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 } \ 5789280ab3SLois Curfman McInnes if (nonew == 1) goto a_noinsert; \ 5877431f27SBarry Smith else if (nonew == -1) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", row, col); \ 590520107fSSatish Balay if (nrow >= rmax) { \ 600520107fSSatish Balay /* there is no extra room in row, therefore enlarge */ \ 61b1d57f15SBarry Smith PetscInt new_nz = ai[am] + CHUNKSIZE,len,*new_i,*new_j; \ 6287828ca2SBarry Smith PetscScalar *new_a; \ 630520107fSSatish Balay \ 6477431f27SBarry Smith if (nonew == -2) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) in the matrix", row, col); \ 6589280ab3SLois Curfman McInnes \ 660520107fSSatish Balay /* malloc new storage space */ \ 67b1d57f15SBarry Smith len = new_nz*(sizeof(PetscInt)+sizeof(PetscScalar))+(am+1)*sizeof(PetscInt); \ 68b0a32e0cSBarry Smith ierr = PetscMalloc(len,&new_a);CHKERRQ(ierr); \ 69b1d57f15SBarry Smith new_j = (PetscInt*)(new_a + new_nz); \ 700520107fSSatish Balay new_i = new_j + new_nz; \ 710520107fSSatish Balay \ 720520107fSSatish Balay /* copy over old data into new slots */ \ 730520107fSSatish Balay for (ii=0; ii<row+1; ii++) {new_i[ii] = ai[ii];} \ 74273d9f13SBarry Smith for (ii=row+1; ii<am+1; ii++) {new_i[ii] = ai[ii]+CHUNKSIZE;} \ 75b1d57f15SBarry Smith ierr = PetscMemcpy(new_j,aj,(ai[row]+nrow+shift)*sizeof(PetscInt));CHKERRQ(ierr); \ 760520107fSSatish Balay len = (new_nz - CHUNKSIZE - ai[row] - nrow - shift); \ 77549d3d68SSatish Balay ierr = PetscMemcpy(new_j+ai[row]+shift+nrow+CHUNKSIZE,aj+ai[row]+shift+nrow, \ 78b1d57f15SBarry Smith len*sizeof(PetscInt));CHKERRQ(ierr); \ 7987828ca2SBarry Smith ierr = PetscMemcpy(new_a,aa,(ai[row]+nrow+shift)*sizeof(PetscScalar));CHKERRQ(ierr); \ 80549d3d68SSatish Balay ierr = PetscMemcpy(new_a+ai[row]+shift+nrow+CHUNKSIZE,aa+ai[row]+shift+nrow, \ 8187828ca2SBarry Smith len*sizeof(PetscScalar));CHKERRQ(ierr); \ 820520107fSSatish Balay /* free up old matrix storage */ \ 83f5e9677aSSatish Balay \ 84606d414cSSatish Balay ierr = PetscFree(a->a);CHKERRQ(ierr); \ 85606d414cSSatish Balay if (!a->singlemalloc) { \ 86606d414cSSatish Balay ierr = PetscFree(a->i);CHKERRQ(ierr); \ 87606d414cSSatish Balay ierr = PetscFree(a->j);CHKERRQ(ierr); \ 88606d414cSSatish Balay } \ 890520107fSSatish Balay aa = a->a = new_a; ai = a->i = new_i; aj = a->j = new_j; \ 907c922b88SBarry Smith a->singlemalloc = PETSC_TRUE; \ 910520107fSSatish Balay \ 920520107fSSatish Balay rp = aj + ai[row] + shift; ap = aa + ai[row] + shift; \ 9330770e4dSSatish Balay rmax = aimax[row] = aimax[row] + CHUNKSIZE; \ 94b1d57f15SBarry Smith PetscLogObjectMemory(A,CHUNKSIZE*(sizeof(PetscInt) + sizeof(PetscScalar))); \ 950520107fSSatish Balay a->maxnz += CHUNKSIZE; \ 960520107fSSatish Balay a->reallocs++; \ 970520107fSSatish Balay } \ 980520107fSSatish Balay N = nrow++ - 1; a->nz++; \ 990520107fSSatish Balay /* shift up all the later entries in this row */ \ 1000520107fSSatish Balay for (ii=N; ii>=_i; ii--) { \ 1010520107fSSatish Balay rp[ii+1] = rp[ii]; \ 1020520107fSSatish Balay ap[ii+1] = ap[ii]; \ 1030520107fSSatish Balay } \ 104f5e9677aSSatish Balay rp[_i] = col1; \ 1050520107fSSatish Balay ap[_i] = value; \ 10630770e4dSSatish Balay a_noinsert: ; \ 1070520107fSSatish Balay ailen[row] = nrow; \ 1080520107fSSatish Balay } 1090a198c4cSBarry Smith 11030770e4dSSatish Balay #define MatSetValues_SeqAIJ_B_Private(row,col,value,addv) \ 11130770e4dSSatish Balay { \ 11230770e4dSSatish Balay \ 11330770e4dSSatish Balay rp = bj + bi[row] + shift; ap = ba + bi[row] + shift; \ 11430770e4dSSatish Balay rmax = bimax[row]; nrow = bilen[row]; \ 11530770e4dSSatish Balay col1 = col - shift; \ 11630770e4dSSatish Balay \ 117ba4e3ef2SSatish Balay low = 0; high = nrow; \ 118ba4e3ef2SSatish Balay while (high-low > 5) { \ 119ba4e3ef2SSatish Balay t = (low+high)/2; \ 120ba4e3ef2SSatish Balay if (rp[t] > col) high = t; \ 121ba4e3ef2SSatish Balay else low = t; \ 122ba4e3ef2SSatish Balay } \ 1232335bdd2SSatish Balay for (_i=low; _i<high; _i++) { \ 12430770e4dSSatish Balay if (rp[_i] > col1) break; \ 12530770e4dSSatish Balay if (rp[_i] == col1) { \ 12630770e4dSSatish Balay if (addv == ADD_VALUES) ap[_i] += value; \ 12730770e4dSSatish Balay else ap[_i] = value; \ 12830770e4dSSatish Balay goto b_noinsert; \ 12930770e4dSSatish Balay } \ 13030770e4dSSatish Balay } \ 13189280ab3SLois Curfman McInnes if (nonew == 1) goto b_noinsert; \ 13277431f27SBarry Smith else if (nonew == -1) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", row, col); \ 13330770e4dSSatish Balay if (nrow >= rmax) { \ 13430770e4dSSatish Balay /* there is no extra room in row, therefore enlarge */ \ 135b1d57f15SBarry Smith PetscInt new_nz = bi[bm] + CHUNKSIZE,len,*new_i,*new_j; \ 13687828ca2SBarry Smith PetscScalar *new_a; \ 13730770e4dSSatish Balay \ 13877431f27SBarry Smith if (nonew == -2) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) in the matrix", row, col); \ 13989280ab3SLois Curfman McInnes \ 14030770e4dSSatish Balay /* malloc new storage space */ \ 141b1d57f15SBarry Smith len = new_nz*(sizeof(PetscInt)+sizeof(PetscScalar))+(bm+1)*sizeof(PetscInt); \ 142b0a32e0cSBarry Smith ierr = PetscMalloc(len,&new_a);CHKERRQ(ierr); \ 143b1d57f15SBarry Smith new_j = (PetscInt*)(new_a + new_nz); \ 14430770e4dSSatish Balay new_i = new_j + new_nz; \ 14530770e4dSSatish Balay \ 14630770e4dSSatish Balay /* copy over old data into new slots */ \ 14730770e4dSSatish Balay for (ii=0; ii<row+1; ii++) {new_i[ii] = bi[ii];} \ 148273d9f13SBarry Smith for (ii=row+1; ii<bm+1; ii++) {new_i[ii] = bi[ii]+CHUNKSIZE;} \ 149b1d57f15SBarry Smith ierr = PetscMemcpy(new_j,bj,(bi[row]+nrow+shift)*sizeof(PetscInt));CHKERRQ(ierr); \ 15030770e4dSSatish Balay len = (new_nz - CHUNKSIZE - bi[row] - nrow - shift); \ 151549d3d68SSatish Balay ierr = PetscMemcpy(new_j+bi[row]+shift+nrow+CHUNKSIZE,bj+bi[row]+shift+nrow, \ 152b1d57f15SBarry Smith len*sizeof(PetscInt));CHKERRQ(ierr); \ 15387828ca2SBarry Smith ierr = PetscMemcpy(new_a,ba,(bi[row]+nrow+shift)*sizeof(PetscScalar));CHKERRQ(ierr); \ 154549d3d68SSatish Balay ierr = PetscMemcpy(new_a+bi[row]+shift+nrow+CHUNKSIZE,ba+bi[row]+shift+nrow, \ 15587828ca2SBarry Smith len*sizeof(PetscScalar));CHKERRQ(ierr); \ 15630770e4dSSatish Balay /* free up old matrix storage */ \ 15730770e4dSSatish Balay \ 158606d414cSSatish Balay ierr = PetscFree(b->a);CHKERRQ(ierr); \ 159606d414cSSatish Balay if (!b->singlemalloc) { \ 160606d414cSSatish Balay ierr = PetscFree(b->i);CHKERRQ(ierr); \ 161606d414cSSatish Balay ierr = PetscFree(b->j);CHKERRQ(ierr); \ 162606d414cSSatish Balay } \ 16374c639caSSatish Balay ba = b->a = new_a; bi = b->i = new_i; bj = b->j = new_j; \ 1647c922b88SBarry Smith b->singlemalloc = PETSC_TRUE; \ 16530770e4dSSatish Balay \ 16630770e4dSSatish Balay rp = bj + bi[row] + shift; ap = ba + bi[row] + shift; \ 16730770e4dSSatish Balay rmax = bimax[row] = bimax[row] + CHUNKSIZE; \ 168b1d57f15SBarry Smith PetscLogObjectMemory(B,CHUNKSIZE*(sizeof(PetscInt) + sizeof(PetscScalar))); \ 16974c639caSSatish Balay b->maxnz += CHUNKSIZE; \ 17074c639caSSatish Balay b->reallocs++; \ 17130770e4dSSatish Balay } \ 17274c639caSSatish Balay N = nrow++ - 1; b->nz++; \ 17330770e4dSSatish Balay /* shift up all the later entries in this row */ \ 17430770e4dSSatish Balay for (ii=N; ii>=_i; ii--) { \ 17530770e4dSSatish Balay rp[ii+1] = rp[ii]; \ 17630770e4dSSatish Balay ap[ii+1] = ap[ii]; \ 17730770e4dSSatish Balay } \ 17830770e4dSSatish Balay rp[_i] = col1; \ 17930770e4dSSatish Balay ap[_i] = value; \ 18030770e4dSSatish Balay b_noinsert: ; \ 18130770e4dSSatish Balay bilen[row] = nrow; \ 18230770e4dSSatish Balay } 18330770e4dSSatish Balay 1844a2ae208SSatish Balay #undef __FUNCT__ 1854a2ae208SSatish Balay #define __FUNCT__ "MatSetValues_MPIAIJ" 186b1d57f15SBarry Smith PetscErrorCode MatSetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode addv) 1878a729477SBarry Smith { 18844a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 18987828ca2SBarry Smith PetscScalar value; 190dfbe8321SBarry Smith PetscErrorCode ierr; 19157809a77SBarry Smith PetscInt i,j,rstart = aij->rstart,rend = aij->rend; 19257809a77SBarry Smith PetscInt cstart = aij->cstart,cend = aij->cend,row,col; 193273d9f13SBarry Smith PetscTruth roworiented = aij->roworiented; 1948a729477SBarry Smith 1950520107fSSatish Balay /* Some Variables required in the macro */ 1964ee7247eSSatish Balay Mat A = aij->A; 1974ee7247eSSatish Balay Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 19857809a77SBarry Smith PetscInt *aimax = a->imax,*ai = a->i,*ailen = a->ilen,*aj = a->j; 19987828ca2SBarry Smith PetscScalar *aa = a->a; 200329f5518SBarry Smith PetscTruth ignorezeroentries = (((a->ignorezeroentries)&&(addv==ADD_VALUES))?PETSC_TRUE:PETSC_FALSE); 20130770e4dSSatish Balay Mat B = aij->B; 20230770e4dSSatish Balay Mat_SeqAIJ *b = (Mat_SeqAIJ*)B->data; 20357809a77SBarry Smith PetscInt *bimax = b->imax,*bi = b->i,*bilen = b->ilen,*bj = b->j,bm = aij->B->m,am = aij->A->m; 20487828ca2SBarry Smith PetscScalar *ba = b->a; 20530770e4dSSatish Balay 20657809a77SBarry Smith PetscInt *rp,ii,nrow,_i,rmax,N,col1,low,high,t; 20757809a77SBarry Smith PetscInt nonew = a->nonew,shift=0; 20887828ca2SBarry Smith PetscScalar *ap; 2094ee7247eSSatish Balay 2103a40ed3dSBarry Smith PetscFunctionBegin; 2118a729477SBarry Smith for (i=0; i<m; i++) { 2125ef9f2a5SBarry Smith if (im[i] < 0) continue; 213aa482453SBarry Smith #if defined(PETSC_USE_BOPT_g) 21477431f27SBarry Smith if (im[i] >= mat->M) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",im[i],mat->M-1); 2150a198c4cSBarry Smith #endif 2164b0e389bSBarry Smith if (im[i] >= rstart && im[i] < rend) { 2174b0e389bSBarry Smith row = im[i] - rstart; 2181eb62cbbSBarry Smith for (j=0; j<n; j++) { 2194b0e389bSBarry Smith if (in[j] >= cstart && in[j] < cend){ 2204b0e389bSBarry Smith col = in[j] - cstart; 2214b0e389bSBarry Smith if (roworiented) value = v[i*n+j]; else value = v[i+j*m]; 2225b8514ebSBarry Smith if (ignorezeroentries && value == 0.0) continue; 22330770e4dSSatish Balay MatSetValues_SeqAIJ_A_Private(row,col,value,addv); 2240520107fSSatish Balay /* ierr = MatSetValues_SeqAIJ(aij->A,1,&row,1,&col,&value,addv);CHKERRQ(ierr); */ 225273d9f13SBarry Smith } else if (in[j] < 0) continue; 226aa482453SBarry Smith #if defined(PETSC_USE_BOPT_g) 22777431f27SBarry Smith else if (in[j] >= mat->N) {SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",in[j],mat->N-1);} 2280a198c4cSBarry Smith #endif 2291eb62cbbSBarry Smith else { 230227d817aSBarry Smith if (mat->was_assembled) { 231905e6a2fSBarry Smith if (!aij->colmap) { 232905e6a2fSBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 233905e6a2fSBarry Smith } 234aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 2350f5bd95cSBarry Smith ierr = PetscTableFind(aij->colmap,in[j]+1,&col);CHKERRQ(ierr); 236fa46199cSSatish Balay col--; 237b1fc9764SSatish Balay #else 238905e6a2fSBarry Smith col = aij->colmap[in[j]] - 1; 239b1fc9764SSatish Balay #endif 240ec8511deSBarry Smith if (col < 0 && !((Mat_SeqAIJ*)(aij->A->data))->nonew) { 2412493cbb0SBarry Smith ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 2424b0e389bSBarry Smith col = in[j]; 2439bf004c3SSatish Balay /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 244f9508a3cSSatish Balay B = aij->B; 245f9508a3cSSatish Balay b = (Mat_SeqAIJ*)B->data; 246f9508a3cSSatish Balay bimax = b->imax; bi = b->i; bilen = b->ilen; bj = b->j; 247f9508a3cSSatish Balay ba = b->a; 248d6dfbf8fSBarry Smith } 249c48de900SBarry Smith } else col = in[j]; 2504b0e389bSBarry Smith if (roworiented) value = v[i*n+j]; else value = v[i+j*m]; 2515b8514ebSBarry Smith if (ignorezeroentries && value == 0.0) continue; 25230770e4dSSatish Balay MatSetValues_SeqAIJ_B_Private(row,col,value,addv); 25330770e4dSSatish Balay /* ierr = MatSetValues_SeqAIJ(aij->B,1,&row,1,&col,&value,addv);CHKERRQ(ierr); */ 2541eb62cbbSBarry Smith } 2551eb62cbbSBarry Smith } 2565ef9f2a5SBarry Smith } else { 25790f02eecSBarry Smith if (!aij->donotstash) { 258d36fbae8SSatish Balay if (roworiented) { 2595b8514ebSBarry Smith if (ignorezeroentries && v[i*n] == 0.0) continue; 2608798bf22SSatish Balay ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n);CHKERRQ(ierr); 261d36fbae8SSatish Balay } else { 2625b8514ebSBarry Smith if (ignorezeroentries && v[i] == 0.0) continue; 2638798bf22SSatish Balay ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m);CHKERRQ(ierr); 2644b0e389bSBarry Smith } 2651eb62cbbSBarry Smith } 2668a729477SBarry Smith } 26790f02eecSBarry Smith } 2683a40ed3dSBarry Smith PetscFunctionReturn(0); 2698a729477SBarry Smith } 2708a729477SBarry Smith 2714a2ae208SSatish Balay #undef __FUNCT__ 2724a2ae208SSatish Balay #define __FUNCT__ "MatGetValues_MPIAIJ" 273b1d57f15SBarry Smith PetscErrorCode MatGetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt idxm[],PetscInt n,const PetscInt idxn[],PetscScalar v[]) 274b49de8d1SLois Curfman McInnes { 275b49de8d1SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 276dfbe8321SBarry Smith PetscErrorCode ierr; 277b1d57f15SBarry Smith PetscInt i,j,rstart = aij->rstart,rend = aij->rend; 278b1d57f15SBarry Smith PetscInt cstart = aij->cstart,cend = aij->cend,row,col; 279b49de8d1SLois Curfman McInnes 2803a40ed3dSBarry Smith PetscFunctionBegin; 281b49de8d1SLois Curfman McInnes for (i=0; i<m; i++) { 28277431f27SBarry Smith if (idxm[i] < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative row: %D",idxm[i]); 28377431f27SBarry Smith if (idxm[i] >= mat->M) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",idxm[i],mat->M-1); 284b49de8d1SLois Curfman McInnes if (idxm[i] >= rstart && idxm[i] < rend) { 285b49de8d1SLois Curfman McInnes row = idxm[i] - rstart; 286b49de8d1SLois Curfman McInnes for (j=0; j<n; j++) { 28777431f27SBarry Smith if (idxn[j] < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative column: %D",idxn[j]); 28877431f27SBarry Smith if (idxn[j] >= mat->N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",idxn[j],mat->N-1); 289b49de8d1SLois Curfman McInnes if (idxn[j] >= cstart && idxn[j] < cend){ 290b49de8d1SLois Curfman McInnes col = idxn[j] - cstart; 291b49de8d1SLois Curfman McInnes ierr = MatGetValues(aij->A,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 292fa852ad4SSatish Balay } else { 293905e6a2fSBarry Smith if (!aij->colmap) { 294905e6a2fSBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 295905e6a2fSBarry Smith } 296aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 2970f5bd95cSBarry Smith ierr = PetscTableFind(aij->colmap,idxn[j]+1,&col);CHKERRQ(ierr); 298fa46199cSSatish Balay col --; 299b1fc9764SSatish Balay #else 300905e6a2fSBarry Smith col = aij->colmap[idxn[j]] - 1; 301b1fc9764SSatish Balay #endif 302e60e1c95SSatish Balay if ((col < 0) || (aij->garray[col] != idxn[j])) *(v+i*n+j) = 0.0; 303d9d09a02SSatish Balay else { 304b49de8d1SLois Curfman McInnes ierr = MatGetValues(aij->B,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 305b49de8d1SLois Curfman McInnes } 306b49de8d1SLois Curfman McInnes } 307b49de8d1SLois Curfman McInnes } 308a8c6a408SBarry Smith } else { 30929bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Only local values currently supported"); 310b49de8d1SLois Curfman McInnes } 311b49de8d1SLois Curfman McInnes } 3123a40ed3dSBarry Smith PetscFunctionReturn(0); 313b49de8d1SLois Curfman McInnes } 314bc5ccf88SSatish Balay 3154a2ae208SSatish Balay #undef __FUNCT__ 3164a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyBegin_MPIAIJ" 317dfbe8321SBarry Smith PetscErrorCode MatAssemblyBegin_MPIAIJ(Mat mat,MatAssemblyType mode) 318bc5ccf88SSatish Balay { 319bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 320dfbe8321SBarry Smith PetscErrorCode ierr; 321b1d57f15SBarry Smith PetscInt nstash,reallocs; 322bc5ccf88SSatish Balay InsertMode addv; 323bc5ccf88SSatish Balay 324bc5ccf88SSatish Balay PetscFunctionBegin; 325bc5ccf88SSatish Balay if (aij->donotstash) { 326bc5ccf88SSatish Balay PetscFunctionReturn(0); 327bc5ccf88SSatish Balay } 328bc5ccf88SSatish Balay 329bc5ccf88SSatish Balay /* make sure all processors are either in INSERTMODE or ADDMODE */ 330bc5ccf88SSatish Balay ierr = MPI_Allreduce(&mat->insertmode,&addv,1,MPI_INT,MPI_BOR,mat->comm);CHKERRQ(ierr); 331bc5ccf88SSatish Balay if (addv == (ADD_VALUES|INSERT_VALUES)) { 33229bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Some processors inserted others added"); 333bc5ccf88SSatish Balay } 334bc5ccf88SSatish Balay mat->insertmode = addv; /* in case this processor had no cache */ 335bc5ccf88SSatish Balay 3368798bf22SSatish Balay ierr = MatStashScatterBegin_Private(&mat->stash,aij->rowners);CHKERRQ(ierr); 3378798bf22SSatish Balay ierr = MatStashGetInfo_Private(&mat->stash,&nstash,&reallocs);CHKERRQ(ierr); 33877431f27SBarry Smith PetscLogInfo(aij->A,"MatAssemblyBegin_MPIAIJ:Stash has %D entries, uses %D mallocs.