatMult_MPIAIJ(Mat A,Vec xx,Vec yy) 5801eb62cbbSBarry Smith { 581416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 582dfbe8321SBarry Smith PetscErrorCode ierr; 583b1d57f15SBarry Smith PetscInt nt; 584416022c9SBarry Smith 5853a40ed3dSBarry Smith PetscFunctionBegin; 586a2ce50c7SBarry Smith ierr = VecGetLocalSize(xx,&nt);CHKERRQ(ierr); 587273d9f13SBarry Smith if (nt != A->n) { 58877431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Incompatible partition of A (%D) and xx (%D)",A->n,nt); 589fbd6ef76SBarry Smith } 59043a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 591f830108cSBarry Smith ierr = (*a->A->ops->mult)(a->A,xx,yy);CHKERRQ(ierr); 59243a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 593f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,yy,yy);CHKERRQ(ierr); 5943a40ed3dSBarry Smith PetscFunctionReturn(0); 5951eb62cbbSBarry Smith } 5961eb62cbbSBarry Smith 5974a2ae208SSatish Balay #undef __FUNCT__ 5984a2ae208SSatish Balay #define __FUNCT__ "MatMultAdd_MPIAIJ" 599dfbe8321SBarry Smith PetscErrorCode MatMultAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 600da3a660dSBarry Smith { 601416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 602dfbe8321SBarry Smith PetscErrorCode ierr; 6033a40ed3dSBarry Smith 6043a40ed3dSBarry Smith PetscFunctionBegin; 60543a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 606f830108cSBarry Smith ierr = (*a->A->ops->multadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 60743a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 608f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,zz,zz);CHKERRQ(ierr); 6093a40ed3dSBarry Smith PetscFunctionReturn(0); 610da3a660dSBarry Smith } 611da3a660dSBarry Smith 6124a2ae208SSatish Balay #undef __FUNCT__ 6134a2ae208SSatish Balay #define __FUNCT__ "MatMultTranspose_MPIAIJ" 614dfbe8321SBarry Smith PetscErrorCode MatMultTranspose_MPIAIJ(Mat A,Vec xx,Vec yy) 615da3a660dSBarry Smith { 616416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 617dfbe8321SBarry Smith PetscErrorCode ierr; 618da3a660dSBarry Smith 6193a40ed3dSBarry Smith PetscFunctionBegin; 620da3a660dSBarry Smith /* do nondiagonal part */ 6217c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 622da3a660dSBarry Smith /* send it on its way */ 623537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 624da3a660dSBarry Smith /* do local part */ 6257c922b88SBarry Smith ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 626da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 627da3a660dSBarry Smith /* inserted in yy until the next line, which is true for my implementation*/ 628da3a660dSBarry Smith /* but is not perhaps always true. */ 629537820f0SBarry Smith ierr = VecScatterEnd(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6303a40ed3dSBarry Smith PetscFunctionReturn(0); 631da3a660dSBarry Smith } 632da3a660dSBarry Smith 633cd0d46ebSvictorle EXTERN_C_BEGIN 634cd0d46ebSvictorle #undef __FUNCT__ 6355fbd3699SBarry Smith #define __FUNCT__ "MatIsTranspose_MPIAIJ" 636dfbe8321SBarry Smith PetscErrorCode MatIsTranspose_MPIAIJ(Mat Amat,Mat Bmat,PetscTruth tol,PetscTruth *f) 637cd0d46ebSvictorle { 6384f423910Svictorle MPI_Comm comm; 639cd0d46ebSvictorle Mat_MPIAIJ *Aij = (Mat_MPIAIJ *) Amat->data, *Bij; 64066501d38Svictorle Mat Adia = Aij->A, Bdia, Aoff,Boff,*Aoffs,*Boffs; 641cd0d46ebSvictorle IS Me,Notme; 6426849ba73SBarry Smith PetscErrorCode ierr; 643b1d57f15SBarry Smith PetscInt M,N,first,last,*notme,i; 644b1d57f15SBarry Smith PetscMPIInt size; 645cd0d46ebSvictorle 646cd0d46ebSvictorle PetscFunctionBegin; 64742e5f5b4Svictorle 64842e5f5b4Svictorle /* Easy test: symmetric diagonal block */ 64966501d38Svictorle Bij = (Mat_MPIAIJ *) Bmat->data; Bdia = Bij->A; 6505485867bSBarry Smith ierr = MatIsTranspose(Adia,Bdia,tol,f);CHKERRQ(ierr); 651cd0d46ebSvictorle if (!*f) PetscFunctionReturn(0); 6524f423910Svictorle ierr = PetscObjectGetComm((PetscObject)Amat,&comm);CHKERRQ(ierr); 653b1d57f15SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 654b1d57f15SBarry Smith if (size == 1) PetscFunctionReturn(0); 65542e5f5b4Svictorle 65642e5f5b4Svictorle /* Hard test: off-diagonal block. This takes a MatGetSubMatrix. */ 657cd0d46ebSvictorle ierr = MatGetSize(Amat,&M,&N);CHKERRQ(ierr); 658cd0d46ebSvictorle ierr = MatGetOwnershipRange(Amat,&first,&last);CHKERRQ(ierr); 659b1d57f15SBarry Smith ierr = PetscMalloc((N-last+first)*sizeof(PetscInt),¬me);CHKERRQ(ierr); 660cd0d46ebSvictorle for (i=0; i<first; i++) notme[i] = i; 661cd0d46ebSvictorle for (i=last; i<M; i++) notme[i-last+first] = i; 662268466fbSBarry Smith ierr = ISCreateGeneral(MPI_COMM_SELF,N-last+first,notme,&Notme);CHKERRQ(ierr); 663268466fbSBarry Smith ierr = ISCreateStride(MPI_COMM_SELF,last-first,first,1,&Me);CHKERRQ(ierr); 664268466fbSBarry Smith ierr = MatGetSubMatrices(Amat,1,&Me,&Notme,MAT_INITIAL_MATRIX,&Aoffs);CHKERRQ(ierr); 66566501d38Svictorle Aoff = Aoffs[0]; 666268466fbSBarry Smith ierr = MatGetSubMatrices(Bmat,1,&Notme,&Me,MAT_INITIAL_MATRIX,&Boffs);CHKERRQ(ierr); 66766501d38Svictorle Boff = Boffs[0]; 6685485867bSBarry Smith ierr = MatIsTranspose(Aoff,Boff,tol,f);CHKERRQ(ierr); 66966501d38Svictorle ierr = MatDestroyMatrices(1,&Aoffs);CHKERRQ(ierr); 67066501d38Svictorle ierr = MatDestroyMatrices(1,&Boffs);CHKERRQ(ierr); 67142e5f5b4Svictorle ierr = ISDestroy(Me);CHKERRQ(ierr); 67242e5f5b4Svictorle ierr = ISDestroy(Notme);CHKERRQ(ierr); 67342e5f5b4Svictorle 674cd0d46ebSvictorle PetscFunctionReturn(0); 675cd0d46ebSvictorle } 676cd0d46ebSvictorle EXTERN_C_END 677cd0d46ebSvictorle 6784a2ae208SSatish Balay #undef __FUNCT__ 6794a2ae208SSatish Balay #define __FUNCT__ "MatMultTransposeAdd_MPIAIJ" 680dfbe8321SBarry Smith PetscErrorCode MatMultTransposeAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 681da3a660dSBarry Smith { 682416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 683dfbe8321SBarry Smith PetscErrorCode ierr; 684da3a660dSBarry Smith 6853a40ed3dSBarry Smith PetscFunctionBegin; 686da3a660dSBarry Smith /* do nondiagonal part */ 6877c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 688da3a660dSBarry Smith /* send it on its way */ 689537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 690da3a660dSBarry Smith /* do local part */ 6917c922b88SBarry Smith ierr = (*a->A->ops->multtransposeadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 692da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 693da3a660dSBarry Smith /* inserted in yy until the next line, which is true for my implementation*/ 694da3a660dSBarry Smith /* but is not perhaps always true. */ 6950a198c4cSBarry Smith ierr = VecScatterEnd(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6963a40ed3dSBarry Smith PetscFunctionReturn(0); 697da3a660dSBarry Smith } 698da3a660dSBarry Smith 6991eb62cbbSBarry Smith /* 7001eb62cbbSBarry Smith This only works correctly for square matrices where the subblock A->A is the 7011eb62cbbSBarry Smith diagonal block 7021eb62cbbSBarry Smith */ 7034a2ae208SSatish Balay #undef __FUNCT__ 7044a2ae208SSatish Balay #define __FUNCT__ "MatGetDiagonal_MPIAIJ" 705dfbe8321SBarry Smith PetscErrorCode MatGetDiagonal_MPIAIJ(Mat A,Vec v) 7061eb62cbbSBarry Smith { 707dfbe8321SBarry Smith PetscErrorCode ierr; 708416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 7093a40ed3dSBarry Smith 7103a40ed3dSBarry Smith PetscFunctionBegin; 711273d9f13SBarry Smith if (A->M != A->N) SETERRQ(PETSC_ERR_SUP,"Supports only square matrix where A->A is diag block"); 7125baf8537SBarry Smith if (a->rstart != a->cstart || a->rend != a->cend) { 71329bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"row partition must equal col partition"); 7143a40ed3dSBarry Smith } 7153a40ed3dSBarry Smith ierr = MatGetDiagonal(a->A,v);CHKERRQ(ierr); 7163a40ed3dSBarry Smith PetscFunctionReturn(0); 7171eb62cbbSBarry Smith } 7181eb62cbbSBarry Smith 7194a2ae208SSatish Balay #undef __FUNCT__ 7204a2ae208SSatish Balay #define __FUNCT__ "MatScale_MPIAIJ" 721dfbe8321SBarry Smith PetscErrorCode MatScale_MPIAIJ(const PetscScalar aa[],Mat A) 722052efed2SBarry Smith { 723052efed2SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 724dfbe8321SBarry Smith PetscErrorCode ierr; 7253a40ed3dSBarry Smith 7263a40ed3dSBarry Smith PetscFunctionBegin; 727052efed2SBarry Smith ierr = MatScale(aa,a->A);CHKERRQ(ierr); 728052efed2SBarry Smith ierr = MatScale(aa,a->B);CHKERRQ(ierr); 7293a40ed3dSBarry Smith PetscFunctionReturn(0); 730052efed2SBarry Smith } 731052efed2SBarry Smith 7324a2ae208SSatish Balay #undef __FUNCT__ 7334a2ae208SSatish Balay #define __FUNCT__ "MatDestroy_MPIAIJ" 734dfbe8321SBarry Smith PetscErrorCode MatDestroy_MPIAIJ(Mat mat) 7351eb62cbbSBarry Smith { 73644a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 737dfbe8321SBarry Smith PetscErrorCode ierr; 73883e2fdc7SBarry Smith 7393a40ed3dSBarry Smith PetscFunctionBegin; 740aa482453SBarry Smith #if defined(PETSC_USE_LOG) 74177431f27SBarry Smith PetscLogObjectState((PetscObject)mat,"Rows=%D, Cols=%D",mat->M,mat->N); 742a5a9c739SBarry Smith #endif 7438798bf22SSatish Balay ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr); 744606d414cSSatish Balay ierr = PetscFree(aij->rowners);CHKERRQ(ierr); 74578b31e54SBarry Smith ierr = MatDestroy(aij->A);CHKERRQ(ierr); 74678b31e54SBarry Smith ierr = MatDestroy(aij->B);CHKERRQ(ierr); 747aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 7480f5bd95cSBarry Smith if (aij->colmap) {ierr = PetscTableDelete(aij->colmap);CHKERRQ(ierr);} 749b1fc9764SSatish Balay #else 750606d414cSSatish Balay if (aij->colmap) {ierr = PetscFree(aij->colmap);CHKERRQ(ierr);} 751b1fc9764SSatish Balay #endif 752606d414cSSatish Balay if (aij->garray) {ierr = PetscFree(aij->garray);CHKERRQ(ierr);} 7537c922b88SBarry Smith if (aij->lvec) {ierr = VecDestroy(aij->lvec);CHKERRQ(ierr);} 7547c922b88SBarry Smith if (aij->Mvctx) {ierr = VecScatterDestroy(aij->Mvctx);CHKERRQ(ierr);} 755606d414cSSatish Balay if (aij->rowvalues) {ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr);} 756606d414cSSatish Balay ierr = PetscFree(aij);CHKERRQ(ierr); 757901853e0SKris Buschelman 758901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatStoreValues_C","",PETSC_NULL);CHKERRQ(ierr); 759901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatRetrieveValues_C","",PETSC_NULL);CHKERRQ(ierr); 760901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatGetDiagonalBlock_C","",PETSC_NULL);CHKERRQ(ierr); 761901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatIsTranspose_C","",PETSC_NULL);CHKERRQ(ierr); 762901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocation_C","",PETSC_NULL);CHKERRQ(ierr); 763ff69c46cSKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocationCSR_C","",PETSC_NULL);CHKERRQ(ierr); 764901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatDiagonalScaleLocal_C","",PETSC_NULL);CHKERRQ(ierr); 7653a40ed3dSBarry Smith PetscFunctionReturn(0); 7661eb62cbbSBarry Smith } 767ee50ffe9SBarry Smith 7684a2ae208SSatish Balay #undef __FUNCT__ 7698e2fed03SBarry Smith #define __FUNCT__ "MatView_MPIAIJ_Binary" 770dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_Binary(Mat mat,PetscViewer viewer) 7718e2fed03SBarry Smith { 7728e2fed03SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 7738e2fed03SBarry Smith Mat_SeqAIJ* A = (Mat_SeqAIJ*)aij->A->data; 7748e2fed03SBarry Smith Mat_SeqAIJ* B = (Mat_SeqAIJ*)aij->B->data; 7756849ba73SBarry Smith PetscErrorCode ierr; 77632dcc486SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag; 7776f69ff64SBarry Smith int fd; 7786f69ff64SBarry Smith PetscInt nz,header[4],*row_lengths,*range,rlen,i; 7796f69ff64SBarry Smith PetscInt nzmax,*column_indices,j,k,col,*garray = aij->garray,cnt,cstart = aij->cstart,rnz; 7808e2fed03SBarry Smith PetscScalar *column_values; 7818e2fed03SBarry Smith 7828e2fed03SBarry Smith PetscFunctionBegin; 7838e2fed03SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 7848e2fed03SBarry Smith ierr = MPI_Comm_size(mat->comm,&size);CHKERRQ(ierr); 7858e2fed03SBarry Smith nz = A->nz + B->nz; 786958c9bccSBarry Smith if (!rank) { 7878e2fed03SBarry Smith header[0] = MAT_FILE_COOKIE; 7888e2fed03SBarry Smith header[1] = mat->M; 7898e2fed03SBarry Smith header[2] = mat->N; 790b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,&header[3],1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr); 7918e2fed03SBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 7926f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,header,4,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 7938e2fed03SBarry Smith /* get largest number of rows any processor has */ 7948e2fed03SBarry Smith rlen = mat->m; 7958e2fed03SBarry Smith ierr = PetscMapGetGlobalRange(mat->rmap,&range);CHKERRQ(ierr); 7968e2fed03SBarry Smith for (i=1; i<size; i++) { 7978e2fed03SBarry Smith rlen = PetscMax(rlen,range[i+1] - range[i]); 7988e2fed03SBarry Smith } 7998e2fed03SBarry Smith } else { 800b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,0,1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr); 8018e2fed03SBarry Smith rlen = mat->m; 8028e2fed03SBarry Smith } 8038e2fed03SBarry Smith 8048e2fed03SBarry Smith /* load up the local row counts */ 805b1d57f15SBarry Smith ierr = PetscMalloc((rlen+1)*sizeof(PetscInt),&row_lengths);CHKERRQ(ierr); 8068e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8078e2fed03SBarry Smith row_lengths[i] = A->i[i+1] - A->i[i] + B->i[i+1] - B->i[i]; 8088e2fed03SBarry Smith } 8098e2fed03SBarry Smith 8108e2fed03SBarry Smith /* store the row lengths to the file */ 811958c9bccSBarry Smith if (!rank) { 8128e2fed03SBarry Smith MPI_Status status; 8136f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,mat->m,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8148e2fed03SBarry Smith for (i=1; i<size; i++) { 8158e2fed03SBarry Smith rlen = range[i+1] - range[i]; 816b1d57f15SBarry Smith ierr = MPI_Recv(row_lengths,rlen,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 8176f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,rlen,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8188e2fed03SBarry Smith } 8198e2fed03SBarry Smith } else { 820b1d57f15SBarry Smith ierr = MPI_Send(row_lengths,mat->m,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8218e2fed03SBarry Smith } 8228e2fed03SBarry Smith ierr = PetscFree(row_lengths);CHKERRQ(ierr); 8238e2fed03SBarry Smith 8248e2fed03SBarry Smith /* load up the local column indices */ 8258e2fed03SBarry Smith nzmax = nz; /* )th processor needs space a largest processor needs */ 826b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,&nzmax,1,MPIU_INT,MPI_MAX,0,mat->comm);CHKERRQ(ierr); 827b1d57f15SBarry Smith ierr = PetscMalloc((nzmax+1)*sizeof(PetscInt),&column_indices);CHKERRQ(ierr); 8288e2fed03SBarry Smith cnt = 0; 8298e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8308e2fed03SBarry Smith for (j=B->i[i]; j<B->i[i+1]; j++) { 8318e2fed03SBarry Smith if ( (col = garray[B->j[j]]) > cstart) break; 8328e2fed03SBarry Smith column_indices[cnt++] = col; 8338e2fed03SBarry Smith } 8348e2fed03SBarry Smith for (k=A->i[i]; k<A->i[i+1]; k++) { 8358e2fed03SBarry Smith column_indices[cnt++] = A->j[k] + cstart; 8368e2fed03SBarry Smith } 8378e2fed03SBarry Smith for (; j<B->i[i+1]; j++) { 8388e2fed03SBarry Smith column_indices[cnt++] = garray[B->j[j]]; 8398e2fed03SBarry Smith } 8408e2fed03SBarry Smith } 84177431f27SBarry Smith if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz); 8428e2fed03SBarry Smith 8438e2fed03SBarry Smith /* store the column indices to the file */ 844958c9bccSBarry Smith if (!rank) { 8458e2fed03SBarry Smith MPI_Status status; 8466f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,nz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8478e2fed03SBarry Smith for (i=1; i<size; i++) { 848b1d57f15SBarry Smith ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 84977431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 850b1d57f15SBarry Smith ierr = MPI_Recv(column_indices,rnz,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 8516f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,rnz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8528e2fed03SBarry Smith } 8538e2fed03SBarry Smith } else { 854b1d57f15SBarry Smith ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 855b1d57f15SBarry Smith ierr = MPI_Send(column_indices,nz,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8568e2fed03SBarry Smith } 8578e2fed03SBarry Smith ierr = PetscFree(column_indices);CHKERRQ(ierr); 8588e2fed03SBarry Smith 8598e2fed03SBarry Smith /* load up the local column values */ 8608e2fed03SBarry Smith ierr = PetscMalloc((nzmax+1)*sizeof(PetscScalar),&column_values);CHKERRQ(ierr); 8618e2fed03SBarry Smith cnt = 0; 8628e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8638e2fed03SBarry Smith for (j=B->i[i]; j<B->i[i+1]; j++) { 8648e2fed03SBarry Smith if ( garray[B->j[j]] > cstart) break; 8658e2fed03SBarry Smith column_values[cnt++] = B->a[j]; 8668e2fed03SBarry Smith } 8678e2fed03SBarry Smith for (k=A->i[i]; k<A->i[i+1]; k++) { 8688e2fed03SBarry Smith column_values[cnt++] = A->a[k]; 8698e2fed03SBarry Smith } 8708e2fed03SBarry Smith for (; j<B->i[i+1]; j++) { 8718e2fed03SBarry Smith column_values[cnt++] = B->a[j]; 8728e2fed03SBarry Smith } 8738e2fed03SBarry Smith } 87477431f27SBarry Smith if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_PLIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz); 8758e2fed03SBarry Smith 8768e2fed03SBarry Smith /* store the column values to the file */ 877958c9bccSBarry Smith if (!rank) { 8788e2fed03SBarry Smith MPI_Status status; 8796f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,nz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8808e2fed03SBarry Smith for (i=1; i<size; i++) { 881b1d57f15SBarry Smith ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 88277431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 883b021249fSBarry Smith ierr = MPI_Recv(column_values,rnz,MPIU_SCALAR,i,tag,mat->comm,&status);CHKERRQ(ierr); 8846f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,rnz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8858e2fed03SBarry Smith } 8868e2fed03SBarry Smith } else { 887b1d57f15SBarry Smith ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8888e2fed03SBarry Smith ierr = MPI_Send(column_values,nz,MPIU_SCALAR,0,tag,mat->comm);CHKERRQ(ierr); 8898e2fed03SBarry Smith } 8908e2fed03SBarry Smith ierr = PetscFree(column_values);CHKERRQ(ierr); 8918e2fed03SBarry Smith PetscFunctionReturn(0); 8928e2fed03SBarry Smith } 8938e2fed03SBarry Smith 8948e2fed03SBarry Smith #undef __FUNCT__ 8954a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ_ASCIIorDraworSocket" 896dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_ASCIIorDraworSocket(Mat mat,PetscViewer viewer) 897416022c9SBarry Smith { 89844a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 899dfbe8321SBarry Smith PetscErrorCode ierr; 90032dcc486SBarry Smith PetscMPIInt rank = aij->rank,size = aij->size; 90132077d6dSBarry Smith PetscTruth isdraw,iascii,flg,isbinary; 902b0a32e0cSBarry Smith PetscViewer sviewer; 903f3ef73ceSBarry Smith PetscViewerFormat format; 904416022c9SBarry Smith 9053a40ed3dSBarry Smith PetscFunctionBegin; 906fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 90732077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 9088e2fed03SBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 90932077d6dSBarry Smith if (iascii) { 910b0a32e0cSBarry Smith ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 911456192e2SBarry Smith if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 9124e220ebcSLois Curfman McInnes MatInfo info; 9131dab6e02SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 914888f2ed8SSatish Balay ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr); 915b0a32e0cSBarry Smith ierr = PetscOptionsHasName(PETSC_NULL,"-mat_aij_no_inode",&flg);CHKERRQ(ierr); 9166831982aSBarry Smith if (flg) { 91777431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, not using I-node routines\n", 91877431f27SBarry Smith rank,mat->m,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 9196831982aSBarry Smith } else { 92077431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, using I-node routines\n", 92177431f27SBarry Smith rank,mat->m,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 9226831982aSBarry Smith } 923888f2ed8SSatish Balay ierr = MatGetInfo(aij->A,MAT_LOCAL,&info);CHKERRQ(ierr); 92477431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] on-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 925888f2ed8SSatish Balay ierr = MatGetInfo(aij->B,MAT_LOCAL,&info);CHKERRQ(ierr); 92677431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] off-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 927b0a32e0cSBarry Smith ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 928a40aa06bSLois Curfman McInnes ierr = VecScatterView(aij->Mvctx,viewer);CHKERRQ(ierr); 9293a40ed3dSBarry Smith PetscFunctionReturn(0); 930fb9695e5SSatish Balay } else if (format == PETSC_VIEWER_ASCII_INFO) { 9313a40ed3dSBarry Smith PetscFunctionReturn(0); 9324aedb280SBarry Smith } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) { 9334aedb280SBarry Smith PetscFunctionReturn(0); 93408480c60SBarry Smith } 9358e2fed03SBarry Smith } else if (isbinary) { 9368e2fed03SBarry Smith if (size == 1) { 9378e2fed03SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 9388e2fed03SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9398e2fed03SBarry Smith } else { 9408e2fed03SBarry Smith ierr = MatView_MPIAIJ_Binary(mat,viewer);CHKERRQ(ierr); 9418e2fed03SBarry Smith } 9428e2fed03SBarry Smith PetscFunctionReturn(0); 9430f5bd95cSBarry Smith } else if (isdraw) { 944b0a32e0cSBarry Smith PetscDraw draw; 94519bcc07fSBarry Smith PetscTruth isnull; 946b0a32e0cSBarry Smith ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr); 947b0a32e0cSBarry Smith ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); if (isnull) PetscFunctionReturn(0); 94819bcc07fSBarry Smith } 94919bcc07fSBarry Smith 95017699dbbSLois Curfman McInnes if (size == 1) { 951e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 95278b31e54SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9533a40ed3dSBarry Smith } else { 95495373324SBarry Smith /* assemble the entire matrix onto first processor. */ 95595373324SBarry Smith Mat A; 956ec8511deSBarry Smith Mat_SeqAIJ *Aloc; 957b1d57f15SBarry Smith PetscInt M = mat->M,N = mat->N,m,*ai,*aj,row,*cols,i,*ct; 95887828ca2SBarry Smith PetscScalar *a; 9592ee70a88SLois Curfman McInnes 96017699dbbSLois Curfman McInnes if (!rank) { 961f204ca49SKris Buschelman ierr = MatCreate(mat->comm,M,N,M,N,&A);CHKERRQ(ierr); 9623a40ed3dSBarry Smith } else { 963f204ca49SKris Buschelman ierr = MatCreate(mat->comm,0,0,M,N,&A);CHKERRQ(ierr); 96495373324SBarry Smith } 965f204ca49SKris Buschelman /* This is just a temporary matrix, so explicitly