\n",nstash,reallocs); 339bc5ccf88SSatish Balay PetscFunctionReturn(0); 340bc5ccf88SSatish Balay } 341bc5ccf88SSatish Balay 3424a2ae208SSatish Balay #undef __FUNCT__ 3434a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyEnd_MPIAIJ" 344dfbe8321SBarry Smith PetscErrorCode MatAssemblyEnd_MPIAIJ(Mat mat,MatAssemblyType mode) 345bc5ccf88SSatish Balay { 346bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 34724f910e3SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ *)aij->A->data,*b= (Mat_SeqAIJ *)aij->B->data; 3486849ba73SBarry Smith PetscErrorCode ierr; 349b1d57f15SBarry Smith PetscMPIInt n; 350b1d57f15SBarry Smith PetscInt i,j,rstart,ncols,flg; 351b1d57f15SBarry Smith PetscInt *row,*col,other_disassembled; 35287828ca2SBarry Smith PetscScalar *val; 353bc5ccf88SSatish Balay InsertMode addv = mat->insertmode; 354bc5ccf88SSatish Balay 355bc5ccf88SSatish Balay PetscFunctionBegin; 356bc5ccf88SSatish Balay if (!aij->donotstash) { 357a2d1c673SSatish Balay while (1) { 3588798bf22SSatish Balay ierr = MatStashScatterGetMesg_Private(&mat->stash,&n,&row,&col,&val,&flg);CHKERRQ(ierr); 359a2d1c673SSatish Balay if (!flg) break; 360a2d1c673SSatish Balay 361bc5ccf88SSatish Balay for (i=0; i<n;) { 362bc5ccf88SSatish Balay /* Now identify the consecutive vals belonging to the same row */ 363bc5ccf88SSatish Balay for (j=i,rstart=row[j]; j<n; j++) { if (row[j] != rstart) break; } 364bc5ccf88SSatish Balay if (j < n) ncols = j-i; 365bc5ccf88SSatish Balay else ncols = n-i; 366bc5ccf88SSatish Balay /* Now assemble all these values with a single function call */ 367bc5ccf88SSatish Balay ierr = MatSetValues_MPIAIJ(mat,1,row+i,ncols,col+i,val+i,addv);CHKERRQ(ierr); 368bc5ccf88SSatish Balay i = j; 369bc5ccf88SSatish Balay } 370bc5ccf88SSatish Balay } 3718798bf22SSatish Balay ierr = MatStashScatterEnd_Private(&mat->stash);CHKERRQ(ierr); 372bc5ccf88SSatish Balay } 373bc5ccf88SSatish Balay 374bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->A,mode);CHKERRQ(ierr); 375bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->A,mode);CHKERRQ(ierr); 376bc5ccf88SSatish Balay 377bc5ccf88SSatish Balay /* determine if any processor has disassembled, if so we must 378bc5ccf88SSatish Balay also disassemble ourselfs, in order that we may reassemble. */ 379bc5ccf88SSatish Balay /* 380bc5ccf88SSatish Balay if nonzero structure of submatrix B cannot change then we know that 381bc5ccf88SSatish Balay no processor disassembled thus we can skip this stuff 382bc5ccf88SSatish Balay */ 383bc5ccf88SSatish Balay if (!((Mat_SeqAIJ*)aij->B->data)->nonew) { 384bc5ccf88SSatish Balay ierr = MPI_Allreduce(&mat->was_assembled,&other_disassembled,1,MPI_INT,MPI_PROD,mat->comm);CHKERRQ(ierr); 385bc5ccf88SSatish Balay if (mat->was_assembled && !other_disassembled) { 386bc5ccf88SSatish Balay ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 387f8a12787SBarry Smith /* reaccess the b because aij->B was changed */ 388f8a12787SBarry Smith b = (Mat_SeqAIJ *)aij->B->data; 389bc5ccf88SSatish Balay } 390bc5ccf88SSatish Balay } 391bc5ccf88SSatish Balay 392bc5ccf88SSatish Balay if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) { 393bc5ccf88SSatish Balay ierr = MatSetUpMultiply_MPIAIJ(mat);CHKERRQ(ierr); 394bc5ccf88SSatish Balay } 39573e7a558SHong Zhang 39673e7a558SHong Zhang b->inode.use = PETSC_FALSE; 39746f35f0bSHong Zhang b->compressedrow.use = PETSC_TRUE; 398*6ad4291fSHong Zhang c->compressedrow.checked = PETSC_FALSE; 399bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->B,mode);CHKERRQ(ierr); 400bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->B,mode);CHKERRQ(ierr); 401bc5ccf88SSatish Balay 402606d414cSSatish Balay if (aij->rowvalues) { 403606d414cSSatish Balay ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr); 404606d414cSSatish Balay aij->rowvalues = 0; 405606d414cSSatish Balay } 406a30b2313SHong Zhang 407a30b2313SHong Zhang /* used by MatAXPY() */ 408a30b2313SHong Zhang a->xtoy = 0; b->xtoy = 0; 409a30b2313SHong Zhang a->XtoY = 0; b->XtoY = 0; 410a30b2313SHong Zhang 411bc5ccf88SSatish Balay PetscFunctionReturn(0); 412bc5ccf88SSatish Balay } 413bc5ccf88SSatish Balay 4144a2ae208SSatish Balay #undef __FUNCT__ 4154a2ae208SSatish Balay #define __FUNCT__ "MatZeroEntries_MPIAIJ" 416dfbe8321SBarry Smith PetscErrorCode MatZeroEntries_MPIAIJ(Mat A) 4171eb62cbbSBarry Smith { 41844a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 419dfbe8321SBarry Smith PetscErrorCode ierr; 4203a40ed3dSBarry Smith 4213a40ed3dSBarry Smith PetscFunctionBegin; 42278b31e54SBarry Smith ierr = MatZeroEntries(l->A);CHKERRQ(ierr); 42378b31e54SBarry Smith ierr = MatZeroEntries(l->B);CHKERRQ(ierr); 4243a40ed3dSBarry Smith PetscFunctionReturn(0); 4251eb62cbbSBarry Smith } 4261eb62cbbSBarry Smith 4274a2ae208SSatish Balay #undef __FUNCT__ 4284a2ae208SSatish Balay #define __FUNCT__ "MatZeroRows_MPIAIJ" 429dfbe8321SBarry Smith PetscErrorCode MatZeroRows_MPIAIJ(Mat A,IS is,const PetscScalar *diag) 4301eb62cbbSBarry Smith { 43144a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 4326849ba73SBarry Smith PetscErrorCode ierr; 433b1d57f15SBarry Smith PetscMPIInt size = l->size,imdex,n,rank = l->rank,tag = A->tag; 434b1d57f15SBarry Smith PetscInt i,N,*rows,*owners = l->rowners; 435b1d57f15SBarry Smith PetscInt *nprocs,j,idx,nsends,row; 436b1d57f15SBarry Smith PetscInt nmax,*svalues,*starts,*owner,nrecvs; 437b1d57f15SBarry Smith PetscInt *rvalues,count,base,slen,*source; 438b1d57f15SBarry Smith PetscInt *lens,*lrows,*values,rstart=l->rstart; 439d6dfbf8fSBarry Smith MPI_Comm comm = A->comm; 4401eb62cbbSBarry Smith MPI_Request *send_waits,*recv_waits; 4411eb62cbbSBarry Smith MPI_Status recv_status,*send_status; 4421eb62cbbSBarry Smith IS istmp; 44335d8aa7fSBarry Smith PetscTruth found; 4441eb62cbbSBarry Smith 4453a40ed3dSBarry Smith PetscFunctionBegin; 446e03a110bSBarry Smith ierr = ISGetLocalSize(is,&N);CHKERRQ(ierr); 44778b31e54SBarry Smith ierr = ISGetIndices(is,&rows);CHKERRQ(ierr); 4481eb62cbbSBarry Smith 4491eb62cbbSBarry Smith /* first count number of contributors to each processor */ 450b1d57f15SBarry Smith ierr = PetscMalloc(2*size*sizeof(PetscInt),&nprocs);CHKERRQ(ierr); 451b1d57f15SBarry Smith ierr = PetscMemzero(nprocs,2*size*sizeof(PetscInt));CHKERRQ(ierr); 452b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&owner);CHKERRQ(ierr); /* see note*/ 4531eb62cbbSBarry Smith for (i=0; i<N; i++) { 4541eb62cbbSBarry Smith idx = rows[i]; 45535d8aa7fSBarry Smith found = PETSC_FALSE; 45617699dbbSLois Curfman McInnes for (j=0; j<size; j++) { 4571eb62cbbSBarry Smith if (idx >= owners[j] && idx < owners[j+1]) { 458c1dc657dSBarry Smith nprocs[2*j]++; nprocs[2*j+1] = 1; owner[i] = j; found = PETSC_TRUE; break; 4591eb62cbbSBarry Smith } 4601eb62cbbSBarry Smith } 46129bbc08cSBarry Smith if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Index out of range"); 4621eb62cbbSBarry Smith } 463c1dc657dSBarry Smith nsends = 0; for (i=0; i<size; i++) { nsends += nprocs[2*i+1];} 4641eb62cbbSBarry Smith 4651eb62cbbSBarry Smith /* inform other processors of number of messages and max length*/ 466c1dc657dSBarry Smith ierr = PetscMaxSum(comm,nprocs,&nmax,&nrecvs);CHKERRQ(ierr); 4671eb62cbbSBarry Smith 4681eb62cbbSBarry Smith /* post receives: */ 469b1d57f15SBarry Smith ierr = PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(PetscInt),&rvalues);CHKERRQ(ierr); 470b0a32e0cSBarry Smith ierr = PetscMalloc((nrecvs+1)*sizeof(MPI_Request),&recv_waits);CHKERRQ(ierr); 4711eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 472b1d57f15SBarry Smith ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPIU_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr); 4731eb62cbbSBarry Smith } 4741eb62cbbSBarry Smith 4751eb62cbbSBarry Smith /* do sends: 4761eb62cbbSBarry Smith 1) starts[i] gives the starting index in svalues for stuff going to 4771eb62cbbSBarry Smith the ith processor 4781eb62cbbSBarry Smith */ 479b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&svalues);CHKERRQ(ierr); 480b0a32e0cSBarry Smith ierr = PetscMalloc((nsends+1)*sizeof(MPI_Request),&send_waits);CHKERRQ(ierr); 481b1d57f15SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&starts);CHKERRQ(ierr); 4821eb62cbbSBarry Smith starts[0] = 0; 483c1dc657dSBarry Smith for (i=1; i<size; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4841eb62cbbSBarry Smith for (i=0; i<N; i++) { 4851eb62cbbSBarry Smith svalues[starts[owner[i]]++] = rows[i]; 4861eb62cbbSBarry Smith } 4876831982aSBarry Smith ierr = ISRestoreIndices(is,&rows);CHKERRQ(ierr); 4881eb62cbbSBarry Smith 4891eb62cbbSBarry Smith starts[0] = 0; 490c1dc657dSBarry Smith for (i=1; i<size+1; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4911eb62cbbSBarry Smith count = 0; 49217699dbbSLois Curfman McInnes for (i=0; i<size; i++) { 493c1dc657dSBarry Smith if (nprocs[2*i+1]) { 494b1d57f15SBarry Smith ierr = MPI_Isend(svalues+starts[i],nprocs[2*i],MPIU_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr); 4951eb62cbbSBarry Smith } 4961eb62cbbSBarry Smith } 497606d414cSSatish Balay ierr = PetscFree(starts);CHKERRQ(ierr); 4981eb62cbbSBarry Smith 49917699dbbSLois Curfman McInnes base = owners[rank]; 5001eb62cbbSBarry Smith 5011eb62cbbSBarry Smith /* wait on receives */ 502b1d57f15SBarry Smith ierr = PetscMalloc(2*(nrecvs+1)*sizeof(PetscInt),&lens);CHKERRQ(ierr); 5031eb62cbbSBarry Smith source = lens + nrecvs; 5041eb62cbbSBarry Smith count = nrecvs; slen = 0; 5051eb62cbbSBarry Smith while (count) { 506ca161407SBarry Smith ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr); 5071eb62cbbSBarry Smith /* unpack receives into our local space */ 508b1d57f15SBarry Smith ierr = MPI_Get_count(&recv_status,MPIU_INT,&n);CHKERRQ(ierr); 509d6dfbf8fSBarry Smith source[imdex] = recv_status.MPI_SOURCE; 510d6dfbf8fSBarry Smith lens[imdex] = n; 5111eb62cbbSBarry Smith slen += n; 5121eb62cbbSBarry Smith count--; 5131eb62cbbSBarry Smith } 514606d414cSSatish Balay ierr = PetscFree(recv_waits);CHKERRQ(ierr); 5151eb62cbbSBarry Smith 5161eb62cbbSBarry Smith /* move the data into the send scatter */ 517b1d57f15SBarry Smith ierr = PetscMalloc((slen+1)*sizeof(PetscInt),&lrows);CHKERRQ(ierr); 5181eb62cbbSBarry Smith count = 0; 5191eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 5201eb62cbbSBarry Smith values = rvalues + i*nmax; 5211eb62cbbSBarry Smith for (j=0; j<lens[i]; j++) { 5221eb62cbbSBarry Smith lrows[count++] = values[j] - base; 5231eb62cbbSBarry Smith } 5241eb62cbbSBarry Smith } 525606d414cSSatish Balay ierr = PetscFree(rvalues);CHKERRQ(ierr); 526606d414cSSatish Balay ierr = PetscFree(lens);CHKERRQ(ierr); 527606d414cSSatish Balay ierr = PetscFree(owner);CHKERRQ(ierr); 528606d414cSSatish Balay ierr = PetscFree(nprocs);CHKERRQ(ierr); 5291eb62cbbSBarry Smith 5301eb62cbbSBarry Smith /* actually zap the local rows */ 531029af93fSBarry Smith ierr = ISCreateGeneral(PETSC_COMM_SELF,slen,lrows,&istmp);CHKERRQ(ierr); 532b0a32e0cSBarry Smith PetscLogObjectParent(A,istmp); 5336a5c57faSSatish Balay 5346eb55b6aSBarry Smith /* 5356eb55b6aSBarry Smith Zero the required rows. If the "diagonal block" of the matrix 5366eb55b6aSBarry Smith is square and the user wishes to set the diagonal we use seperate 5376eb55b6aSBarry Smith code so that MatSetValues() is not called for each diagonal allocating 5386eb55b6aSBarry Smith new memory, thus calling lots of mallocs and slowing things down. 5396eb55b6aSBarry Smith 5406eb55b6aSBarry Smith Contributed by: Mathew Knepley 5416eb55b6aSBarry Smith */ 542e2d53e46SBarry Smith /* must zero l->B before l->A because the (diag) case below may put values into l->B*/ 543e2d53e46SBarry Smith ierr = MatZeroRows(l->B,istmp,0);CHKERRQ(ierr); 5446eb55b6aSBarry Smith if (diag && (l->A->M == l->A->N)) { 5456eb55b6aSBarry Smith ierr = MatZeroRows(l->A,istmp,diag);CHKERRQ(ierr); 546e2d53e46SBarry Smith } else if (diag) { 547e2d53e46SBarry Smith ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr); 548fa46199cSSatish Balay if (((Mat_SeqAIJ*)l->A->data)->nonew) { 54929bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MatZeroRows() on rectangular matrices cannot be used with the Mat options\n\ 550fa46199cSSatish Balay MAT_NO_NEW_NONZERO_LOCATIONS,MAT_NEW_NONZERO_LOCATION_ERR,MAT_NEW_NONZERO_ALLOCATION_ERR"); 5516525c446SSatish Balay } 552e2d53e46SBarry Smith for (i = 0; i < slen; i++) { 553e2d53e46SBarry Smith row = lrows[i] + rstart; 554e2d53e46SBarry Smith ierr = MatSetValues(A,1,&row,1,&row,diag,INSERT_VALUES);CHKERRQ(ierr); 555e2d53e46SBarry Smith } 556e2d53e46SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 557e2d53e46SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 5586eb55b6aSBarry Smith } else { 5596a5c57faSSatish Balay ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr); 5606eb55b6aSBarry Smith } 56178b31e54SBarry Smith ierr = ISDestroy(istmp);CHKERRQ(ierr); 562606d414cSSatish Balay ierr = PetscFree(lrows);CHKERRQ(ierr); 56372dacd9aSBarry Smith 5641eb62cbbSBarry Smith /* wait on sends */ 5651eb62cbbSBarry Smith if (nsends) { 566b0a32e0cSBarry Smith ierr = PetscMalloc(nsends*sizeof(MPI_Status),&send_status);CHKERRQ(ierr); 567ca161407SBarry Smith ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr); 568606d414cSSatish Balay ierr = PetscFree(send_status);CHKERRQ(ierr); 5691eb62cbbSBarry Smith } 570606d414cSSatish Balay ierr = PetscFree(send_waits);CHKERRQ(ierr); 571606d414cSSatish Balay ierr = PetscFree(svalues);CHKERRQ(ierr); 5721eb62cbbSBarry Smith 5733a40ed3dSBarry Smith PetscFunctionReturn(0); 5741eb62cbbSBarry Smith } 5751eb62cbbSBarry Smith 5764a2ae208SSatish Balay #undef __FUNCT__ 5774a2ae208SSatish Balay #define __FUNCT__ "MatMult_MPIAIJ" 578dfbe8321SBarry Smith PetscErrorCode MatMult_MPIAIJ(Mat A,Vec xx,Vec yy) 5791eb62cbbSBarry Smith { 580416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 581dfbe8321SBarry Smith PetscErrorCode ierr; 582b1d57f15SBarry Smith PetscInt nt; 583416022c9SBarry Smith 5843a40ed3dSBarry Smith PetscFunctionBegin; 585a2ce50c7SBarry Smith ierr = VecGetLocalSize(xx,&nt);CHKERRQ(ierr); 586273d9f13SBarry Smith if (nt != A->n) { 58777431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Incompatible partition of A (%D) and xx (%D)",A->n,nt); 588fbd6ef76SBarry Smith } 58943a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 590f830108cSBarry Smith ierr = (*a->A->ops->mult)(a->A,xx,yy);CHKERRQ(ierr); 59143a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 592f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,yy,yy);CHKERRQ(ierr); 5933a40ed3dSBarry Smith PetscFunctionReturn(0); 5941eb62cbbSBarry Smith } 5951eb62cbbSBarry Smith 5964a2ae208SSatish Balay #undef __FUNCT__ 5974a2ae208SSatish Balay #define __FUNCT__ "MatMultAdd_MPIAIJ" 598dfbe8321SBarry Smith PetscErrorCode MatMultAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 599da3a660dSBarry Smith { 600416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 601dfbe8321SBarry Smith PetscErrorCode ierr; 6023a40ed3dSBarry Smith 6033a40ed3dSBarry Smith PetscFunctionBegin; 60443a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 605f830108cSBarry Smith ierr = (*a->A->ops->multadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 60643a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 607f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,zz,zz);CHKERRQ(ierr); 6083a40ed3dSBarry Smith PetscFunctionReturn(0); 609da3a660dSBarry Smith } 610da3a660dSBarry Smith 6114a2ae208SSatish Balay #undef __FUNCT__ 6124a2ae208SSatish Balay #define __FUNCT__ "MatMultTranspose_MPIAIJ" 613dfbe8321SBarry Smith PetscErrorCode MatMultTranspose_MPIAIJ(Mat A,Vec xx,Vec yy) 614da3a660dSBarry Smith { 615416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 616dfbe8321SBarry Smith PetscErrorCode ierr; 617da3a660dSBarry Smith 6183a40ed3dSBarry Smith PetscFunctionBegin; 619da3a660dSBarry Smith /* do nondiagonal part */ 6207c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 621da3a660dSBarry Smith /* send it on its way */ 622537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 623da3a660dSBarry Smith /* do local part */ 6247c922b88SBarry Smith ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 625da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 626da3a660dSBarry Smith /* inserted in yy until the next line, which is true for my implementation*/ 627da3a660dSBarry Smith /* but is not perhaps always true. */ 628537820f0SBarry Smith ierr = VecScatterEnd(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6293a40ed3dSBarry Smith PetscFunctionReturn(0); 630da3a660dSBarry Smith } 631da3a660dSBarry Smith 632cd0d46ebSvictorle EXTERN_C_BEGIN 633cd0d46ebSvictorle #undef __FUNCT__ 6345fbd3699SBarry Smith #define __FUNCT__ "MatIsTranspose_MPIAIJ" 635dfbe8321SBarry Smith PetscErrorCode MatIsTranspose_MPIAIJ(Mat Amat,Mat Bmat,PetscTruth tol,PetscTruth *f) 636cd0d46ebSvictorle { 6374f423910Svictorle MPI_Comm comm; 638cd0d46ebSvictorle Mat_MPIAIJ *Aij = (Mat_MPIAIJ *) Amat->data, *Bij; 63966501d38Svictorle Mat Adia = Aij->A, Bdia, Aoff,Boff,*Aoffs,*Boffs; 640cd0d46ebSvictorle IS Me,Notme; 6416849ba73SBarry Smith PetscErrorCode ierr; 642b1d57f15SBarry Smith PetscInt M,N,first,last,*notme,i; 643b1d57f15SBarry Smith PetscMPIInt size; 644cd0d46ebSvictorle 645cd0d46ebSvictorle PetscFunctionBegin; 64642e5f5b4Svictorle 64742e5f5b4Svictorle /* Easy test: symmetric diagonal block */ 64866501d38Svictorle Bij = (Mat_MPIAIJ *) Bmat->data; Bdia = Bij->A; 6495485867bSBarry Smith ierr = MatIsTranspose(Adia,Bdia,tol,f);CHKERRQ(ierr); 650cd0d46ebSvictorle if (!