using MATMPIAIJ is probably best */ 966f204ca49SKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 967f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 968b0a32e0cSBarry Smith PetscLogObjectParent(mat,A); 969416022c9SBarry Smith 97095373324SBarry Smith /* copy over the A part */ 971ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->A->data; 972273d9f13SBarry Smith m = aij->A->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 97395373324SBarry Smith row = aij->rstart; 974bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] += aij->cstart ;} 97595373324SBarry Smith for (i=0; i<m; i++) { 976416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],aj,a,INSERT_VALUES);CHKERRQ(ierr); 97795373324SBarry Smith row++; a += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 97895373324SBarry Smith } 9792ee70a88SLois Curfman McInnes aj = Aloc->j; 980bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] -= aij->cstart;} 98195373324SBarry Smith 98295373324SBarry Smith /* copy over the B part */ 983ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->B->data; 984273d9f13SBarry Smith m = aij->B->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 98595373324SBarry Smith row = aij->rstart; 986b1d57f15SBarry Smith ierr = PetscMalloc((ai[m]+1)*sizeof(PetscInt),&cols);CHKERRQ(ierr); 987b0a32e0cSBarry Smith ct = cols; 988bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = aij->garray[aj[i]];} 98995373324SBarry Smith for (i=0; i<m; i++) { 990416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],cols,a,INSERT_VALUES);CHKERRQ(ierr); 99195373324SBarry Smith row++; a += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 99295373324SBarry Smith } 993606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 9946d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 9956d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 99655843e3eSBarry Smith /* 99755843e3eSBarry Smith Everyone has to call to draw the matrix since the graphics waits are 998b0a32e0cSBarry Smith synchronized across all processors that share the PetscDraw object 99955843e3eSBarry Smith */ 1000b0a32e0cSBarry Smith ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr); 1001e03a110bSBarry Smith if (!rank) { 1002e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)((Mat_MPIAIJ*)(A->data))->A,mat->name);CHKERRQ(ierr); 10036831982aSBarry Smith ierr = MatView(((Mat_MPIAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr); 100495373324SBarry Smith } 1005b0a32e0cSBarry Smith ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr); 100678b31e54SBarry Smith ierr = MatDestroy(A);CHKERRQ(ierr); 100795373324SBarry Smith } 10083a40ed3dSBarry Smith PetscFunctionReturn(0); 10091eb62cbbSBarry Smith } 10101eb62cbbSBarry Smith 10114a2ae208SSatish Balay #undef __FUNCT__ 10124a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ" 1013dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ(Mat mat,PetscViewer viewer) 1014416022c9SBarry Smith { 1015dfbe8321SBarry Smith PetscErrorCode ierr; 101632077d6dSBarry Smith PetscTruth iascii,isdraw,issocket,isbinary; 1017416022c9SBarry Smith 10183a40ed3dSBarry Smith PetscFunctionBegin; 101932077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 1020fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 1021fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 1022b0a32e0cSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr); 102332077d6dSBarry Smith if (iascii || isdraw || isbinary || issocket) { 10247b2a1423SBarry Smith ierr = MatView_MPIAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr); 10255cd90555SBarry Smith } else { 102679a5c55eSBarry Smith SETERRQ1(PETSC_ERR_SUP,"Viewer type %s not supported by MPIAIJ matrices",((PetscObject)viewer)->type_name); 1027416022c9SBarry Smith } 10283a40ed3dSBarry Smith PetscFunctionReturn(0); 1029416022c9SBarry Smith } 1030416022c9SBarry Smith 10311eb62cbbSBarry Smith 1032c14dc6b6SHong Zhang 10334a2ae208SSatish Balay #undef __FUNCT__ 10344a2ae208SSatish Balay #define __FUNCT__ "MatRelax_MPIAIJ" 1035b1d57f15SBarry Smith PetscErrorCode MatRelax_MPIAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx) 10368a729477SBarry Smith { 103744a69424SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1038dfbe8321SBarry Smith PetscErrorCode ierr; 1039c14dc6b6SHong Zhang Vec bb1; 1040a6c309e7SHong Zhang PetscScalar mone=-1.0; 10418a729477SBarry Smith 10423a40ed3dSBarry Smith PetscFunctionBegin; 104377431f27SBarry Smith if (its <= 0 || lits <= 0) SETERRQ2(PETSC_ERR_ARG_WRONG,"Relaxation requires global its %D and local its %D both positive",its,lits); 1044c14dc6b6SHong Zhang 1045c14dc6b6SHong Zhang ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr); 10462798e883SHong Zhang 1047c16cb8f2SBarry Smith if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP){ 1048da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1049bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,lits,xx);CHKERRQ(ierr); 10502798e883SHong Zhang its--; 1051da3a660dSBarry Smith } 10522798e883SHong Zhang 10532798e883SHong Zhang while (its--) { 10543a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10553a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10562798e883SHong Zhang 1057c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1058c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1059c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10602798e883SHong Zhang 1061c14dc6b6SHong Zhang /* local sweep */ 1062bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,lits,xx); 1063c14dc6b6SHong Zhang CHKERRQ(ierr); 10642798e883SHong Zhang } 10653a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_FORWARD_SWEEP){ 1066da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1067c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10682798e883SHong Zhang its--; 1069da3a660dSBarry Smith } 10702798e883SHong Zhang while (its--) { 10713a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10723a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10732798e883SHong Zhang 1074c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1075c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1076c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 1077c14dc6b6SHong Zhang 1078c14dc6b6SHong Zhang /* local sweep */ 1079a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 1080c14dc6b6SHong Zhang CHKERRQ(ierr); 10812798e883SHong Zhang } 10823a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_BACKWARD_SWEEP){ 1083da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1084c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10852798e883SHong Zhang its--; 1086da3a660dSBarry Smith } 10872798e883SHong Zhang while (its--) { 10882e8a6d31SBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10892e8a6d31SBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10902798e883SHong Zhang 1091c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1092c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1093c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10942798e883SHong Zhang 1095c14dc6b6SHong Zhang /* local sweep */ 1096a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 1097c14dc6b6SHong Zhang CHKERRQ(ierr); 10982798e883SHong Zhang } 10993a40ed3dSBarry Smith } else { 110029bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Parallel SOR not supported"); 1101c16cb8f2SBarry Smith } 1102c14dc6b6SHong Zhang 1103c14dc6b6SHong Zhang ierr = VecDestroy(bb1);CHKERRQ(ierr); 11043a40ed3dSBarry Smith PetscFunctionReturn(0); 11058a729477SBarry Smith } 1106a66be287SLois Curfman McInnes 11074a2ae208SSatish Balay #undef __FUNCT__ 11084a2ae208SSatish Balay #define __FUNCT__ "MatGetInfo_MPIAIJ" 1109dfbe8321SBarry Smith PetscErrorCode MatGetInfo_MPIAIJ(Mat matin,MatInfoType flag,MatInfo *info) 1110a66be287SLois Curfman McInnes { 1111a66be287SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1112a66be287SLois Curfman McInnes Mat A = mat->A,B = mat->B; 1113dfbe8321SBarry Smith PetscErrorCode ierr; 1114329f5518SBarry Smith PetscReal isend[5],irecv[5]; 1115a66be287SLois Curfman McInnes 11163a40ed3dSBarry Smith PetscFunctionBegin; 11174e220ebcSLois Curfman McInnes info->block_size = 1.0; 11184e220ebcSLois Curfman McInnes ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr); 11194e220ebcSLois Curfman McInnes isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 11204e220ebcSLois Curfman McInnes isend[3] = info->memory; isend[4] = info->mallocs; 11214e220ebcSLois Curfman McInnes ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr); 11224e220ebcSLois Curfman McInnes isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded; 11234e220ebcSLois Curfman McInnes isend[3] += info->memory; isend[4] += info->mallocs; 1124a66be287SLois Curfman McInnes if (flag == MAT_LOCAL) { 11254e220ebcSLois Curfman McInnes info->nz_used = isend[0]; 11264e220ebcSLois Curfman McInnes info->nz_allocated = isend[1]; 11274e220ebcSLois Curfman McInnes info->nz_unneeded = isend[2]; 11284e220ebcSLois Curfman McInnes info->memory = isend[3]; 11294e220ebcSLois Curfman McInnes info->mallocs = isend[4]; 1130a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_MAX) { 1131d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,matin->comm);CHKERRQ(ierr); 11324e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11334e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11344e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11354e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11364e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1137a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_SUM) { 1138d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,matin->comm);CHKERRQ(ierr); 11394e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11404e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11414e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11424e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11434e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1144a66be287SLois Curfman McInnes } 11454e220ebcSLois Curfman McInnes info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 11464e220ebcSLois Curfman McInnes info->fill_ratio_needed = 0; 11474e220ebcSLois Curfman McInnes info->factor_mallocs = 0; 1148273d9f13SBarry Smith info->rows_global = (double)matin->M; 1149273d9f13SBarry Smith info->columns_global = (double)matin->N; 1150273d9f13SBarry Smith info->rows_local = (double)matin->m; 1151273d9f13SBarry Smith info->columns_local = (double)matin->N; 11524e220ebcSLois Curfman McInnes 11533a40ed3dSBarry Smith PetscFunctionReturn(0); 1154a66be287SLois Curfman McInnes } 1155a66be287SLois Curfman McInnes 11564a2ae208SSatish Balay #undef __FUNCT__ 11574a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_MPIAIJ" 1158dfbe8321SBarry Smith PetscErrorCode MatSetOption_MPIAIJ(Mat A,MatOption op) 1159c74985f6SBarry Smith { 1160c0bbcb79SLois Curfman McInnes Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1161dfbe8321SBarry Smith PetscErrorCode ierr; 1162c74985f6SBarry Smith 11633a40ed3dSBarry Smith PetscFunctionBegin; 116412c028f9SKris Buschelman switch (op) { 116512c028f9SKris Buschelman case MAT_NO_NEW_NONZERO_LOCATIONS: 116612c028f9SKris Buschelman case MAT_YES_NEW_NONZERO_LOCATIONS: 116712c028f9SKris Buschelman case MAT_COLUMNS_UNSORTED: 116812c028f9SKris Buschelman case MAT_COLUMNS_SORTED: 116912c028f9SKris Buschelman case MAT_NEW_NONZERO_ALLOCATION_ERR: 117012c028f9SKris Buschelman case MAT_KEEP_ZEROED_ROWS: 117112c028f9SKris Buschelman case MAT_NEW_NONZERO_LOCATION_ERR: 117212c028f9SKris Buschelman case MAT_USE_INODES: 117312c028f9SKris Buschelman case MAT_DO_NOT_USE_INODES: 117412c028f9SKris Buschelman case MAT_IGNORE_ZERO_ENTRIES: 11751dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11761dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 117712c028f9SKris Buschelman break; 117812c028f9SKris Buschelman case MAT_ROW_ORIENTED: 11797c922b88SBarry Smith a->roworiented = PETSC_TRUE; 11801dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11811dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 118212c028f9SKris Buschelman break; 118312c028f9SKris Buschelman case MAT_ROWS_SORTED: 118412c028f9SKris Buschelman case MAT_ROWS_UNSORTED: 118512c028f9SKris Buschelman case MAT_YES_NEW_DIAGONALS: 1186b0a32e0cSBarry Smith PetscLogInfo(A,"MatSetOption_MPIAIJ:Option ignored\n"); 118712c028f9SKris Buschelman break; 118812c028f9SKris Buschelman case MAT_COLUMN_ORIENTED: 11897c922b88SBarry Smith a->roworiented = PETSC_FALSE; 11901dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11911dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 119212c028f9SKris Buschelman break; 119312c028f9SKris Buschelman case MAT_IGNORE_OFF_PROC_ENTRIES: 11947c922b88SBarry Smith a->donotstash = PETSC_TRUE; 119512c028f9SKris Buschelman break; 119612c028f9SKris Buschelman case MAT_NO_NEW_DIAGONALS: 119729bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MAT_NO_NEW_DIAGONALS"); 119877e54ba9SKris Buschelman case MAT_SYMMETRIC: 119977e54ba9SKris Buschelman case MAT_STRUCTURALLY_SYMMETRIC: 1200bf108f30SBarry Smith case MAT_HERMITIAN: 1201bf108f30SBarry Smith case MAT_SYMMETRY_ETERNAL: 1202bf108f30SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 1203bf108f30SBarry Smith break; 12049a4540c5SBarry Smith case MAT_NOT_SYMMETRIC: 12059a4540c5SBarry Smith case MAT_NOT_STRUCTURALLY_SYMMETRIC: 12069a4540c5SBarry Smith case MAT_NOT_HERMITIAN: 12079a4540c5SBarry Smith case MAT_NOT_SYMMETRY_ETERNAL: 120877e54ba9SKris Buschelman break; 120912c028f9SKris Buschelman default: 121029bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"unknown option"); 12113a40ed3dSBarry Smith } 12123a40ed3dSBarry Smith PetscFunctionReturn(0); 1213c74985f6SBarry Smith } 1214c74985f6SBarry Smith 12154a2ae208SSatish Balay #undef __FUNCT__ 12164a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_MPIAIJ" 1217b1d57f15SBarry Smith PetscErrorCode MatGetRow_MPIAIJ(Mat matin,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 121839e00950SLois Curfman McInnes { 1219154123eaSLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 122087828ca2SBarry Smith PetscScalar *vworkA,*vworkB,**pvA,**pvB,*v_p; 12216849ba73SBarry Smith PetscErrorCode ierr; 1222b1d57f15SBarry Smith PetscInt i,*cworkA,*cworkB,**pcA,**pcB,cstart = mat->cstart; 1223b1d57f15SBarry Smith PetscInt nztot,nzA,nzB,lrow,rstart = mat->rstart,rend = mat->rend; 1224b1d57f15SBarry Smith PetscInt *cmap,*idx_p; 122539e00950SLois Curfman McInnes 12263a40ed3dSBarry Smith PetscFunctionBegin; 1227abc0a331SBarry Smith if (mat->getrowactive) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Already active"); 12287a0afa10SBarry Smith mat->getrowactive = PETSC_TRUE; 12297a0afa10SBarry Smith 123070f0671dSBarry Smith if (!mat->rowvalues && (idx || v)) { 12317a0afa10SBarry Smith /* 12327a0afa10SBarry Smith allocate enough space to hold information from the longest row. 12337a0afa10SBarry Smith */ 12347a0afa10SBarry Smith Mat_SeqAIJ *Aa = (Mat_SeqAIJ*)mat->A->data,*Ba = (Mat_SeqAIJ*)mat->B->data; 1235b1d57f15SBarry Smith PetscInt max = 1,tmp; 1236273d9f13SBarry Smith for (i=0; i<matin->m; i++) { 12377a0afa10SBarry Smith tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i]; 12387a0afa10SBarry Smith if (max < tmp) { max = tmp; } 12397a0afa10SBarry Smith } 1240b1d57f15SBarry Smith ierr = PetscMalloc(max*(sizeof(PetscInt)+sizeof(PetscScalar)),&mat->rowvalues);CHKERRQ(ierr); 1241b1d57f15SBarry Smith mat->rowindices = (PetscInt*)(mat->rowvalues + max); 12427a0afa10SBarry Smith } 12437a0afa10SBarry Smith 124429bbc08cSBarry Smith if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Only local rows") 1245abc0e9e4SLois Curfman McInnes lrow = row - rstart; 124639e00950SLois Curfman McInnes 1247154123eaSLois Curfman McInnes pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB; 1248154123eaSLois Curfman McInnes if (!v) {pvA = 0; pvB = 0;} 1249154123eaSLois Curfman McInnes if (!idx) {pcA = 0; if (!v) pcB = 0;} 1250f830108cSBarry Smith ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1251f830108cSBarry Smith ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 1252154123eaSLois Curfman McInnes nztot = nzA + nzB; 1253154123eaSLois Curfman McInnes 125470f0671dSBarry Smith cmap = mat->garray; 1255154123eaSLois Curfman McInnes if (v || idx) { 1256154123eaSLois Curfman McInnes if (nztot) { 1257154123eaSLois Curfman McInnes /* Sort by increasing column numbers, assuming A and B already sorted */ 1258b1d57f15SBarry Smith PetscInt imark = -1; 1259154123eaSLois Curfman McInnes if (v) { 126070f0671dSBarry Smith *v = v_p = mat->rowvalues; 126139e00950SLois Curfman McInnes for (i=0; i<nzB; i++) { 126270f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) v_p[i] = vworkB[i]; 1263154123eaSLois Curfman McInnes else break; 1264154123eaSLois Curfman McInnes } 1265154123eaSLois Curfman McInnes imark = i; 126670f0671dSBarry Smith for (i=0; i<nzA; i++) v_p[imark+i] = vworkA[i]; 126770f0671dSBarry Smith for (i=imark; i<nzB; i++) v_p[nzA+i] = vworkB[i]; 1268154123eaSLois Curfman McInnes } 1269154123eaSLois Curfman McInnes if (idx) { 127070f0671dSBarry Smith *idx = idx_p = mat->rowindices; 127170f0671dSBarry Smith if (imark > -1) { 127270f0671dSBarry Smith for (i=0; i<imark; i++) { 127370f0671dSBarry Smith idx_p[i] = cmap[cworkB[i]]; 127470f0671dSBarry Smith } 127570f0671dSBarry Smith } else { 1276154123eaSLois Curfman McInnes for (i=0; i<nzB; i++) { 127770f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) idx_p[i] = cmap[cworkB[i]]; 1278154123eaSLois Curfman McInnes else break; 1279154123eaSLois Curfman McInnes } 1280154123eaSLois Curfman McInnes imark = i; 128170f0671dSBarry Smith } 128270f0671dSBarry Smith for (i=0; i<nzA; i++) idx_p[imark+i] = cstart + cworkA[i]; 128370f0671dSBarry Smith for (i=imark; i<nzB; i++) idx_p[nzA+i] = cmap[cworkB[i]]; 128439e00950SLois Curfman McInnes } 12853f97c4b0SBarry Smith } else { 12861ca473b0SSatish Balay if (idx) *idx = 0; 12871ca473b0SSatish Balay if (v) *v = 0; 12881ca473b0SSatish Balay } 1289154123eaSLois Curfman McInnes } 129039e00950SLois Curfman McInnes *nz = nztot; 1291f830108cSBarry Smith ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1292f830108cSBarry Smith ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 12933a40ed3dSBarry Smith PetscFunctionReturn(0); 129439e00950SLois Curfman McInnes } 129539e00950SLois Curfman McInnes 12964a2ae208SSatish Balay #undef __FUNCT__ 12974a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_MPIAIJ" 1298b1d57f15SBarry Smith PetscErrorCode MatRestoreRow_MPIAIJ(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 129939e00950SLois Curfman McInnes { 13007a0afa10SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 13013a40ed3dSBarry Smith 13023a40ed3dSBarry Smith PetscFunctionBegin; 1303abc0a331SBarry Smith if (!aij->getrowactive) { 1304abc0a331SBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"MatGetRow() must be called first"); 13057a0afa10SBarry Smith } 13067a0afa10SBarry Smith aij->getrowactive = PETSC_FALSE; 13073a40ed3dSBarry Smith PetscFunctionReturn(0); 130839e00950SLois Curfman McInnes } 130939e00950SLois Curfman McInnes 13104a2ae208SSatish Balay #undef __FUNCT__ 13114a2ae208SSatish Balay #define __FUNCT__ "MatNorm_MPIAIJ" 1312dfbe8321SBarry Smith PetscErrorCode MatNorm_MPIAIJ(Mat mat,NormType type,PetscReal *norm) 1313855ac2c5SLois Curfman McInnes { 1314855ac2c5SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 1315ec8511deSBarry Smith Mat_SeqAIJ *amat = (Mat_SeqAIJ*)aij->A->data,*bmat = (Mat_SeqAIJ*)aij->B->data; 1316dfbe8321SBarry Smith PetscErrorCode ierr; 1317b1d57f15SBarry Smith PetscInt i,j,cstart = aij->cstart; 1318329f5518SBarry Smith PetscReal sum = 0.0; 131987828ca2SBarry Smith PetscScalar *v; 132004ca555eSLois Curfman McInnes 13213a40ed3dSBarry Smith PetscFunctionBegin; 132217699dbbSLois Curfman McInnes if (aij->size == 1) { 132314183eadSLois Curfman McInnes ierr = MatNorm(aij->A,type,norm);CHKERRQ(ierr); 132437fa93a5SLois Curfman McInnes } else { 132504ca555eSLois Curfman McInnes if (type == NORM_FROBENIUS) { 132604ca555eSLois Curfman McInnes v = amat->a; 132704ca555eSLois Curfman McInnes for (i=0; i<amat->nz; i++) { 1328aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1329329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 133004ca555eSLois Curfman McInnes #else 133104ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 133204ca555eSLois Curfman McInnes #endif 133304ca555eSLois Curfman McInnes } 133404ca555eSLois Curfman McInnes v = bmat->a; 133504ca555eSLois Curfman McInnes for (i=0; i<bmat->nz; i++) { 1336aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1337329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 133804ca555eSLois Curfman McInnes #else 133904ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 134004ca555eSLois Curfman McInnes #endif 134104ca555eSLois Curfman McInnes } 1342d7d1e502SBarry Smith ierr = MPI_Allreduce(&sum,norm,1,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 134304ca555eSLois Curfman McInnes *norm = sqrt(*norm); 13443a40ed3dSBarry Smith } else if (type == NORM_1) { /* max column norm */ 1345329f5518SBarry Smith PetscReal *tmp,*tmp2; 1346b1d57f15SBarry Smith PetscInt *jj,*garray = aij->garray; 1347b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp);CHKERRQ(ierr); 1348b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp2);CHKERRQ(ierr); 1349273d9f13SBarry Smith ierr = PetscMemzero(tmp,mat->N*sizeof(PetscReal));CHKERRQ(ierr); 135004ca555eSLois Curfman McInnes *norm = 0.0; 135104ca555eSLois Curfman McInnes v = amat->a; jj = amat->j; 135204ca555eSLois Curfman McInnes for (j=0; j<amat->nz; j++) { 1353bfec09a0SHong Zhang tmp[cstart + *jj++ ] += PetscAbsScalar(*v); v++; 135404ca555eSLois Curfman McInnes } 135504ca555eSLois Curfman McInnes v = bmat->a; jj = bmat->j; 135604ca555eSLois Curfman McInnes for (j=0; j<bmat->nz; j++) { 1357bfec09a0SHong Zhang tmp[garray[*jj++]] += PetscAbsScalar(*v); v++; 135804ca555eSLois Curfman McInnes } 1359d7d1e502SBarry Smith ierr = MPI_Allreduce(tmp,tmp2,mat->N,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 1360273d9f13SBarry Smith for (j=0; j<mat->N; j++) { 136104ca555eSLois Curfman McInnes if (tmp2[j] > *norm) *norm = tmp2[j]; 136204ca555eSLois Curfman McInnes } 1363606d414cSSatish Balay ierr = PetscFree(tmp);CHKERRQ(ierr); 1364606d414cSSatish Balay ierr = PetscFree(tmp2);CHKERRQ(ierr); 13653a40ed3dSBarry Smith } else if (type == NORM_INFINITY) { /* max row norm */ 1366329f5518SBarry Smith PetscReal ntemp = 0.0; 1367273d9f13SBarry Smith for (j=0; j<aij->A->m; j++) { 1368bfec09a0SHong Zhang v = amat->a + amat->i[j]; 136904ca555eSLois Curfman McInnes sum = 0.0; 137004ca555eSLois Curfman McInnes for (i=0; i<amat->i[j+1]-amat->i[j]; i++) { 1371cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 137204ca555eSLois Curfman McInnes } 1373bfec09a0SHong Zhang v = bmat->a + bmat->i[j]; 137404ca555eSLois Curfman McInnes for (i=0; i<bmat->i[j+1]-bmat->i[j]; i++) { 1375cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 137604ca555eSLois Curfman McInnes } 1377515d9167SLois Curfman McInnes if (sum > ntemp) ntemp = sum; 137804ca555eSLois Curfman McInnes } 1379d7d1e502SBarry Smith ierr = MPI_Allreduce(&ntemp,norm,1,MPIU_REAL,MPI_MAX,mat->comm);CHKERRQ(ierr); 1380ca161407SBarry Smith } else { 138129bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"No support for two norm"); 138204ca555eSLois Curfman McInnes } 138337fa93a5SLois Curfman McInnes } 13843a40ed3dSBarry Smith PetscFunctionReturn(0); 1385855ac2c5SLois Curfman McInnes } 1386855ac2c5SLois Curfman McInnes 13874a2ae208SSatish Balay #undef __FUNCT__ 13884a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_MPIAIJ" 1389dfbe8321SBarry Smith PetscErrorCode MatTranspose_MPIAIJ(Mat A,Mat *matout) 1390b7c46309SBarry Smith { 1391b7c46309SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1392dbb450caSBarry Smith Mat_SeqAIJ *Aloc = (Mat_SeqAIJ*)a->A->data; 1393dfbe8321SBarry Smith PetscErrorCode ierr; 1394b1d57f15SBarry Smith PetscInt M = A->M,N = A->N,m,*ai,*aj,row,*cols,i,*ct; 13953a40ed3dSBarry Smith Mat B; 139687828ca2SBarry Smith PetscScalar *array; 1397b7c46309SBarry Smith 13983a40ed3dSBarry Smith PetscFunctionBegin; 13997c922b88SBarry Smith if (!matout && M != N) { 140029bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"Square matrix only for in-place"); 1401d4bb536fSBarry Smith } 1402d4bb536fSBarry Smith 1403f204ca49SKris Buschelman ierr = MatCreate(A->comm,A->n,A->m,N,M,&B);CHKERRQ(ierr); 1404f204ca49SKris Buschelman ierr = MatSetType(B,A->type_name);CHKERRQ(ierr); 1405f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(B,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 1406b7c46309SBarry Smith 1407b7c46309SBarry Smith /* copy over the A part */ 1408ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->A->data; 1409273d9f13SBarry Smith m = a->A->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1410b7c46309SBarry Smith row = a->rstart; 1411bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] += a->cstart ;} 1412b7c46309SBarry Smith for (i=0; i<m; i++) { 1413416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],aj,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1414b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 1415b7c46309SBarry Smith } 1416b7c46309SBarry Smith aj = Aloc->j; 1417bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] -= a->cstart ;} 1418b7c46309SBarry Smith 1419b7c46309SBarry Smith /* copy over the B part */ 1420ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->B->data; 1421273d9f13SBarry Smith m = a->B->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1422b7c46309SBarry Smith row = a->rstart; 1423b1d57f15SBarry Smith ierr = PetscMalloc((1+ai[m])*sizeof(PetscInt),&cols);CHKERRQ(ierr); 1424b0a32e0cSBarry Smith ct = cols; 1425bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = a->garray[aj[i]];} 1426b7c46309SBarry Smith for (i=0; i<m; i++) { 1427416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],cols,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1428b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 1429b7c46309SBarry Smith } 1430606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 14316d4a8577SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14326d4a8577SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14337c922b88SBarry Smith if (matout) { 14340de55854SLois Curfman McInnes *matout = B; 14350de55854SLois Curfman McInnes } else { 1436273d9f13SBarry Smith ierr = MatHeaderCopy(A,B);CHKERRQ(ierr); 14370de55854SLois Curfman McInnes } 14383a40ed3dSBarry Smith PetscFunctionReturn(0); 1439b7c46309SBarry Smith } 1440b7c46309SBarry Smith 14414a2ae208SSatish Balay #undef __FUNCT__ 14424a2ae208SSatish Balay #define __FUNCT__ "MatDiagonalScale_MPIAIJ" 1443dfbe8321SBarry Smith PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat,Vec ll,Vec rr) 1444a008b906SSatish Balay { 14454b967eb1SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 14464b967eb1SSatish Balay Mat a = aij->A,b = aij->B; 1447dfbe8321SBarry Smith PetscErrorCode ierr; 1448b1d57f15SBarry Smith PetscInt s1,s2,s3; 1449a008b906SSatish Balay 14503a40ed3dSBarry Smith PetscFunctionBegin; 14514b967eb1SSatish Balay ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr); 14524b967eb1SSatish Balay if (rr) { 1453e1311b90SBarry Smith ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr); 145429bbc08cSBarry Smith if (s1!=s3) SETERRQ(PETSC_ERR_ARG_SIZ,"right vector non-conforming local size"); 14554b967eb1SSatish Balay /* Overlap communication with computation. */ 145643a90d84SBarry Smith ierr = VecScatterBegin(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1457a008b906SSatish Balay } 14584b967eb1SSatish Balay if (ll) { 1459e1311b90SBarry Smith ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr); 146029bbc08cSBarry Smith if (s1!=s2) SETERRQ(PETSC_ERR_ARG_SIZ,"left vector non-conforming local size"); 1461f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,ll,0);CHKERRQ(ierr); 14624b967eb1SSatish Balay } 14634b967eb1SSatish Balay /* scale the diagonal block */ 1464f830108cSBarry Smith ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr); 14654b967eb1SSatish Balay 14664b967eb1SSatish Balay if (rr) { 14674b967eb1SSatish Balay /* Do a scatter end and then right scale the off-diagonal block */ 146843a90d84SBarry Smith ierr = VecScatterEnd(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1469f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,0,aij->lvec);CHKERRQ(ierr); 14704b967eb1SSatish Balay } 14714b967eb1SSatish Balay 14723a40ed3dSBarry Smith PetscFunctionReturn(0); 1473a008b906SSatish Balay } 1474a008b906SSatish Balay 1475a008b906SSatish Balay 14764a2ae208SSatish Balay #undef __FUNCT__ 14774a2ae208SSatish Balay #define __FUNCT__ "MatPrintHelp_MPIAIJ" 1478dfbe8321SBarry Smith PetscErrorCode MatPrintHelp_MPIAIJ(Mat A) 1479682d7d0cSBarry Smith { 1480682d7d0cSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1481dfbe8321SBarry Smith PetscErrorCode ierr; 1482682d7d0cSBarry Smith 14833a40ed3dSBarry Smith PetscFunctionBegin; 14843a40ed3dSBarry Smith if (!a->rank) { 14853a40ed3dSBarry Smith ierr = MatPrintHelp_SeqAIJ(a->A);CHKERRQ(ierr); 14863a40ed3dSBarry Smith } 14873a40ed3dSBarry Smith PetscFunctionReturn(0); 1488682d7d0cSBarry Smith } 1489682d7d0cSBarry Smith 14904a2ae208SSatish Balay #undef __FUNCT__ 1491521d7252SBarry Smith #define __FUNCT__ "MatSetBlockSize_MPIAIJ" 1492521d7252SBarry Smith PetscErrorCode MatSetBlockSize_MPIAIJ(Mat A,PetscInt bs) 14935a838052SSatish Balay { 1494521d7252SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1495521d7252SBarry Smith PetscErrorCode ierr; 1496521d7252SBarry Smith 14973a40ed3dSBarry Smith PetscFunctionBegin; 1498521d7252SBarry Smith ierr = MatSetBlockSize(a->A,bs);CHKERRQ(ierr); 1499521d7252SBarry Smith ierr = MatSetBlockSize(a->B,bs);CHKERRQ(ierr); 15003a40ed3dSBarry Smith PetscFunctionReturn(0); 15015a838052SSatish Balay } 15024a2ae208SSatish Balay #undef __FUNCT__ 15034a2ae208SSatish Balay #define __FUNCT__ "MatSetUnfactored_MPIAIJ" 1504dfbe8321SBarry Smith PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A) 1505bb5a7306SBarry Smith { 1506bb5a7306SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1507dfbe8321SBarry Smith PetscErrorCode ierr; 15083a40ed3dSBarry Smith 15093a40ed3dSBarry Smith PetscFunctionBegin; 1510bb5a7306SBarry Smith ierr = MatSetUnfactored(a->A);CHKERRQ(ierr); 15113a40ed3dSBarry Smith PetscFunctionReturn(0); 1512bb5a7306SBarry Smith } 1513bb5a7306SBarry Smith 15144a2ae208SSatish Balay #undef __FUNCT__ 15154a2ae208SSatish Balay #define __FUNCT__ "MatEqual_MPIAIJ" 1516dfbe8321SBarry Smith PetscErrorCode MatEqual_MPIAIJ(Mat A,Mat B,PetscTruth *flag) 1517d4bb536fSBarry Smith { 1518d4bb536fSBarry Smith Mat_MPIAIJ *matB = (Mat_MPIAIJ*)B->data,*matA = (Mat_MPIAIJ*)A->data; 1519d4bb536fSBarry Smith Mat a,b,c,d; 1520d4bb536fSBarry Smith PetscTruth flg; 1521dfbe8321SBarry Smith PetscErrorCode ierr; 1522d4bb536fSBarry Smith 15233a40ed3dSBarry Smith PetscFunctionBegin; 1524d4bb536fSBarry Smith a = matA->A; b = matA->B; 1525d4bb536fSBarry Smith c = matB->A; d = matB->B; 1526d4bb536fSBarry Smith 1527d4bb536fSBarry Smith ierr = MatEqual(a,c,&flg);CHKERRQ(ierr); 1528abc0a331SBarry Smith if (flg) { 1529d4bb536fSBarry Smith ierr = MatEqual(b,d,&flg);CHKERRQ(ierr); 1530d4bb536fSBarry Smith } 1531ca161407SBarry Smith ierr = MPI_Allreduce(&flg,flag,1,MPI_INT,MPI_LAND,A->comm);CHKERRQ(ierr); 15323a40ed3dSBarry Smith PetscFunctionReturn(0); 1533d4bb536fSBarry Smith } 1534d4bb536fSBarry Smith 15354a2ae208SSatish Balay #undef __FUNCT__ 15364a2ae208SSatish Balay #define __FUNCT__ "MatCopy_MPIAIJ" 1537dfbe8321SBarry Smith PetscErrorCode MatCopy_MPIAIJ(Mat A,Mat B,MatStructure str) 1538cb5b572fSBarry Smith { 1539dfbe8321SBarry Smith PetscErrorCode ierr; 1540cb5b572fSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1541cb5b572fSBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 1542cb5b572fSBarry Smith 1543cb5b572fSBarry Smith PetscFunctionBegin; 154433f4a19fSKris Buschelman /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */ 154533f4a19fSKris Buschelman if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) { 1546cb5b572fSBarry Smith /* because of the column compression in the off-processor part of the matrix a->B, 1547cb5b572fSBarry Smith the number of columns in a->B and b->B may be different, hence we cannot call 1548cb5b572fSBarry Smith the MatCopy() directly on the two parts. If need be, we can provide a more 1549cb5b572fSBarry Smith efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices 1550cb5b572fSBarry Smith then copying the submatrices */ 1551cb5b572fSBarry Smith ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr); 1552cb5b572fSBarry Smith } else { 1553cb5b572fSBarry Smith ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 1554cb5b572fSBarry Smith ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr); 1555cb5b572fSBarry Smith } 1556cb5b572fSBarry Smith PetscFunctionReturn(0); 1557cb5b572fSBarry Smith } 1558cb5b572fSBarry Smith 15594a2ae208SSatish Balay #undef __FUNCT__ 15604a2ae208SSatish Balay #define __FUNCT__ "MatSetUpPreallocation_MPIAIJ" 1561dfbe8321SBarry Smith PetscErrorCode MatSetUpPreallocation_MPIAIJ(Mat A) 1562273d9f13SBarry Smith { 1563dfbe8321SBarry Smith PetscErrorCode ierr; 1564273d9f13SBarry Smith 1565273d9f13SBarry Smith PetscFunctionBegin; 1566273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(A,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr); 1567273d9f13SBarry Smith PetscFunctionReturn(0); 1568273d9f13SBarry Smith } 1569273d9f13SBarry Smith 1570ac90fabeSBarry Smith #include "petscblaslapack.h" 1571ac90fabeSBarry Smith #undef __FUNCT__ 1572ac90fabeSBarry Smith #define __FUNCT__ "MatAXPY_MPIAIJ" 1573dfbe8321SBarry Smith PetscErrorCode MatAXPY_MPIAIJ(const PetscScalar a[],Mat X,Mat Y,MatStructure str) 1574ac90fabeSBarry Smith { 1575dfbe8321SBarry Smith PetscErrorCode ierr; 1576b1d57f15SBarry Smith PetscInt i; 1577ac90fabeSBarry Smith Mat_MPIAIJ *xx = (Mat_MPIAIJ *)X->data,*yy = (Mat_MPIAIJ *)Y->data; 15784ce68768SBarry Smith PetscBLASInt bnz,one=1; 1579ac90fabeSBarry Smith Mat_SeqAIJ *x,*y; 1580ac90fabeSBarry Smith 1581ac90fabeSBarry Smith PetscFunctionBegin; 1582ac90fabeSBarry Smith if (str == SAME_NONZERO_PATTERN) { 1583ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->A->data; 1584ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->A->data; 15854ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 158671044d3cSBarry Smith BLASaxpy_(&bnz,(PetscScalar*)a,x->a,&one,y->a,&one); 1587ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->B->data; 1588ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->B->data; 15894ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 159071044d3cSBarry Smith BLASaxpy_(&bnz,(PetscScalar*)a,x->a,&one,y->a,&one); 1591a30b2313SHong Zhang } else if (str == SUBSET_NONZERO_PATTERN) { 1592c537a176SHong Zhang ierr = MatAXPY_SeqAIJ(a,xx->A,yy->A,str);CHKERRQ(ierr); 1593c537a176SHong Zhang 1594c537a176SHong Zhang x = (Mat_SeqAIJ *)xx->B->data; 1595a30b2313SHong Zhang y = (Mat_SeqAIJ *)yy->B->data; 1596a30b2313SHong Zhang if (y->xtoy && y->XtoY != xx->B) { 1597a30b2313SHong Zhang ierr = PetscFree(y->xtoy);CHKERRQ(ierr); 1598a30b2313SHong Zhang ierr = MatDestroy(y->XtoY);CHKERRQ(ierr); 1599c537a176SHong Zhang } 1600a30b2313SHong Zhang if (!y->xtoy) { /* get xtoy */ 160124f910e3SHong Zhang ierr = MatAXPYGetxtoy_Private(xx->B->m,x->i,x->j,xx->garray,y->i,y->j,yy->garray,&y->xtoy);CHKERRQ(ierr); 1602a30b2313SHong Zhang y->XtoY = xx->B; 1603c537a176SHong Zhang } 1604a30b2313SHong Zhang for (i=0; i<x->nz; i++) y->a[y->xtoy[i]] += (*a)*(x->a[i]); 1605ac90fabeSBarry Smith } else { 1606ac90fabeSBarry Smith ierr = MatAXPY_Basic(a,X,Y,str);CHKERRQ(ierr); 1607ac90fabeSBarry Smith } 1608ac90fabeSBarry Smith PetscFunctionReturn(0); 1609ac90fabeSBarry Smith } 1610ac90fabeSBarry Smith 16118a729477SBarry Smith /* -------------------------------------------------------------------*/ 1612cda55fadSBarry Smith static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ, 1613cda55fadSBarry Smith MatGetRow_MPIAIJ, 1614cda55fadSBarry Smith MatRestoreRow_MPIAIJ, 1615cda55fadSBarry Smith MatMult_MPIAIJ, 161697304618SKris Buschelman /* 4*/ MatMultAdd_MPIAIJ, 16177c922b88SBarry Smith MatMultTranspose_MPIAIJ, 16187c922b88SBarry Smith MatMultTransposeAdd_MPIAIJ, 1619cda55fadSBarry Smith 0, 1620cda55fadSBarry Smith 0, 1621cda55fadSBarry Smith 0, 162297304618SKris Buschelman /*10*/ 0, 1623cda55fadSBarry Smith 0, 1624cda55fadSBarry Smith 0, 162544a69424SLois Curfman McInnes MatRelax_MPIAIJ, 1626b7c46309SBarry Smith MatTranspose_MPIAIJ, 162797304618SKris Buschelman /*15*/ MatGetInfo_MPIAIJ, 1628cda55fadSBarry Smith MatEqual_MPIAIJ, 1629cda55fadSBarry Smith MatGetDiagonal_MPIAIJ, 1630cda55fadSBarry Smith MatDiagonalScale_MPIAIJ, 1631cda55fadSBarry Smith MatNorm_MPIAIJ, 163297304618SKris Buschelman /*20*/ MatAssemblyBegin_MPIAIJ, 1633cda55fadSBarry Smith MatAssemblyEnd_MPIAIJ, 16341eb62cbbSBarry Smith 0, 1635cda55fadSBarry Smith MatSetOption_MPIAIJ, 1636cda55fadSBarry Smith MatZeroEntries_MPIAIJ, 163797304618SKris Buschelman /*25*/ MatZeroRows_MPIAIJ, 1638cda55fadSBarry Smith 0, 1639cda55fadSBarry Smith 0, 1640cda55fadSBarry Smith 0, 1641cda55fadSBarry Smith 0, 164297304618SKris Buschelman /*30*/ MatSetUpPreallocation_MPIAIJ, 1643cda55fadSBarry Smith 0, 1644cda55fadSBarry Smith 0, 1645cda55fadSBarry Smith 0, 1646cda55fadSBarry Smith 0, 164797304618SKris Buschelman /*35*/ MatDuplicate_MPIAIJ, 1648cda55fadSBarry Smith 0, 1649cda55fadSBarry Smith 0, 1650cda55fadSBarry Smith 0, 1651cda55fadSBarry Smith 0, 165297304618SKris Buschelman /*40*/ MatAXPY_MPIAIJ, 1653cda55fadSBarry Smith MatGetSubMatrices_MPIAIJ, 1654cda55fadSBarry Smith MatIncreaseOverlap_MPIAIJ, 1655cda55fadSBarry Smith MatGetValues_MPIAIJ, 1656cb5b572fSBarry Smith MatCopy_MPIAIJ, 165797304618SKris Buschelman /*45*/ MatPrintHelp_MPIAIJ, 1658cda55fadSBarry Smith MatScale_MPIAIJ, 1659cda55fadSBarry Smith 0, 1660cda55fadSBarry Smith 0, 1661cda55fadSBarry Smith 0, 1662521d7252SBarry Smith /*50*/ MatSetBlockSize_MPIAIJ, 1663cda55fadSBarry Smith 0, 1664cda55fadSBarry Smith 0, 1665cda55fadSBarry Smith 0, 1666cda55fadSBarry Smith 0, 166797304618SKris Buschelman /*55*/ MatFDColoringCreate_MPIAIJ, 1668cda55fadSBarry Smith 0, 1669cda55fadSBarry Smith MatSetUnfactored_MPIAIJ, 1670cda55fadSBarry Smith 0, 1671cda55fadSBarry Smith 0, 167297304618SKris Buschelman /*60*/ MatGetSubMatrix_MPIAIJ, 1673e03a110bSBarry Smith MatDestroy_MPIAIJ, 1674e03a110bSBarry Smith MatView_MPIAIJ, 16758a124369SBarry Smith MatGetPetscMaps_Petsc, 1676a2243be0SBarry Smith 0, 167797304618SKris Buschelman /*65*/ 0, 1678a2243be0SBarry Smith 0, 1679a2243be0SBarry Smith 0, 1680a2243be0SBarry Smith 0, 1681a2243be0SBarry Smith 0, 168297304618SKris Buschelman /*70*/ 0, 1683a2243be0SBarry Smith 0, 1684a2243be0SBarry Smith MatSetColoring_MPIAIJ, 1685dcf5cc72SBarry Smith #if defined(PETSC_HAVE_ADIC) 1686779c1a83SBarry Smith MatSetValuesAdic_MPIAIJ, 1687dcf5cc72SBarry Smith #else 1688dcf5cc72SBarry Smith 0, 1689dcf5cc72SBarry Smith #endif 169097304618SKris Buschelman MatSetValuesAdifor_MPIAIJ, 169197304618SKris Buschelman /*75*/ 0, 169297304618SKris Buschelman 0, 169397304618SKris Buschelman 0, 169497304618SKris Buschelman 0, 169597304618SKris Buschelman 0, 169697304618SKris Buschelman /*80*/ 0, 169797304618SKris Buschelman 0, 169897304618SKris Buschelman 0, 169997304618SKris Buschelman 0, 170041acf15aSKris Buschelman /*84*/ MatLoad_MPIAIJ, 17016284ec50SHong Zhang 0, 17026284ec50SHong Zhang 0, 17036284ec50SHong Zhang 0, 17046284ec50SHong Zhang 0, 1705865e5f61SKris Buschelman 0, 1706865e5f61SKris Buschelman /*90*/ MatMatMult_MPIAIJ_MPIAIJ, 170726be0446SHong Zhang MatMatMultSymbolic_MPIAIJ_MPIAIJ, 170826be0446SHong Zhang MatMatMultNumeric_MPIAIJ_MPIAIJ, 1709ff134f7aSHong Zhang MatPtAP_MPIAIJ_MPIAIJ, 1710865e5f61SKris Buschelman MatPtAPSymbolic_MPIAIJ_MPIAIJ, 1711865e5f61SKris Buschelman /*95*/ MatPtAPNumeric_MPIAIJ_MPIAIJ, 1712865e5f61SKris Buschelman 0, 1713865e5f61SKris Buschelman 0, 1714865e5f61SKris Buschelman 0}; 171536ce4990SBarry Smith 17162e8a6d31SBarry Smith /* ----------------------------------------------------------------------------------------*/ 17172e8a6d31SBarry Smith 1718fb2e594dSBarry Smith EXTERN_C_BEGIN 17194a2ae208SSatish Balay #undef __FUNCT__ 17204a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_MPIAIJ" 1721dfbe8321SBarry Smith PetscErrorCode MatStoreValues_MPIAIJ(Mat mat) 17222e8a6d31SBarry Smith { 17232e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1724dfbe8321SBarry Smith PetscErrorCode ierr; 17252e8a6d31SBarry Smith 17262e8a6d31SBarry Smith PetscFunctionBegin; 17272e8a6d31SBarry Smith ierr = MatStoreValues(aij->A);CHKERRQ(ierr); 17282e8a6d31SBarry Smith ierr = MatStoreValues(aij->B);CHKERRQ(ierr); 17292e8a6d31SBarry Smith PetscFunctionReturn(0); 17302e8a6d31SBarry Smith } 1731fb2e594dSBarry Smith EXTERN_C_END 17322e8a6d31SBarry Smith 1733fb2e594dSBarry Smith EXTERN_C_BEGIN 17344a2ae208SSatish Balay #undef __FUNCT__ 17354a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_MPIAIJ" 1736dfbe8321SBarry Smith PetscErrorCode MatRetrieveValues_MPIAIJ(Mat mat) 17372e8a6d31SBarry Smith { 17382e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1739dfbe8321SBarry Smith PetscErrorCode ierr; 17402e8a6d31SBarry Smith 17412e8a6d31SBarry Smith PetscFunctionBegin; 17422e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr); 17432e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr); 17442e8a6d31SBarry Smith PetscFunctionReturn(0); 17452e8a6d31SBarry Smith } 1746fb2e594dSBarry Smith EXTERN_C_END 17478a729477SBarry Smith 1748e090d566SSatish Balay #include "petscpc.h" 174927508adbSBarry Smith EXTERN_C_BEGIN 17504a2ae208SSatish Balay #undef __FUNCT__ 1751a23d5eceSKris Buschelman #define __FUNCT__ "MatMPIAIJSetPreallocation_MPIAIJ" 1752b1d57f15SBarry Smith PetscErrorCode MatMPIAIJSetPreallocation_MPIAIJ(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 1753a23d5eceSKris Buschelman { 1754a23d5eceSKris Buschelman Mat_MPIAIJ *b; 1755dfbe8321SBarry Smith PetscErrorCode ierr; 1756b1d57f15SBarry Smith PetscInt i; 1757a23d5eceSKris Buschelman 1758a23d5eceSKris Buschelman PetscFunctionBegin; 1759a23d5eceSKris Buschelman B->preallocated = PETSC_TRUE; 1760a23d5eceSKris Buschelman if (d_nz == PETSC_DEFAULT || d_nz == PETSC_DECIDE) d_nz = 5; 1761a23d5eceSKris Buschelman if (o_nz == PETSC_DEFAULT || o_nz == PETSC_DECIDE) o_nz = 2; 176277431f27SBarry Smith if (d_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"d_nz cannot be less than 0: value %D",d_nz); 176377431f27SBarry Smith if (o_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"o_nz cannot be less than 0: value %D",o_nz); 1764a23d5eceSKris Buschelman if (d_nnz) { 1765a23d5eceSKris Buschelman for (i=0; i<B->m; i++) { 176677431f27SBarry Smith if (d_nnz[i] < 0) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"d_nnz cannot be less than 0: local row %D value %D",i,d_nnz[i]); 1767a23d5eceSKris Buschelman } 1768a23d5eceSKris Buschelman } 1769a23d5eceSKris Buschelman if (o_nnz) { 1770a23d5eceSKris Buschelman for (i=0; i<B->m; i++) { 177177431f27SBarry Smith if (o_nnz[i] < 0) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"o_nnz cannot be less than 0: local row %D value %D",i,o_nnz[i]); 1772a23d5eceSKris Buschelman } 1773a23d5eceSKris Buschelman } 1774a23d5eceSKris Buschelman b = (Mat_MPIAIJ*)B->data; 1775c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->A,d_nz,d_nnz);CHKERRQ(ierr); 1776c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->B,o_nz,o_nnz);CHKERRQ(ierr); 1777a23d5eceSKris Buschelman 1778a23d5eceSKris Buschelman PetscFunctionReturn(0); 1779a23d5eceSKris Buschelman } 1780a23d5eceSKris Buschelman EXTERN_C_END 1781a23d5eceSKris Buschelman 17820bad9183SKris Buschelman /*MC 1783002d173eSKris Buschelman MATAIJ - MATAIJ = "aij" - A matrix type to be used for sparse matrices. 1784209238afSKris Buschelman 1785209238afSKris Buschelman This matrix type is identical to MATSEQAIJ when constructed with a single process communicator, 178630e3259aSHong Zhang and MATMPIAIJ otherwise. As a result, for single process communicators, 178730e3259aSHong Zhang MatSeqAIJSetPreallocation is supported, and similarly MatMPIAIJSetPreallocation is supported 178830e3259aSHong Zhang for communicators controlling multiple processes. It is recommended that you call both of 178930e3259aSHong Zhang the above preallocation routines for simplicity. 