*f) PetscFunctionReturn(0); 6514f423910Svictorle ierr = PetscObjectGetComm((PetscObject)Amat,&comm);CHKERRQ(ierr); 652b1d57f15SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 653b1d57f15SBarry Smith if (size == 1) PetscFunctionReturn(0); 65442e5f5b4Svictorle 65542e5f5b4Svictorle /* Hard test: off-diagonal block. This takes a MatGetSubMatrix. */ 656cd0d46ebSvictorle ierr = MatGetSize(Amat,&M,&N);CHKERRQ(ierr); 657cd0d46ebSvictorle ierr = MatGetOwnershipRange(Amat,&first,&last);CHKERRQ(ierr); 658b1d57f15SBarry Smith ierr = PetscMalloc((N-last+first)*sizeof(PetscInt),¬me);CHKERRQ(ierr); 659cd0d46ebSvictorle for (i=0; i<first; i++) notme[i] = i; 660cd0d46ebSvictorle for (i=last; i<M; i++) notme[i-last+first] = i; 661268466fbSBarry Smith ierr = ISCreateGeneral(MPI_COMM_SELF,N-last+first,notme,&Notme);CHKERRQ(ierr); 662268466fbSBarry Smith ierr = ISCreateStride(MPI_COMM_SELF,last-first,first,1,&Me);CHKERRQ(ierr); 663268466fbSBarry Smith ierr = MatGetSubMatrices(Amat,1,&Me,&Notme,MAT_INITIAL_MATRIX,&Aoffs);CHKERRQ(ierr); 66466501d38Svictorle Aoff = Aoffs[0]; 665268466fbSBarry Smith ierr = MatGetSubMatrices(Bmat,1,&Notme,&Me,MAT_INITIAL_MATRIX,&Boffs);CHKERRQ(ierr); 66666501d38Svictorle Boff = Boffs[0]; 6675485867bSBarry Smith ierr = MatIsTranspose(Aoff,Boff,tol,f);CHKERRQ(ierr); 66866501d38Svictorle ierr = MatDestroyMatrices(1,&Aoffs);CHKERRQ(ierr); 66966501d38Svictorle ierr = MatDestroyMatrices(1,&Boffs);CHKERRQ(ierr); 67042e5f5b4Svictorle ierr = ISDestroy(Me);CHKERRQ(ierr); 67142e5f5b4Svictorle ierr = ISDestroy(Notme);CHKERRQ(ierr); 67242e5f5b4Svictorle 673cd0d46ebSvictorle PetscFunctionReturn(0); 674cd0d46ebSvictorle } 675cd0d46ebSvictorle EXTERN_C_END 676cd0d46ebSvictorle 6774a2ae208SSatish Balay #undef __FUNCT__ 6784a2ae208SSatish Balay #define __FUNCT__ "MatMultTransposeAdd_MPIAIJ" 679dfbe8321SBarry Smith PetscErrorCode MatMultTransposeAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 680da3a660dSBarry Smith { 681416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 682dfbe8321SBarry Smith PetscErrorCode ierr; 683da3a660dSBarry Smith 6843a40ed3dSBarry Smith PetscFunctionBegin; 685da3a660dSBarry Smith /* do nondiagonal part */ 6867c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 687da3a660dSBarry Smith /* send it on its way */ 688537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 689da3a660dSBarry Smith /* do local part */ 6907c922b88SBarry Smith ierr = (*a->A->ops->multtransposeadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 691da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 692da3a660dSBarry Smith /* inserted in yy until the next line, which is true for my implementation*/ 693da3a660dSBarry Smith /* but is not perhaps always true. */ 6940a198c4cSBarry Smith ierr = VecScatterEnd(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6953a40ed3dSBarry Smith PetscFunctionReturn(0); 696da3a660dSBarry Smith } 697da3a660dSBarry Smith 6981eb62cbbSBarry Smith /* 6991eb62cbbSBarry Smith This only works correctly for square matrices where the subblock A->A is the 7001eb62cbbSBarry Smith diagonal block 7011eb62cbbSBarry Smith */ 7024a2ae208SSatish Balay #undef __FUNCT__ 7034a2ae208SSatish Balay #define __FUNCT__ "MatGetDiagonal_MPIAIJ" 704dfbe8321SBarry Smith PetscErrorCode MatGetDiagonal_MPIAIJ(Mat A,Vec v) 7051eb62cbbSBarry Smith { 706dfbe8321SBarry Smith PetscErrorCode ierr; 707416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 7083a40ed3dSBarry Smith 7093a40ed3dSBarry Smith PetscFunctionBegin; 710273d9f13SBarry Smith if (A->M != A->N) SETERRQ(PETSC_ERR_SUP,"Supports only square matrix where A->A is diag block"); 7115baf8537SBarry Smith if (a->rstart != a->cstart || a->rend != a->cend) { 71229bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"row partition must equal col partition"); 7133a40ed3dSBarry Smith } 7143a40ed3dSBarry Smith ierr = MatGetDiagonal(a->A,v);CHKERRQ(ierr); 7153a40ed3dSBarry Smith PetscFunctionReturn(0); 7161eb62cbbSBarry Smith } 7171eb62cbbSBarry Smith 7184a2ae208SSatish Balay #undef __FUNCT__ 7194a2ae208SSatish Balay #define __FUNCT__ "MatScale_MPIAIJ" 720dfbe8321SBarry Smith PetscErrorCode MatScale_MPIAIJ(const PetscScalar aa[],Mat A) 721052efed2SBarry Smith { 722052efed2SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 723dfbe8321SBarry Smith PetscErrorCode ierr; 7243a40ed3dSBarry Smith 7253a40ed3dSBarry Smith PetscFunctionBegin; 726052efed2SBarry Smith ierr = MatScale(aa,a->A);CHKERRQ(ierr); 727052efed2SBarry Smith ierr = MatScale(aa,a->B);CHKERRQ(ierr); 7283a40ed3dSBarry Smith PetscFunctionReturn(0); 729052efed2SBarry Smith } 730052efed2SBarry Smith 7314a2ae208SSatish Balay #undef __FUNCT__ 7324a2ae208SSatish Balay #define __FUNCT__ "MatDestroy_MPIAIJ" 733dfbe8321SBarry Smith PetscErrorCode MatDestroy_MPIAIJ(Mat mat) 7341eb62cbbSBarry Smith { 73544a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 736dfbe8321SBarry Smith PetscErrorCode ierr; 73783e2fdc7SBarry Smith 7383a40ed3dSBarry Smith PetscFunctionBegin; 739aa482453SBarry Smith #if defined(PETSC_USE_LOG) 74077431f27SBarry Smith PetscLogObjectState((PetscObject)mat,"Rows=%D, Cols=%D",mat->M,mat->N); 741a5a9c739SBarry Smith #endif 7428798bf22SSatish Balay ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr); 743606d414cSSatish Balay ierr = PetscFree(aij->rowners);CHKERRQ(ierr); 74478b31e54SBarry Smith ierr = MatDestroy(aij->A);CHKERRQ(ierr); 74578b31e54SBarry Smith ierr = MatDestroy(aij->B);CHKERRQ(ierr); 746aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 7470f5bd95cSBarry Smith if (aij->colmap) {ierr = PetscTableDelete(aij->colmap);CHKERRQ(ierr);} 748b1fc9764SSatish Balay #else 749606d414cSSatish Balay if (aij->colmap) {ierr = PetscFree(aij->colmap);CHKERRQ(ierr);} 750b1fc9764SSatish Balay #endif 751606d414cSSatish Balay if (aij->garray) {ierr = PetscFree(aij->garray);CHKERRQ(ierr);} 7527c922b88SBarry Smith if (aij->lvec) {ierr = VecDestroy(aij->lvec);CHKERRQ(ierr);} 7537c922b88SBarry Smith if (aij->Mvctx) {ierr = VecScatterDestroy(aij->Mvctx);CHKERRQ(ierr);} 754606d414cSSatish Balay if (aij->rowvalues) {ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr);} 755606d414cSSatish Balay ierr = PetscFree(aij);CHKERRQ(ierr); 756901853e0SKris Buschelman 757901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatStoreValues_C","",PETSC_NULL);CHKERRQ(ierr); 758901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatRetrieveValues_C","",PETSC_NULL);CHKERRQ(ierr); 759901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatGetDiagonalBlock_C","",PETSC_NULL);CHKERRQ(ierr); 760901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatIsTranspose_C","",PETSC_NULL);CHKERRQ(ierr); 761901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocation_C","",PETSC_NULL);CHKERRQ(ierr); 762ff69c46cSKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocationCSR_C","",PETSC_NULL);CHKERRQ(ierr); 763901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatDiagonalScaleLocal_C","",PETSC_NULL);CHKERRQ(ierr); 7643a40ed3dSBarry Smith PetscFunctionReturn(0); 7651eb62cbbSBarry Smith } 766ee50ffe9SBarry Smith 7674a2ae208SSatish Balay #undef __FUNCT__ 7688e2fed03SBarry Smith #define __FUNCT__ "MatView_MPIAIJ_Binary" 769dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_Binary(Mat mat,PetscViewer viewer) 7708e2fed03SBarry Smith { 7718e2fed03SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 7728e2fed03SBarry Smith Mat_SeqAIJ* A = (Mat_SeqAIJ*)aij->A->data; 7738e2fed03SBarry Smith Mat_SeqAIJ* B = (Mat_SeqAIJ*)aij->B->data; 7746849ba73SBarry Smith PetscErrorCode ierr; 77532dcc486SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag; 7766f69ff64SBarry Smith int fd; 7776f69ff64SBarry Smith PetscInt nz,header[4],*row_lengths,*range,rlen,i; 7786f69ff64SBarry Smith PetscInt nzmax,*column_indices,j,k,col,*garray = aij->garray,cnt,cstart = aij->cstart,rnz; 7798e2fed03SBarry Smith PetscScalar *column_values; 7808e2fed03SBarry Smith 7818e2fed03SBarry Smith PetscFunctionBegin; 7828e2fed03SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 7838e2fed03SBarry Smith ierr = MPI_Comm_size(mat->comm,&size);CHKERRQ(ierr); 7848e2fed03SBarry Smith nz = A->nz + B->nz; 785958c9bccSBarry Smith if (!rank) { 7868e2fed03SBarry Smith header[0] = MAT_FILE_COOKIE; 7878e2fed03SBarry Smith header[1] = mat->M; 7888e2fed03SBarry Smith header[2] = mat->N; 789b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,&header[3],1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr); 7908e2fed03SBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 7916f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,header,4,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 7928e2fed03SBarry Smith /* get largest number of rows any processor has */ 7938e2fed03SBarry Smith rlen = mat->m; 7948e2fed03SBarry Smith ierr = PetscMapGetGlobalRange(mat->rmap,&range);CHKERRQ(ierr); 7958e2fed03SBarry Smith for (i=1; i<size; i++) { 7968e2fed03SBarry Smith rlen = PetscMax(rlen,range[i+1] - range[i]); 7978e2fed03SBarry Smith } 7988e2fed03SBarry Smith } else { 799b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,0,1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr); 8008e2fed03SBarry Smith rlen = mat->m; 8018e2fed03SBarry Smith } 8028e2fed03SBarry Smith 8038e2fed03SBarry Smith /* load up the local row counts */ 804b1d57f15SBarry Smith ierr = PetscMalloc((rlen+1)*sizeof(PetscInt),&row_lengths);CHKERRQ(ierr); 8058e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8068e2fed03SBarry Smith row_lengths[i] = A->i[i+1] - A->i[i] + B->i[i+1] - B->i[i]; 8078e2fed03SBarry Smith } 8088e2fed03SBarry Smith 8098e2fed03SBarry Smith /* store the row lengths to the file */ 810958c9bccSBarry Smith if (!rank) { 8118e2fed03SBarry Smith MPI_Status status; 8126f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,mat->m,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8138e2fed03SBarry Smith for (i=1; i<size; i++) { 8148e2fed03SBarry Smith rlen = range[i+1] - range[i]; 815b1d57f15SBarry Smith ierr = MPI_Recv(row_lengths,rlen,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 8166f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,rlen,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8178e2fed03SBarry Smith } 8188e2fed03SBarry Smith } else { 819b1d57f15SBarry Smith ierr = MPI_Send(row_lengths,mat->m,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8208e2fed03SBarry Smith } 8218e2fed03SBarry Smith ierr = PetscFree(row_lengths);CHKERRQ(ierr); 8228e2fed03SBarry Smith 8238e2fed03SBarry Smith /* load up the local column indices */ 8248e2fed03SBarry Smith nzmax = nz; /* )th processor needs space a largest processor needs */ 825b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,&nzmax,1,MPIU_INT,MPI_MAX,0,mat->comm);CHKERRQ(ierr); 826b1d57f15SBarry Smith ierr = PetscMalloc((nzmax+1)*sizeof(PetscInt),&column_indices);CHKERRQ(ierr); 8278e2fed03SBarry Smith cnt = 0; 8288e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8298e2fed03SBarry Smith for (j=B->i[i]; j<B->i[i+1]; j++) { 8308e2fed03SBarry Smith if ( (col = garray[B->j[j]]) > cstart) break; 8318e2fed03SBarry Smith column_indices[cnt++] = col; 8328e2fed03SBarry Smith } 8338e2fed03SBarry Smith for (k=A->i[i]; k<A->i[i+1]; k++) { 8348e2fed03SBarry Smith column_indices[cnt++] = A->j[k] + cstart; 8358e2fed03SBarry Smith } 8368e2fed03SBarry Smith for (; j<B->i[i+1]; j++) { 8378e2fed03SBarry Smith column_indices[cnt++] = garray[B->j[j]]; 8388e2fed03SBarry Smith } 8398e2fed03SBarry Smith } 84077431f27SBarry Smith if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz); 8418e2fed03SBarry Smith 8428e2fed03SBarry Smith /* store the column indices to the file */ 843958c9bccSBarry Smith if (!rank) { 8448e2fed03SBarry Smith MPI_Status status; 8456f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,nz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8468e2fed03SBarry Smith for (i=1; i<size; i++) { 847b1d57f15SBarry Smith ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 84877431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 849b1d57f15SBarry Smith ierr = MPI_Recv(column_indices,rnz,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 8506f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,rnz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8518e2fed03SBarry Smith } 8528e2fed03SBarry Smith } else { 853b1d57f15SBarry Smith ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 854b1d57f15SBarry Smith ierr = MPI_Send(column_indices,nz,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8558e2fed03SBarry Smith } 8568e2fed03SBarry Smith ierr = PetscFree(column_indices);CHKERRQ(ierr); 8578e2fed03SBarry Smith 8588e2fed03SBarry Smith /* load up the local column values */ 8598e2fed03SBarry Smith ierr = PetscMalloc((nzmax+1)*sizeof(PetscScalar),&column_values);CHKERRQ(ierr); 8608e2fed03SBarry Smith cnt = 0; 8618e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8628e2fed03SBarry Smith for (j=B->i[i]; j<B->i[i+1]; j++) { 8638e2fed03SBarry Smith if ( garray[B->j[j]] > cstart) break; 8648e2fed03SBarry Smith column_values[cnt++] = B->a[j]; 8658e2fed03SBarry Smith } 8668e2fed03SBarry Smith for (k=A->i[i]; k<A->i[i+1]; k++) { 8678e2fed03SBarry Smith column_values[cnt++] = A->a[k]; 8688e2fed03SBarry Smith } 8698e2fed03SBarry Smith for (; j<B->i[i+1]; j++) { 8708e2fed03SBarry Smith column_values[cnt++] = B->a[j]; 8718e2fed03SBarry Smith } 8728e2fed03SBarry Smith } 87377431f27SBarry Smith if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_PLIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz); 8748e2fed03SBarry Smith 8758e2fed03SBarry Smith /* store the column values to the file */ 876958c9bccSBarry Smith if (!rank) { 8778e2fed03SBarry Smith MPI_Status status; 8786f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,nz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8798e2fed03SBarry Smith for (i=1; i<size; i++) { 880b1d57f15SBarry Smith ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 88177431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 882b021249fSBarry Smith ierr = MPI_Recv(column_values,rnz,MPIU_SCALAR,i,tag,mat->comm,&status);CHKERRQ(ierr); 8836f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,rnz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8848e2fed03SBarry Smith } 8858e2fed03SBarry Smith } else { 886b1d57f15SBarry Smith ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8878e2fed03SBarry Smith ierr = MPI_Send(column_values,nz,MPIU_SCALAR,0,tag,mat->comm);CHKERRQ(ierr); 8888e2fed03SBarry Smith } 8898e2fed03SBarry Smith ierr = PetscFree(column_values);CHKERRQ(ierr); 8908e2fed03SBarry Smith PetscFunctionReturn(0); 8918e2fed03SBarry Smith } 8928e2fed03SBarry Smith 8938e2fed03SBarry Smith #undef __FUNCT__ 8944a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ_ASCIIorDraworSocket" 895dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_ASCIIorDraworSocket(Mat mat,PetscViewer viewer) 896416022c9SBarry Smith { 89744a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 898dfbe8321SBarry Smith PetscErrorCode ierr; 89932dcc486SBarry Smith PetscMPIInt rank = aij->rank,size = aij->size; 90032077d6dSBarry Smith PetscTruth isdraw,iascii,flg,isbinary; 901b0a32e0cSBarry Smith PetscViewer sviewer; 902f3ef73ceSBarry Smith PetscViewerFormat format; 903416022c9SBarry Smith 9043a40ed3dSBarry Smith PetscFunctionBegin; 905fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 90632077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 9078e2fed03SBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 90832077d6dSBarry Smith if (iascii) { 909b0a32e0cSBarry Smith ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 910456192e2SBarry Smith if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 9114e220ebcSLois Curfman McInnes MatInfo info; 9121dab6e02SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 913888f2ed8SSatish Balay ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr); 914b0a32e0cSBarry Smith ierr = PetscOptionsHasName(PETSC_NULL,"-mat_aij_no_inode",&flg);CHKERRQ(ierr); 9156831982aSBarry Smith if (flg) { 91677431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, not using I-node routines\n", 91777431f27SBarry Smith rank,mat->m,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 9186831982aSBarry Smith } else { 91977431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, using I-node routines\n", 92077431f27SBarry Smith rank,mat->m,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 9216831982aSBarry Smith } 922888f2ed8SSatish Balay ierr = MatGetInfo(aij->A,MAT_LOCAL,&info);CHKERRQ(ierr); 92377431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] on-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 924888f2ed8SSatish Balay ierr = MatGetInfo(aij->B,MAT_LOCAL,&info);CHKERRQ(ierr); 92577431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] off-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 926b0a32e0cSBarry Smith ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 927a40aa06bSLois Curfman McInnes ierr = VecScatterView(aij->Mvctx,viewer);CHKERRQ(ierr); 9283a40ed3dSBarry Smith PetscFunctionReturn(0); 929fb9695e5SSatish Balay } else if (format == PETSC_VIEWER_ASCII_INFO) { 9303a40ed3dSBarry Smith PetscFunctionReturn(0); 9314aedb280SBarry Smith } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) { 9324aedb280SBarry Smith PetscFunctionReturn(0); 93308480c60SBarry Smith } 9348e2fed03SBarry Smith } else if (isbinary) { 9358e2fed03SBarry Smith if (size == 1) { 9368e2fed03SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 9378e2fed03SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9388e2fed03SBarry Smith } else { 9398e2fed03SBarry Smith ierr = MatView_MPIAIJ_Binary(mat,viewer);CHKERRQ(ierr); 9408e2fed03SBarry Smith } 9418e2fed03SBarry Smith PetscFunctionReturn(0); 9420f5bd95cSBarry Smith } else if (isdraw) { 943b0a32e0cSBarry Smith PetscDraw draw; 94419bcc07fSBarry Smith PetscTruth isnull; 945b0a32e0cSBarry Smith ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr); 946b0a32e0cSBarry Smith ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); if (isnull) PetscFunctionReturn(0); 94719bcc07fSBarry Smith } 94819bcc07fSBarry Smith 94917699dbbSLois Curfman McInnes if (size == 1) { 950e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 