1790209238afSKris Buschelman 1791209238afSKris Buschelman Options Database Keys: 1792209238afSKris Buschelman . -mat_type aij - sets the matrix type to "aij" during a call to MatSetFromOptions() 1793209238afSKris Buschelman 1794209238afSKris Buschelman Level: beginner 1795209238afSKris Buschelman 1796209238afSKris Buschelman .seealso: MatCreateMPIAIJ,MATSEQAIJ,MATMPIAIJ 1797209238afSKris Buschelman M*/ 1798209238afSKris Buschelman 1799209238afSKris Buschelman EXTERN_C_BEGIN 1800209238afSKris Buschelman #undef __FUNCT__ 1801209238afSKris Buschelman #define __FUNCT__ "MatCreate_AIJ" 1802dfbe8321SBarry Smith PetscErrorCode MatCreate_AIJ(Mat A) 1803dfbe8321SBarry Smith { 18046849ba73SBarry Smith PetscErrorCode ierr; 1805b1d57f15SBarry Smith PetscMPIInt size; 1806209238afSKris Buschelman 1807209238afSKris Buschelman PetscFunctionBegin; 1808209238afSKris Buschelman ierr = PetscObjectChangeTypeName((PetscObject)A,MATAIJ);CHKERRQ(ierr); 1809209238afSKris Buschelman ierr = MPI_Comm_size(A->comm,&size);CHKERRQ(ierr); 1810209238afSKris Buschelman if (size == 1) { 1811209238afSKris Buschelman ierr = MatSetType(A,MATSEQAIJ);CHKERRQ(ierr); 1812209238afSKris Buschelman } else { 1813209238afSKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 1814209238afSKris Buschelman } 1815209238afSKris Buschelman PetscFunctionReturn(0); 1816209238afSKris Buschelman } 1817209238afSKris Buschelman EXTERN_C_END 1818209238afSKris Buschelman 18194a2ae208SSatish Balay #undef __FUNCT__ 18204a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_MPIAIJ" 1821dfbe8321SBarry Smith PetscErrorCode MatDuplicate_MPIAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat) 1822d6dfbf8fSBarry Smith { 1823d6dfbf8fSBarry Smith Mat mat; 1824416022c9SBarry Smith Mat_MPIAIJ *a,*oldmat = (Mat_MPIAIJ*)matin->data; 1825dfbe8321SBarry Smith PetscErrorCode ierr; 1826d6dfbf8fSBarry Smith 18273a40ed3dSBarry Smith PetscFunctionBegin; 1828416022c9SBarry Smith *newmat = 0; 1829273d9f13SBarry Smith ierr = MatCreate(matin->comm,matin->m,matin->n,matin->M,matin->N,&mat);CHKERRQ(ierr); 1830be5d1d56SKris Buschelman ierr = MatSetType(mat,matin->type_name);CHKERRQ(ierr); 18311d5dac46SHong Zhang ierr = PetscMemcpy(mat->ops,matin->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 1832273d9f13SBarry Smith a = (Mat_MPIAIJ*)mat->data; 1833e1b6402fSHong Zhang 1834d6dfbf8fSBarry Smith mat->factor = matin->factor; 1835521d7252SBarry Smith mat->bs = matin->bs; 1836c456f294SBarry Smith mat->assembled = PETSC_TRUE; 1837e7641de0SSatish Balay mat->insertmode = NOT_SET_VALUES; 1838273d9f13SBarry Smith mat->preallocated = PETSC_TRUE; 1839d6dfbf8fSBarry Smith 1840416022c9SBarry Smith a->rstart = oldmat->rstart; 1841416022c9SBarry Smith a->rend = oldmat->rend; 1842416022c9SBarry Smith a->cstart = oldmat->cstart; 1843416022c9SBarry Smith a->cend = oldmat->cend; 184417699dbbSLois Curfman McInnes a->size = oldmat->size; 184517699dbbSLois Curfman McInnes a->rank = oldmat->rank; 1846e7641de0SSatish Balay a->donotstash = oldmat->donotstash; 1847e7641de0SSatish Balay a->roworiented = oldmat->roworiented; 1848e7641de0SSatish Balay a->rowindices = 0; 1849bcd2baecSBarry Smith a->rowvalues = 0; 1850bcd2baecSBarry Smith a->getrowactive = PETSC_FALSE; 1851d6dfbf8fSBarry Smith 1852b1d57f15SBarry Smith ierr = PetscMemcpy(a->rowners,oldmat->rowners,2*(a->size+2)*sizeof(PetscInt));CHKERRQ(ierr); 18538798bf22SSatish Balay ierr = MatStashCreate_Private(matin->comm,1,&mat->stash);CHKERRQ(ierr); 18542ee70a88SLois Curfman McInnes if (oldmat->colmap) { 1855aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 18560f5bd95cSBarry Smith ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr); 1857b1fc9764SSatish Balay #else 1858b1d57f15SBarry Smith ierr = PetscMalloc((mat->N)*sizeof(PetscInt),&a->colmap);CHKERRQ(ierr); 1859b1d57f15SBarry Smith PetscLogObjectMemory(mat,(mat->N)*sizeof(PetscInt)); 1860b1d57f15SBarry Smith ierr = PetscMemcpy(a->colmap,oldmat->colmap,(mat->N)*sizeof(PetscInt));CHKERRQ(ierr); 1861b1fc9764SSatish Balay #endif 1862416022c9SBarry Smith } else a->colmap = 0; 18633f41c07dSBarry Smith if (oldmat->garray) { 1864b1d57f15SBarry Smith PetscInt len; 1865273d9f13SBarry Smith len = oldmat->B->n; 1866b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&a->garray);CHKERRQ(ierr); 1867b1d57f15SBarry Smith PetscLogObjectMemory(mat,len*sizeof(PetscInt)); 1868b1d57f15SBarry Smith if (len) { ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(PetscInt));CHKERRQ(ierr); } 1869416022c9SBarry Smith } else a->garray = 0; 1870d6dfbf8fSBarry Smith 1871416022c9SBarry Smith ierr = VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr); 1872b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->lvec); 1873a56f8943SBarry Smith ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr); 1874b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->Mvctx); 18754efcb820SBarry Smith ierr = MatDestroy(a->A);CHKERRQ(ierr); 18762e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr); 1877b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->A); 18784efcb820SBarry Smith ierr = MatDestroy(a->B);CHKERRQ(ierr); 18792e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr); 1880b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->B); 1881b0a32e0cSBarry Smith ierr = PetscFListDuplicate(matin->qlist,&mat->qlist);CHKERRQ(ierr); 18828a729477SBarry Smith *newmat = mat; 18833a40ed3dSBarry Smith PetscFunctionReturn(0); 18848a729477SBarry Smith } 1885416022c9SBarry Smith 1886e090d566SSatish Balay #include "petscsys.h" 1887416022c9SBarry Smith 18884a2ae208SSatish Balay #undef __FUNCT__ 18894a2ae208SSatish Balay #define __FUNCT__ "MatLoad_MPIAIJ" 1890dfbe8321SBarry Smith PetscErrorCode MatLoad_MPIAIJ(PetscViewer viewer,const MatType type,Mat *newmat) 1891416022c9SBarry Smith { 1892d65a2f8fSBarry Smith Mat A; 189387828ca2SBarry Smith PetscScalar *vals,*svals; 189419bcc07fSBarry Smith MPI_Comm comm = ((PetscObject)viewer)->comm; 1895416022c9SBarry Smith MPI_Status status; 18966849ba73SBarry Smith PetscErrorCode ierr; 1897dc231df0SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag,maxnz; 1898b1d57f15SBarry Smith PetscInt i,nz,j,rstart,rend; 1899b1d57f15SBarry Smith PetscInt header[4],*rowlengths = 0,M,N,m,*cols; 1900b1d57f15SBarry Smith PetscInt *ourlens,*procsnz = 0,*offlens,jj,*mycols,*smycols; 1901dc231df0SBarry Smith PetscInt cend,cstart,n,*rowners; 1902b1d57f15SBarry Smith int fd; 1903416022c9SBarry Smith 19043a40ed3dSBarry Smith PetscFunctionBegin; 19051dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 19061dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 190717699dbbSLois Curfman McInnes if (!rank) { 1908b0a32e0cSBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 19090752156aSBarry Smith ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr); 1910552e946dSBarry Smith if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object"); 19116c5fab8fSBarry Smith } 19126c5fab8fSBarry Smith 1913b1d57f15SBarry Smith ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr); 1914416022c9SBarry Smith M = header[1]; N = header[2]; 1915416022c9SBarry Smith /* determine ownership of all rows */ 191629cdbbc8SSatish Balay m = M/size + ((M % size) > rank); 1917dc231df0SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&rowners);CHKERRQ(ierr); 1918dc231df0SBarry Smith ierr = MPI_Allgather(&m,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr); 1919416022c9SBarry Smith rowners[0] = 0; 192017699dbbSLois Curfman McInnes for (i=2; i<=size; i++) { 1921416022c9SBarry Smith rowners[i] += rowners[i-1]; 1922416022c9SBarry Smith } 192317699dbbSLois Curfman McInnes rstart = rowners[rank]; 192417699dbbSLois Curfman McInnes rend = rowners[rank+1]; 1925416022c9SBarry Smith 1926416022c9SBarry Smith /* distribute row lengths to all processors */ 1927dc231df0SBarry Smith ierr = PetscMalloc2(m,PetscInt,&ourlens,m,PetscInt,&offlens);CHKERRQ(ierr); 192817699dbbSLois Curfman McInnes if (!rank) { 1929dc231df0SBarry Smith ierr = PetscBinaryRead(fd,ourlens,m,PETSC_INT);CHKERRQ(ierr); 1930dc231df0SBarry Smith ierr = PetscMalloc(m*sizeof(PetscInt),&rowlengths);CHKERRQ(ierr); 1931b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscInt),&procsnz);CHKERRQ(ierr); 1932b1d57f15SBarry Smith ierr = PetscMemzero(procsnz,size*sizeof(PetscInt));CHKERRQ(ierr); 1933dc231df0SBarry Smith for (j=0; j<m; j++) { 1934dc231df0SBarry Smith procsnz[0] += ourlens[j]; 1935dc231df0SBarry Smith } 1936dc231df0SBarry Smith for (i=1; i<size; i++) { 1937dc231df0SBarry Smith ierr = PetscBinaryRead(fd,rowlengths,rowners[i+1]-rowners[i],PETSC_INT);CHKERRQ(ierr); 1938dc231df0SBarry Smith /* calculate the number of nonzeros on each processor */ 1939dc231df0SBarry Smith for (j=0; j<rowners[i+1]-rowners[i]; j++) { 1940416022c9SBarry Smith procsnz[i] += rowlengths[j]; 1941416022c9SBarry Smith } 1942dc231df0SBarry Smith ierr = MPI_Send(rowlengths,rowners[i+1]-rowners[i],MPIU_INT,i,tag,comm);CHKERRQ(ierr); 1943416022c9SBarry Smith } 1944606d414cSSatish Balay ierr = PetscFree(rowlengths);CHKERRQ(ierr); 1945dc231df0SBarry Smith } else { 1946dc231df0SBarry Smith ierr = MPI_Recv(ourlens,m,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 1947dc231df0SBarry Smith } 1948416022c9SBarry Smith 1949dc231df0SBarry Smith if (!rank) { 1950416022c9SBarry Smith /* determine max buffer needed and allocate it */ 1951416022c9SBarry Smith maxnz = 0; 19528a8e0b3aSBarry Smith for (i=0; i<size; i++) { 19530452661fSBarry Smith maxnz = PetscMax(maxnz,procsnz[i]); 1954416022c9SBarry Smith } 1955b1d57f15SBarry Smith ierr = PetscMalloc(maxnz*sizeof(PetscInt),&cols);CHKERRQ(ierr); 1956416022c9SBarry Smith 1957416022c9SBarry Smith /* read in my part of the matrix column indices */ 1958416022c9SBarry Smith nz = procsnz[0]; 1959b1d57f15SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 19600752156aSBarry Smith ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr); 1961d65a2f8fSBarry Smith 1962d65a2f8fSBarry Smith /* read in every one elses and ship off */ 196317699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 1964d65a2f8fSBarry Smith nz = procsnz[i]; 19650752156aSBarry Smith ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 1966b1d57f15SBarry Smith ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr); 1967d65a2f8fSBarry Smith } 1968606d414cSSatish Balay ierr = PetscFree(cols);CHKERRQ(ierr); 19693a40ed3dSBarry Smith } else { 1970416022c9SBarry Smith /* determine buffer space needed for message */ 1971416022c9SBarry Smith nz = 0; 1972416022c9SBarry Smith for (i=0; i<m; i++) { 1973416022c9SBarry Smith nz += ourlens[i]; 1974416022c9SBarry Smith } 1975dc231df0SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 1976416022c9SBarry Smith 1977416022c9SBarry Smith /* receive message of column indices*/ 1978b1d57f15SBarry Smith ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 1979b1d57f15SBarry Smith ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr); 198029bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 1981416022c9SBarry Smith } 1982416022c9SBarry Smith 1983b362ba68SBarry Smith /* determine column ownership if matrix is not square */ 1984b362ba68SBarry Smith if (N != M) { 1985b362ba68SBarry Smith n = N/size + ((N % size) > rank); 1986b1d57f15SBarry Smith ierr = MPI_Scan(&n,&cend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 1987b362ba68SBarry Smith cstart = cend - n; 1988b362ba68SBarry Smith } else { 1989b362ba68SBarry Smith cstart = rstart; 1990b362ba68SBarry Smith cend = rend; 1991fb2e594dSBarry Smith n = cend - cstart; 1992b362ba68SBarry Smith } 1993b362ba68SBarry Smith 1994416022c9SBarry Smith /* loop over local rows, determining number of off diagonal entries */ 1995b1d57f15SBarry Smith ierr = PetscMemzero(offlens,m*sizeof(PetscInt));CHKERRQ(ierr); 1996416022c9SBarry Smith jj = 0; 1997416022c9SBarry Smith for (i=0; i<m; i++) { 1998416022c9SBarry Smith for (j=0; j<ourlens[i]; j++) { 1999b362ba68SBarry Smith if (mycols[jj] < cstart || mycols[jj] >= cend) offlens[i]++; 2000416022c9SBarry Smith jj++; 2001416022c9SBarry Smith } 2002416022c9SBarry Smith } 2003d65a2f8fSBarry Smith 2004d65a2f8fSBarry Smith /* create our matrix */ 2005416022c9SBarry Smith for (i=0; i<m; i++) { 2006416022c9SBarry Smith ourlens[i] -= offlens[i]; 2007416022c9SBarry Smith } 2008d10c748bSKris Buschelman ierr = MatCreate(comm,m,n,M,N,&A);CHKERRQ(ierr); 2009d10c748bSKris Buschelman ierr = MatSetType(A,type);CHKERRQ(ierr); 2010d10c748bSKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,ourlens,0,offlens);CHKERRQ(ierr); 2011d10c748bSKris Buschelman 2012fb2e594dSBarry Smith ierr = MatSetOption(A,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 2013d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2014d65a2f8fSBarry Smith ourlens[i] += offlens[i]; 2015d65a2f8fSBarry Smith } 2016416022c9SBarry Smith 201717699dbbSLois Curfman McInnes if (!rank) { 2018906b51c7SHong Zhang ierr = PetscMalloc((maxnz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2019416022c9SBarry Smith 2020416022c9SBarry Smith /* read in my part of the matrix numerical values */ 2021416022c9SBarry Smith nz = procsnz[0]; 20220752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2023d65a2f8fSBarry Smith 2024d65a2f8fSBarry Smith /* insert into matrix */ 2025d65a2f8fSBarry Smith jj = rstart; 2026d65a2f8fSBarry Smith smycols = mycols; 2027d65a2f8fSBarry Smith svals = vals; 2028d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2029dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2030d65a2f8fSBarry Smith smycols += ourlens[i]; 2031d65a2f8fSBarry Smith svals += ourlens[i]; 2032d65a2f8fSBarry Smith jj++; 2033416022c9SBarry Smith } 2034416022c9SBarry Smith 2035d65a2f8fSBarry Smith /* read in other processors and ship out */ 203617699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 2037416022c9SBarry Smith nz = procsnz[i]; 20380752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2039ca161407SBarry Smith ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,A->tag,comm);CHKERRQ(ierr); 2040416022c9SBarry Smith } 2041606d414cSSatish Balay ierr = PetscFree(procsnz);CHKERRQ(ierr); 20423a40ed3dSBarry Smith } else { 2043d65a2f8fSBarry Smith /* receive numeric values */ 204487828ca2SBarry Smith ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2045416022c9SBarry Smith 2046d65a2f8fSBarry Smith /* receive message of values*/ 2047ca161407SBarry Smith ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,A->tag,comm,&status);CHKERRQ(ierr); 2048ca161407SBarry Smith ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr); 204929bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 2050d65a2f8fSBarry Smith 2051d65a2f8fSBarry Smith /* insert into matrix */ 2052d65a2f8fSBarry Smith jj = rstart; 2053d65a2f8fSBarry Smith smycols = mycols; 2054d65a2f8fSBarry Smith svals = vals; 2055d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2056dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2057d65a2f8fSBarry Smith smycols += ourlens[i]; 2058d65a2f8fSBarry Smith svals += ourlens[i]; 2059d65a2f8fSBarry Smith jj++; 2060d65a2f8fSBarry Smith } 2061d65a2f8fSBarry Smith } 2062dc231df0SBarry Smith ierr = PetscFree2(ourlens,offlens);CHKERRQ(ierr); 2063606d414cSSatish Balay ierr = PetscFree(vals);CHKERRQ(ierr); 2064606d414cSSatish Balay ierr = PetscFree(mycols);CHKERRQ(ierr); 2065606d414cSSatish Balay ierr = PetscFree(rowners);CHKERRQ(ierr); 2066d65a2f8fSBarry Smith 20676d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 20686d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2069d10c748bSKris Buschelman *newmat = A; 20703a40ed3dSBarry Smith PetscFunctionReturn(0); 2071416022c9SBarry Smith } 2072a0ff6018SBarry Smith 20734a2ae208SSatish Balay #undef __FUNCT__ 20744a2ae208SSatish Balay #define __FUNCT__ "MatGetSubMatrix_MPIAIJ" 2075a0ff6018SBarry Smith /* 207629da9460SBarry Smith Not great since it makes two copies of the submatrix, first an SeqAIJ 207729da9460SBarry Smith in local and then by concatenating the local matrices the end result. 207829da9460SBarry Smith Writing it directly would be much like MatGetSubMatrices_MPIAIJ() 2079a0ff6018SBarry Smith */ 2080b1d57f15SBarry Smith PetscErrorCode MatGetSubMatrix_MPIAIJ(Mat mat,IS isrow,IS iscol,PetscInt csize,MatReuse call,Mat *newmat) 2081a0ff6018SBarry Smith { 2082dfbe8321SBarry Smith PetscErrorCode ierr; 208332dcc486SBarry Smith PetscMPIInt rank,size; 2084b1d57f15SBarry Smith PetscInt i,m,n,rstart,row,rend,nz,*cwork,j; 2085b1d57f15SBarry Smith PetscInt *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal; 2086fee21e36SBarry Smith Mat *local,M,Mreuse; 208787828ca2SBarry Smith PetscScalar *vwork,*aa; 208800e6dbe6SBarry Smith MPI_Comm comm = mat->comm; 208900e6dbe6SBarry Smith Mat_SeqAIJ *aij; 20907e2c5f70SBarry Smith 2091a0ff6018SBarry Smith 2092a0ff6018SBarry Smith PetscFunctionBegin; 20931dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 20941dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 209500e6dbe6SBarry Smith 2096fee21e36SBarry Smith if (call == MAT_REUSE_MATRIX) { 2097fee21e36SBarry Smith ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject *)&Mreuse);CHKERRQ(ierr); 2098e005ede5SBarry Smith if (!Mreuse) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse"); 2099fee21e36SBarry Smith local = &Mreuse; 2100fee21e36SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_REUSE_MATRIX,&local);CHKERRQ(ierr); 2101fee21e36SBarry Smith } else { 2102a0ff6018SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&local);CHKERRQ(ierr); 2103fee21e36SBarry Smith Mreuse = *local; 2104606d414cSSatish Balay ierr = PetscFree(local);CHKERRQ(ierr); 2105fee21e36SBarry Smith } 2106a0ff6018SBarry Smith 2107a0ff6018SBarry Smith /* 2108a0ff6018SBarry Smith m - number of local rows 2109a0ff6018SBarry Smith n - number of columns (same on all processors) 2110a0ff6018SBarry Smith rstart - first row in new global matrix generated 2111a0ff6018SBarry Smith */ 2112fee21e36SBarry Smith ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr); 2113a0ff6018SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2114fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 211500e6dbe6SBarry Smith ii = aij->i; 211600e6dbe6SBarry Smith jj = aij->j; 211700e6dbe6SBarry Smith 2118a0ff6018SBarry Smith /* 211900e6dbe6SBarry Smith Determine the number of non-zeros in the diagonal and off-diagonal 212000e6dbe6SBarry Smith portions of the matrix in order to do correct preallocation 2121a0ff6018SBarry Smith */ 212200e6dbe6SBarry Smith 212300e6dbe6SBarry Smith /* first get start and end of "diagonal" columns */ 21246a6a5d1dSBarry Smith if (csize == PETSC_DECIDE) { 2125ab50ec6bSBarry Smith ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr); 2126ab50ec6bSBarry Smith if (mglobal == n) { /* square matrix */ 2127e2c4fddaSBarry Smith nlocal = m; 21286a6a5d1dSBarry Smith } else { 2129ab50ec6bSBarry Smith nlocal = n/size + ((n % size) > rank); 2130ab50ec6bSBarry Smith } 2131ab50ec6bSBarry Smith } else { 21326a6a5d1dSBarry Smith nlocal = csize; 21336a6a5d1dSBarry Smith } 2134b1d57f15SBarry Smith ierr = MPI_Scan(&nlocal,&rend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 213500e6dbe6SBarry Smith rstart = rend - nlocal; 21366a6a5d1dSBarry Smith if (rank == size - 1 && rend != n) { 213777431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Local column sizes %D do not add up to total number of columns %D",rend,n); 21386a6a5d1dSBarry Smith } 213900e6dbe6SBarry Smith 214000e6dbe6SBarry Smith /* next, compute all the lengths */ 2141b1d57f15SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&dlens);CHKERRQ(ierr); 214200e6dbe6SBarry Smith olens = dlens + m; 214300e6dbe6SBarry Smith for (i=0; i<m; i++) { 214400e6dbe6SBarry Smith jend = ii[i+1] - ii[i]; 214500e6dbe6SBarry Smith olen = 0; 214600e6dbe6SBarry Smith dlen = 0; 214700e6dbe6SBarry Smith for (j=0; j<jend; j++) { 214800e6dbe6SBarry Smith if (*jj < rstart || *jj >= rend) olen++; 214900e6dbe6SBarry Smith else dlen++; 215000e6dbe6SBarry Smith jj++; 215100e6dbe6SBarry Smith } 215200e6dbe6SBarry Smith olens[i] = olen; 215300e6dbe6SBarry Smith dlens[i] = dlen; 215400e6dbe6SBarry Smith } 2155e2d9671bSKris Buschelman ierr = MatCreate(comm,m,nlocal,PETSC_DECIDE,n,&M);CHKERRQ(ierr); 2156e2d9671bSKris Buschelman ierr = MatSetType(M,mat->type_name);CHKERRQ(ierr); 2157e2d9671bSKris Buschelman ierr = MatMPIAIJSetPreallocation(M,0,dlens,0,olens);CHKERRQ(ierr); 2158606d414cSSatish Balay ierr = PetscFree(dlens);CHKERRQ(ierr); 2159a0ff6018SBarry Smith } else { 2160b1d57f15SBarry Smith PetscInt ml,nl; 2161a0ff6018SBarry Smith 2162a0ff6018SBarry Smith M = *newmat; 2163a0ff6018SBarry Smith ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr); 216429bbc08cSBarry Smith if (ml != m) SETERRQ(PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request"); 2165a0ff6018SBarry Smith ierr = MatZeroEntries(M);CHKERRQ(ierr); 2166c48de900SBarry Smith /* 2167c48de900SBarry Smith The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 2168c48de900SBarry Smith rather than the slower MatSetValues(). 2169c48de900SBarry Smith */ 2170c48de900SBarry Smith M->was_assembled = PETSC_TRUE; 2171c48de900SBarry Smith M->assembled = PETSC_FALSE; 2172a0ff6018SBarry Smith } 2173a0ff6018SBarry Smith ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr); 2174fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 217500e6dbe6SBarry Smith ii = aij->i; 217600e6dbe6SBarry Smith jj = aij->j; 217700e6dbe6SBarry Smith aa = aij->a; 2178a0ff6018SBarry Smith for (i=0; i<m; i++) { 2179a0ff6018SBarry Smith row = rstart + i; 218000e6dbe6SBarry Smith nz = ii[i+1] - ii[i]; 218100e6dbe6SBarry Smith cwork = jj; jj += nz; 218200e6dbe6SBarry Smith vwork = aa; aa += nz; 21838c638d02SBarry Smith ierr = MatSetValues_MPIAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr); 2184a0ff6018SBarry Smith } 2185a0ff6018SBarry Smith 2186a0ff6018SBarry Smith ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2187a0ff6018SBarry Smith ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2188a0ff6018SBarry Smith *newmat = M; 2189fee21e36SBarry Smith 2190fee21e36SBarry Smith /* save submatrix used in processor for next request */ 2191fee21e36SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2192fee21e36SBarry Smith ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr); 2193fee21e36SBarry Smith ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr); 2194fee21e36SBarry Smith } 2195fee21e36SBarry Smith 2196a0ff6018SBarry Smith PetscFunctionReturn(0); 2197a0ff6018SBarry Smith } 2198273d9f13SBarry Smith 2199e2e86b8fSSatish Balay EXTERN_C_BEGIN 22004a2ae208SSatish Balay #undef __FUNCT__ 2201ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR_MPIAIJ" 2202ccd8e176SBarry Smith PetscErrorCode MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B,const PetscInt I[],const PetscInt J[],const PetscScalar v[]) 2203ccd8e176SBarry Smith { 2204ccd8e176SBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 2205ccd8e176SBarry Smith PetscInt m = B->m,cstart = b->cstart, cend = b->cend,j,nnz,i,d; 2206ccd8e176SBarry Smith PetscInt *d_nnz,*o_nnz,nnz_max = 0,rstart = b->rstart,ii; 2207ccd8e176SBarry Smith const PetscInt *JJ; 2208ccd8e176SBarry Smith PetscScalar *values; 2209ccd8e176SBarry Smith PetscErrorCode ierr; 2210ccd8e176SBarry Smith 2211ccd8e176SBarry Smith PetscFunctionBegin; 2212ccd8e176SBarry Smith #if defined(PETSC_OPT_g) 2213ccd8e176SBarry Smith if (I[0]) SETERRQ1(PETSC_ERR_ARG_RANGE,"I[0] must be 0 it is %D",I[0]); 2214ccd8e176SBarry Smith #endif 2215ccd8e176SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr); 2216ccd8e176SBarry Smith o_nnz = d_nnz + m; 2217ccd8e176SBarry Smith 2218ccd8e176SBarry Smith for (i=0; i<m; i++) { 2219ccd8e176SBarry Smith nnz = I[i+1]- I[i]; 2220ccd8e176SBarry Smith JJ = J + I[i]; 2221ccd8e176SBarry Smith nnz_max = PetscMax(nnz_max,nnz); 2222ccd8e176SBarry Smith #if defined(PETSC_OPT_g) 2223ccd8e176SBarry Smith if (nnz < 0) SETERRQ1(PETSC_ERR_ARG_RANGE,"Local row %D has a negative %D number of columns",i,nnz); 2224ccd8e176SBarry Smith #endif 2225ccd8e176SBarry Smith for (j=0; j<nnz; j++) { 2226ccd8e176SBarry Smith if (*JJ >= cstart) break; 2227ccd8e176SBarry Smith JJ++; 2228ccd8e176SBarry Smith } 2229ccd8e176SBarry Smith d = 0; 2230ccd8e176SBarry Smith for (; j<nnz; j++) { 2231ccd8e176SBarry Smith if (*JJ++ >= cend) break; 2232ccd8e176SBarry Smith d++; 2233ccd8e176SBarry Smith } 2234ccd8e176SBarry Smith d_nnz[i] = d; 2235ccd8e176SBarry Smith o_nnz[i] = nnz - d; 2236ccd8e176SBarry Smith } 2237ccd8e176SBarry Smith ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,o_nnz);CHKERRQ(ierr); 2238ccd8e176SBarry Smith ierr = PetscFree(d_nnz);CHKERRQ(ierr); 2239ccd8e176SBarry Smith 2240ccd8e176SBarry Smith if (v) values = (PetscScalar*)v; 2241ccd8e176SBarry Smith else { 2242ccd8e176SBarry Smith ierr = PetscMalloc((nnz_max+1)*sizeof(PetscScalar),&values);CHKERRQ(ierr); 2243ccd8e176SBarry Smith ierr = PetscMemzero(values,nnz_max*sizeof(PetscScalar));CHKERRQ(ierr); 2244ccd8e176SBarry Smith } 2245ccd8e176SBarry Smith 2246ccd8e176SBarry Smith ierr = MatSetOption(B,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 2247ccd8e176SBarry Smith for (i=0; i<m; i++) { 2248ccd8e176SBarry Smith ii = i + rstart; 2249ccd8e176SBarry Smith nnz = I[i+1]- I[i]; 2250ccd8e176SBarry Smith ierr = MatSetValues_MPIAIJ(B,1,&ii,nnz,J+I[i],values,INSERT_VALUES);CHKERRQ(ierr); 2251ccd8e176SBarry Smith } 2252ccd8e176SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2253ccd8e176SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2254ccd8e176SBarry Smith ierr = MatSetOption(B,MAT_COLUMNS_UNSORTED);CHKERRQ(ierr); 2255ccd8e176SBarry Smith 2256ccd8e176SBarry Smith if (!v) { 2257ccd8e176SBarry Smith ierr = PetscFree(values);CHKERRQ(ierr); 2258ccd8e176SBarry Smith } 2259ccd8e176SBarry Smith PetscFunctionReturn(0); 2260ccd8e176SBarry Smith } 2261e2e86b8fSSatish Balay EXTERN_C_END 2262ccd8e176SBarry Smith 2263ccd8e176SBarry Smith #undef __FUNCT__ 2264ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR" 2265ccd8e176SBarry Smith /*@C 2266ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in AIJ format 2267ccd8e176SBarry Smith (the default parallel PETSc format). 