95178b31e54SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9523a40ed3dSBarry Smith } else { 95395373324SBarry Smith /* assemble the entire matrix onto first processor. */ 95495373324SBarry Smith Mat A; 955ec8511deSBarry Smith Mat_SeqAIJ *Aloc; 956b1d57f15SBarry Smith PetscInt M = mat->M,N = mat->N,m,*ai,*aj,row,*cols,i,*ct; 95787828ca2SBarry Smith PetscScalar *a; 9582ee70a88SLois Curfman McInnes 95917699dbbSLois Curfman McInnes if (!rank) { 960f204ca49SKris Buschelman ierr = MatCreate(mat->comm,M,N,M,N,&A);CHKERRQ(ierr); 9613a40ed3dSBarry Smith } else { 962f204ca49SKris Buschelman ierr = MatCreate(mat->comm,0,0,M,N,&A);CHKERRQ(ierr); 96395373324SBarry Smith } 964f204ca49SKris Buschelman /* This is just a temporary matrix, so explicitly using MATMPIAIJ is probably best */ 965f204ca49SKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 966f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 967b0a32e0cSBarry Smith PetscLogObjectParent(mat,A); 968416022c9SBarry Smith 96995373324SBarry Smith /* copy over the A part */ 970ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->A->data; 971273d9f13SBarry Smith m = aij->A->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 97295373324SBarry Smith row = aij->rstart; 973bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] += aij->cstart ;} 97495373324SBarry Smith for (i=0; i<m; i++) { 975416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],aj,a,INSERT_VALUES);CHKERRQ(ierr); 97695373324SBarry Smith row++; a += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 97795373324SBarry Smith } 9782ee70a88SLois Curfman McInnes aj = Aloc->j; 979bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] -= aij->cstart;} 98095373324SBarry Smith 98195373324SBarry Smith /* copy over the B part */ 982ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->B->data; 983273d9f13SBarry Smith m = aij->B->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 98495373324SBarry Smith row = aij->rstart; 985b1d57f15SBarry Smith ierr = PetscMalloc((ai[m]+1)*sizeof(PetscInt),&cols);CHKERRQ(ierr); 986b0a32e0cSBarry Smith ct = cols; 987bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = aij->garray[aj[i]];} 98895373324SBarry Smith for (i=0; i<m; i++) { 989416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],cols,a,INSERT_VALUES);CHKERRQ(ierr); 99095373324SBarry Smith row++; a += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 99195373324SBarry Smith } 992606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 9936d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 9946d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 99555843e3eSBarry Smith /* 99655843e3eSBarry Smith Everyone has to call to draw the matrix since the graphics waits are 997b0a32e0cSBarry Smith synchronized across all processors that share the PetscDraw object 99855843e3eSBarry Smith */ 999b0a32e0cSBarry Smith ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr); 1000e03a110bSBarry Smith if (!rank) { 1001e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)((Mat_MPIAIJ*)(A->data))->A,mat->name);CHKERRQ(ierr); 10026831982aSBarry Smith ierr = MatView(((Mat_MPIAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr); 100395373324SBarry Smith } 1004b0a32e0cSBarry Smith ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr); 100578b31e54SBarry Smith ierr = MatDestroy(A);CHKERRQ(ierr); 100695373324SBarry Smith } 10073a40ed3dSBarry Smith PetscFunctionReturn(0); 10081eb62cbbSBarry Smith } 10091eb62cbbSBarry Smith 10104a2ae208SSatish Balay #undef __FUNCT__ 10114a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ" 1012dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ(Mat mat,PetscViewer viewer) 1013416022c9SBarry Smith { 1014dfbe8321SBarry Smith PetscErrorCode ierr; 101532077d6dSBarry Smith PetscTruth iascii,isdraw,issocket,isbinary; 1016416022c9SBarry Smith 10173a40ed3dSBarry Smith PetscFunctionBegin; 101832077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 1019fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 1020fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 1021b0a32e0cSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr); 102232077d6dSBarry Smith if (iascii || isdraw || isbinary || issocket) { 10237b2a1423SBarry Smith ierr = MatView_MPIAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr); 10245cd90555SBarry Smith } else { 102579a5c55eSBarry Smith SETERRQ1(PETSC_ERR_SUP,"Viewer type %s not supported by MPIAIJ matrices",((PetscObject)viewer)->type_name); 1026416022c9SBarry Smith } 10273a40ed3dSBarry Smith PetscFunctionReturn(0); 1028416022c9SBarry Smith } 1029416022c9SBarry Smith 10301eb62cbbSBarry Smith 1031c14dc6b6SHong Zhang 10324a2ae208SSatish Balay #undef __FUNCT__ 10334a2ae208SSatish Balay #define __FUNCT__ "MatRelax_MPIAIJ" 1034b1d57f15SBarry Smith PetscErrorCode MatRelax_MPIAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx) 10358a729477SBarry Smith { 103644a69424SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1037dfbe8321SBarry Smith PetscErrorCode ierr; 1038c14dc6b6SHong Zhang Vec bb1; 1039a6c309e7SHong Zhang PetscScalar mone=-1.0; 10408a729477SBarry Smith 10413a40ed3dSBarry Smith PetscFunctionBegin; 104277431f27SBarry Smith if (its <= 0 || lits <= 0) SETERRQ2(PETSC_ERR_ARG_WRONG,"Relaxation requires global its %D and local its %D both positive",its,lits); 1043c14dc6b6SHong Zhang 1044c14dc6b6SHong Zhang ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr); 10452798e883SHong Zhang 1046c16cb8f2SBarry Smith if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP){ 1047da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1048bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,lits,xx);CHKERRQ(ierr); 10492798e883SHong Zhang its--; 1050da3a660dSBarry Smith } 10512798e883SHong Zhang 10522798e883SHong Zhang while (its--) { 10533a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10543a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10552798e883SHong Zhang 1056c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1057c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1058c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10592798e883SHong Zhang 1060c14dc6b6SHong Zhang /* local sweep */ 1061bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,lits,xx); 1062c14dc6b6SHong Zhang CHKERRQ(ierr); 10632798e883SHong Zhang } 10643a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_FORWARD_SWEEP){ 1065da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1066c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10672798e883SHong Zhang its--; 1068da3a660dSBarry Smith } 10692798e883SHong Zhang while (its--) { 10703a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10713a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10722798e883SHong Zhang 1073c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1074c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1075c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 1076c14dc6b6SHong Zhang 1077c14dc6b6SHong Zhang /* local sweep */ 1078a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 1079c14dc6b6SHong Zhang CHKERRQ(ierr); 10802798e883SHong Zhang } 10813a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_BACKWARD_SWEEP){ 1082da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1083c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10842798e883SHong Zhang its--; 1085da3a660dSBarry Smith } 10862798e883SHong Zhang while (its--) { 10872e8a6d31SBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10882e8a6d31SBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10892798e883SHong Zhang 1090c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1091c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1092c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10932798e883SHong Zhang 1094c14dc6b6SHong Zhang /* local sweep */ 1095a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 1096c14dc6b6SHong Zhang CHKERRQ(ierr); 10972798e883SHong Zhang } 10983a40ed3dSBarry Smith } else { 109929bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Parallel SOR not supported"); 1100c16cb8f2SBarry Smith } 1101c14dc6b6SHong Zhang 1102c14dc6b6SHong Zhang ierr = VecDestroy(bb1);CHKERRQ(ierr); 11033a40ed3dSBarry Smith PetscFunctionReturn(0); 11048a729477SBarry Smith } 1105a66be287SLois Curfman McInnes 11064a2ae208SSatish Balay #undef __FUNCT__ 11074a2ae208SSatish Balay #define __FUNCT__ "MatGetInfo_MPIAIJ" 1108dfbe8321SBarry Smith PetscErrorCode MatGetInfo_MPIAIJ(Mat matin,MatInfoType flag,MatInfo *info) 1109a66be287SLois Curfman McInnes { 1110a66be287SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1111a66be287SLois Curfman McInnes Mat A = mat->A,B = mat->B; 1112dfbe8321SBarry Smith PetscErrorCode ierr; 1113329f5518SBarry Smith PetscReal isend[5],irecv[5]; 1114a66be287SLois Curfman McInnes 11153a40ed3dSBarry Smith PetscFunctionBegin; 11164e220ebcSLois Curfman McInnes info->block_size = 1.0; 11174e220ebcSLois Curfman McInnes ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr); 11184e220ebcSLois Curfman McInnes isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 11194e220ebcSLois Curfman McInnes isend[3] = info->memory; isend[4] = info->mallocs; 11204e220ebcSLois Curfman McInnes ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr); 11214e220ebcSLois Curfman McInnes isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded; 11224e220ebcSLois Curfman McInnes isend[3] += info->memory; isend[4] += info->mallocs; 1123a66be287SLois Curfman McInnes if (flag == MAT_LOCAL) { 11244e220ebcSLois Curfman McInnes info->nz_used = isend[0]; 11254e220ebcSLois Curfman McInnes info->nz_allocated = isend[1]; 11264e220ebcSLois Curfman McInnes info->nz_unneeded = isend[2]; 11274e220ebcSLois Curfman McInnes info->memory = isend[3]; 11284e220ebcSLois Curfman McInnes info->mallocs = isend[4]; 1129a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_MAX) { 1130d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,matin->comm);CHKERRQ(ierr); 11314e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11324e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11334e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11344e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11354e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1136a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_SUM) { 1137d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,matin->comm);CHKERRQ(ierr); 11384e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11394e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11404e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11414e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11424e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1143a66be287SLois Curfman McInnes } 11444e220ebcSLois Curfman McInnes info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 11454e220ebcSLois Curfman McInnes info->fill_ratio_needed = 0; 11464e220ebcSLois Curfman McInnes info->factor_mallocs = 0; 1147273d9f13SBarry Smith info->rows_global = (double)matin->M; 1148273d9f13SBarry Smith info->columns_global = (double)matin->N; 1149273d9f13SBarry Smith info->rows_local = (double)matin->m; 1150273d9f13SBarry Smith info->columns_local = (double)matin->N; 11514e220ebcSLois Curfman McInnes 11523a40ed3dSBarry Smith PetscFunctionReturn(0); 1153a66be287SLois Curfman McInnes } 1154a66be287SLois Curfman McInnes 11554a2ae208SSatish Balay #undef __FUNCT__ 11564a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_MPIAIJ" 1157dfbe8321SBarry Smith PetscErrorCode MatSetOption_MPIAIJ(Mat A,MatOption op) 1158c74985f6SBarry Smith { 1159c0bbcb79SLois Curfman McInnes Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1160dfbe8321SBarry Smith PetscErrorCode ierr; 1161c74985f6SBarry Smith 11623a40ed3dSBarry Smith PetscFunctionBegin; 116312c028f9SKris Buschelman switch (op) { 116412c028f9SKris Buschelman case MAT_NO_NEW_NONZERO_LOCATIONS: 116512c028f9SKris Buschelman case MAT_YES_NEW_NONZERO_LOCATIONS: 116612c028f9SKris Buschelman case MAT_COLUMNS_UNSORTED: 116712c028f9SKris Buschelman case MAT_COLUMNS_SORTED: 116812c028f9SKris Buschelman case MAT_NEW_NONZERO_ALLOCATION_ERR: 116912c028f9SKris Buschelman case MAT_KEEP_ZEROED_ROWS: 117012c028f9SKris Buschelman case MAT_NEW_NONZERO_LOCATION_ERR: 117112c028f9SKris Buschelman case MAT_USE_INODES: 117212c028f9SKris Buschelman case MAT_DO_NOT_USE_INODES: 117312c028f9SKris Buschelman case MAT_IGNORE_ZERO_ENTRIES: 11741dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11751dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 117612c028f9SKris Buschelman break; 117712c028f9SKris Buschelman case MAT_ROW_ORIENTED: 11787c922b88SBarry Smith a->roworiented = PETSC_TRUE; 11791dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11801dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 118112c028f9SKris Buschelman break; 118212c028f9SKris Buschelman case MAT_ROWS_SORTED: 118312c028f9SKris Buschelman case MAT_ROWS_UNSORTED: 118412c028f9SKris Buschelman case MAT_YES_NEW_DIAGONALS: 1185b0a32e0cSBarry Smith PetscLogInfo(A,"MatSetOption_MPIAIJ:Option ignored\n"); 118612c028f9SKris Buschelman break; 118712c028f9SKris Buschelman case MAT_COLUMN_ORIENTED: 11887c922b88SBarry Smith a->roworiented = PETSC_FALSE; 11891dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11901dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 119112c028f9SKris Buschelman break; 119212c028f9SKris Buschelman case MAT_IGNORE_OFF_PROC_ENTRIES: 11937c922b88SBarry Smith a->donotstash = PETSC_TRUE; 119412c028f9SKris Buschelman break; 119512c028f9SKris Buschelman case MAT_NO_NEW_DIAGONALS: 119629bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MAT_NO_NEW_DIAGONALS"); 119777e54ba9SKris Buschelman case MAT_SYMMETRIC: 119877e54ba9SKris Buschelman case MAT_STRUCTURALLY_SYMMETRIC: 1199bf108f30SBarry Smith case MAT_HERMITIAN: 1200bf108f30SBarry Smith case MAT_SYMMETRY_ETERNAL: 1201bf108f30SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 1202bf108f30SBarry Smith break; 12039a4540c5SBarry Smith case MAT_NOT_SYMMETRIC: 12049a4540c5SBarry Smith case MAT_NOT_STRUCTURALLY_SYMMETRIC: 12059a4540c5SBarry Smith case MAT_NOT_HERMITIAN: 12069a4540c5SBarry Smith case MAT_NOT_SYMMETRY_ETERNAL: 120777e54ba9SKris Buschelman break; 120812c028f9SKris Buschelman default: 120929bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"unknown option"); 12103a40ed3dSBarry Smith } 12113a40ed3dSBarry Smith PetscFunctionReturn(0); 1212c74985f6SBarry Smith } 1213c74985f6SBarry Smith 12144a2ae208SSatish Balay #undef __FUNCT__ 12154a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_MPIAIJ" 1216b1d57f15SBarry Smith PetscErrorCode MatGetRow_MPIAIJ(Mat matin,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 121739e00950SLois Curfman McInnes { 1218154123eaSLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 121987828ca2SBarry Smith PetscScalar *vworkA,*vworkB,**pvA,**pvB,*v_p; 12206849ba73SBarry Smith PetscErrorCode ierr; 1221b1d57f15SBarry Smith PetscInt i,*cworkA,*cworkB,**pcA,**pcB,cstart = mat->cstart; 1222b1d57f15SBarry Smith PetscInt nztot,nzA,nzB,lrow,rstart = mat->rstart,rend = mat->rend; 1223b1d57f15SBarry Smith PetscInt *cmap,*idx_p; 122439e00950SLois Curfman McInnes 12253a40ed3dSBarry Smith PetscFunctionBegin; 122629bbc08cSBarry Smith if (mat->getrowactive == PETSC_TRUE) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Already active"); 12277a0afa10SBarry Smith mat->getrowactive = PETSC_TRUE; 12287a0afa10SBarry Smith 122970f0671dSBarry Smith if (!mat->rowvalues && (idx || v)) { 12307a0afa10SBarry Smith /* 12317a0afa10SBarry Smith allocate enough space to hold information from the longest row. 12327a0afa10SBarry Smith */ 12337a0afa10SBarry Smith Mat_SeqAIJ *Aa = (Mat_SeqAIJ*)mat->A->data,*Ba = (Mat_SeqAIJ*)mat->B->data; 1234b1d57f15SBarry Smith PetscInt max = 1,tmp; 1235273d9f13SBarry Smith for (i=0; i<matin->m; i++) { 12367a0afa10SBarry Smith tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i]; 12377a0afa10SBarry Smith if (max < tmp) { max = tmp; } 12387a0afa10SBarry Smith } 1239b1d57f15SBarry Smith ierr = PetscMalloc(max*(sizeof(PetscInt)+sizeof(PetscScalar)),&mat->rowvalues);CHKERRQ(ierr); 1240b1d57f15SBarry Smith mat->rowindices = (PetscInt*)(mat->rowvalues + max); 12417a0afa10SBarry Smith } 12427a0afa10SBarry Smith 124329bbc08cSBarry Smith if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Only local rows") 1244abc0e9e4SLois Curfman McInnes lrow = row - rstart; 124539e00950SLois Curfman McInnes 1246154123eaSLois Curfman McInnes pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB; 1247154123eaSLois Curfman McInnes if (!v) {pvA = 0; pvB = 0;} 1248154123eaSLois Curfman McInnes if (!idx) {pcA = 0; if (!v) pcB = 0;} 1249f830108cSBarry Smith ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1250f830108cSBarry Smith ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 1251154123eaSLois Curfman McInnes nztot = nzA + nzB; 1252154123eaSLois Curfman McInnes 125370f0671dSBarry Smith cmap = mat->garray; 1254154123eaSLois Curfman McInnes if (v || idx) { 1255154123eaSLois Curfman McInnes if (nztot) { 1256154123eaSLois Curfman McInnes /* Sort by increasing column numbers, assuming A and B already sorted */ 1257b1d57f15SBarry Smith PetscInt imark = -1; 1258154123eaSLois Curfman McInnes if (v) { 125970f0671dSBarry Smith *v = v_p = mat->rowvalues; 126039e00950SLois Curfman McInnes for (i=0; i<nzB; i++) { 126170f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) v_p[i] = vworkB[i]; 1262154123eaSLois