2268ccd8e176SBarry Smith 2269ccd8e176SBarry Smith Collective on MPI_Comm 2270ccd8e176SBarry Smith 2271ccd8e176SBarry Smith Input Parameters: 2272ccd8e176SBarry Smith + A - the matrix 2273ccd8e176SBarry Smith . i - the indices into j for the start of each local row (starts with zero) 2274ccd8e176SBarry Smith . j - the column indices for each local row (starts with zero) these must be sorted for each row 2275ccd8e176SBarry Smith - v - optional values in the matrix 2276ccd8e176SBarry Smith 2277ccd8e176SBarry Smith Level: developer 2278ccd8e176SBarry Smith 2279ccd8e176SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2280ccd8e176SBarry Smith 2281ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatCreateMPIAIJ(), MPIAIJ 2282ccd8e176SBarry Smith @*/ 2283ccd8e176SBarry Smith PetscErrorCode MatMPIAIJSetPreallocationCSR(Mat B,const PetscInt i[],const PetscInt j[], const PetscScalar v[]) 2284ccd8e176SBarry Smith { 2285ccd8e176SBarry Smith PetscErrorCode ierr,(*f)(Mat,const PetscInt[],const PetscInt[],const PetscScalar[]); 2286ccd8e176SBarry Smith 2287ccd8e176SBarry Smith PetscFunctionBegin; 2288ccd8e176SBarry Smith ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",(void (**)(void))&f);CHKERRQ(ierr); 2289ccd8e176SBarry Smith if (f) { 2290ccd8e176SBarry Smith ierr = (*f)(B,i,j,v);CHKERRQ(ierr); 2291ccd8e176SBarry Smith } 2292ccd8e176SBarry Smith PetscFunctionReturn(0); 2293ccd8e176SBarry Smith } 2294ccd8e176SBarry Smith 2295ccd8e176SBarry Smith #undef __FUNCT__ 22964a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJSetPreallocation" 2297273d9f13SBarry Smith /*@C 2298ccd8e176SBarry Smith MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in AIJ format 2299273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2300273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2301273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2302273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2303273d9f13SBarry Smith 2304273d9f13SBarry Smith Collective on MPI_Comm 2305273d9f13SBarry Smith 2306273d9f13SBarry Smith Input Parameters: 2307273d9f13SBarry Smith + A - the matrix 2308273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2309273d9f13SBarry Smith (same value is used for all local rows) 2310273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2311273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2312273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2313273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2314273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2315273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2316273d9f13SBarry Smith submatrix (same value is used for all local rows). 2317273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2318273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2319273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2320273d9f13SBarry Smith structure. The size of this array is equal to the number 2321273d9f13SBarry Smith of local rows, i.e 'm'. 2322273d9f13SBarry Smith 232349a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 232449a6f317SBarry Smith 2325273d9f13SBarry Smith The AIJ format (also called the Yale sparse matrix format or 2326ccd8e176SBarry Smith compressed row storage (CSR)), is fully compatible with standard Fortran 77 2327ccd8e176SBarry Smith storage. The stored row and column indices begin with zero. See the users manual for details. 2328273d9f13SBarry Smith 2329273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2330273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2331273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2332273d9f13SBarry Smith 2333273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2334273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2335273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2336273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2337273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2338273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2339273d9f13SBarry Smith 2340273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2341273d9f13SBarry Smith 2342273d9f13SBarry Smith Example usage: 2343273d9f13SBarry Smith 2344273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2345273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2346273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2347273d9f13SBarry Smith as follows: 2348273d9f13SBarry Smith 2349273d9f13SBarry Smith .vb 2350273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2351273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2352273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2353273d9f13SBarry Smith ------------------------------------- 2354273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2355273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2356273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2357273d9f13SBarry Smith ------------------------------------- 2358273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2359273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2360273d9f13SBarry Smith .ve 2361273d9f13SBarry Smith 2362273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2363273d9f13SBarry Smith 2364273d9f13SBarry Smith .vb 2365273d9f13SBarry Smith A B C 2366273d9f13SBarry Smith D E F 2367273d9f13SBarry Smith G H I 2368273d9f13SBarry Smith .ve 2369273d9f13SBarry Smith 2370273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2371273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2372273d9f13SBarry Smith 2373273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2374273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2375273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2376273d9f13SBarry Smith 2377273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2378273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2379273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2380273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2381273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2382273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2383273d9f13SBarry Smith 2384273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2385273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2386273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2387273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2388273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2389273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2390273d9f13SBarry Smith .vb 2391273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2392273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2393273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2394273d9f13SBarry Smith .ve 2395273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2396273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2397273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2398273d9f13SBarry Smith 34 values. 2399273d9f13SBarry Smith 2400273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2401273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2402273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2403273d9f13SBarry Smith .vb 2404273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2405273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2406273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2407273d9f13SBarry Smith .ve 2408273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2409273d9f13SBarry Smith hence pre-allocation is perfect. 2410273d9f13SBarry Smith 2411273d9f13SBarry Smith Level: intermediate 2412273d9f13SBarry Smith 2413273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2414273d9f13SBarry Smith 2415ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateMPIAIJ(), MatMPIAIJSetPreallocationCSR(), 2416ccd8e176SBarry Smith MPIAIJ 2417273d9f13SBarry Smith @*/ 2418b1d57f15SBarry Smith PetscErrorCode MatMPIAIJSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 2419273d9f13SBarry Smith { 2420b1d57f15SBarry Smith PetscErrorCode ierr,(*f)(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]); 2421273d9f13SBarry Smith 2422273d9f13SBarry Smith PetscFunctionBegin; 2423a23d5eceSKris Buschelman ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocation_C",(void (**)(void))&f);CHKERRQ(ierr); 2424a23d5eceSKris Buschelman if (f) { 2425a23d5eceSKris Buschelman ierr = (*f)(B,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2426273d9f13SBarry Smith } 2427273d9f13SBarry Smith PetscFunctionReturn(0); 2428273d9f13SBarry Smith } 2429273d9f13SBarry Smith 24304a2ae208SSatish Balay #undef __FUNCT__ 24314a2ae208SSatish Balay #define __FUNCT__ "MatCreateMPIAIJ" 2432273d9f13SBarry Smith /*@C 2433273d9f13SBarry Smith MatCreateMPIAIJ - Creates a sparse parallel matrix in AIJ format 2434273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2435273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2436273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2437273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2438273d9f13SBarry Smith 2439273d9f13SBarry Smith Collective on MPI_Comm 2440273d9f13SBarry Smith 2441273d9f13SBarry Smith Input Parameters: 2442273d9f13SBarry Smith + comm - MPI communicator 2443273d9f13SBarry Smith . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 2444273d9f13SBarry Smith This value should be the same as the local size used in creating the 2445273d9f13SBarry Smith y vector for the matrix-vector product y = Ax. 2446273d9f13SBarry Smith . n - This value should be the same as the local size used in creating the 2447273d9f13SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 2448273d9f13SBarry Smith calculated if N is given) For square matrices n is almost always m. 2449273d9f13SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 2450273d9f13SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 2451273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2452273d9f13SBarry Smith (same value is used for all local rows) 2453273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2454273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2455273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2456273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2457273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2458273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2459273d9f13SBarry Smith submatrix (same value is used for all local rows). 2460273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2461273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2462273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2463273d9f13SBarry Smith structure. The size of this array is equal to the number 2464273d9f13SBarry Smith of local rows, i.e 'm'. 2465273d9f13SBarry Smith 2466273d9f13SBarry Smith Output Parameter: 2467273d9f13SBarry Smith . A - the matrix 2468273d9f13SBarry Smith 2469273d9f13SBarry Smith Notes: 247049a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 247149a6f317SBarry Smith 2472273d9f13SBarry Smith m,n,M,N parameters specify the size of the matrix, and its partitioning across 2473273d9f13SBarry Smith processors, while d_nz,d_nnz,o_nz,o_nnz parameters specify the approximate 2474273d9f13SBarry Smith storage requirements for this matrix. 2475273d9f13SBarry Smith 2476273d9f13SBarry Smith If PETSC_DECIDE or PETSC_DETERMINE is used for a particular argument on one 2477273d9f13SBarry Smith processor than it must be used on all processors that share the object for 2478273d9f13SBarry Smith that argument. 2479273d9f13SBarry Smith 2480273d9f13SBarry Smith The user MUST specify either the local or global matrix dimensions 2481273d9f13SBarry Smith (possibly both). 2482273d9f13SBarry Smith 2483273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2484273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2485273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2486273d9f13SBarry Smith 2487273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2488273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2489273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2490273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2491273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2492273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2493273d9f13SBarry Smith 2494273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2495273d9f13SBarry Smith 249697d05335SKris Buschelman When calling this routine with a single process communicator, a matrix of 249797d05335SKris Buschelman type SEQAIJ is returned. If a matrix of type MPIAIJ is desired for this 249897d05335SKris Buschelman type of communicator, use the construction mechanism: 249997d05335SKris Buschelman MatCreate(...,&A); MatSetType(A,MPIAIJ); MatMPIAIJSetPreallocation(A,...); 250097d05335SKris Buschelman 2501273d9f13SBarry Smith By default, this format uses inodes (identical nodes) when possible. 2502273d9f13SBarry Smith We search for consecutive rows with the same nonzero structure, thereby 2503273d9f13SBarry Smith reusing matrix information to achieve increased efficiency. 2504273d9f13SBarry Smith 2505273d9f13SBarry Smith Options Database Keys: 2506273d9f13SBarry Smith + -mat_aij_no_inode - Do not use inodes 2507273d9f13SBarry Smith . -mat_aij_inode_limit <limit> - Sets inode limit (max limit=5) 2508273d9f13SBarry Smith - -mat_aij_oneindex - Internally use indexing starting at 1 2509273d9f13SBarry Smith rather than 0. Note that when calling MatSetValues(), 2510273d9f13SBarry Smith the user still MUST index entries starting at 0! 2511273d9f13SBarry Smith 2512273d9f13SBarry Smith 2513273d9f13SBarry Smith Example usage: 2514273d9f13SBarry Smith 2515273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2516273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2517273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2518273d9f13SBarry Smith as follows: 2519273d9f13SBarry Smith 2520273d9f13SBarry Smith .vb 2521273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2522273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2523273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2524273d9f13SBarry Smith ------------------------------------- 2525273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2526273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2527273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2528273d9f13SBarry Smith ------------------------------------- 2529273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2530273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2531273d9f13SBarry Smith .ve 2532273d9f13SBarry Smith 2533273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2534273d9f13SBarry Smith 2535273d9f13SBarry Smith .vb 2536273d9f13SBarry Smith A B C 2537273d9f13SBarry Smith D E F 2538273d9f13SBarry Smith G H I 2539273d9f13SBarry Smith .ve 2540273d9f13SBarry Smith 2541273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2542273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2543273d9f13SBarry Smith 2544273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2545273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2546273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2547273d9f13SBarry Smith 2548273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2549273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2550273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2551273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2552273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2553273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2554273d9f13SBarry Smith 2555273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2556273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2557273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2558273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2559273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2560273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2561273d9f13SBarry Smith .vb 2562273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2563273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2564273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2565273d9f13SBarry Smith .ve 2566273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2567273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2568273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2569273d9f13SBarry Smith 34 values. 2570273d9f13SBarry Smith 2571273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2572273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2573273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2574273d9f13SBarry Smith .vb 2575273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2576273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2577273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2578273d9f13SBarry Smith .ve 2579273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2580273d9f13SBarry Smith hence pre-allocation is perfect. 2581273d9f13SBarry Smith 2582273d9f13SBarry Smith Level: intermediate 2583273d9f13SBarry Smith 2584273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2585273d9f13SBarry Smith 2586ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 2587ccd8e176SBarry Smith MPIAIJ 2588273d9f13SBarry Smith @*/ 2589b1d57f15SBarry Smith PetscErrorCode MatCreateMPIAIJ(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[],Mat *A) 2590273d9f13SBarry Smith { 25916849ba73SBarry Smith PetscErrorCode ierr; 2592b1d57f15SBarry Smith PetscMPIInt size; 2593273d9f13SBarry Smith 2594273d9f13SBarry Smith PetscFunctionBegin; 2595273d9f13SBarry Smith ierr = MatCreate(comm,m,n,M,N,A);CHKERRQ(ierr); 2596273d9f13SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 2597273d9f13SBarry Smith if (size > 1) { 2598273d9f13SBarry Smith ierr = MatSetType(*A,MATMPIAIJ);CHKERRQ(ierr); 2599273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(*A,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2600273d9f13SBarry Smith } else { 2601273d9f13SBarry Smith ierr = MatSetType(*A,MATSEQAIJ);CHKERRQ(ierr); 2602273d9f13SBarry Smith ierr = MatSeqAIJSetPreallocation(*A,d_nz,d_nnz);CHKERRQ(ierr); 2603273d9f13SBarry Smith } 2604273d9f13SBarry Smith PetscFunctionReturn(0); 2605273d9f13SBarry Smith } 2606195d93cdSBarry Smith 26074a2ae208SSatish Balay #undef __FUNCT__ 26084a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJGetSeqAIJ" 2609b1d57f15SBarry Smith PetscErrorCode MatMPIAIJGetSeqAIJ(Mat A,Mat *Ad,Mat *Ao,PetscInt *colmap[]) 2610195d93cdSBarry Smith { 2611195d93cdSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2612b1d57f15SBarry Smith 2613195d93cdSBarry Smith PetscFunctionBegin; 2614195d93cdSBarry Smith *Ad = a->A; 2615195d93cdSBarry Smith *Ao = a->B; 2616195d93cdSBarry Smith *colmap = a->garray; 2617195d93cdSBarry Smith PetscFunctionReturn(0); 2618195d93cdSBarry Smith } 2619a2243be0SBarry Smith 2620a2243be0SBarry Smith #undef __FUNCT__ 2621a2243be0SBarry Smith #define __FUNCT__ "MatSetColoring_MPIAIJ" 2622dfbe8321SBarry Smith PetscErrorCode MatSetColoring_MPIAIJ(Mat A,ISColoring coloring) 2623a2243be0SBarry Smith { 2624dfbe8321SBarry Smith PetscErrorCode ierr; 2625b1d57f15SBarry Smith PetscInt i; 2626a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2627a2243be0SBarry Smith 2628a2243be0SBarry Smith PetscFunctionBegin; 2629a2243be0SBarry Smith if (coloring->ctype == IS_COLORING_LOCAL) { 263008b6dcc0SBarry Smith ISColoringValue *allcolors,*colors; 2631a2243be0SBarry Smith ISColoring ocoloring; 2632a2243be0SBarry Smith 2633a2243be0SBarry Smith /* set coloring for diagonal portion */ 2634a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,coloring);CHKERRQ(ierr); 2635a2243be0SBarry Smith 2636a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 263708b6dcc0SBarry Smith ierr = ISAllGatherColors(A->comm,coloring->n,coloring->colors,PETSC_NULL,&allcolors);CHKERRQ(ierr); 263808b6dcc0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2639a2243be0SBarry Smith for (i=0; i<a->B->n; i++) { 2640a2243be0SBarry Smith colors[i] = allcolors[a->garray[i]]; 2641a2243be0SBarry Smith } 2642a2243be0SBarry Smith ierr = PetscFree(allcolors);CHKERRQ(ierr); 2643a2243be0SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr); 2644a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2645a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2646a2243be0SBarry Smith } else if (coloring->ctype == IS_COLORING_GHOSTED) { 264708b6dcc0SBarry Smith ISColoringValue *colors; 2648b1d57f15SBarry Smith PetscInt *larray; 2649a2243be0SBarry Smith ISColoring ocoloring; 2650a2243be0SBarry Smith 2651a2243be0SBarry Smith /* set coloring for diagonal portion */ 2652b1d57f15SBarry