Curfman McInnes else break; 1263154123eaSLois Curfman McInnes } 1264154123eaSLois Curfman McInnes imark = i; 126570f0671dSBarry Smith for (i=0; i<nzA; i++) v_p[imark+i] = vworkA[i]; 126670f0671dSBarry Smith for (i=imark; i<nzB; i++) v_p[nzA+i] = vworkB[i]; 1267154123eaSLois Curfman McInnes } 1268154123eaSLois Curfman McInnes if (idx) { 126970f0671dSBarry Smith *idx = idx_p = mat->rowindices; 127070f0671dSBarry Smith if (imark > -1) { 127170f0671dSBarry Smith for (i=0; i<imark; i++) { 127270f0671dSBarry Smith idx_p[i] = cmap[cworkB[i]]; 127370f0671dSBarry Smith } 127470f0671dSBarry Smith } else { 1275154123eaSLois Curfman McInnes for (i=0; i<nzB; i++) { 127670f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) idx_p[i] = cmap[cworkB[i]]; 1277154123eaSLois Curfman McInnes else break; 1278154123eaSLois Curfman McInnes } 1279154123eaSLois Curfman McInnes imark = i; 128070f0671dSBarry Smith } 128170f0671dSBarry Smith for (i=0; i<nzA; i++) idx_p[imark+i] = cstart + cworkA[i]; 128270f0671dSBarry Smith for (i=imark; i<nzB; i++) idx_p[nzA+i] = cmap[cworkB[i]]; 128339e00950SLois Curfman McInnes } 12843f97c4b0SBarry Smith } else { 12851ca473b0SSatish Balay if (idx) *idx = 0; 12861ca473b0SSatish Balay if (v) *v = 0; 12871ca473b0SSatish Balay } 1288154123eaSLois Curfman McInnes } 128939e00950SLois Curfman McInnes *nz = nztot; 1290f830108cSBarry Smith ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1291f830108cSBarry Smith ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 12923a40ed3dSBarry Smith PetscFunctionReturn(0); 129339e00950SLois Curfman McInnes } 129439e00950SLois Curfman McInnes 12954a2ae208SSatish Balay #undef __FUNCT__ 12964a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_MPIAIJ" 1297b1d57f15SBarry Smith PetscErrorCode MatRestoreRow_MPIAIJ(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 129839e00950SLois Curfman McInnes { 12997a0afa10SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 13003a40ed3dSBarry Smith 13013a40ed3dSBarry Smith PetscFunctionBegin; 13027a0afa10SBarry Smith if (aij->getrowactive == PETSC_FALSE) { 130329bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"MatGetRow not called"); 13047a0afa10SBarry Smith } 13057a0afa10SBarry Smith aij->getrowactive = PETSC_FALSE; 13063a40ed3dSBarry Smith PetscFunctionReturn(0); 130739e00950SLois Curfman McInnes } 130839e00950SLois Curfman McInnes 13094a2ae208SSatish Balay #undef __FUNCT__ 13104a2ae208SSatish Balay #define __FUNCT__ "MatNorm_MPIAIJ" 1311dfbe8321SBarry Smith PetscErrorCode MatNorm_MPIAIJ(Mat mat,NormType type,PetscReal *norm) 1312855ac2c5SLois Curfman McInnes { 1313855ac2c5SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 1314ec8511deSBarry Smith Mat_SeqAIJ *amat = (Mat_SeqAIJ*)aij->A->data,*bmat = (Mat_SeqAIJ*)aij->B->data; 1315dfbe8321SBarry Smith PetscErrorCode ierr; 1316b1d57f15SBarry Smith PetscInt i,j,cstart = aij->cstart; 1317329f5518SBarry Smith PetscReal sum = 0.0; 131887828ca2SBarry Smith PetscScalar *v; 131904ca555eSLois Curfman McInnes 13203a40ed3dSBarry Smith PetscFunctionBegin; 132117699dbbSLois Curfman McInnes if (aij->size == 1) { 132214183eadSLois Curfman McInnes ierr = MatNorm(aij->A,type,norm);CHKERRQ(ierr); 132337fa93a5SLois Curfman McInnes } else { 132404ca555eSLois Curfman McInnes if (type == NORM_FROBENIUS) { 132504ca555eSLois Curfman McInnes v = amat->a; 132604ca555eSLois Curfman McInnes for (i=0; i<amat->nz; i++) { 1327aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1328329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 132904ca555eSLois Curfman McInnes #else 133004ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 133104ca555eSLois Curfman McInnes #endif 133204ca555eSLois Curfman McInnes } 133304ca555eSLois Curfman McInnes v = bmat->a; 133404ca555eSLois Curfman McInnes for (i=0; i<bmat->nz; i++) { 1335aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1336329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 133704ca555eSLois Curfman McInnes #else 133804ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 133904ca555eSLois Curfman McInnes #endif 134004ca555eSLois Curfman McInnes } 1341d7d1e502SBarry Smith ierr = MPI_Allreduce(&sum,norm,1,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 134204ca555eSLois Curfman McInnes *norm = sqrt(*norm); 13433a40ed3dSBarry Smith } else if (type == NORM_1) { /* max column norm */ 1344329f5518SBarry Smith PetscReal *tmp,*tmp2; 1345b1d57f15SBarry Smith PetscInt *jj,*garray = aij->garray; 1346b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp);CHKERRQ(ierr); 1347b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp2);CHKERRQ(ierr); 1348273d9f13SBarry Smith ierr = PetscMemzero(tmp,mat->N*sizeof(PetscReal));CHKERRQ(ierr); 134904ca555eSLois Curfman McInnes *norm = 0.0; 135004ca555eSLois Curfman McInnes v = amat->a; jj = amat->j; 135104ca555eSLois Curfman McInnes for (j=0; j<amat->nz; j++) { 1352bfec09a0SHong Zhang tmp[cstart + *jj++ ] += PetscAbsScalar(*v); v++; 135304ca555eSLois Curfman McInnes } 135404ca555eSLois Curfman McInnes v = bmat->a; jj = bmat->j; 135504ca555eSLois Curfman McInnes for (j=0; j<bmat->nz; j++) { 1356bfec09a0SHong Zhang tmp[garray[*jj++]] += PetscAbsScalar(*v); v++; 135704ca555eSLois Curfman McInnes } 1358d7d1e502SBarry Smith ierr = MPI_Allreduce(tmp,tmp2,mat->N,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 1359273d9f13SBarry Smith for (j=0; j<mat->N; j++) { 136004ca555eSLois Curfman McInnes if (tmp2[j] > *norm) *norm = tmp2[j]; 136104ca555eSLois Curfman McInnes } 1362606d414cSSatish Balay ierr = PetscFree(tmp);CHKERRQ(ierr); 1363606d414cSSatish Balay ierr = PetscFree(tmp2);CHKERRQ(ierr); 13643a40ed3dSBarry Smith } else if (type == NORM_INFINITY) { /* max row norm */ 1365329f5518SBarry Smith PetscReal ntemp = 0.0; 1366273d9f13SBarry Smith for (j=0; j<aij->A->m; j++) { 1367bfec09a0SHong Zhang v = amat->a + amat->i[j]; 136804ca555eSLois Curfman McInnes sum = 0.0; 136904ca555eSLois Curfman McInnes for (i=0; i<amat->i[j+1]-amat->i[j]; i++) { 1370cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 137104ca555eSLois Curfman McInnes } 1372bfec09a0SHong Zhang v = bmat->a + bmat->i[j]; 137304ca555eSLois Curfman McInnes for (i=0; i<bmat->i[j+1]-bmat->i[j]; i++) { 1374cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 137504ca555eSLois Curfman McInnes } 1376515d9167SLois Curfman McInnes if (sum > ntemp) ntemp = sum; 137704ca555eSLois Curfman McInnes } 1378d7d1e502SBarry Smith ierr = MPI_Allreduce(&ntemp,norm,1,MPIU_REAL,MPI_MAX,mat->comm);CHKERRQ(ierr); 1379ca161407SBarry Smith } else { 138029bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"No support for two norm"); 138104ca555eSLois Curfman McInnes } 138237fa93a5SLois Curfman McInnes } 13833a40ed3dSBarry Smith PetscFunctionReturn(0); 1384855ac2c5SLois Curfman McInnes } 1385855ac2c5SLois Curfman McInnes 13864a2ae208SSatish Balay #undef __FUNCT__ 13874a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_MPIAIJ" 1388dfbe8321SBarry Smith PetscErrorCode MatTranspose_MPIAIJ(Mat A,Mat *matout) 1389b7c46309SBarry Smith { 1390b7c46309SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1391dbb450caSBarry Smith Mat_SeqAIJ *Aloc = (Mat_SeqAIJ*)a->A->data; 1392dfbe8321SBarry Smith PetscErrorCode ierr; 1393b1d57f15SBarry Smith PetscInt M = A->M,N = A->N,m,*ai,*aj,row,*cols,i,*ct; 13943a40ed3dSBarry Smith Mat B; 139587828ca2SBarry Smith PetscScalar *array; 1396b7c46309SBarry Smith 13973a40ed3dSBarry Smith PetscFunctionBegin; 13987c922b88SBarry Smith if (!matout && M != N) { 139929bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"Square matrix only for in-place"); 1400d4bb536fSBarry Smith } 1401d4bb536fSBarry Smith 1402f204ca49SKris Buschelman ierr = MatCreate(A->comm,A->n,A->m,N,M,&B);CHKERRQ(ierr); 1403f204ca49SKris Buschelman ierr = MatSetType(B,A->type_name);CHKERRQ(ierr); 1404f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(B,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 1405b7c46309SBarry Smith 1406b7c46309SBarry Smith /* copy over the A part */ 1407ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->A->data; 1408273d9f13SBarry Smith m = a->A->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1409b7c46309SBarry Smith row = a->rstart; 1410bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] += a->cstart ;} 1411b7c46309SBarry Smith for (i=0; i<m; i++) { 1412416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],aj,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1413b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 1414b7c46309SBarry Smith } 1415b7c46309SBarry Smith aj = Aloc->j; 1416bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] -= a->cstart ;} 1417b7c46309SBarry Smith 1418b7c46309SBarry Smith /* copy over the B part */ 1419ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->B->data; 1420273d9f13SBarry Smith m = a->B->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1421b7c46309SBarry Smith row = a->rstart; 1422b1d57f15SBarry Smith ierr = PetscMalloc((1+ai[m])*sizeof(PetscInt),&cols);CHKERRQ(ierr); 1423b0a32e0cSBarry Smith ct = cols; 1424bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = a->garray[aj[i]];} 1425b7c46309SBarry Smith for (i=0; i<m; i++) { 1426416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],cols,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1427b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 1428b7c46309SBarry Smith } 1429606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 14306d4a8577SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14316d4a8577SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14327c922b88SBarry Smith if (matout) { 14330de55854SLois Curfman McInnes *matout = B; 14340de55854SLois Curfman McInnes } else { 1435273d9f13SBarry Smith ierr = MatHeaderCopy(A,B);CHKERRQ(ierr); 14360de55854SLois Curfman McInnes } 14373a40ed3dSBarry Smith PetscFunctionReturn(0); 1438b7c46309SBarry Smith } 1439b7c46309SBarry Smith 14404a2ae208SSatish Balay #undef __FUNCT__ 14414a2ae208SSatish Balay #define __FUNCT__ "MatDiagonalScale_MPIAIJ" 1442dfbe8321SBarry Smith PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat,Vec ll,Vec rr) 1443a008b906SSatish Balay { 14444b967eb1SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 14454b967eb1SSatish Balay Mat a = aij->A,b = aij->B; 1446dfbe8321SBarry Smith PetscErrorCode ierr; 1447b1d57f15SBarry Smith PetscInt s1,s2,s3; 1448a008b906SSatish Balay 14493a40ed3dSBarry Smith PetscFunctionBegin; 14504b967eb1SSatish Balay ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr); 14514b967eb1SSatish Balay if (rr) { 1452e1311b90SBarry Smith ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr); 145329bbc08cSBarry Smith if (s1!=s3) SETERRQ(PETSC_ERR_ARG_SIZ,"right vector non-conforming local size"); 14544b967eb1SSatish Balay /* Overlap communication with computation. */ 145543a90d84SBarry Smith ierr = VecScatterBegin(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1456a008b906SSatish Balay } 14574b967eb1SSatish Balay if (ll) { 1458e1311b90SBarry Smith ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr); 145929bbc08cSBarry Smith if (s1!=s2) SETERRQ(PETSC_ERR_ARG_SIZ,"left vector non-conforming local size"); 1460f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,ll,0);CHKERRQ(ierr); 14614b967eb1SSatish Balay } 14624b967eb1SSatish Balay /* scale the diagonal block */ 1463f830108cSBarry Smith ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr); 14644b967eb1SSatish Balay 14654b967eb1SSatish Balay if (rr) { 14664b967eb1SSatish Balay /* Do a scatter end and then right scale the off-diagonal block */ 146743a90d84SBarry Smith ierr = VecScatterEnd(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1468f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,0,aij->lvec);CHKERRQ(ierr); 14694b967eb1SSatish Balay } 14704b967eb1SSatish Balay 14713a40ed3dSBarry Smith PetscFunctionReturn(0); 1472a008b906SSatish Balay } 1473a008b906SSatish Balay 1474a008b906SSatish Balay 14754a2ae208SSatish Balay #undef __FUNCT__ 14764a2ae208SSatish Balay #define __FUNCT__ "MatPrintHelp_MPIAIJ" 1477dfbe8321SBarry Smith PetscErrorCode MatPrintHelp_MPIAIJ(Mat A) 1478682d7d0cSBarry Smith { 1479682d7d0cSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1480dfbe8321SBarry Smith PetscErrorCode ierr; 1481682d7d0cSBarry Smith 14823a40ed3dSBarry Smith PetscFunctionBegin; 14833a40ed3dSBarry Smith if (!a->rank) { 14843a40ed3dSBarry Smith ierr = MatPrintHelp_SeqAIJ(a->A);CHKERRQ(ierr); 14853a40ed3dSBarry Smith } 14863a40ed3dSBarry Smith PetscFunctionReturn(0); 1487682d7d0cSBarry Smith } 1488682d7d0cSBarry Smith 14894a2ae208SSatish Balay #undef __FUNCT__ 1490521d7252SBarry Smith #define __FUNCT__ "MatSetBlockSize_MPIAIJ" 1491521d7252SBarry Smith PetscErrorCode MatSetBlockSize_MPIAIJ(Mat A,PetscInt bs) 14925a838052SSatish Balay { 1493521d7252SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1494521d7252SBarry Smith PetscErrorCode ierr; 1495521d7252SBarry Smith 14963a40ed3dSBarry Smith PetscFunctionBegin; 1497521d7252SBarry Smith ierr = MatSetBlockSize(a->A,bs);CHKERRQ(ierr); 1498521d7252SBarry Smith ierr = MatSetBlockSize(a->B,bs);CHKERRQ(ierr); 14993a40ed3dSBarry Smith PetscFunctionReturn(0); 15005a838052SSatish Balay } 15014a2ae208SSatish Balay #undef __FUNCT__ 15024a2ae208SSatish Balay #define __FUNCT__ "MatSetUnfactored_MPIAIJ" 1503dfbe8321SBarry Smith PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A) 1504bb5a7306SBarry Smith { 1505bb5a7306SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1506dfbe8321SBarry Smith PetscErrorCode ierr; 15073a40ed3dSBarry Smith 15083a40ed3dSBarry Smith PetscFunctionBegin; 1509bb5a7306SBarry Smith ierr = MatSetUnfactored(a->A);CHKERRQ(ierr); 15103a40ed3dSBarry Smith PetscFunctionReturn(0); 1511bb5a7306SBarry Smith } 1512bb5a7306SBarry Smith 15134a2ae208SSatish Balay #undef __FUNCT__ 15144a2ae208SSatish Balay #define __FUNCT__ "MatEqual_MPIAIJ" 1515dfbe8321SBarry Smith PetscErrorCode MatEqual_MPIAIJ(Mat A,Mat B,PetscTruth *flag) 1516d4bb536fSBarry Smith { 1517d4bb536fSBarry Smith Mat_MPIAIJ *matB = (Mat_MPIAIJ*)B->data,*matA = (Mat_MPIAIJ*)A->data; 1518d4bb536fSBarry Smith Mat a,b,c,d; 1519d4bb536fSBarry Smith PetscTruth flg; 1520dfbe8321SBarry Smith PetscErrorCode ierr; 1521d4bb536fSBarry Smith 15223a40ed3dSBarry Smith PetscFunctionBegin; 1523d4bb536fSBarry Smith a = matA->A; b = matA->B; 1524d4bb536fSBarry Smith c = matB->A; d = matB->B; 1525d4bb536fSBarry Smith 1526d4bb536fSBarry Smith ierr = MatEqual(a,c,&flg);CHKERRQ(ierr); 1527d4bb536fSBarry Smith if (flg == PETSC_TRUE) { 1528d4bb536fSBarry Smith ierr = MatEqual(b,d,&flg);CHKERRQ(ierr); 1529d4bb536fSBarry Smith } 1530ca161407SBarry Smith ierr = MPI_Allreduce(&flg,flag,1,MPI_INT,MPI_LAND,A->comm);CHKERRQ(ierr); 15313a40ed3dSBarry Smith PetscFunctionReturn(0); 1532d4bb536fSBarry Smith } 1533d4bb536fSBarry Smith 15344a2ae208SSatish Balay #undef __FUNCT__ 15354a2ae208SSatish Balay #define __FUNCT__ "MatCopy_MPIAIJ" 1536dfbe8321SBarry Smith PetscErrorCode MatCopy_MPIAIJ(Mat A,Mat B,MatStructure str) 1537cb5b572fSBarry Smith { 1538dfbe8321SBarry Smith PetscErrorCode ierr; 1539cb5b572fSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1540cb5b572fSBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 1541cb5b572fSBarry Smith 1542cb5b572fSBarry Smith PetscFunctionBegin; 154333f4a19fSKris Buschelman /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */ 154433f4a19fSKris Buschelman if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) { 1545cb5b572fSBarry Smith /* because of the column compression in the off-processor part of the matrix a->B, 1546cb5b572fSBarry Smith the number of columns in a->B and b->B may be different, hence we cannot call 1547cb5b572fSBarry Smith the MatCopy() directly on the two parts. If need be, we can provide a more 1548cb5b572fSBarry Smith efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices 1549cb5b572fSBarry Smith then copying the submatrices */ 1550cb5b572fSBarry Smith ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr); 1551cb5b572fSBarry Smith } else { 1552cb5b572fSBarry Smith ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 1553cb5b572fSBarry Smith ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr); 1554cb5b572fSBarry Smith } 1555cb5b572fSBarry Smith PetscFunctionReturn(0); 1556cb5b572fSBarry Smith } 1557cb5b572fSBarry Smith 15584a2ae208SSatish Balay #undef __FUNCT__ 15594a2ae208SSatish Balay #define __FUNCT__ "MatSetUpPreallocation_MPIAIJ" 1560dfbe8321SBarry Smith PetscErrorCode MatSetUpPreallocation_MPIAIJ(Mat A) 1561273d9f13SBarry Smith { 1562dfbe8321SBarry Smith PetscErrorCode ierr; 1563273d9f13SBarry Smith 1564273d9f13SBarry Smith PetscFunctionBegin; 1565273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(A,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr); 1566273d9f13SBarry Smith PetscFunctionReturn(0); 1567273d9f13SBarry Smith } 1568273d9f13SBarry Smith 1569ac90fabeSBarry Smith #include "petscblaslapack.h" 1570ac90fabeSBarry Smith #undef __FUNCT__ 1571ac90fabeSBarry Smith #define __FUNCT__ "MatAXPY_MPIAIJ" 1572dfbe8321SBarry Smith PetscErrorCode MatAXPY_MPIAIJ(const PetscScalar a[],Mat X,Mat Y,MatStructure str) 1573ac90fabeSBarry Smith { 1574dfbe8321SBarry Smith PetscErrorCode ierr; 1575b1d57f15SBarry Smith PetscInt i; 1576ac90fabeSBarry Smith Mat_MPIAIJ *xx = (Mat_MPIAIJ *)X->data,*yy = (Mat_MPIAIJ *)Y->data; 15774ce68768SBarry Smith PetscBLASInt bnz,one=1; 1578ac90fabeSBarry Smith Mat_SeqAIJ *x,*y; 1579ac90fabeSBarry Smith 1580ac90fabeSBarry Smith PetscFunctionBegin; 1581ac90fabeSBarry Smith if (str == SAME_NONZERO_PATTERN) { 1582ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->A->data; 1583ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->A->data; 15844ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 15854ce68768SBarry Smith BLaxpy_(&bnz,(PetscScalar*)a,x->a,&one,y->a,&one); 1586ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->B->data; 1587ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->B->data; 15884ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 15894ce68768SBarry Smith BLaxpy_(&bnz,(PetscScalar*)a,x->a,&one,y->a,&one); 1590a30b2313SHong Zhang } else if (str == SUBSET_NONZERO_PATTERN) { 1591c537a176SHong Zhang ierr = MatAXPY_SeqAIJ(a,xx->A,yy->A,str);CHKERRQ(ierr); 1592c537a176SHong Zhang 1593c537a176SHong Zhang x = (Mat_SeqAIJ *)xx->B->data; 1594a30b2313SHong Zhang y = (Mat_SeqAIJ *)yy->B->data; 1595a30b2313SHong Zhang if (y->xtoy && y->XtoY != xx->B) { 1596a30b2313SHong Zhang ierr = PetscFree(y->xtoy);CHKERRQ(ierr); 1597a30b2313SHong Zhang ierr = MatDestroy(y->XtoY);CHKERRQ(ierr); 1598c537a176SHong Zhang } 1599a30b2313SHong Zhang if (!y->xtoy) { /* get xtoy */ 160024f910e3SHong Zhang ierr = MatAXPYGetxtoy_Private(xx->B->m,x->i,x->j,xx->garray,y->i,y->j,yy->garray,&y->xtoy);CHKERRQ(ierr); 1601a30b2313SHong Zhang y->XtoY = xx->B; 1602c537a176SHong Zhang } 1603a30b2313SHong Zhang for (i=0; i<x->nz; i++) y->a[y->xtoy[i]] += (*a)*(x->a[i]); 1604ac90fabeSBarry Smith } else { 1605ac90fabeSBarry Smith ierr = MatAXPY_Basic(a,X,Y,str);CHKERRQ(ierr); 1606ac90fabeSBarry Smith } 1607ac90fabeSBarry Smith PetscFunctionReturn(0); 1608ac90fabeSBarry Smith } 1609ac90fabeSBarry Smith 16108a729477SBarry Smith /* -------------------------------------------------------------------*/ 1611cda55fadSBarry Smith static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ, 1612cda55fadSBarry Smith MatGetRow_MPIAIJ, 1613cda55fadSBarry Smith MatRestoreRow_MPIAIJ, 1614cda55fadSBarry Smith MatMult_MPIAIJ, 161597304618SKris Buschelman /* 4*/ MatMultAdd_MPIAIJ, 16167c922b88SBarry Smith MatMultTranspose_MPIAIJ, 16177c922b88SBarry Smith MatMultTransposeAdd_MPIAIJ, 1618cda55fadSBarry Smith 0, 1619cda55fadSBarry Smith 0, 1620cda55fadSBarry Smith 0, 162197304618SKris Buschelman /*10*/ 0, 1622cda55fadSBarry Smith 0, 1623cda55fadSBarry Smith 0, 162444a69424SLois Curfman McInnes MatRelax_MPIAIJ, 1625b7c46309SBarry Smith MatTranspose_MPIAIJ, 162697304618SKris Buschelman /*15*/ MatGetInfo_MPIAIJ, 1627cda55fadSBarry Smith MatEqual_MPIAIJ, 1628cda55fadSBarry Smith MatGetDiagonal_MPIAIJ, 1629cda55fadSBarry Smith MatDiagonalScale_MPIAIJ, 1630cda55fadSBarry Smith MatNorm_MPIAIJ, 163197304618SKris Buschelman /*20*/ MatAssemblyBegin_MPIAIJ, 1632cda55fadSBarry Smith MatAssemblyEnd_MPIAIJ, 16331eb62cbbSBarry Smith 0, 1634cda55fadSBarry Smith MatSetOption_MPIAIJ, 1635cda55fadSBarry Smith MatZeroEntries_MPIAIJ, 163697304618SKris Buschelman /*25*/ MatZeroRows_MPIAIJ, 1637cda55fadSBarry Smith 0, 1638cda55fadSBarry Smith 0, 1639cda55fadSBarry Smith 0, 1640cda55fadSBarry Smith 0, 164197304618SKris Buschelman /*30*/ MatSetUpPreallocation_MPIAIJ, 1642cda55fadSBarry Smith 0, 1643cda55fadSBarry Smith 0, 1644cda55fadSBarry Smith 0, 1645cda55fadSBarry Smith 0, 164697304618SKris Buschelman /*35*/ MatDuplicate_MPIAIJ, 1647cda55fadSBarry Smith 0, 1648cda55fadSBarry Smith 0, 1649cda55fadSBarry Smith 0, 1650cda55fadSBarry Smith 0, 165197304618SKris Buschelman /*40*/ MatAXPY_MPIAIJ, 1652cda55fadSBarry Smith MatGetSubMatrices_MPIAIJ, 1653cda55fadSBarry Smith MatIncreaseOverlap_MPIAIJ, 1654cda55fadSBarry Smith MatGetValues_MPIAIJ, 1655cb5b572fSBarry Smith MatCopy_MPIAIJ, 165697304618SKris Buschelman /*45*/ MatPrintHelp_MPIAIJ, 1657cda55fadSBarry Smith MatScale_MPIAIJ, 1658cda55fadSBarry Smith 0, 1659cda55fadSBarry Smith 0, 1660cda55fadSBarry Smith 0, 1661521d7252SBarry Smith /*50*/ MatSetBlockSize_MPIAIJ, 1662cda55fadSBarry Smith 0, 1663cda55fadSBarry Smith 0, 1664cda55fadSBarry Smith 0, 1665cda55fadSBarry Smith 0, 166697304618SKris Buschelman /*55*/ MatFDColoringCreate_MPIAIJ, 1667cda55fadSBarry Smith 0, 1668cda55fadSBarry Smith MatSetUnfactored_MPIAIJ, 1669cda55fadSBarry Smith 0, 1670cda55fadSBarry Smith 0, 167197304618SKris Buschelman /*60*/ MatGetSubMatrix_MPIAIJ, 1672e03a110bSBarry Smith MatDestroy_MPIAIJ, 1673e03a110bSBarry Smith MatView_MPIAIJ, 16748a124369SBarry Smith MatGetPetscMaps_Petsc, 1675a2243be0SBarry Smith 0, 167697304618SKris Buschelman /*65*/ 0, 1677a2243be0SBarry Smith 0, 1678a2243be0SBarry Smith 0, 1679a2243be0SBarry Smith 0, 1680a2243be0SBarry Smith 0, 168197304618SKris Buschelman /*70*/ 0, 1682a2243be0SBarry Smith 0, 1683a2243be0SBarry Smith MatSetColoring_MPIAIJ, 1684779c1a83SBarry Smith MatSetValuesAdic_MPIAIJ, 168597304618SKris Buschelman MatSetValuesAdifor_MPIAIJ, 168697304618SKris Buschelman /*75*/ 0, 168797304618SKris Buschelman 0, 168897304618SKris Buschelman 0, 168997304618SKris Buschelman 0, 169097304618SKris Buschelman 0, 169197304618SKris Buschelman /*80*/ 0, 169297304618SKris Buschelman 0, 169397304618SKris Buschelman 0, 169497304618SKris Buschelman 0, 169541acf15aSKris Buschelman /*84*/ MatLoad_MPIAIJ, 16966284ec50SHong Zhang 0, 16976284ec50SHong Zhang 0, 16986284ec50SHong Zhang 0, 16996284ec50SHong Zhang 0, 1700865e5f61SKris Buschelman 0, 1701865e5f61SKris Buschelman /*90*/ MatMatMult_MPIAIJ_MPIAIJ, 170226be0446SHong Zhang MatMatMultSymbolic_MPIAIJ_MPIAIJ, 170326be0446SHong Zhang MatMatMultNumeric_MPIAIJ_MPIAIJ, 1704ff134f7aSHong Zhang MatPtAP_MPIAIJ_MPIAIJ, 1705865e5f61SKris Buschelman MatPtAPSymbolic_MPIAIJ_MPIAIJ, 1706865e5f61SKris Buschelman /*95*/ MatPtAPNumeric_MPIAIJ_MPIAIJ, 1707865e5f61SKris Buschelman 0, 1708865e5f61SKris Buschelman 0, 1709865e5f61SKris Buschelman 0}; 171036ce4990SBarry Smith 17112e8a6d31SBarry Smith /* ----------------------------------------------------------------------------------------*/ 17122e8a6d31SBarry Smith 1713fb2e594dSBarry Smith EXTERN_C_BEGIN 17144a2ae208SSatish Balay #undef __FUNCT__ 17154a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_MPIAIJ" 1716dfbe8321SBarry Smith PetscErrorCode MatStoreValues_MPIAIJ(Mat mat) 17172e8a6d31SBarry Smith { 17182e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1719dfbe8321SBarry Smith PetscErrorCode ierr; 17202e8a6d31SBarry Smith 17212e8a6d31SBarry Smith PetscFunctionBegin; 17222e8a6d31SBarry Smith ierr = MatStoreValues(aij->A);CHKERRQ(ierr); 17232e8a6d31SBarry Smith ierr = MatStoreValues(aij->B);CHKERRQ(ierr); 17242e8a6d31SBarry Smith PetscFunctionReturn(0); 17252e8a6d31SBarry Smith } 1726fb2e594dSBarry Smith EXTERN_C_END 17272e8a6d31SBarry Smith 1728fb2e594dSBarry Smith EXTERN_C_BEGIN 17294a2ae208SSatish Balay #undef __FUNCT__ 17304a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_MPIAIJ" 1731dfbe8321SBarry Smith PetscErrorCode MatRetrieveValues_MPIAIJ(Mat mat) 17322e8a6d31SBarry Smith { 17332e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1734dfbe8321SBarry Smith PetscErrorCode ierr; 17352e8a6d31SBarry Smith 17362e8a6d31SBarry Smith PetscFunctionBegin; 17372e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr); 17382e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr); 17392e8a6d31SBarry Smith PetscFunctionReturn(0); 17402e8a6d31SBarry Smith } 1741fb2e594dSBarry Smith EXTERN_C_END 17428a729477SBarry Smith 1743e090d566SSatish Balay #include "petscpc.h" 174427508adbSBarry Smith EXTERN_C_BEGIN 17454a2ae208SSatish Balay #undef __FUNCT__ 1746a23d5eceSKris Buschelman #define __FUNCT__ "MatMPIAIJSetPreallocation_MPIAIJ" 1747b1d57f15SBarry Smith PetscErrorCode MatMPIAIJSetPreallocation_MPIAIJ(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 1748a23d5eceSKris Buschelman { 1749a23d5eceSKris Buschelman Mat_MPIAIJ *b; 1750dfbe8321SBarry Smith PetscErrorCode ierr; 1751b1d57f15SBarry Smith PetscInt i; 1752a23d5eceSKris Buschelman 1753a23d5eceSKris Buschelman PetscFunctionBegin; 1754a23d5eceSKris Buschelman B->preallocated = PETSC_TRUE; 1755a23d5eceSKris Buschelman if (d_nz == PETSC_DEFAULT || d_nz == PETSC_DECIDE) d_nz = 5; 1756a23d5eceSKris Buschelman if (o_nz == PETSC_DEFAULT || o_nz == PETSC_DECIDE) o_nz = 2; 175777431f27SBarry Smith if (d_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"d_nz cannot be less than 0: value %D",d_nz); 175877431f27SBarry Smith if (o_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"o_nz cannot be less than 0: value %D",o_nz); 1759a23d5eceSKris Buschelman if (d_nnz) { 1760a23d5eceSKris Buschelman for (i=0; i<B->m; i++) { 176177431f27SBarry 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]); 1762a23d5eceSKris Buschelman } 1763a23d5eceSKris Buschelman } 1764a23d5eceSKris Buschelman if (o_nnz) { 1765a23d5eceSKris Buschelman for (i=0; i<B->m; i++) { 176677431f27SBarry 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]); 1767a23d5eceSKris Buschelman } 1768a23d5eceSKris Buschelman } 1769a23d5eceSKris Buschelman b = (Mat_MPIAIJ*)B->data; 1770c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->A,d_nz,d_nnz);CHKERRQ(ierr); 1771c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->B,o_nz,o_nnz);CHKERRQ(ierr); 1772a23d5eceSKris Buschelman 1773a23d5eceSKris Buschelman PetscFunctionReturn(0); 1774a23d5eceSKris Buschelman } 1775a23d5eceSKris Buschelman EXTERN_C_END 1776a23d5eceSKris Buschelman 17770bad9183SKris Buschelman /*MC 1778002d173eSKris Buschelman MATAIJ - MATAIJ = "aij" - A matrix type to be used for sparse matrices. 1779209238afSKris Buschelman 1780209238afSKris Buschelman This matrix type is identical to MATSEQAIJ when constructed with a single process communicator, 178130e3259aSHong Zhang and MATMPIAIJ otherwise. As a result, for single process communicators, 178230e3259aSHong Zhang MatSeqAIJSetPreallocation is supported, and similarly MatMPIAIJSetPreallocation is supported 178330e3259aSHong Zhang for communicators controlling multiple processes. It is recommended that you call both of 178430e3259aSHong Zhang the above preallocation routines for simplicity. 1785209238afSKris Buschelman 1786209238afSKris Buschelman Options Database Keys: 1787209238afSKris Buschelman . -mat_type aij - sets the matrix type to "aij" during a call to MatSetFromOptions() 1788209238afSKris Buschelman 1789209238afSKris Buschelman Level: beginner 1790209238afSKris Buschelman 1791209238afSKris Buschelman .seealso: MatCreateMPIAIJ,MATSEQAIJ,MATMPIAIJ 1792209238afSKris Buschelman M*/ 1793209238afSKris Buschelman 1794209238afSKris Buschelman EXTERN_C_BEGIN 1795209238afSKris Buschelman #undef __FUNCT__ 1796209238afSKris Buschelman #define __FUNCT__ "MatCreate_AIJ" 1797dfbe8321SBarry Smith PetscErrorCode MatCreate_AIJ(Mat A) 1798dfbe8321SBarry Smith { 17996849ba73SBarry Smith PetscErrorCode ierr; 1800b1d57f15SBarry Smith PetscMPIInt size; 1801209238afSKris Buschelman 1802209238afSKris Buschelman PetscFunctionBegin; 1803209238afSKris Buschelman ierr = PetscObjectChangeTypeName((PetscObject)A,MATAIJ);CHKERRQ(ierr); 1804209238afSKris Buschelman ierr = MPI_Comm_size(A->comm,&size);CHKERRQ(ierr); 1805209238afSKris Buschelman if (size == 1) { 1806209238afSKris Buschelman ierr = MatSetType(A,MATSEQAIJ);CHKERRQ(ierr); 1807209238afSKris Buschelman } else { 1808209238afSKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 1809209238afSKris Buschelman } 1810209238afSKris Buschelman PetscFunctionReturn(0); 1811209238afSKris Buschelman } 1812209238afSKris Buschelman EXTERN_C_END 1813209238afSKris Buschelman 18144a2ae208SSatish Balay #undef __FUNCT__ 18154a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_MPIAIJ" 1816dfbe8321SBarry Smith PetscErrorCode MatDuplicate_MPIAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat) 1817d6dfbf8fSBarry Smith { 1818d6dfbf8fSBarry Smith Mat mat; 1819416022c9SBarry Smith Mat_MPIAIJ *a,*oldmat = (Mat_MPIAIJ*)matin->data; 1820dfbe8321SBarry Smith PetscErrorCode ierr; 1821d6dfbf8fSBarry Smith 18223a40ed3dSBarry Smith PetscFunctionBegin; 1823416022c9SBarry Smith *newmat = 0; 1824273d9f13SBarry Smith ierr = MatCreate(matin->comm,matin->m,matin->n,matin->M,matin->N,&mat);CHKERRQ(ierr); 1825be5d1d56SKris Buschelman ierr = MatSetType(mat,matin->type_name);CHKERRQ(ierr); 18261d5dac46SHong Zhang ierr = PetscMemcpy(mat->ops,matin->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 1827273d9f13SBarry Smith a = (Mat_MPIAIJ*)mat->data; 1828e1b6402fSHong Zhang 1829d6dfbf8fSBarry Smith mat->factor = matin->factor; 1830521d7252SBarry Smith mat->bs = matin->bs; 1831c456f294SBarry Smith mat->assembled = PETSC_TRUE; 1832e7641de0SSatish Balay mat->insertmode = NOT_SET_VALUES; 1833273d9f13SBarry Smith mat->preallocated = PETSC_TRUE; 1834d6dfbf8fSBarry Smith 1835416022c9SBarry Smith a->rstart = oldmat->rstart; 1836416022c9SBarry Smith a->rend = oldmat->rend; 1837416022c9SBarry Smith a->cstart = oldmat->cstart; 1838416022c9SBarry Smith a->cend = oldmat->cend; 183917699dbbSLois Curfman McInnes a->size = oldmat->size; 184017699dbbSLois Curfman McInnes a->rank = oldmat->rank; 1841e7641de0SSatish Balay a->donotstash = oldmat->donotstash; 1842e7641de0SSatish Balay a->roworiented = oldmat->roworiented; 1843e7641de0SSatish Balay a->rowindices = 0; 1844bcd2baecSBarry Smith a->rowvalues = 0; 1845bcd2baecSBarry Smith a->getrowactive = PETSC_FALSE; 1846d6dfbf8fSBarry Smith 1847b1d57f15SBarry Smith ierr = PetscMemcpy(a->rowners,oldmat->rowners,2*(a->size+2)*sizeof(PetscInt));CHKERRQ(ierr); 18488798bf22SSatish Balay ierr = MatStashCreate_Private(matin->comm,1,&mat->stash);CHKERRQ(ierr); 18492ee70a88SLois Curfman McInnes if (oldmat->colmap) { 1850aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 18510f5bd95cSBarry Smith ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr); 1852b1fc9764SSatish Balay #else 1853b1d57f15SBarry Smith ierr = PetscMalloc((mat->N)*sizeof(PetscInt),&a->colmap);CHKERRQ(ierr); 1854b1d57f15SBarry Smith PetscLogObjectMemory(mat,(mat->N)*sizeof(PetscInt)); 1855b1d57f15SBarry Smith ierr = PetscMemcpy(a->colmap,oldmat->colmap,(mat->N)*sizeof(PetscInt));CHKERRQ(ierr); 1856b1fc9764SSatish Balay #endif 1857416022c9SBarry Smith } else a->colmap = 0; 18583f41c07dSBarry Smith if (oldmat->garray) { 1859b1d57f15SBarry Smith PetscInt len; 1860273d9f13SBarry Smith len = oldmat->B->n; 1861b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&a->garray);CHKERRQ(ierr); 1862b1d57f15SBarry Smith PetscLogObjectMemory(mat,len*sizeof(PetscInt)); 1863b1d57f15SBarry Smith if (len) { ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(PetscInt));CHKERRQ(ierr); } 1864416022c9SBarry Smith } else a->garray = 0; 1865d6dfbf8fSBarry Smith 1866416022c9SBarry Smith ierr = VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr); 1867b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->lvec); 1868a56f8943SBarry Smith ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr); 1869b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->Mvctx); 18704efcb820SBarry Smith ierr = MatDestroy(a->A);CHKERRQ(ierr); 18712e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr); 1872b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->A); 18734efcb820SBarry Smith ierr = MatDestroy(a->B);CHKERRQ(ierr); 18742e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr); 1875b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->B); 1876b0a32e0cSBarry Smith ierr = PetscFListDuplicate(matin->qlist,&mat->qlist);CHKERRQ(ierr); 18778a729477SBarry Smith *newmat = mat; 18783a40ed3dSBarry Smith PetscFunctionReturn(0); 18798a729477SBarry Smith } 1880416022c9SBarry Smith 1881e090d566SSatish Balay #include "petscsys.h" 1882416022c9SBarry Smith 18834a2ae208SSatish Balay #undef __FUNCT__ 18844a2ae208SSatish Balay #define __FUNCT__ "MatLoad_MPIAIJ" 1885dfbe8321SBarry Smith PetscErrorCode MatLoad_MPIAIJ(PetscViewer viewer,const MatType type,Mat *newmat) 1886416022c9SBarry Smith { 1887d65a2f8fSBarry Smith Mat A; 188887828ca2SBarry Smith PetscScalar *vals,*svals; 188919bcc07fSBarry Smith MPI_Comm comm = ((PetscObject)viewer)->comm; 1890416022c9SBarry Smith MPI_Status status; 18916849ba73SBarry Smith PetscErrorCode ierr; 1892dc231df0SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag,maxnz; 1893b1d57f15SBarry Smith PetscInt i,nz,j,rstart,rend; 1894b1d57f15SBarry Smith PetscInt header[4],*rowlengths = 0,M,N,m,*cols; 1895b1d57f15SBarry Smith PetscInt *ourlens,*procsnz = 0,*offlens,jj,*mycols,*smycols; 1896dc231df0SBarry Smith PetscInt cend,cstart,n,*rowners; 1897b1d57f15SBarry Smith int fd; 1898416022c9SBarry Smith 18993a40ed3dSBarry Smith PetscFunctionBegin; 19001dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 19011dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 190217699dbbSLois Curfman McInnes if (!rank) { 1903b0a32e0cSBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 19040752156aSBarry Smith ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr); 1905552e946dSBarry Smith if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object"); 19066c5fab8fSBarry Smith } 19076c5fab8fSBarry Smith 1908b1d57f15SBarry Smith ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr); 1909416022c9SBarry Smith M = header[1]; N = header[2]; 1910416022c9SBarry Smith /* determine ownership of all rows */ 191129cdbbc8SSatish Balay m = M/size + ((M % size) > rank); 1912dc231df0SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&rowners);CHKERRQ(ierr); 1913dc231df0SBarry Smith ierr = MPI_Allgather(&m,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr); 1914416022c9SBarry Smith rowners[0] = 0; 191517699dbbSLois Curfman McInnes for (i=2; i<=size; i++) { 1916416022c9SBarry Smith