Smith ierr = PetscMalloc((a->A->n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 2653a2243be0SBarry Smith for (i=0; i<a->A->n; i++) { 2654a2243be0SBarry Smith larray[i] = i + a->cstart; 2655a2243be0SBarry Smith } 2656a2243be0SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->A->n,larray,PETSC_NULL,larray);CHKERRQ(ierr); 265708b6dcc0SBarry Smith ierr = PetscMalloc((a->A->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2658a2243be0SBarry Smith for (i=0; i<a->A->n; i++) { 2659a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2660a2243be0SBarry Smith } 2661a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 266212c595b3SBarry Smith ierr = ISColoringCreate(PETSC_COMM_SELF,a->A->n,colors,&ocoloring);CHKERRQ(ierr); 2663a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,ocoloring);CHKERRQ(ierr); 2664a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2665a2243be0SBarry Smith 2666a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 2667b1d57f15SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 2668a2243be0SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->B->n,a->garray,PETSC_NULL,larray);CHKERRQ(ierr); 266908b6dcc0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2670a2243be0SBarry Smith for (i=0; i<a->B->n; i++) { 2671a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2672a2243be0SBarry Smith } 2673a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 2674a2243be0SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr); 2675a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2676a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2677a2243be0SBarry Smith } else { 267877431f27SBarry Smith SETERRQ1(PETSC_ERR_SUP,"No support ISColoringType %d",(int)coloring->ctype); 2679a2243be0SBarry Smith } 2680a2243be0SBarry Smith 2681a2243be0SBarry Smith PetscFunctionReturn(0); 2682a2243be0SBarry Smith } 2683a2243be0SBarry Smith 2684dcf5cc72SBarry Smith #if defined(PETSC_HAVE_ADIC) 2685a2243be0SBarry Smith #undef __FUNCT__ 2686779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdic_MPIAIJ" 2687dfbe8321SBarry Smith PetscErrorCode MatSetValuesAdic_MPIAIJ(Mat A,void *advalues) 2688a2243be0SBarry Smith { 2689a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2690dfbe8321SBarry Smith PetscErrorCode ierr; 2691a2243be0SBarry Smith 2692a2243be0SBarry Smith PetscFunctionBegin; 2693779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->A,advalues);CHKERRQ(ierr); 2694779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->B,advalues);CHKERRQ(ierr); 2695779c1a83SBarry Smith PetscFunctionReturn(0); 2696779c1a83SBarry Smith } 2697dcf5cc72SBarry Smith #endif 2698779c1a83SBarry Smith 2699779c1a83SBarry Smith #undef __FUNCT__ 2700779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdifor_MPIAIJ" 2701b1d57f15SBarry Smith PetscErrorCode MatSetValuesAdifor_MPIAIJ(Mat A,PetscInt nl,void *advalues) 2702779c1a83SBarry Smith { 2703779c1a83SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2704dfbe8321SBarry Smith PetscErrorCode ierr; 2705779c1a83SBarry Smith 2706779c1a83SBarry Smith PetscFunctionBegin; 2707779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->A,nl,advalues);CHKERRQ(ierr); 2708779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->B,nl,advalues);CHKERRQ(ierr); 2709a2243be0SBarry Smith PetscFunctionReturn(0); 2710a2243be0SBarry Smith } 2711c5d6d63eSBarry Smith 2712c5d6d63eSBarry Smith #undef __FUNCT__ 271351dd7536SBarry Smith #define __FUNCT__ "MatMerge" 2714c5d6d63eSBarry Smith /*@C 271551dd7536SBarry Smith MatMerge - Creates a single large PETSc matrix by concatinating sequential 271651dd7536SBarry Smith matrices from each processor 2717c5d6d63eSBarry Smith 2718c5d6d63eSBarry Smith Collective on MPI_Comm 2719c5d6d63eSBarry Smith 2720c5d6d63eSBarry Smith Input Parameters: 272151dd7536SBarry Smith + comm - the communicators the parallel matrix will live on 2722d6bb3c2dSHong Zhang . inmat - the input sequential matrices 27230e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 2724d6bb3c2dSHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 272551dd7536SBarry Smith 272651dd7536SBarry Smith Output Parameter: 272751dd7536SBarry Smith . outmat - the parallel matrix generated 2728c5d6d63eSBarry Smith 27297e25d530SSatish Balay Level: advanced 27307e25d530SSatish Balay 2731f08fae4eSHong Zhang Notes: The number of columns of the matrix in EACH processor MUST be the same. 2732c5d6d63eSBarry Smith 2733c5d6d63eSBarry Smith @*/ 27340e36024fSHong Zhang PetscErrorCode MatMerge(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat) 2735c5d6d63eSBarry Smith { 2736dfbe8321SBarry Smith PetscErrorCode ierr; 2737b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz,I,*dnz,*onz; 2738ba8c8a56SBarry Smith PetscInt *indx; 2739ba8c8a56SBarry Smith PetscScalar *values; 274051dd7536SBarry Smith PetscMap columnmap,rowmap; 2741c5d6d63eSBarry Smith 2742c5d6d63eSBarry Smith PetscFunctionBegin; 27430e36024fSHong Zhang ierr = MatGetSize(inmat,&m,&N);CHKERRQ(ierr); 27442257cef7SHong Zhang /* 27452257cef7SHong Zhang PetscMPIInt rank; 27462257cef7SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 274755d1abb9SHong Zhang ierr = PetscPrintf(PETSC_COMM_SELF," [%d] inmat m=%d, n=%d, N=%d\n",rank,m,n,N); 274855d1abb9SHong Zhang */ 2749d6bb3c2dSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 2750d6bb3c2dSHong Zhang /* count nonzeros in each row, for diagonal and off diagonal portion of matrix */ 27510e36024fSHong Zhang if (n == PETSC_DECIDE){ 2752d6bb3c2dSHong Zhang ierr = PetscMapCreate(comm,&columnmap);CHKERRQ(ierr); 27530e36024fSHong Zhang ierr = PetscMapSetSize(columnmap,N);CHKERRQ(ierr); 2754d6bb3c2dSHong Zhang ierr = PetscMapSetType(columnmap,MAP_MPI);CHKERRQ(ierr); 2755d6bb3c2dSHong Zhang ierr = PetscMapGetLocalSize(columnmap,&n);CHKERRQ(ierr); 2756d6bb3c2dSHong Zhang ierr = PetscMapDestroy(columnmap);CHKERRQ(ierr); 27570e36024fSHong Zhang } 2758d6bb3c2dSHong Zhang 2759d6bb3c2dSHong Zhang ierr = PetscMapCreate(comm,&rowmap);CHKERRQ(ierr); 2760d6bb3c2dSHong Zhang ierr = PetscMapSetLocalSize(rowmap,m);CHKERRQ(ierr); 2761d6bb3c2dSHong Zhang ierr = PetscMapSetType(rowmap,MAP_MPI);CHKERRQ(ierr); 2762d6bb3c2dSHong Zhang ierr = PetscMapGetLocalRange(rowmap,&rstart,0);CHKERRQ(ierr); 2763d6bb3c2dSHong Zhang ierr = PetscMapDestroy(rowmap);CHKERRQ(ierr); 2764d6bb3c2dSHong Zhang 2765d6bb3c2dSHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 2766d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 2767ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 2768d6bb3c2dSHong Zhang ierr = MatPreallocateSet(i+rstart,nnz,indx,dnz,onz);CHKERRQ(ierr); 2769ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 2770d6bb3c2dSHong Zhang } 2771d6bb3c2dSHong Zhang /* This routine will ONLY return MPIAIJ type matrix */ 2772d6bb3c2dSHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,PETSC_DETERMINE,outmat);CHKERRQ(ierr); 2773d6bb3c2dSHong Zhang ierr = MatSetType(*outmat,MATMPIAIJ);CHKERRQ(ierr); 2774d6bb3c2dSHong Zhang ierr = MatMPIAIJSetPreallocation(*outmat,0,dnz,0,onz);CHKERRQ(ierr); 2775d6bb3c2dSHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 2776d6bb3c2dSHong Zhang 2777d6bb3c2dSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 2778d6bb3c2dSHong Zhang ierr = MatGetOwnershipRange(*outmat,&rstart,PETSC_NULL);CHKERRQ(ierr); 2779d6bb3c2dSHong Zhang } else { 278077431f27SBarry Smith SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 2781d6bb3c2dSHong Zhang } 2782d6bb3c2dSHong Zhang 2783d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 2784ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 2785d6bb3c2dSHong Zhang I = i + rstart; 2786906b51c7SHong Zhang ierr = MatSetValues(*outmat,1,&I,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 2787ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 2788d6bb3c2dSHong Zhang } 2789d6bb3c2dSHong Zhang ierr = MatDestroy(inmat);CHKERRQ(ierr); 2790d6bb3c2dSHong Zhang ierr = MatAssemblyBegin(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2791d6bb3c2dSHong Zhang ierr = MatAssemblyEnd(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 279251dd7536SBarry Smith 2793c5d6d63eSBarry Smith PetscFunctionReturn(0); 2794c5d6d63eSBarry Smith } 2795c5d6d63eSBarry Smith 2796c5d6d63eSBarry Smith #undef __FUNCT__ 2797c5d6d63eSBarry Smith #define __FUNCT__ "MatFileSplit" 2798dfbe8321SBarry Smith PetscErrorCode MatFileSplit(Mat A,char *outfile) 2799c5d6d63eSBarry Smith { 2800dfbe8321SBarry Smith PetscErrorCode ierr; 280132dcc486SBarry Smith PetscMPIInt rank; 2802b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz; 2803de4209c5SBarry Smith size_t len; 2804b1d57f15SBarry Smith const PetscInt *indx; 2805c5d6d63eSBarry Smith PetscViewer out; 2806c5d6d63eSBarry Smith char *name; 2807c5d6d63eSBarry Smith Mat B; 2808b3cc6726SBarry Smith const PetscScalar *values; 2809c5d6d63eSBarry Smith 2810c5d6d63eSBarry Smith PetscFunctionBegin; 2811c5d6d63eSBarry Smith ierr = MatGetLocalSize(A,&m,0);CHKERRQ(ierr); 2812c5d6d63eSBarry Smith ierr = MatGetSize(A,0,&N);CHKERRQ(ierr); 2813f204ca49SKris Buschelman /* Should this be the type of the diagonal block of A? */ 2814f204ca49SKris Buschelman ierr = MatCreate(PETSC_COMM_SELF,m,N,m,N,&B);CHKERRQ(ierr); 2815f204ca49SKris Buschelman ierr = MatSetType(B,MATSEQAIJ);CHKERRQ(ierr); 2816f204ca49SKris Buschelman ierr = MatSeqAIJSetPreallocation(B,0,PETSC_NULL);CHKERRQ(ierr); 2817c5d6d63eSBarry Smith ierr = MatGetOwnershipRange(A,&rstart,0);CHKERRQ(ierr); 2818c5d6d63eSBarry Smith for (i=0;i<m;i++) { 2819c5d6d63eSBarry Smith ierr = MatGetRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 2820c5d6d63eSBarry Smith ierr = MatSetValues(B,1,&i,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 2821c5d6d63eSBarry Smith ierr = MatRestoreRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 2822c5d6d63eSBarry Smith } 2823c5d6d63eSBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2824c5d6d63eSBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2825c5d6d63eSBarry Smith 2826c5d6d63eSBarry Smith ierr = MPI_Comm_rank(A->comm,&rank);CHKERRQ(ierr); 2827c5d6d63eSBarry Smith ierr = PetscStrlen(outfile,&len);CHKERRQ(ierr); 2828c5d6d63eSBarry Smith ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr); 2829c5d6d63eSBarry Smith sprintf(name,"%s.%d",outfile,rank); 283045f7d322SBarry Smith ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,PETSC_FILE_CREATE,&out);CHKERRQ(ierr); 2831c5d6d63eSBarry Smith ierr = PetscFree(name); 2832c5d6d63eSBarry Smith ierr = MatView(B,out);CHKERRQ(ierr); 2833c5d6d63eSBarry Smith ierr = PetscViewerDestroy(out);CHKERRQ(ierr); 2834c5d6d63eSBarry Smith ierr = MatDestroy(B);CHKERRQ(ierr); 2835c5d6d63eSBarry Smith PetscFunctionReturn(0); 2836c5d6d63eSBarry Smith } 2837e5f2cdd8SHong Zhang 283851a7d1a8SHong Zhang EXTERN PetscErrorCode MatDestroy_MPIAIJ(Mat); 283951a7d1a8SHong Zhang #undef __FUNCT__ 284051a7d1a8SHong Zhang #define __FUNCT__ "MatDestroy_MPIAIJ_SeqsToMPI" 284151a7d1a8SHong Zhang PetscErrorCode MatDestroy_MPIAIJ_SeqsToMPI(Mat A) 284251a7d1a8SHong Zhang { 284351a7d1a8SHong Zhang PetscErrorCode ierr; 2844671beff6SHong Zhang Mat_Merge_SeqsToMPI *merge; 2845671beff6SHong Zhang PetscObjectContainer container; 284651a7d1a8SHong Zhang 284751a7d1a8SHong Zhang PetscFunctionBegin; 2848671beff6SHong Zhang ierr = PetscObjectQuery((PetscObject)A,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 2849671beff6SHong Zhang if (container) { 28507f79fd58SMatthew Knepley ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 285151a7d1a8SHong Zhang ierr = PetscFree(merge->id_r);CHKERRQ(ierr); 28523e06a4e6SHong Zhang ierr = PetscFree(merge->len_s);CHKERRQ(ierr); 28533e06a4e6SHong Zhang ierr = PetscFree(merge->len_r);CHKERRQ(ierr); 285451a7d1a8SHong Zhang ierr = PetscFree(merge->bi);CHKERRQ(ierr); 285551a7d1a8SHong Zhang ierr = PetscFree(merge->bj);CHKERRQ(ierr); 285602c68681SHong Zhang ierr = PetscFree(merge->buf_ri);CHKERRQ(ierr); 285702c68681SHong Zhang ierr = PetscFree(merge->buf_rj);CHKERRQ(ierr); 285851a7d1a8SHong Zhang ierr = PetscMapDestroy(merge->rowmap);CHKERRQ(ierr); 2859de0260b3SHong Zhang if (merge->coi){ierr = PetscFree(merge->coi);CHKERRQ(ierr);} 2860de0260b3SHong Zhang if (merge->coj){ierr = PetscFree(merge->coj);CHKERRQ(ierr);} 2861de0260b3SHong Zhang if (merge->owners_co){ierr = PetscFree(merge->owners_co);CHKERRQ(ierr);} 2862671beff6SHong Zhang 2863671beff6SHong Zhang ierr = PetscObjectContainerDestroy(container);CHKERRQ(ierr); 2864671beff6SHong Zhang ierr = PetscObjectCompose((PetscObject)A,"MatMergeSeqsToMPI",0);CHKERRQ(ierr); 2865671beff6SHong Zhang } 286651a7d1a8SHong Zhang ierr = PetscFree(merge);CHKERRQ(ierr); 286751a7d1a8SHong Zhang 286851a7d1a8SHong Zhang ierr = MatDestroy_MPIAIJ(A);CHKERRQ(ierr); 286951a7d1a8SHong Zhang PetscFunctionReturn(0); 287051a7d1a8SHong Zhang } 287151a7d1a8SHong Zhang 287258cb9c82SHong Zhang #include "src/mat/utils/freespace.h" 2873be0fcf8dSHong Zhang #include "petscbt.h" 2874e5f2cdd8SHong Zhang #undef __FUNCT__ 2875e5f2cdd8SHong Zhang #define __FUNCT__ "MatMerge_SeqsToMPI" 2876e5f2cdd8SHong Zhang /*@C 2877f08fae4eSHong Zhang MatMerge_SeqsToMPI - Creates a MPIAIJ matrix by adding sequential 2878e5f2cdd8SHong Zhang matrices from each processor 2879e5f2cdd8SHong Zhang 2880e5f2cdd8SHong Zhang Collective on MPI_Comm 2881e5f2cdd8SHong Zhang 2882e5f2cdd8SHong Zhang Input Parameters: 2883e5f2cdd8SHong Zhang + comm - the communicators the parallel matrix will live on 2884f08fae4eSHong Zhang . seqmat - the input sequential matrices 28850e36024fSHong Zhang . m - number of local rows (or PETSC_DECIDE) 28860e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 2887e5f2cdd8SHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 2888e5f2cdd8SHong Zhang 2889e5f2cdd8SHong Zhang Output Parameter: 2890f08fae4eSHong Zhang . mpimat - the parallel matrix generated 2891e5f2cdd8SHong Zhang 2892e5f2cdd8SHong Zhang Level: advanced 2893e5f2cdd8SHong Zhang 2894affca5deSHong Zhang Notes: 2895affca5deSHong Zhang The dimensions of the sequential matrix in each processor MUST be the same. 2896affca5deSHong Zhang The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be 2897affca5deSHong Zhang destroyed when mpimat is destroyed. Call PetscObjectQuery() to access seqmat. 2898e5f2cdd8SHong Zhang @*/ 28993c2c1871SHong Zhang static PetscEvent logkey_seqstompinum = 0; 290055d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPINumeric(Mat seqmat,Mat mpimat) 290155d1abb9SHong Zhang { 290255d1abb9SHong Zhang PetscErrorCode ierr; 290355d1abb9SHong Zhang MPI_Comm comm=mpimat->comm; 290455d1abb9SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 2905b1d57f15SBarry Smith PetscMPIInt size,rank,taga,*len_s; 2906b1d57f15SBarry Smith PetscInt N=mpimat->N,i,j,*owners,*ai=a->i,*aj=a->j; 2907b1d57f15SBarry Smith PetscInt proc,m; 2908b1d57f15SBarry Smith PetscInt **buf_ri,**buf_rj; 2909b1d57f15SBarry Smith PetscInt k,anzi,*bj_i,*bi,*bj,arow,bnzi,nextaj; 2910b1d57f15SBarry Smith PetscInt nrows,**buf_ri_k,**nextrow,**nextai; 291155d1abb9SHong Zhang MPI_Request *s_waits,*r_waits; 291255d1abb9SHong Zhang MPI_Status *status; 2913ce805ee4SHong Zhang MatScalar *aa=a->a,**abuf_r,*ba_i; 291455d1abb9SHong Zhang Mat_Merge_SeqsToMPI *merge; 291555d1abb9SHong Zhang PetscObjectContainer container; 291655d1abb9SHong Zhang 291755d1abb9SHong Zhang PetscFunctionBegin; 29183c2c1871SHong Zhang if (!logkey_seqstompinum) { 29193c2c1871SHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompinum,"MatMerge_SeqsToMPINumeric",MAT_COOKIE); 29203c2c1871SHong Zhang } 29213c2c1871SHong Zhang ierr = PetscLogEventBegin(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 29223c2c1871SHong Zhang 292355d1abb9SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 292455d1abb9SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 292555d1abb9SHong Zhang 292655d1abb9SHong Zhang ierr = PetscObjectQuery((PetscObject)mpimat,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 292755d1abb9SHong Zhang if (container) { 292855d1abb9SHong Zhang ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 292955d1abb9SHong Zhang } 293055d1abb9SHong Zhang bi = merge->bi; 293155d1abb9SHong Zhang bj = merge->bj; 293255d1abb9SHong Zhang buf_ri = merge->buf_ri; 293355d1abb9SHong Zhang buf_rj = merge->buf_rj; 293455d1abb9SHong Zhang 293555d1abb9SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 293655d1abb9SHong Zhang ierr = PetscMapGetGlobalRange(merge->rowmap,&owners);CHKERRQ(ierr); 293755d1abb9SHong Zhang len_s = merge->len_s; 293855d1abb9SHong Zhang 293955d1abb9SHong Zhang /* send and recv matrix values */ 294055d1abb9SHong Zhang /*-----------------------------*/ 294155d1abb9SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&taga);CHKERRQ(ierr); 294255d1abb9SHong Zhang ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr); 294355d1abb9SHong Zhang 294455d1abb9SHong Zhang ierr = PetscMalloc((merge->nsend+1)*sizeof(MPI_Request),&s_waits);CHKERRQ(ierr); 294555d1abb9SHong Zhang for (proc=0,k=0; proc<size; proc++){ 294655d1abb9SHong Zhang if (!len_s[proc]) continue; 294755d1abb9SHong Zhang i = owners[proc]; 294855d1abb9SHong Zhang ierr = MPI_Isend(aa+ai[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRQ(ierr); 294955d1abb9SHong Zhang k++; 295055d1abb9SHong Zhang } 295155d1abb9SHong Zhang 295255d1abb9SHong Zhang ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRQ(ierr); 295355d1abb9SHong Zhang ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRQ(ierr); 295455d1abb9SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 295555d1abb9SHong Zhang 295655d1abb9SHong Zhang ierr = PetscFree(s_waits);CHKERRQ(ierr); 295755d1abb9SHong Zhang ierr = PetscFree(r_waits);CHKERRQ(ierr); 295855d1abb9SHong Zhang 295955d1abb9SHong Zhang /* insert mat values of mpimat */ 296055d1abb9SHong Zhang /*----------------------------*/ 296155d1abb9SHong Zhang ierr = PetscMalloc(N*sizeof(MatScalar),&ba_i);CHKERRQ(ierr); 2962b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 296355d1abb9SHong Zhang nextrow = buf_ri_k + merge->nrecv; 296455d1abb9SHong Zhang nextai = nextrow + merge->nrecv; 296555d1abb9SHong Zhang 296655d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ 296755d1abb9SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 296855d1abb9SHong Zhang nrows = *(buf_ri_k[k]); 296955d1abb9SHong Zhang nextrow[k] = buf_ri_k[k]+1; /* next row number of k-th recved i-structure */ 297055d1abb9SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 297155d1abb9SHong Zhang } 297255d1abb9SHong Zhang 297355d1abb9SHong Zhang /* set values of ba */ 297455d1abb9SHong Zhang ierr = PetscMapGetLocalSize(merge->rowmap,&m);CHKERRQ(ierr); 297555d1abb9SHong Zhang for (i=0; i<m; i++) { 297655d1abb9SHong Zhang arow = owners[rank] + i; 297755d1abb9SHong Zhang bj_i = bj+bi[i]; /* col indices of the i-th row of mpimat */ 297855d1abb9SHong Zhang bnzi = bi[i+1] - bi[i]; 297955d1abb9SHong Zhang ierr = PetscMemzero(ba_i,bnzi*sizeof(MatScalar));CHKERRQ(ierr); 298055d1abb9SHong Zhang 298155d1abb9SHong Zhang /* add local non-zero vals of this proc's seqmat into ba */ 298255d1abb9SHong Zhang anzi = ai[arow+1] - ai[arow]; 298355d1abb9SHong Zhang aj = a->j + ai[arow]; 298455d1abb9SHong Zhang aa = a->a + ai[arow]; 298555d1abb9SHong Zhang nextaj = 0; 298655d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 298755d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 298855d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 298955d1abb9SHong Zhang } 299055d1abb9SHong Zhang } 299155d1abb9SHong Zhang 299255d1abb9SHong Zhang /* add received vals into ba */ 299355d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 299455d1abb9SHong Zhang /* i-th row */ 299555d1abb9SHong Zhang if (i == *nextrow[k]) { 299655d1abb9SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 299755d1abb9SHong Zhang aj = buf_rj[k] + *(nextai[k]); 299855d1abb9SHong Zhang aa = abuf_r[k] + *(nextai[k]); 299955d1abb9SHong Zhang nextaj = 0; 300055d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 300155d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 300255d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 300355d1abb9SHong Zhang } 300455d1abb9SHong Zhang } 300555d1abb9SHong Zhang nextrow[k]++; nextai[k]++; 300655d1abb9SHong Zhang } 300755d1abb9SHong Zhang } 300855d1abb9SHong Zhang ierr = MatSetValues(mpimat,1,&arow,bnzi,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr); 300955d1abb9SHong Zhang } 301055d1abb9SHong Zhang ierr = MatAssemblyBegin(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 301155d1abb9SHong Zhang ierr = MatAssemblyEnd(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 301255d1abb9SHong Zhang 301355d1abb9SHong Zhang ierr = PetscFree(abuf_r);CHKERRQ(ierr); 301455d1abb9SHong Zhang ierr = PetscFree(ba_i);CHKERRQ(ierr); 301555d1abb9SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 30163c2c1871SHong Zhang ierr = PetscLogEventEnd(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 301755d1abb9SHong Zhang PetscFunctionReturn(0); 301855d1abb9SHong Zhang } 30193c2c1871SHong Zhang static PetscEvent logkey_seqstompisym = 0; 302055d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPISymbolic(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,Mat *mpimat) 3021e5f2cdd8SHong Zhang { 3022f08fae4eSHong Zhang PetscErrorCode ierr; 302355a3bba9SHong Zhang Mat B_mpi; 3024c2234fe3SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 3025b1d57f15SBarry Smith PetscMPIInt size,rank,tagi,tagj,*len_s,*len_si,*len_ri; 3026b1d57f15SBarry Smith PetscInt **buf_rj,**buf_ri,**buf_ri_k; 3027b1d57f15SBarry Smith PetscInt M=seqmat->m,N=seqmat->n,i,*owners,*ai=a->i,*aj=a->j; 3028b1d57f15SBarry Smith PetscInt len,proc,*dnz,*onz; 3029b1d57f15SBarry Smith PetscInt k,anzi,*bi,*bj,*lnk,nlnk,arow,bnzi,nspacedouble=0; 3030b1d57f15SBarry Smith PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextai; 303155d1abb9SHong Zhang MPI_Request *si_waits,*sj_waits,*ri_waits,*rj_waits; 303258cb9c82SHong Zhang MPI_Status *status; 303358cb9c82SHong Zhang FreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 3034be0fcf8dSHong Zhang PetscBT lnkbt; 303551a7d1a8SHong Zhang Mat_Merge_SeqsToMPI *merge; 3036671beff6SHong Zhang PetscObjectContainer container; 303702c68681SHong Zhang 3038e5f2cdd8SHong Zhang PetscFunctionBegin; 30393c2c1871SHong Zhang if (!logkey_seqstompisym) { 30403c2c1871SHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompisym,"MatMerge_SeqsToMPISymbolic",MAT_COOKIE); 30413c2c1871SHong Zhang } 30423c2c1871SHong Zhang ierr = PetscLogEventBegin(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 30433c2c1871SHong Zhang 3044e5f2cdd8SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3045e5f2cdd8SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 304655d1abb9SHong Zhang 304751a7d1a8SHong Zhang ierr = PetscNew(Mat_Merge_SeqsToMPI,&merge);CHKERRQ(ierr); 3048c2234fe3SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 