rowners[i] += rowners[i-1]; 1917416022c9SBarry Smith } 191817699dbbSLois Curfman McInnes rstart = rowners[rank]; 191917699dbbSLois Curfman McInnes rend = rowners[rank+1]; 1920416022c9SBarry Smith 1921416022c9SBarry Smith /* distribute row lengths to all processors */ 1922dc231df0SBarry Smith ierr = PetscMalloc2(m,PetscInt,&ourlens,m,PetscInt,&offlens);CHKERRQ(ierr); 192317699dbbSLois Curfman McInnes if (!rank) { 1924dc231df0SBarry Smith ierr = PetscBinaryRead(fd,ourlens,m,PETSC_INT);CHKERRQ(ierr); 1925dc231df0SBarry Smith ierr = PetscMalloc(m*sizeof(PetscInt),&rowlengths);CHKERRQ(ierr); 1926b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscInt),&procsnz);CHKERRQ(ierr); 1927b1d57f15SBarry Smith ierr = PetscMemzero(procsnz,size*sizeof(PetscInt));CHKERRQ(ierr); 1928dc231df0SBarry Smith for (j=0; j<m; j++) { 1929dc231df0SBarry Smith procsnz[0] += ourlens[j]; 1930dc231df0SBarry Smith } 1931dc231df0SBarry Smith for (i=1; i<size; i++) { 1932dc231df0SBarry Smith ierr = PetscBinaryRead(fd,rowlengths,rowners[i+1]-rowners[i],PETSC_INT);CHKERRQ(ierr); 1933dc231df0SBarry Smith /* calculate the number of nonzeros on each processor */ 1934dc231df0SBarry Smith for (j=0; j<rowners[i+1]-rowners[i]; j++) { 1935416022c9SBarry Smith procsnz[i] += rowlengths[j]; 1936416022c9SBarry Smith } 1937dc231df0SBarry Smith ierr = MPI_Send(rowlengths,rowners[i+1]-rowners[i],MPIU_INT,i,tag,comm);CHKERRQ(ierr); 1938416022c9SBarry Smith } 1939606d414cSSatish Balay ierr = PetscFree(rowlengths);CHKERRQ(ierr); 1940dc231df0SBarry Smith } else { 1941dc231df0SBarry Smith ierr = MPI_Recv(ourlens,m,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 1942dc231df0SBarry Smith } 1943416022c9SBarry Smith 1944dc231df0SBarry Smith if (!rank) { 1945416022c9SBarry Smith /* determine max buffer needed and allocate it */ 1946416022c9SBarry Smith maxnz = 0; 19478a8e0b3aSBarry Smith for (i=0; i<size; i++) { 19480452661fSBarry Smith maxnz = PetscMax(maxnz,procsnz[i]); 1949416022c9SBarry Smith } 1950b1d57f15SBarry Smith ierr = PetscMalloc(maxnz*sizeof(PetscInt),&cols);CHKERRQ(ierr); 1951416022c9SBarry Smith 1952416022c9SBarry Smith /* read in my part of the matrix column indices */ 1953416022c9SBarry Smith nz = procsnz[0]; 1954b1d57f15SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 19550752156aSBarry Smith ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr); 1956d65a2f8fSBarry Smith 1957d65a2f8fSBarry Smith /* read in every one elses and ship off */ 195817699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 1959d65a2f8fSBarry Smith nz = procsnz[i]; 19600752156aSBarry Smith ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 1961b1d57f15SBarry Smith ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr); 1962d65a2f8fSBarry Smith } 1963606d414cSSatish Balay ierr = PetscFree(cols);CHKERRQ(ierr); 19643a40ed3dSBarry Smith } else { 1965416022c9SBarry Smith /* determine buffer space needed for message */ 1966416022c9SBarry Smith nz = 0; 1967416022c9SBarry Smith for (i=0; i<m; i++) { 1968416022c9SBarry Smith nz += ourlens[i]; 1969416022c9SBarry Smith } 1970dc231df0SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 1971416022c9SBarry Smith 1972416022c9SBarry Smith /* receive message of column indices*/ 1973b1d57f15SBarry Smith ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 1974b1d57f15SBarry Smith ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr); 197529bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 1976416022c9SBarry Smith } 1977416022c9SBarry Smith 1978b362ba68SBarry Smith /* determine column ownership if matrix is not square */ 1979b362ba68SBarry Smith if (N != M) { 1980b362ba68SBarry Smith n = N/size + ((N % size) > rank); 1981b1d57f15SBarry Smith ierr = MPI_Scan(&n,&cend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 1982b362ba68SBarry Smith cstart = cend - n; 1983b362ba68SBarry Smith } else { 1984b362ba68SBarry Smith cstart = rstart; 1985b362ba68SBarry Smith cend = rend; 1986fb2e594dSBarry Smith n = cend - cstart; 1987b362ba68SBarry Smith } 1988b362ba68SBarry Smith 1989416022c9SBarry Smith /* loop over local rows, determining number of off diagonal entries */ 1990b1d57f15SBarry Smith ierr = PetscMemzero(offlens,m*sizeof(PetscInt));CHKERRQ(ierr); 1991416022c9SBarry Smith jj = 0; 1992416022c9SBarry Smith for (i=0; i<m; i++) { 1993416022c9SBarry Smith for (j=0; j<ourlens[i]; j++) { 1994b362ba68SBarry Smith if (mycols[jj] < cstart || mycols[jj] >= cend) offlens[i]++; 1995416022c9SBarry Smith jj++; 1996416022c9SBarry Smith } 1997416022c9SBarry Smith } 1998d65a2f8fSBarry Smith 1999d65a2f8fSBarry Smith /* create our matrix */ 2000416022c9SBarry Smith for (i=0; i<m; i++) { 2001416022c9SBarry Smith ourlens[i] -= offlens[i]; 2002416022c9SBarry Smith } 2003d10c748bSKris Buschelman ierr = MatCreate(comm,m,n,M,N,&A);CHKERRQ(ierr); 2004d10c748bSKris Buschelman ierr = MatSetType(A,type);CHKERRQ(ierr); 2005d10c748bSKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,ourlens,0,offlens);CHKERRQ(ierr); 2006d10c748bSKris Buschelman 2007fb2e594dSBarry Smith ierr = MatSetOption(A,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 2008d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2009d65a2f8fSBarry Smith ourlens[i] += offlens[i]; 2010d65a2f8fSBarry Smith } 2011416022c9SBarry Smith 201217699dbbSLois Curfman McInnes if (!rank) { 2013906b51c7SHong Zhang ierr = PetscMalloc((maxnz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2014416022c9SBarry Smith 2015416022c9SBarry Smith /* read in my part of the matrix numerical values */ 2016416022c9SBarry Smith nz = procsnz[0]; 20170752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2018d65a2f8fSBarry Smith 2019d65a2f8fSBarry Smith /* insert into matrix */ 2020d65a2f8fSBarry Smith jj = rstart; 2021d65a2f8fSBarry Smith smycols = mycols; 2022d65a2f8fSBarry Smith svals = vals; 2023d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2024dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2025d65a2f8fSBarry Smith smycols += ourlens[i]; 2026d65a2f8fSBarry Smith svals += ourlens[i]; 2027d65a2f8fSBarry Smith jj++; 2028416022c9SBarry Smith } 2029416022c9SBarry Smith 2030d65a2f8fSBarry Smith /* read in other processors and ship out */ 203117699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 2032416022c9SBarry Smith nz = procsnz[i]; 20330752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2034ca161407SBarry Smith ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,A->tag,comm);CHKERRQ(ierr); 2035416022c9SBarry Smith } 2036606d414cSSatish Balay ierr = PetscFree(procsnz);CHKERRQ(ierr); 20373a40ed3dSBarry Smith } else { 2038d65a2f8fSBarry Smith /* receive numeric values */ 203987828ca2SBarry Smith ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2040416022c9SBarry Smith 2041d65a2f8fSBarry Smith /* receive message of values*/ 2042ca161407SBarry Smith ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,A->tag,comm,&status);CHKERRQ(ierr); 2043ca161407SBarry Smith ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr); 204429bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 2045d65a2f8fSBarry Smith 2046d65a2f8fSBarry Smith /* insert into matrix */ 2047d65a2f8fSBarry Smith jj = rstart; 2048d65a2f8fSBarry Smith smycols = mycols; 2049d65a2f8fSBarry Smith svals = vals; 2050d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2051dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2052d65a2f8fSBarry Smith smycols += ourlens[i]; 2053d65a2f8fSBarry Smith svals += ourlens[i]; 2054d65a2f8fSBarry Smith jj++; 2055d65a2f8fSBarry Smith } 2056d65a2f8fSBarry Smith } 2057dc231df0SBarry Smith ierr = PetscFree2(ourlens,offlens);CHKERRQ(ierr); 2058606d414cSSatish Balay ierr = PetscFree(vals);CHKERRQ(ierr); 2059606d414cSSatish Balay ierr = PetscFree(mycols);CHKERRQ(ierr); 2060606d414cSSatish Balay ierr = PetscFree(rowners);CHKERRQ(ierr); 2061d65a2f8fSBarry Smith 20626d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 20636d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2064d10c748bSKris Buschelman *newmat = A; 20653a40ed3dSBarry Smith PetscFunctionReturn(0); 2066416022c9SBarry Smith } 2067a0ff6018SBarry Smith 20684a2ae208SSatish Balay #undef __FUNCT__ 20694a2ae208SSatish Balay #define __FUNCT__ "MatGetSubMatrix_MPIAIJ" 2070a0ff6018SBarry Smith /* 207129da9460SBarry Smith Not great since it makes two copies of the submatrix, first an SeqAIJ 207229da9460SBarry Smith in local and then by concatenating the local matrices the end result. 207329da9460SBarry Smith Writing it directly would be much like MatGetSubMatrices_MPIAIJ() 2074a0ff6018SBarry Smith */ 2075b1d57f15SBarry Smith PetscErrorCode MatGetSubMatrix_MPIAIJ(Mat mat,IS isrow,IS iscol,PetscInt csize,MatReuse call,Mat *newmat) 2076a0ff6018SBarry Smith { 2077dfbe8321SBarry Smith PetscErrorCode ierr; 207832dcc486SBarry Smith PetscMPIInt rank,size; 2079b1d57f15SBarry Smith PetscInt i,m,n,rstart,row,rend,nz,*cwork,j; 2080b1d57f15SBarry Smith PetscInt *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal; 2081fee21e36SBarry Smith Mat *local,M,Mreuse; 208287828ca2SBarry Smith PetscScalar *vwork,*aa; 208300e6dbe6SBarry Smith MPI_Comm comm = mat->comm; 208400e6dbe6SBarry Smith Mat_SeqAIJ *aij; 20857e2c5f70SBarry Smith 2086a0ff6018SBarry Smith 2087a0ff6018SBarry Smith PetscFunctionBegin; 20881dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 20891dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 209000e6dbe6SBarry Smith 2091fee21e36SBarry Smith if (call == MAT_REUSE_MATRIX) { 2092fee21e36SBarry Smith ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject *)&Mreuse);CHKERRQ(ierr); 2093e005ede5SBarry Smith if (!Mreuse) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse"); 2094fee21e36SBarry Smith local = &Mreuse; 2095fee21e36SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_REUSE_MATRIX,&local);CHKERRQ(ierr); 2096fee21e36SBarry Smith } else { 2097a0ff6018SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&local);CHKERRQ(ierr); 2098fee21e36SBarry Smith Mreuse = *local; 2099606d414cSSatish Balay ierr = PetscFree(local);CHKERRQ(ierr); 2100fee21e36SBarry Smith } 2101a0ff6018SBarry Smith 2102a0ff6018SBarry Smith /* 2103a0ff6018SBarry Smith m - number of local rows 2104a0ff6018SBarry Smith n - number of columns (same on all processors) 2105a0ff6018SBarry Smith rstart - first row in new global matrix generated 2106a0ff6018SBarry Smith */ 2107fee21e36SBarry Smith ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr); 2108a0ff6018SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2109fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 211000e6dbe6SBarry Smith ii = aij->i; 211100e6dbe6SBarry Smith jj = aij->j; 211200e6dbe6SBarry Smith 2113a0ff6018SBarry Smith /* 211400e6dbe6SBarry Smith Determine the number of non-zeros in the diagonal and off-diagonal 211500e6dbe6SBarry Smith portions of the matrix in order to do correct preallocation 2116a0ff6018SBarry Smith */ 211700e6dbe6SBarry Smith 211800e6dbe6SBarry Smith /* first get start and end of "diagonal" columns */ 21196a6a5d1dSBarry Smith if (csize == PETSC_DECIDE) { 2120ab50ec6bSBarry Smith ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr); 2121ab50ec6bSBarry Smith if (mglobal == n) { /* square matrix */ 2122e2c4fddaSBarry Smith nlocal = m; 21236a6a5d1dSBarry Smith } else { 2124ab50ec6bSBarry Smith nlocal = n/size + ((n % size) > rank); 2125ab50ec6bSBarry Smith } 2126ab50ec6bSBarry Smith } else { 21276a6a5d1dSBarry Smith nlocal = csize; 21286a6a5d1dSBarry Smith } 2129b1d57f15SBarry Smith ierr = MPI_Scan(&nlocal,&rend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 213000e6dbe6SBarry Smith rstart = rend - nlocal; 21316a6a5d1dSBarry Smith if (rank == size - 1 && rend != n) { 213277431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Local column sizes %D do not add up to total number of columns %D",rend,n); 21336a6a5d1dSBarry Smith } 213400e6dbe6SBarry Smith 213500e6dbe6SBarry Smith /* next, compute all the lengths */ 2136b1d57f15SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&dlens);CHKERRQ(ierr); 213700e6dbe6SBarry Smith olens = dlens + m; 213800e6dbe6SBarry Smith for (i=0; i<m; i++) { 213900e6dbe6SBarry Smith jend = ii[i+1] - ii[i]; 214000e6dbe6SBarry Smith olen = 0; 214100e6dbe6SBarry Smith dlen = 0; 214200e6dbe6SBarry Smith for (j=0; j<jend; j++) { 214300e6dbe6SBarry Smith if (*jj < rstart || *jj >= rend) olen++; 214400e6dbe6SBarry Smith else dlen++; 214500e6dbe6SBarry Smith jj++; 214600e6dbe6SBarry Smith } 214700e6dbe6SBarry Smith olens[i] = olen; 214800e6dbe6SBarry Smith dlens[i] = dlen; 214900e6dbe6SBarry Smith } 2150e2d9671bSKris Buschelman ierr = MatCreate(comm,m,nlocal,PETSC_DECIDE,n,&M);CHKERRQ(ierr); 2151e2d9671bSKris Buschelman ierr = MatSetType(M,mat->type_name);CHKERRQ(ierr); 2152e2d9671bSKris Buschelman ierr = MatMPIAIJSetPreallocation(M,0,dlens,0,olens);CHKERRQ(ierr); 2153606d414cSSatish Balay ierr = PetscFree(dlens);CHKERRQ(ierr); 2154a0ff6018SBarry Smith } else { 2155b1d57f15SBarry Smith PetscInt ml,nl; 2156a0ff6018SBarry Smith 2157a0ff6018SBarry Smith M = *newmat; 2158a0ff6018SBarry Smith ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr); 215929bbc08cSBarry Smith if (ml != m) SETERRQ(PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request"); 2160a0ff6018SBarry Smith ierr = MatZeroEntries(M);CHKERRQ(ierr); 2161c48de900SBarry Smith /* 2162c48de900SBarry Smith The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 2163c48de900SBarry Smith rather than the slower MatSetValues(). 2164c48de900SBarry Smith */ 2165c48de900SBarry Smith M->was_assembled = PETSC_TRUE; 2166c48de900SBarry Smith M->assembled = PETSC_FALSE; 2167a0ff6018SBarry Smith } 2168a0ff6018SBarry Smith ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr); 2169fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 217000e6dbe6SBarry Smith ii = aij->i; 217100e6dbe6SBarry Smith jj = aij->j; 217200e6dbe6SBarry Smith aa = aij->a; 2173a0ff6018SBarry Smith for (i=0; i<m; i++) { 2174a0ff6018SBarry Smith row = rstart + i; 217500e6dbe6SBarry Smith nz = ii[i+1] - ii[i]; 217600e6dbe6SBarry Smith cwork = jj; jj += nz; 217700e6dbe6SBarry Smith vwork = aa; aa += nz; 21788c638d02SBarry Smith ierr = MatSetValues_MPIAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr); 2179a0ff6018SBarry Smith } 2180a0ff6018SBarry Smith 2181a0ff6018SBarry Smith ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2182a0ff6018SBarry Smith ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2183a0ff6018SBarry Smith *newmat = M; 2184fee21e36SBarry Smith 2185fee21e36SBarry Smith /* save submatrix used in processor for next request */ 2186fee21e36SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2187fee21e36SBarry Smith ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr); 2188fee21e36SBarry Smith ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr); 2189fee21e36SBarry Smith } 2190fee21e36SBarry Smith 2191a0ff6018SBarry Smith PetscFunctionReturn(0); 2192a0ff6018SBarry Smith } 2193273d9f13SBarry Smith 2194e2e86b8fSSatish Balay EXTERN_C_BEGIN 21954a2ae208SSatish Balay #undef __FUNCT__ 2196ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR_MPIAIJ" 2197ccd8e176SBarry Smith PetscErrorCode MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B,const PetscInt I[],const PetscInt J[],const PetscScalar v[]) 2198ccd8e176SBarry Smith { 2199ccd8e176SBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 2200ccd8e176SBarry Smith PetscInt m = B->m,cstart = b->cstart, cend = b->cend,j,nnz,i,d; 2201ccd8e176SBarry Smith PetscInt *d_nnz,*o_nnz,nnz_max = 0,rstart = b->rstart,ii; 2202ccd8e176SBarry Smith const PetscInt *JJ; 2203ccd8e176SBarry Smith PetscScalar *values; 2204ccd8e176SBarry Smith PetscErrorCode ierr; 2205ccd8e176SBarry Smith 2206ccd8e176SBarry Smith PetscFunctionBegin; 2207ccd8e176SBarry Smith #if defined(PETSC_OPT_g) 2208ccd8e176SBarry Smith if (I[0]) SETERRQ1(PETSC_ERR_ARG_RANGE,"I[0] must be 0 it is %D",I[0]); 2209ccd8e176SBarry Smith #endif 2210ccd8e176SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr); 2211ccd8e176SBarry Smith o_nnz = d_nnz + m; 2212ccd8e176SBarry Smith 2213ccd8e176SBarry Smith for (i=0; i<m; i++) { 2214ccd8e176SBarry Smith nnz = I[i+1]- I[i]; 2215ccd8e176SBarry Smith JJ = J + I[i]; 2216ccd8e176SBarry Smith nnz_max = PetscMax(nnz_max,nnz); 2217ccd8e176SBarry Smith #if defined(PETSC_OPT_g) 2218ccd8e176SBarry Smith if (nnz < 0) SETERRQ1(PETSC_ERR_ARG_RANGE,"Local row %D has a negative %D number of columns",i,nnz); 2219ccd8e176SBarry Smith #endif 2220ccd8e176SBarry Smith for (j=0; j<nnz; j++) { 2221ccd8e176SBarry Smith if (*JJ >= cstart) break; 2222ccd8e176SBarry Smith JJ++; 2223ccd8e176SBarry Smith } 2224ccd8e176SBarry Smith d = 0; 2225ccd8e176SBarry Smith for (; j<nnz; j++) { 2226ccd8e176SBarry Smith if (*JJ++ >= cend) break; 2227ccd8e176SBarry Smith d++; 2228ccd8e176SBarry Smith } 2229ccd8e176SBarry Smith d_nnz[i] = d; 2230ccd8e176SBarry Smith o_nnz[i] = nnz - d; 2231ccd8e176SBarry Smith } 2232ccd8e176SBarry Smith ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,o_nnz);CHKERRQ(ierr); 2233ccd8e176SBarry Smith ierr = PetscFree(d_nnz);CHKERRQ(ierr); 2234ccd8e176SBarry Smith 2235ccd8e176SBarry Smith if (v) values = (PetscScalar*)v; 2236ccd8e176SBarry Smith else { 2237ccd8e176SBarry Smith ierr = PetscMalloc((nnz_max+1)*sizeof(PetscScalar),&values);CHKERRQ(ierr); 2238ccd8e176SBarry Smith ierr = PetscMemzero(values,nnz_max*sizeof(PetscScalar));CHKERRQ(ierr); 2239ccd8e176SBarry Smith } 2240ccd8e176SBarry Smith 2241ccd8e176SBarry Smith ierr = MatSetOption(B,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 2242ccd8e176SBarry Smith for (i=0; i<m; i++) { 2243ccd8e176SBarry Smith ii = i + rstart; 2244ccd8e176SBarry Smith nnz = I[i+1]- I[i]; 2245ccd8e176SBarry Smith ierr = MatSetValues_MPIAIJ(B,1,&ii,nnz,J+I[i],values,INSERT_VALUES);CHKERRQ(ierr); 2246ccd8e176SBarry Smith } 2247ccd8e176SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2248ccd8e176SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2249ccd8e176SBarry Smith ierr = MatSetOption(B,MAT_COLUMNS_UNSORTED);CHKERRQ(ierr); 2250ccd8e176SBarry Smith 2251ccd8e176SBarry Smith if (!v) { 2252ccd8e176SBarry Smith ierr = PetscFree(values);CHKERRQ(ierr); 2253ccd8e176SBarry Smith } 2254ccd8e176SBarry Smith PetscFunctionReturn(0); 2255ccd8e176SBarry Smith } 2256e2e86b8fSSatish Balay EXTERN_C_END 2257ccd8e176SBarry Smith 2258ccd8e176SBarry Smith #undef __FUNCT__ 2259ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR" 2260ccd8e176SBarry Smith /*@C 2261ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in AIJ format 2262ccd8e176SBarry Smith (the default parallel PETSc format). 