3049e5f2cdd8SHong Zhang 30506abd8857SHong Zhang /* determine row ownership */ 3051f08fae4eSHong Zhang /*---------------------------------------------------------*/ 305251a7d1a8SHong Zhang ierr = PetscMapCreate(comm,&merge->rowmap);CHKERRQ(ierr); 30530e36024fSHong Zhang if (m == PETSC_DECIDE) { 305451a7d1a8SHong Zhang ierr = PetscMapSetSize(merge->rowmap,M);CHKERRQ(ierr); 30550e36024fSHong Zhang } else { 30560e36024fSHong Zhang ierr = PetscMapSetLocalSize(merge->rowmap,m);CHKERRQ(ierr); 30570e36024fSHong Zhang } 305851a7d1a8SHong Zhang ierr = PetscMapSetType(merge->rowmap,MAP_MPI);CHKERRQ(ierr); 3059b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&len_si);CHKERRQ(ierr); 3060b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&merge->len_s);CHKERRQ(ierr); 306155d1abb9SHong Zhang 306255d1abb9SHong Zhang if (m == PETSC_DECIDE) {ierr = PetscMapGetLocalSize(merge->rowmap,&m);CHKERRQ(ierr); } 306351a7d1a8SHong Zhang ierr = PetscMapGetGlobalRange(merge->rowmap,&owners);CHKERRQ(ierr); 30646abd8857SHong Zhang 30656abd8857SHong Zhang /* determine the number of messages to send, their lengths */ 30666abd8857SHong Zhang /*---------------------------------------------------------*/ 30673e06a4e6SHong Zhang len_s = merge->len_s; 306851a7d1a8SHong Zhang 30692257cef7SHong Zhang len = 0; /* length of buf_si[] */ 3070c2234fe3SHong Zhang merge->nsend = 0; 3071409913e3SHong Zhang for (proc=0; proc<size; proc++){ 30722257cef7SHong Zhang len_si[proc] = 0; 30733e06a4e6SHong Zhang if (proc == rank){ 30746abd8857SHong Zhang len_s[proc] = 0; 30753e06a4e6SHong Zhang } else { 307602c68681SHong Zhang len_si[proc] = owners[proc+1] - owners[proc] + 1; 30773e06a4e6SHong Zhang len_s[proc] = ai[owners[proc+1]] - ai[owners[proc]]; /* num of rows to be sent to [proc] */ 30783e06a4e6SHong Zhang } 30793e06a4e6SHong Zhang if (len_s[proc]) { 3080c2234fe3SHong Zhang merge->nsend++; 30812257cef7SHong Zhang nrows = 0; 30822257cef7SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 30832257cef7SHong Zhang if (ai[i+1] > ai[i]) nrows++; 30842257cef7SHong Zhang } 30852257cef7SHong Zhang len_si[proc] = 2*(nrows+1); 30862257cef7SHong Zhang len += len_si[proc]; 3087409913e3SHong Zhang } 308858cb9c82SHong Zhang } 3089409913e3SHong Zhang 30902257cef7SHong Zhang /* determine the number and length of messages to receive for ij-structure */ 30912257cef7SHong Zhang /*-------------------------------------------------------------------------*/ 309251a7d1a8SHong Zhang ierr = PetscGatherNumberOfMessages(comm,PETSC_NULL,len_s,&merge->nrecv);CHKERRQ(ierr); 309355d1abb9SHong Zhang ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr); 3094671beff6SHong Zhang 30953e06a4e6SHong Zhang /* post the Irecv of j-structure */ 30963e06a4e6SHong Zhang /*-------------------------------*/ 309702c68681SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&tagj);CHKERRQ(ierr); 30983e06a4e6SHong Zhang ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rj_waits);CHKERRQ(ierr); 309902c68681SHong Zhang 31003e06a4e6SHong Zhang /* post the Isend of j-structure */ 3101affca5deSHong Zhang /*--------------------------------*/ 31022257cef7SHong Zhang ierr = PetscMalloc((2*merge->nsend+1)*sizeof(MPI_Request),&si_waits);CHKERRQ(ierr); 310302c68681SHong Zhang sj_waits = si_waits + merge->nsend; 31043e06a4e6SHong Zhang 31052257cef7SHong Zhang for (proc=0, k=0; proc<size; proc++){ 3106409913e3SHong Zhang if (!len_s[proc]) continue; 310702c68681SHong Zhang i = owners[proc]; 3108b1d57f15SBarry Smith ierr = MPI_Isend(aj+ai[i],len_s[proc],MPIU_INT,proc,tagj,comm,sj_waits+k);CHKERRQ(ierr); 310951a7d1a8SHong Zhang k++; 311051a7d1a8SHong Zhang } 311151a7d1a8SHong Zhang 31123e06a4e6SHong Zhang /* receives and sends of j-structure are complete */ 31133e06a4e6SHong Zhang /*------------------------------------------------*/ 311402c68681SHong Zhang ierr = MPI_Waitall(merge->nrecv,rj_waits,status);CHKERRQ(ierr); 311502c68681SHong Zhang ierr = MPI_Waitall(merge->nsend,sj_waits,status);CHKERRQ(ierr); 311602c68681SHong Zhang 311702c68681SHong Zhang /* send and recv i-structure */ 311802c68681SHong Zhang /*---------------------------*/ 311902c68681SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&tagi);CHKERRQ(ierr); 312002c68681SHong Zhang ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&ri_waits);CHKERRQ(ierr); 312102c68681SHong Zhang 3122b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&buf_s);CHKERRQ(ierr); 31233e06a4e6SHong Zhang buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 31242257cef7SHong Zhang for (proc=0,k=0; proc<size; proc++){ 312502c68681SHong Zhang if (!len_s[proc]) continue; 31263e06a4e6SHong Zhang /* form outgoing message for i-structure: 31273e06a4e6SHong Zhang buf_si[0]: nrows to be sent 31283e06a4e6SHong Zhang [1:nrows]: row index (global) 31293e06a4e6SHong Zhang [nrows+1:2*nrows+1]: i-structure index 31303e06a4e6SHong Zhang */ 31313e06a4e6SHong Zhang /*-------------------------------------------*/ 31322257cef7SHong Zhang nrows = len_si[proc]/2 - 1; 31333e06a4e6SHong Zhang buf_si_i = buf_si + nrows+1; 31343e06a4e6SHong Zhang buf_si[0] = nrows; 31353e06a4e6SHong Zhang buf_si_i[0] = 0; 31363e06a4e6SHong Zhang nrows = 0; 31373e06a4e6SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 31383e06a4e6SHong Zhang anzi = ai[i+1] - ai[i]; 31393e06a4e6SHong Zhang if (anzi) { 31403e06a4e6SHong Zhang buf_si_i[nrows+1] = buf_si_i[nrows] + anzi; /* i-structure */ 31413e06a4e6SHong Zhang buf_si[nrows+1] = i-owners[proc]; /* local row index */ 31423e06a4e6SHong Zhang nrows++; 31433e06a4e6SHong Zhang } 31443e06a4e6SHong Zhang } 3145b1d57f15SBarry Smith ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,si_waits+k);CHKERRQ(ierr); 314602c68681SHong Zhang k++; 31472257cef7SHong Zhang buf_si += len_si[proc]; 314802c68681SHong Zhang } 31492257cef7SHong Zhang 315002c68681SHong Zhang ierr = MPI_Waitall(merge->nrecv,ri_waits,status);CHKERRQ(ierr); 315102c68681SHong Zhang ierr = MPI_Waitall(merge->nsend,si_waits,status);CHKERRQ(ierr); 315202c68681SHong Zhang 315377431f27SBarry Smith ierr = PetscLogInfo((PetscObject)(seqmat),"MatMerge_SeqsToMPI: nsend: %D, nrecv: %D\n",merge->nsend,merge->nrecv);CHKERRQ(ierr); 31543e06a4e6SHong Zhang for (i=0; i<merge->nrecv; i++){ 315577431f27SBarry Smith ierr = PetscLogInfo((PetscObject)(seqmat),"MatMerge_SeqsToMPI: recv len_ri=%D, len_rj=%D from [%D]\n",len_ri[i],merge->len_r[i],merge->id_r[i]);CHKERRQ(ierr); 31563e06a4e6SHong Zhang } 31573e06a4e6SHong Zhang 31583e06a4e6SHong Zhang ierr = PetscFree(len_si);CHKERRQ(ierr); 315902c68681SHong Zhang ierr = PetscFree(len_ri);CHKERRQ(ierr); 316002c68681SHong Zhang ierr = PetscFree(rj_waits);CHKERRQ(ierr); 31613e06a4e6SHong Zhang ierr = PetscFree(si_waits);CHKERRQ(ierr); 31622257cef7SHong Zhang ierr = PetscFree(ri_waits);CHKERRQ(ierr); 31633e06a4e6SHong Zhang ierr = PetscFree(buf_s);CHKERRQ(ierr); 3164bcc1bcd5SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 316558cb9c82SHong Zhang 3166bcc1bcd5SHong Zhang /* compute a local seq matrix in each processor */ 3167bcc1bcd5SHong Zhang /*----------------------------------------------*/ 316858cb9c82SHong Zhang /* allocate bi array and free space for accumulating nonzero column info */ 3169b1d57f15SBarry Smith ierr = PetscMalloc((m+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr); 317058cb9c82SHong Zhang bi[0] = 0; 317158cb9c82SHong Zhang 3172be0fcf8dSHong Zhang /* create and initialize a linked list */ 3173be0fcf8dSHong Zhang nlnk = N+1; 3174be0fcf8dSHong Zhang ierr = PetscLLCreate(N,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 317558cb9c82SHong Zhang 3176bcc1bcd5SHong Zhang /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */ 317758cb9c82SHong Zhang len = 0; 3178bcc1bcd5SHong Zhang len = ai[owners[rank+1]] - ai[owners[rank]]; 3179b1d57f15SBarry Smith ierr = GetMoreSpace((PetscInt)(2*len+1),&free_space);CHKERRQ(ierr); 318058cb9c82SHong Zhang current_space = free_space; 318158cb9c82SHong Zhang 3182bcc1bcd5SHong Zhang /* determine symbolic info for each local row */ 3183b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 31843e06a4e6SHong Zhang nextrow = buf_ri_k + merge->nrecv; 31853e06a4e6SHong Zhang nextai = nextrow + merge->nrecv; 31863e06a4e6SHong Zhang for (k=0; k<merge->nrecv; k++){ 31872257cef7SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 31883e06a4e6SHong Zhang nrows = *buf_ri_k[k]; 31893e06a4e6SHong Zhang nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 31902257cef7SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 31913e06a4e6SHong Zhang } 31922257cef7SHong Zhang 3193bcc1bcd5SHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 3194bcc1bcd5SHong Zhang len = 0; 319558cb9c82SHong Zhang for (i=0;i<m;i++) { 319658cb9c82SHong Zhang bnzi = 0; 319758cb9c82SHong Zhang /* add local non-zero cols of this proc's seqmat into lnk */ 319858cb9c82SHong Zhang arow = owners[rank] + i; 319958cb9c82SHong Zhang anzi = ai[arow+1] - ai[arow]; 320058cb9c82SHong Zhang aj = a->j + ai[arow]; 3201be0fcf8dSHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 320258cb9c82SHong Zhang bnzi += nlnk; 320358cb9c82SHong Zhang /* add received col data into lnk */ 320451a7d1a8SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 320555d1abb9SHong Zhang if (i == *nextrow[k]) { /* i-th row */ 32063e06a4e6SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 32073e06a4e6SHong Zhang aj = buf_rj[k] + *nextai[k]; 32083e06a4e6SHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 32093e06a4e6SHong Zhang bnzi += nlnk; 32103e06a4e6SHong Zhang nextrow[k]++; nextai[k]++; 32113e06a4e6SHong Zhang } 321258cb9c82SHong Zhang } 3213bcc1bcd5SHong Zhang if (len < bnzi) len = bnzi; /* =max(bnzi) */ 321458cb9c82SHong Zhang 321558cb9c82SHong Zhang /* if free space is not available, make more free space */ 321658cb9c82SHong Zhang if (current_space->local_remaining<bnzi) { 321758cb9c82SHong Zhang ierr = GetMoreSpace(current_space->total_array_size,¤t_space);CHKERRQ(ierr); 321858cb9c82SHong Zhang nspacedouble++; 321958cb9c82SHong Zhang } 322058cb9c82SHong Zhang /* copy data into free space, then initialize lnk */ 3221be0fcf8dSHong Zhang ierr = PetscLLClean(N,N,bnzi,lnk,current_space->array,lnkbt);CHKERRQ(ierr); 3222bcc1bcd5SHong Zhang ierr = MatPreallocateSet(i+owners[rank],bnzi,current_space->array,dnz,onz);CHKERRQ(ierr); 3223bcc1bcd5SHong Zhang 322458cb9c82SHong Zhang current_space->array += bnzi; 322558cb9c82SHong Zhang current_space->local_used += bnzi; 322658cb9c82SHong Zhang current_space->local_remaining -= bnzi; 322758cb9c82SHong Zhang 322858cb9c82SHong Zhang bi[i+1] = bi[i] + bnzi; 322958cb9c82SHong Zhang } 3230bcc1bcd5SHong Zhang 3231bcc1bcd5SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 3232bcc1bcd5SHong Zhang 3233b1d57f15SBarry Smith ierr = PetscMalloc((bi[m]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr); 323458cb9c82SHong Zhang ierr = MakeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 3235be0fcf8dSHong Zhang ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 3236409913e3SHong Zhang 3237bcc1bcd5SHong Zhang /* create symbolic parallel matrix B_mpi */ 3238bcc1bcd5SHong Zhang /*---------------------------------------*/ 323954b84b50SHong Zhang if (n==PETSC_DECIDE) { 324054b84b50SHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,N,&B_mpi);CHKERRQ(ierr); 324154b84b50SHong Zhang } else { 3242bcc1bcd5SHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,PETSC_DETERMINE,&B_mpi);CHKERRQ(ierr); 324354b84b50SHong Zhang } 3244bcc1bcd5SHong Zhang ierr = MatSetType(B_mpi,MATMPIAIJ);CHKERRQ(ierr); 3245bcc1bcd5SHong Zhang ierr = MatMPIAIJSetPreallocation(B_mpi,0,dnz,0,onz);CHKERRQ(ierr); 3246bcc1bcd5SHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 324758cb9c82SHong Zhang 32486abd8857SHong Zhang /* B_mpi is not ready for use - assembly will be done by MatMerge_SeqsToMPINumeric() */ 32496abd8857SHong Zhang B_mpi->assembled = PETSC_FALSE; 3250affca5deSHong Zhang B_mpi->ops->destroy = MatDestroy_MPIAIJ_SeqsToMPI; 3251affca5deSHong Zhang merge->bi = bi; 3252affca5deSHong Zhang merge->bj = bj; 325302c68681SHong Zhang merge->buf_ri = buf_ri; 325402c68681SHong Zhang merge->buf_rj = buf_rj; 3255de0260b3SHong Zhang merge->coi = PETSC_NULL; 3256de0260b3SHong Zhang merge->coj = PETSC_NULL; 3257de0260b3SHong Zhang merge->owners_co = PETSC_NULL; 3258affca5deSHong Zhang 3259affca5deSHong Zhang /* attach the supporting struct to B_mpi for reuse */ 3260affca5deSHong Zhang ierr = PetscObjectContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr); 3261affca5deSHong Zhang ierr = PetscObjectContainerSetPointer(container,merge);CHKERRQ(ierr); 3262affca5deSHong Zhang ierr = PetscObjectCompose((PetscObject)B_mpi,"MatMergeSeqsToMPI",(PetscObject)container);CHKERRQ(ierr); 3263affca5deSHong Zhang *mpimat = B_mpi; 32643c2c1871SHong Zhang ierr = PetscLogEventEnd(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 3265e5f2cdd8SHong Zhang PetscFunctionReturn(0); 3266e5f2cdd8SHong Zhang } 326725616d81SHong Zhang 3268e462e02cSHong Zhang static PetscEvent logkey_seqstompi = 0; 326955d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPI(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,MatReuse scall,Mat *mpimat) 327055d1abb9SHong Zhang { 327155d1abb9SHong Zhang PetscErrorCode ierr; 327255d1abb9SHong Zhang 327355d1abb9SHong Zhang PetscFunctionBegin; 3274e462e02cSHong Zhang if (!logkey_seqstompi) { 3275e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompi,"MatMerge_SeqsToMPI",MAT_COOKIE); 3276e462e02cSHong Zhang } 3277e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 327855d1abb9SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 327955d1abb9SHong Zhang ierr = MatMerge_SeqsToMPISymbolic(comm,seqmat,m,n,mpimat);CHKERRQ(ierr); 328055d1abb9SHong Zhang } 328155d1abb9SHong Zhang ierr = MatMerge_SeqsToMPINumeric(seqmat,*mpimat);CHKERRQ(ierr); 3282e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 328355d1abb9SHong Zhang PetscFunctionReturn(0); 328455d1abb9SHong Zhang } 3285a61c8c0fSHong Zhang static PetscEvent logkey_getlocalmat = 0; 328625616d81SHong Zhang #undef __FUNCT__ 328725616d81SHong Zhang #define __FUNCT__ "MatGetLocalMat" 328825616d81SHong Zhang /*@C 328932fba14fSHong Zhang MatGetLocalMat - Creates a SeqAIJ matrix by taking all its local rows 329025616d81SHong Zhang 329132fba14fSHong Zhang Not Collective 329225616d81SHong Zhang 329325616d81SHong Zhang Input Parameters: 329425616d81SHong Zhang + A - the matrix 329525616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 329625616d81SHong Zhang 329725616d81SHong Zhang Output Parameter: 329825616d81SHong Zhang . A_loc - the local sequential matrix generated 329925616d81SHong Zhang 330025616d81SHong Zhang Level: developer 330125616d81SHong Zhang 330225616d81SHong Zhang @*/ 330332fba14fSHong Zhang PetscErrorCode MatGetLocalMat(Mat A,MatReuse scall,Mat *A_loc) 330425616d81SHong Zhang { 330525616d81SHong Zhang PetscErrorCode ierr; 330601b7ae99SHong Zhang Mat_MPIAIJ *mpimat=(Mat_MPIAIJ*)A->data; 330701b7ae99SHong Zhang Mat_SeqAIJ *mat,*a=(Mat_SeqAIJ*)(mpimat->A)->data,*b=(Mat_SeqAIJ*)(mpimat->B)->data; 330801b7ae99SHong Zhang PetscInt *ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j,*cmap=mpimat->garray; 3309dea91ad1SHong Zhang PetscScalar *aa=a->a,*ba=b->a,*ca; 3310ecc9b87dSHong Zhang PetscInt am=A->m,i,j,k,cstart=mpimat->cstart; 33115a7d977cSHong Zhang PetscInt *ci,*cj,col,ncols_d,ncols_o,jo; 331225616d81SHong Zhang 331325616d81SHong Zhang PetscFunctionBegin; 3314e462e02cSHong Zhang if (!logkey_getlocalmat) { 3315e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_getlocalmat,"MatGetLocalMat",MAT_COOKIE); 3316e462e02cSHong Zhang } 3317e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr); 331801b7ae99SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3319dea91ad1SHong Zhang ierr = PetscMalloc((1+am)*sizeof(PetscInt),&ci);CHKERRQ(ierr); 3320dea91ad1SHong Zhang ci[0] = 0; 332101b7ae99SHong Zhang for (i=0; i<am; i++){ 3322dea91ad1SHong Zhang ci[i+1] = ci[i] + (ai[i+1] - ai[i]) + (bi[i+1] - bi[i]); 332301b7ae99SHong Zhang } 3324dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscInt),&cj);CHKERRQ(ierr); 3325dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscScalar),&ca);CHKERRQ(ierr); 3326dea91ad1SHong Zhang k = 0; 332701b7ae99SHong Zhang for (i=0; i<am; i++) { 33285a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 33295a7d977cSHong Zhang ncols_d = ai[i+1] - ai[i]; 333001b7ae99SHong Zhang /* off-diagonal portion of A */ 33315a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 33325a7d977cSHong Zhang col = cmap[*bj]; 33335a7d977cSHong Zhang if (col >= cstart) break; 33345a7d977cSHong Zhang cj[k] = col; bj++; 33355a7d977cSHong Zhang ca[k++] = *ba++; 33365a7d977cSHong Zhang } 33375a7d977cSHong Zhang /* diagonal portion of A */ 33385a7d977cSHong Zhang for (j=0; j<ncols_d; j++) { 33395a7d977cSHong Zhang cj[k] = cstart + *aj++; 33405a7d977cSHong Zhang ca[k++] = *aa++; 33415a7d977cSHong Zhang } 33425a7d977cSHong Zhang /* off-diagonal portion of A */ 33435a7d977cSHong Zhang for (j=jo; j<ncols_o; j++) { 33445a7d977cSHong Zhang cj[k] = cmap[*bj++]; 33455a7d977cSHong Zhang ca[k++] = *ba++; 33465a7d977cSHong Zhang } 334725616d81SHong Zhang } 3348dea91ad1SHong Zhang /* put together the new matrix */ 3349dea91ad1SHong Zhang ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,am,A->N,ci,cj,ca,A_loc);CHKERRQ(ierr); 3350dea91ad1SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 3351dea91ad1SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 3352dea91ad1SHong Zhang mat = (Mat_SeqAIJ*)(*A_loc)->data; 3353dea91ad1SHong Zhang mat->freedata = PETSC_TRUE; 3354dea91ad1SHong Zhang mat->nonew = 0; 33555a7d977cSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 33565a7d977cSHong Zhang mat=(Mat_SeqAIJ*)(*A_loc)->data; 33575a7d977cSHong Zhang ci = mat->i; cj = mat->j; ca = mat->a; 33585a7d977cSHong Zhang for (i=0; i<am; i++) { 33595a7d977cSHong Zhang /* off-diagonal portion of A */ 33605a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 33615a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 33625a7d977cSHong Zhang col = cmap[*bj]; 33635a7d977cSHong Zhang if (col >= cstart) break; 3364f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 33655a7d977cSHong Zhang } 33665a7d977cSHong Zhang /* diagonal portion of A */ 3367ecc9b87dSHong Zhang ncols_d = ai[i+1] - ai[i]; 3368ecc9b87dSHong Zhang for (j=0; j<ncols_d; j++) *ca++ = *aa++; 33695a7d977cSHong Zhang /* off-diagonal portion of A */ 3370f33d1a9aSHong Zhang for (j=jo; j<ncols_o; j++) { 3371f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 3372f33d1a9aSHong Zhang } 33735a7d977cSHong Zhang } 33745a7d977cSHong Zhang } else { 33755a7d977cSHong Zhang SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 337625616d81SHong Zhang } 337701b7ae99SHong Zhang 3378e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr); 337925616d81SHong Zhang PetscFunctionReturn(0); 338025616d81SHong Zhang } 338125616d81SHong Zhang 338232fba14fSHong Zhang static PetscEvent logkey_getlocalmatcondensed = 0; 338332fba14fSHong Zhang #undef __FUNCT__ 338432fba14fSHong Zhang #define __FUNCT__ "MatGetLocalMatCondensed" 338532fba14fSHong Zhang /*@C 338632fba14fSHong Zhang MatGetLocalMatCondensed - Creates a SeqAIJ matrix by taking all its local rows and NON-ZERO columns 338732fba14fSHong Zhang 338832fba14fSHong Zhang Not Collective 338932fba14fSHong Zhang 339032fba14fSHong Zhang Input Parameters: 339132fba14fSHong Zhang + A - the matrix 339232fba14fSHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 339332fba14fSHong Zhang - row, col - index sets of rows and columns to extract (or PETSC_NULL) 339432fba14fSHong Zhang 339532fba14fSHong Zhang Output Parameter: 339632fba14fSHong Zhang . A_loc - the local sequential matrix generated 339732fba14fSHong Zhang 339832fba14fSHong Zhang Level: developer 339932fba14fSHong Zhang 340032fba14fSHong Zhang @*/ 340132fba14fSHong Zhang PetscErrorCode MatGetLocalMatCondensed(Mat A,MatReuse scall,IS *row,IS *col,Mat *A_loc) 340232fba14fSHong Zhang { 340332fba14fSHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 340432fba14fSHong Zhang PetscErrorCode ierr; 340532fba14fSHong Zhang PetscInt i,start,end,ncols,nzA,nzB,*cmap,imark,*idx; 340632fba14fSHong Zhang IS isrowa,iscola; 340732fba14fSHong Zhang Mat *aloc; 340832fba14fSHong Zhang 340932fba14fSHong Zhang PetscFunctionBegin; 341032fba14fSHong Zhang if (!logkey_getlocalmatcondensed) { 341132fba14fSHong Zhang ierr = PetscLogEventRegister(&logkey_getlocalmatcondensed,"MatGetLocalMatCondensed",MAT_COOKIE); 341232fba14fSHong Zhang } 341332fba14fSHong Zhang ierr = PetscLogEventBegin(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 341432fba14fSHong Zhang if (!row){ 341532fba14fSHong Zhang start = a->rstart; end = a->rend; 341632fba14fSHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,end-start,start,1,&isrowa);CHKERRQ(ierr); 341732fba14fSHong Zhang } else { 341832fba14fSHong Zhang isrowa = *row; 341932fba14fSHong Zhang } 342032fba14fSHong Zhang if (!col){ 342132fba14fSHong Zhang start = a->cstart; 342232fba14fSHong Zhang cmap = a->garray; 342332fba14fSHong Zhang nzA = a->A->n; 342432fba14fSHong Zhang nzB = a->B->n; 342532fba14fSHong Zhang ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 342632fba14fSHong Zhang ncols = 0; 342732fba14fSHong Zhang for (i=0; i<nzB; i++) { 342832fba14fSHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 342932fba14fSHong Zhang else break; 343032fba14fSHong Zhang } 343132fba14fSHong Zhang imark = i; 343232fba14fSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; 343332fba14fSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; 343432fba14fSHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&iscola);CHKERRQ(ierr); 343532fba14fSHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 343632fba14fSHong Zhang } else { 343732fba14fSHong Zhang iscola = *col; 343832fba14fSHong Zhang } 343932fba14fSHong Zhang if (scall != MAT_INITIAL_MATRIX){ 344032fba14fSHong Zhang ierr = PetscMalloc(sizeof(Mat),&aloc);CHKERRQ(ierr); 344132fba14fSHong Zhang aloc[0] = *A_loc; 344232fba14fSHong Zhang } 344332fba14fSHong Zhang ierr = MatGetSubMatrices(A,1,&isrowa,&iscola,scall,&aloc);CHKERRQ(ierr); 344432fba14fSHong Zhang *A_loc = aloc[0]; 344532fba14fSHong Zhang ierr = PetscFree(aloc);CHKERRQ(ierr); 344632fba14fSHong Zhang if (!row){ 344732fba14fSHong Zhang ierr = ISDestroy(isrowa);CHKERRQ(ierr); 344832fba14fSHong Zhang } 344932fba14fSHong Zhang if (!col){ 345032fba14fSHong Zhang ierr = ISDestroy(iscola);CHKERRQ(ierr); 345132fba14fSHong Zhang } 345232fba14fSHong Zhang ierr = PetscLogEventEnd(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 345332fba14fSHong Zhang PetscFunctionReturn(0); 345432fba14fSHong Zhang } 345532fba14fSHong Zhang 3456a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAcols = 0; 345725616d81SHong Zhang #undef __FUNCT__ 345825616d81SHong Zhang #define __FUNCT__ "MatGetBrowsOfAcols" 345925616d81SHong Zhang /*@C 346032fba14fSHong Zhang MatGetBrowsOfAcols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A 346125616d81SHong Zhang 346225616d81SHong Zhang Collective on Mat 346325616d81SHong Zhang 346425616d81SHong Zhang Input Parameters: 3465e240928fSHong Zhang + A,B - the matrices in mpiaij format 346625616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 346725616d81SHong Zhang - rowb, colb - index sets of rows and columns of B to extract (or PETSC_NULL) 346825616d81SHong Zhang 346925616d81SHong Zhang Output Parameter: 347025616d81SHong Zhang + rowb, colb - index sets of rows and columns of B to extract 347125616d81SHong Zhang . brstart - row index of B_seq from which next B->m rows are taken from B's local rows 347225616d81SHong Zhang - B_seq - the sequential matrix generated 347325616d81SHong Zhang 347425616d81SHong Zhang Level: developer 347525616d81SHong Zhang 347625616d81SHong Zhang @*/ 347725616d81SHong Zhang PetscErrorCode MatGetBrowsOfAcols(Mat A,Mat B,MatReuse scall,IS *rowb,IS *colb,PetscInt *brstart,Mat *B_seq) 347825616d81SHong Zhang { 347925616d81SHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data,*b=(Mat_MPIAIJ*)B->data; 348025616d81SHong Zhang PetscErrorCode ierr; 3481b1d57f15SBarry Smith PetscInt *idx,i,start,ncols,nzA,nzB,*cmap,imark; 348225616d81SHong Zhang IS isrowb,iscolb; 348325616d81SHong Zhang Mat *bseq; 348425616d81SHong Zhang 348525616d81SHong Zhang PetscFunctionBegin; 348625616d81SHong Zhang if (a->cstart != b->rstart || a->cend != b->rend){ 348777431f27SBarry Smith SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",a->cstart,a->cend,b->rstart,b->rend); 348825616d81SHong Zhang } 3489e462e02cSHong Zhang if (!logkey_GetBrowsOfAcols) { 3490e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_GetBrowsOfAcols,"MatGetBrowsOfAcols",MAT_COOKIE); 3491e462e02cSHong Zhang } 3492e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 349325616d81SHong Zhang 349425616d81SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 349525616d81SHong Zhang start = a->cstart; 349625616d81SHong Zhang cmap = a->garray; 349725616d81SHong Zhang nzA = a->A->n; 349825616d81SHong Zhang nzB = a->B->n; 3499b1d57f15SBarry Smith ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 350025616d81SHong Zhang ncols = 0; 35010390132cSHong Zhang for (i=0; i<nzB; i++) { /* row < local row index */ 350225616d81SHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 350325616d81SHong Zhang else break; 350425616d81SHong Zhang } 350525616d81SHong Zhang imark = i; 35060390132cSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; /* local rows */ 35070390132cSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */ 350825616d81SHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&isrowb);CHKERRQ(ierr); 350925616d81SHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 351025616d81SHong Zhang *brstart = imark; 351125616d81SHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,B->N,0,1,&iscolb);CHKERRQ(ierr); 351225616d81SHong Zhang } else { 351325616d81SHong Zhang if (!rowb || !colb) SETERRQ(PETSC_ERR_SUP,"IS rowb and colb must be provided for MAT_REUSE_MATRIX"); 351425616d81SHong Zhang isrowb = *rowb; iscolb = *colb; 351525616d81SHong Zhang ierr = PetscMalloc(sizeof(Mat),&bseq);CHKERRQ(ierr); 351625616d81SHong Zhang bseq[0] = *B_seq; 351725616d81SHong Zhang } 351825616d81SHong Zhang ierr = MatGetSubMatrices(B,1,&isrowb,&iscolb,scall,&bseq);CHKERRQ(ierr); 351925616d81SHong Zhang *B_seq = bseq[0]; 352025616d81SHong Zhang ierr = PetscFree(bseq);CHKERRQ(ierr); 352125616d81SHong Zhang if (!rowb){ 352225616d81SHong Zhang ierr = ISDestroy(isrowb);CHKERRQ(ierr); 352325616d81SHong Zhang } else { 352425616d81SHong Zhang *rowb = isrowb; 352525616d81SHong Zhang } 352625616d81SHong Zhang if (!colb){ 352725616d81SHong Zhang ierr = ISDestroy(iscolb);CHKERRQ(ierr); 352825616d81SHong Zhang } else { 352925616d81SHong Zhang *colb = iscolb; 353025616d81SHong Zhang } 3531e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 353225616d81SHong Zhang PetscFunctionReturn(0); 353325616d81SHong Zhang } 3534429d309bSHong Zhang 3535a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAocols = 0; 3536a61c8c0fSHong Zhang #undef __FUNCT__ 3537a61c8c0fSHong Zhang #define __FUNCT__ "MatGetBrowsOfAoCols" 3538429d309bSHong Zhang /*@C 3539429d309bSHong Zhang MatGetBrowsOfAoCols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns 354001b7ae99SHong Zhang of the OFF-DIAGONAL portion of local A 3541429d309bSHong Zhang 3542429d309bSHong Zhang Collective on Mat 3543429d309bSHong Zhang 3544429d309bSHong Zhang Input Parameters: 3545429d309bSHong Zhang + A,B - the matrices in mpiaij format 354687025532SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 354787025532SHong Zhang . startsj - starting point in B's sending and receiving j-arrays, saved for MAT_REUSE (or PETSC_NULL) 354887025532SHong Zhang - bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or PETSC_NULL) 3549429d309bSHong Zhang 3550429d309bSHong Zhang Output Parameter: 355187025532SHong Zhang + B_oth - the sequential matrix generated 3552429d309bSHong Zhang 3553429d309bSHong Zhang Level: developer 3554429d309bSHong Zhang 3555429d309bSHong Zhang @*/ 355687025532SHong Zhang PetscErrorCode MatGetBrowsOfAoCols(Mat A,Mat B,MatReuse scall,PetscInt **startsj,PetscScalar **bufa_ptr,Mat *B_oth) 3557429d309bSHong Zhang { 3558a6b2eed2SHong Zhang VecScatter_MPI_General *gen_to,*gen_from; 3559429d309bSHong Zhang PetscErrorCode ierr; 356087025532SHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data,*b=(Mat_MPIAIJ*)B->data; 356187025532SHong Zhang Mat_SeqAIJ *b_oth; 3562a6b2eed2SHong Zhang VecScatter ctx=a->Mvctx; 3563a6b2eed2SHong Zhang MPI_Comm comm=ctx->comm; 356487025532SHong Zhang PetscMPIInt *rprocs,*sprocs,tag=ctx->tag,rank; 356568733de6SHong Zhang PetscInt *rowlen,*bufj,*bufJ,ncols,aBn=a->B->n,row,*b_othi,*b_othj; 356687025532SHong Zhang PetscScalar *rvalues,*svalues,*b_otha,*bufa,*bufA; 3567*d679ab29SBarry Smith PetscInt i,k,l,nrecvs,nsends,nrows,*srow,*rstarts,*rstartsj = 0,*sstarts,*sstartsj,len; 3568a6b2eed2SHong Zhang MPI_Request *rwaits,*swaits; 356987025532SHong Zhang MPI_Status *sstatus,rstatus; 3570ba8c8a56SBarry Smith PetscInt *cols; 3571ba8c8a56SBarry Smith PetscScalar *vals; 357213f74950SBarry Smith PetscMPIInt j; 3573429d309bSHong Zhang 3574429d309bSHong Zhang PetscFunctionBegin; 3575429d309bSHong Zhang if (a->cstart != b->rstart || a->cend != b->rend){ 3576a6b2eed2SHong Zhang SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%d, %d) != (%d,%d)",a->cstart,a->cend,b->rstart,b->rend); 3577429d309bSHong Zhang } 3578429d309bSHong Zhang if (!logkey_GetBrowsOfAocols) { 35791677a5d7SHong Zhang ierr = PetscLogEventRegister(&logkey_GetBrowsOfAocols,"MatGetBrAoCol",MAT_COOKIE); 3580429d309bSHong Zhang } 3581429d309bSHong Zhang ierr = PetscLogEventBegin(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 3582a6b2eed2SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 3583a6b2eed2SHong Zhang 3584a6b2eed2SHong Zhang gen_to = (VecScatter_MPI_General*)ctx->todata; 3585a6b2eed2SHong Zhang gen_from = (VecScatter_MPI_General*)ctx->fromdata; 3586a6b2eed2SHong Zhang rvalues = gen_from->values; /* holds the length of sending row */ 3587a6b2eed2SHong Zhang svalues = gen_to->values; /* holds the length of receiving row */ 3588a6b2eed2SHong Zhang nrecvs = gen_from->n; 3589a6b2eed2SHong Zhang nsends = gen_to->n; 3590a6b2eed2SHong Zhang rwaits = gen_from->requests; 3591a6b2eed2SHong Zhang swaits = gen_to->requests; 3592a6b2eed2SHong Zhang srow = gen_to->indices; /* local row index to be sent */ 3593a6b2eed2SHong Zhang rstarts = gen_from->starts; 3594a6b2eed2SHong Zhang sstarts = gen_to->starts; 3595a6b2eed2SHong Zhang rprocs = gen_from->procs; 3596a6b2eed2SHong Zhang sprocs = gen_to->procs; 3597a6b2eed2SHong Zhang sstatus = gen_to->sstatus; 3598429d309bSHong Zhang 3599dea91ad1SHong Zhang if (!startsj || !bufa_ptr) scall = MAT_INITIAL_MATRIX; 3600429d309bSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3601a6b2eed2SHong Zhang /* i-array */ 3602a6b2eed2SHong Zhang /*---------*/ 3603a6b2eed2SHong Zhang /* post receives */ 3604a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 3605a6b2eed2SHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]; 360687025532SHong Zhang nrows = rstarts[i+1]-rstarts[i]; 360787025532SHong Zhang ierr = MPI_Irecv(rowlen,nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 3608429d309bSHong Zhang } 3609a6b2eed2SHong Zhang 3610a6b2eed2SHong Zhang /* pack the outgoing message */ 361187025532SHong Zhang ierr = PetscMalloc((nsends+nrecvs+3)*sizeof(PetscInt),&sstartsj);CHKERRQ(ierr); 3612a6b2eed2SHong Zhang rstartsj = sstartsj + nsends +1; 3613a6b2eed2SHong Zhang sstartsj[0] = 0; rstartsj[0] = 0; 3614a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be sent */ 3615a6b2eed2SHong Zhang k = 0; 3616a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 3617a6b2eed2SHong Zhang rowlen = (PetscInt*)svalues + sstarts[i]; 361887025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of rows */ 361987025532SHong Zhang for (j=0; j<nrows; j++) { 3620a6b2eed2SHong Zhang row = srow[k] + b->rowners[rank]; /* global row idx */ 3621ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&rowlen[j],PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); /* rowlength */ 3622a6b2eed2SHong Zhang len += rowlen[j]; 3623ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); 3624a6b2eed2SHong Zhang k++; 3625429d309bSHong Zhang } 362687025532SHong Zhang ierr = MPI_Isend(rowlen,nrows,MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 3627dea91ad1SHong Zhang sstartsj[i+1] = len; /* starting point of (i+1)-th outgoing msg in bufj and bufa */ 3628429d309bSHong Zhang } 362987025532SHong Zhang /* recvs and sends of i-array are completed */ 363087025532SHong Zhang i = nrecvs; 363187025532SHong Zhang while (i--) { 363287025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 363387025532SHong Zhang } 3634a6b2eed2SHong Zhang if (nsends) { 3635a6b2eed2SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 3636a6b2eed2SHong Zhang } 3637a6b2eed2SHong Zhang /* allocate buffers for sending j and a arrays */ 3638a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscInt),&bufj);CHKERRQ(ierr); 3639a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscScalar),&bufa);CHKERRQ(ierr); 3640a6b2eed2SHong Zhang 364187025532SHong Zhang /* create i-array of B_oth */ 364287025532SHong Zhang ierr = PetscMalloc((aBn+2)*sizeof(PetscInt),&b_othi);CHKERRQ(ierr); 364387025532SHong Zhang b_othi[0] = 0; 3644a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be received */ 3645a6b2eed2SHong Zhang k = 0; 3646a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 3647a6b2eed2SHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]; 364887025532SHong Zhang nrows = rstarts[i+1]-rstarts[i]; 364987025532SHong Zhang for (j=0; j<nrows; j++) { 365087025532SHong Zhang b_othi[k+1] = b_othi[k] + rowlen[j]; 3651a6b2eed2SHong Zhang len += rowlen[j]; k++; 3652a6b2eed2SHong Zhang } 3653dea91ad1SHong Zhang rstartsj[i+1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */ 3654a6b2eed2SHong Zhang } 3655a6b2eed2SHong Zhang 365687025532SHong Zhang /* allocate space for j and a arrrays of B_oth */ 365787025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscInt),&b_othj);CHKERRQ(ierr); 365887025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscScalar),&b_otha);CHKERRQ(ierr); 3659a6b2eed2SHong Zhang 366087025532SHong Zhang /* j-array */ 366187025532SHong Zhang /*---------*/ 3662a6b2eed2SHong Zhang /* post receives of j-array */ 3663a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 366487025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 366587025532SHong Zhang ierr = MPI_Irecv(b_othj+rstartsj[i],nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 3666a6b2eed2SHong Zhang } 3667a6b2eed2SHong Zhang k = 0; 3668a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 366987025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of rows */ 3670a6b2eed2SHong Zhang bufJ = bufj+sstartsj[i]; 367187025532SHong Zhang for (j=0; j<nrows; j++) { 367287025532SHong Zhang row = srow[k++] + b->rowners[rank]; /* global row idx */ 3673ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 3674a6b2eed2SHong Zhang for (l=0; l<ncols; l++){ 3675a6b2eed2SHong Zhang *bufJ++ = cols[l]; 367687025532SHong Zhang } 3677ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 367887025532SHong Zhang } 367987025532SHong Zhang ierr = MPI_Isend(bufj+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 368087025532SHong Zhang } 368187025532SHong Zhang 368287025532SHong Zhang /* recvs and sends of j-array are completed */ 368387025532SHong Zhang i = nrecvs; 368487025532SHong Zhang while (i--) { 368587025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 368687025532SHong Zhang } 368787025532SHong Zhang if (nsends) { 368887025532SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 368987025532SHong Zhang } 369087025532SHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 369187025532SHong Zhang sstartsj = *startsj; 369287025532SHong Zhang rstartsj = sstartsj + nsends +1; 369387025532SHong Zhang bufa = *bufa_ptr; 369487025532SHong Zhang b_oth = (Mat_SeqAIJ*)(*B_oth)->data; 369587025532SHong Zhang b_otha = b_oth->a; 369687025532SHong Zhang } else { 369787025532SHong Zhang SETERRQ(PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not posses an object container"); 369887025532SHong Zhang } 369987025532SHong Zhang 370087025532SHong Zhang /* a-array */ 370187025532SHong Zhang /*---------*/ 370287025532SHong Zhang /* post receives of a-array */ 370387025532SHong Zhang for (i=0; i<nrecvs; i++){ 370487025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 370587025532SHong Zhang ierr = MPI_Irecv(b_otha+rstartsj[i],nrows,MPIU_SCALAR,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 370687025532SHong Zhang } 370787025532SHong Zhang k = 0; 370887025532SHong Zhang for (i=0; i<nsends; i++){ 370987025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; 371087025532SHong Zhang bufA = bufa+sstartsj[i]; 371187025532SHong Zhang for (j=0; j<nrows; j++) { 371287025532SHong Zhang row = srow[k++] + b->rowners[rank]; /* global row idx */ 3713ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 371487025532SHong Zhang for (l=0; l<ncols; l++){ 3715a6b2eed2SHong Zhang *bufA++ = vals[l]; 3716a6b2eed2SHong Zhang } 3717ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 371887025532SHong Zhang 3719a6b2eed2SHong Zhang } 372087025532SHong Zhang ierr = MPI_Isend(bufa+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_SCALAR,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 3721a6b2eed2SHong Zhang } 372287025532SHong Zhang /* recvs and sends of a-array are completed */ 372387025532SHong Zhang i = nrecvs; 372487025532SHong Zhang while (i--) { 372587025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 372687025532SHong Zhang } 3727a6b2eed2SHong Zhang if (nsends) { 3728a6b2eed2SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 3729a6b2eed2SHong Zhang } 3730a6b2eed2SHong Zhang 373187025532SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3732a6b2eed2SHong Zhang /* put together the new matrix */ 373387025532SHong Zhang ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,aBn,B->N,b_othi,b_othj,b_otha,B_oth);CHKERRQ(ierr); 3734a6b2eed2SHong Zhang 3735a6b2eed2SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 3736a6b2eed2SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 373787025532SHong Zhang b_oth = (Mat_SeqAIJ *)(*B_oth)->data; 373887025532SHong Zhang b_oth->freedata = PETSC_TRUE; 373987025532SHong Zhang b_oth->nonew = 0; 3740a6b2eed2SHong Zhang 3741a6b2eed2SHong Zhang ierr = PetscFree(bufj);CHKERRQ(ierr); 3742dea91ad1SHong Zhang if (!startsj || !bufa_ptr){ 3743dea91ad1SHong Zhang ierr = PetscFree(sstartsj);CHKERRQ(ierr); 3744dea91ad1SHong Zhang ierr = PetscFree(bufa_ptr);CHKERRQ(ierr); 3745dea91ad1SHong Zhang } else { 374687025532SHong Zhang *startsj = sstartsj; 374787025532SHong Zhang *bufa_ptr = bufa; 374887025532SHong Zhang } 3749dea91ad1SHong Zhang } 3750429d309bSHong Zhang ierr = PetscLogEventEnd(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 3751a6b2eed2SHong Zhang 3752429d309bSHong Zhang PetscFunctionReturn(0); 3753429d309bSHong Zhang } 3754ccd8e176SBarry Smith 3755ccd8e176SBarry Smith /*MC 3756ccd8e176SBarry Smith MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices. 3757ccd8e176SBarry Smith 3758ccd8e176SBarry Smith Options Database Keys: 3759ccd8e176SBarry Smith . -mat_type mpiaij - sets the matrix type to "mpiaij" during a call to MatSetFromOptions() 3760ccd8e176SBarry Smith 3761ccd8e176SBarry Smith Level: beginner 3762ccd8e176SBarry Smith 3763ccd8e176SBarry Smith .seealso: MatCreateMPIAIJ 3764ccd8e176SBarry Smith M*/ 3765ccd8e176SBarry Smith 3766ccd8e176SBarry Smith EXTERN_C_BEGIN 3767ccd8e176SBarry Smith #undef __FUNCT__ 3768ccd8e176SBarry Smith #define __FUNCT__ "MatCreate_MPIAIJ" 3769ccd8e176SBarry Smith PetscErrorCode MatCreate_MPIAIJ(Mat B) 3770ccd8e176SBarry Smith { 3771ccd8e176SBarry Smith Mat_MPIAIJ *b; 3772ccd8e176SBarry Smith PetscErrorCode ierr; 3773ccd8e176SBarry Smith PetscInt i; 3774ccd8e176SBarry Smith PetscMPIInt size; 3775ccd8e176SBarry Smith 3776ccd8e176SBarry Smith PetscFunctionBegin; 3777ccd8e176SBarry Smith ierr = MPI_Comm_size(B->comm,&size);CHKERRQ(ierr); 3778ccd8e176SBarry Smith 3779ccd8e176SBarry Smith ierr = PetscNew(Mat_MPIAIJ,&b);CHKERRQ(ierr); 3780ccd8e176SBarry Smith B->data = (void*)b; 3781ccd8e176SBarry Smith ierr = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 3782ccd8e176SBarry Smith B->factor = 0; 37836ad4291fSHong Zhang B->bs = 1; 3784ccd8e176SBarry Smith B->assembled = PETSC_FALSE; 3785ccd8e176SBarry Smith B->mapping = 0; 3786ccd8e176SBarry Smith 3787ccd8e176SBarry Smith B->insertmode = NOT_SET_VALUES; 3788ccd8e176SBarry Smith b->size = size; 3789ccd8e176SBarry Smith ierr = MPI_Comm_rank(B->comm,&b->rank);CHKERRQ(ierr); 3790ccd8e176SBarry Smith 3791ccd8e176SBarry Smith ierr = PetscSplitOwnership(B->comm,&B->m,&B->M);CHKERRQ(ierr); 3792ccd8e176SBarry Smith ierr = PetscSplitOwnership(B->comm,&B->n,&B->N);CHKERRQ(ierr); 3793ccd8e176SBarry Smith 3794ccd8e176SBarry Smith /* the information in the maps duplicates the information computed below, eventually 3795ccd8e176SBarry Smith we should remove the duplicate information that is not contained in the maps */ 3796ccd8e176SBarry Smith ierr = PetscMapCreateMPI(B->comm,B->m,B->M,&B->rmap);CHKERRQ(ierr); 3797ccd8e176SBarry Smith ierr = PetscMapCreateMPI(B->comm,B->n,B->N,&B->cmap);CHKERRQ(ierr); 3798ccd8e176SBarry Smith 3799ccd8e176SBarry Smith /* build local table of row and column ownerships */ 3800ccd8e176SBarry Smith ierr = PetscMalloc(2*(b->size+2)*sizeof(PetscInt),&b->rowners);CHKERRQ(ierr); 3801ccd8e176SBarry Smith PetscLogObjectMemory(B,2*(b->size+2)*sizeof(PetscInt)+sizeof(struct _p_Mat)+sizeof(Mat_MPIAIJ)); 3802ccd8e176SBarry Smith b->cowners = b->rowners + b->size + 2; 3803ccd8e176SBarry Smith ierr = MPI_Allgather(&B->m,1,MPIU_INT,b->rowners+1,1,MPIU_INT,B->comm);CHKERRQ(ierr); 3804ccd8e176SBarry Smith b->rowners[0] = 0; 3805ccd8e176SBarry Smith for (i=2; i<=b->size; i++) { 3806ccd8e176SBarry Smith b->rowners[i] += b->rowners[i-1]; 3807ccd8e176SBarry Smith } 3808ccd8e176SBarry Smith b->rstart = b->rowners[b->rank]; 3809ccd8e176SBarry Smith b->rend = b->rowners[b->rank+1]; 3810ccd8e176SBarry Smith ierr = MPI_Allgather(&B->n,1,MPIU_INT,b->cowners+1,1,MPIU_INT,B->comm);CHKERRQ(ierr); 3811ccd8e176SBarry Smith b->cowners[0] = 0; 3812ccd8e176SBarry Smith for (i=2; i<=b->size; i++) { 3813ccd8e176SBarry Smith b->cowners[i] += b->cowners[i-1]; 3814ccd8e176SBarry Smith } 3815ccd8e176SBarry Smith b->cstart = b->cowners[b->rank]; 3816ccd8e176SBarry Smith b->cend = b->cowners[b->rank+1]; 3817ccd8e176SBarry Smith 3818ccd8e176SBarry Smith /* build cache for off array entries formed */ 3819ccd8e176SBarry Smith ierr = MatStashCreate_Private(B->comm,1,&B->stash);CHKERRQ(ierr); 3820ccd8e176SBarry Smith b->donotstash = PETSC_FALSE; 3821ccd8e176SBarry Smith b->colmap = 0; 3822ccd8e176SBarry Smith b->garray = 0; 3823ccd8e176SBarry Smith b->roworiented = PETSC_TRUE; 3824ccd8e176SBarry Smith 3825ccd8e176SBarry Smith /* stuff used for matrix vector multiply */ 3826ccd8e176SBarry Smith b->lvec = PETSC_NULL; 3827ccd8e176SBarry Smith b->Mvctx = PETSC_NULL; 3828ccd8e176SBarry Smith 3829ccd8e176SBarry Smith /* stuff for MatGetRow() */ 3830ccd8e176SBarry Smith b->rowindices = 0; 3831ccd8e176SBarry Smith b->rowvalues = 0; 3832ccd8e176SBarry Smith b->getrowactive = PETSC_FALSE; 3833ccd8e176SBarry Smith 3834ccd8e176SBarry Smith /* Explicitly create 2 MATSEQAIJ matrices. */ 3835ccd8e176SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,B->m,B->n,B->m,B->n,&b->A);CHKERRQ(ierr); 3836ccd8e176SBarry Smith ierr = MatSetType(b->A,MATSEQAIJ);CHKERRQ(ierr); 3837ccd8e176SBarry Smith PetscLogObjectParent(B,b->A); 3838ccd8e176SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,B->m,B->N,B->m,B->N,&b->B);CHKERRQ(ierr); 3839ccd8e176SBarry Smith ierr = MatSetType(b->B,MATSEQAIJ);CHKERRQ(ierr); 3840ccd8e176SBarry Smith PetscLogObjectParent(B,b->B); 3841ccd8e176SBarry Smith 3842ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatStoreValues_C", 3843ccd8e176SBarry Smith "MatStoreValues_MPIAIJ", 3844ccd8e176SBarry Smith MatStoreValues_MPIAIJ);CHKERRQ(ierr); 3845ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatRetrieveValues_C", 3846ccd8e176SBarry Smith "MatRetrieveValues_MPIAIJ", 3847ccd8e176SBarry Smith MatRetrieveValues_MPIAIJ);CHKERRQ(ierr); 3848ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatGetDiagonalBlock_C", 3849ccd8e176SBarry Smith "MatGetDiagonalBlock_MPIAIJ", 3850ccd8e176SBarry Smith MatGetDiagonalBlock_MPIAIJ);CHKERRQ(ierr); 3851ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatIsTranspose_C", 3852ccd8e176SBarry Smith "MatIsTranspose_MPIAIJ", 3853ccd8e176SBarry Smith MatIsTranspose_MPIAIJ);CHKERRQ(ierr); 3854ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocation_C", 3855ccd8e176SBarry Smith "MatMPIAIJSetPreallocation_MPIAIJ", 3856ccd8e176SBarry Smith MatMPIAIJSetPreallocation_MPIAIJ);CHKERRQ(ierr); 3857ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C", 3858ccd8e176SBarry Smith "MatMPIAIJSetPreallocationCSR_MPIAIJ", 3859ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR_MPIAIJ);CHKERRQ(ierr); 3860ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatDiagonalScaleLocal_C", 3861ccd8e176SBarry Smith "MatDiagonalScaleLocal_MPIAIJ", 3862ccd8e176SBarry Smith MatDiagonalScaleLocal_MPIAIJ);CHKERRQ(ierr); 3863ccd8e176SBarry Smith PetscFunctionReturn(0); 3864ccd8e176SBarry Smith } 3865ccd8e176SBarry Smith EXTERN_C_END 3866