2263ccd8e176SBarry Smith 2264ccd8e176SBarry Smith Collective on MPI_Comm 2265ccd8e176SBarry Smith 2266ccd8e176SBarry Smith Input Parameters: 2267ccd8e176SBarry Smith + A - the matrix 2268ccd8e176SBarry Smith . i - the indices into j for the start of each local row (starts with zero) 2269ccd8e176SBarry Smith . j - the column indices for each local row (starts with zero) these must be sorted for each row 2270ccd8e176SBarry Smith - v - optional values in the matrix 2271ccd8e176SBarry Smith 2272ccd8e176SBarry Smith Level: developer 2273ccd8e176SBarry Smith 2274ccd8e176SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2275ccd8e176SBarry Smith 2276ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatCreateMPIAIJ(), MPIAIJ 2277ccd8e176SBarry Smith @*/ 2278ccd8e176SBarry Smith PetscErrorCode MatMPIAIJSetPreallocationCSR(Mat B,const PetscInt i[],const PetscInt j[], const PetscScalar v[]) 2279ccd8e176SBarry Smith { 2280ccd8e176SBarry Smith PetscErrorCode ierr,(*f)(Mat,const PetscInt[],const PetscInt[],const PetscScalar[]); 2281ccd8e176SBarry Smith 2282ccd8e176SBarry Smith PetscFunctionBegin; 2283ccd8e176SBarry Smith ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",(void (**)(void))&f);CHKERRQ(ierr); 2284ccd8e176SBarry Smith if (f) { 2285ccd8e176SBarry Smith ierr = (*f)(B,i,j,v);CHKERRQ(ierr); 2286ccd8e176SBarry Smith } 2287ccd8e176SBarry Smith PetscFunctionReturn(0); 2288ccd8e176SBarry Smith } 2289ccd8e176SBarry Smith 2290ccd8e176SBarry Smith #undef __FUNCT__ 22914a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJSetPreallocation" 2292273d9f13SBarry Smith /*@C 2293ccd8e176SBarry Smith MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in AIJ format 2294273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2295273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2296273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2297273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2298273d9f13SBarry Smith 2299273d9f13SBarry Smith Collective on MPI_Comm 2300273d9f13SBarry Smith 2301273d9f13SBarry Smith Input Parameters: 2302273d9f13SBarry Smith + A - the matrix 2303273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2304273d9f13SBarry Smith (same value is used for all local rows) 2305273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2306273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2307273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2308273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2309273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2310273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2311273d9f13SBarry Smith submatrix (same value is used for all local rows). 2312273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2313273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2314273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2315273d9f13SBarry Smith structure. The size of this array is equal to the number 2316273d9f13SBarry Smith of local rows, i.e 'm'. 2317273d9f13SBarry Smith 231849a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 231949a6f317SBarry Smith 2320273d9f13SBarry Smith The AIJ format (also called the Yale sparse matrix format or 2321ccd8e176SBarry Smith compressed row storage (CSR)), is fully compatible with standard Fortran 77 2322ccd8e176SBarry Smith storage. The stored row and column indices begin with zero. See the users manual for details. 2323273d9f13SBarry Smith 2324273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2325273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2326273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2327273d9f13SBarry Smith 2328273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2329273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2330273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2331273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2332273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2333273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2334273d9f13SBarry Smith 2335273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2336273d9f13SBarry Smith 2337273d9f13SBarry Smith Example usage: 2338273d9f13SBarry Smith 2339273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2340273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2341273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2342273d9f13SBarry Smith as follows: 2343273d9f13SBarry Smith 2344273d9f13SBarry Smith .vb 2345273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2346273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2347273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2348273d9f13SBarry Smith ------------------------------------- 2349273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2350273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2351273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2352273d9f13SBarry Smith ------------------------------------- 2353273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2354273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2355273d9f13SBarry Smith .ve 2356273d9f13SBarry Smith 2357273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2358273d9f13SBarry Smith 2359273d9f13SBarry Smith .vb 2360273d9f13SBarry Smith A B C 2361273d9f13SBarry Smith D E F 2362273d9f13SBarry Smith G H I 2363273d9f13SBarry Smith .ve 2364273d9f13SBarry Smith 2365273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2366273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2367273d9f13SBarry Smith 2368273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2369273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2370273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2371273d9f13SBarry Smith 2372273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2373273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2374273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2375273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2376273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2377273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2378273d9f13SBarry Smith 2379273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2380273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2381273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2382273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2383273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2384273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2385273d9f13SBarry Smith .vb 2386273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2387273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2388273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2389273d9f13SBarry Smith .ve 2390273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2391273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2392273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2393273d9f13SBarry Smith 34 values. 2394273d9f13SBarry Smith 2395273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2396273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2397273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2398273d9f13SBarry Smith .vb 2399273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2400273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2401273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2402273d9f13SBarry Smith .ve 2403273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2404273d9f13SBarry Smith hence pre-allocation is perfect. 2405273d9f13SBarry Smith 2406273d9f13SBarry Smith Level: intermediate 2407273d9f13SBarry Smith 2408273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2409273d9f13SBarry Smith 2410ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateMPIAIJ(), MatMPIAIJSetPreallocationCSR(), 2411ccd8e176SBarry Smith MPIAIJ 2412273d9f13SBarry Smith @*/ 2413b1d57f15SBarry Smith PetscErrorCode MatMPIAIJSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 2414273d9f13SBarry Smith { 2415b1d57f15SBarry Smith PetscErrorCode ierr,(*f)(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]); 2416273d9f13SBarry Smith 2417273d9f13SBarry Smith PetscFunctionBegin; 2418a23d5eceSKris Buschelman ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocation_C",(void (**)(void))&f);CHKERRQ(ierr); 2419a23d5eceSKris Buschelman if (f) { 2420a23d5eceSKris Buschelman ierr = (*f)(B,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2421273d9f13SBarry Smith } 2422273d9f13SBarry Smith PetscFunctionReturn(0); 2423273d9f13SBarry Smith } 2424273d9f13SBarry Smith 24254a2ae208SSatish Balay #undef __FUNCT__ 24264a2ae208SSatish Balay #define __FUNCT__ "MatCreateMPIAIJ" 2427273d9f13SBarry Smith /*@C 2428273d9f13SBarry Smith MatCreateMPIAIJ - Creates a sparse parallel matrix in AIJ format 2429273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2430273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2431273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2432273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2433273d9f13SBarry Smith 2434273d9f13SBarry Smith Collective on MPI_Comm 2435273d9f13SBarry Smith 2436273d9f13SBarry Smith Input Parameters: 2437273d9f13SBarry Smith + comm - MPI communicator 2438273d9f13SBarry Smith . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 2439273d9f13SBarry Smith This value should be the same as the local size used in creating the 2440273d9f13SBarry Smith y vector for the matrix-vector product y = Ax. 2441273d9f13SBarry Smith . n - This value should be the same as the local size used in creating the 2442273d9f13SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 2443273d9f13SBarry Smith calculated if N is given) For square matrices n is almost always m. 2444273d9f13SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 2445273d9f13SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 2446273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2447273d9f13SBarry Smith (same value is used for all local rows) 2448273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2449273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2450273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2451273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2452273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2453273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2454273d9f13SBarry Smith submatrix (same value is used for all local rows). 2455273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2456273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2457273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2458273d9f13SBarry Smith structure. The size of this array is equal to the number 2459273d9f13SBarry Smith of local rows, i.e 'm'. 2460273d9f13SBarry Smith 2461273d9f13SBarry Smith Output Parameter: 2462273d9f13SBarry Smith . A - the matrix 2463273d9f13SBarry Smith 2464273d9f13SBarry Smith Notes: 246549a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 246649a6f317SBarry Smith 2467273d9f13SBarry Smith m,n,M,N parameters specify the size of the matrix, and its partitioning across 2468273d9f13SBarry Smith processors, while d_nz,d_nnz,o_nz,o_nnz parameters specify the approximate 2469273d9f13SBarry Smith storage requirements for this matrix. 2470273d9f13SBarry Smith 2471273d9f13SBarry Smith If PETSC_DECIDE or PETSC_DETERMINE is used for a particular argument on one 2472273d9f13SBarry Smith processor than it must be used on all processors that share the object for 2473273d9f13SBarry Smith that argument. 2474273d9f13SBarry Smith 2475273d9f13SBarry Smith The user MUST specify either the local or global matrix dimensions 2476273d9f13SBarry Smith (possibly both). 2477273d9f13SBarry Smith 2478273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2479273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2480273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2481273d9f13SBarry Smith 2482273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2483273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2484273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2485273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2486273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2487273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2488273d9f13SBarry Smith 2489273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2490273d9f13SBarry Smith 249197d05335SKris Buschelman When calling this routine with a single process communicator, a matrix of 249297d05335SKris Buschelman type SEQAIJ is returned. If a matrix of type MPIAIJ is desired for this 249397d05335SKris Buschelman type of communicator, use the construction mechanism: 249497d05335SKris Buschelman MatCreate(...,&A); MatSetType(A,MPIAIJ); MatMPIAIJSetPreallocation(A,...); 249597d05335SKris Buschelman 2496273d9f13SBarry Smith By default, this format uses inodes (identical nodes) when possible. 2497273d9f13SBarry Smith We search for consecutive rows with the same nonzero structure, thereby 2498273d9f13SBarry Smith reusing matrix information to achieve increased efficiency. 2499273d9f13SBarry Smith 2500273d9f13SBarry Smith Options Database Keys: 2501273d9f13SBarry Smith + -mat_aij_no_inode - Do not use inodes 2502273d9f13SBarry Smith . -mat_aij_inode_limit <limit> - Sets inode limit (max limit=5) 2503273d9f13SBarry Smith - -mat_aij_oneindex - Internally use indexing starting at 1 2504273d9f13SBarry Smith rather than 0. Note that when calling MatSetValues(), 2505273d9f13SBarry Smith the user still MUST index entries starting at 0! 2506273d9f13SBarry Smith 2507273d9f13SBarry Smith 2508273d9f13SBarry Smith Example usage: 2509273d9f13SBarry Smith 2510273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2511273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2512273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2513273d9f13SBarry Smith as follows: 2514273d9f13SBarry Smith 2515273d9f13SBarry Smith .vb 2516273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2517273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2518273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2519273d9f13SBarry Smith ------------------------------------- 2520273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2521273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2522273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2523273d9f13SBarry Smith ------------------------------------- 2524273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2525273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2526273d9f13SBarry Smith .ve 2527273d9f13SBarry Smith 2528273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2529273d9f13SBarry Smith 2530273d9f13SBarry Smith .vb 2531273d9f13SBarry Smith A B C 2532273d9f13SBarry Smith D E F 2533273d9f13SBarry Smith G H I 2534273d9f13SBarry Smith .ve 2535273d9f13SBarry Smith 2536273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2537273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2538273d9f13SBarry Smith 2539273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2540273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2541273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2542273d9f13SBarry Smith 2543273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2544273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2545273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2546273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2547273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2548273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2549273d9f13SBarry Smith 2550273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2551273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2552273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2553273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2554273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2555273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2556273d9f13SBarry Smith .vb 2557273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2558273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2559273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2560273d9f13SBarry Smith .ve 2561273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2562273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2563273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2564273d9f13SBarry Smith 34 values. 2565273d9f13SBarry Smith 2566273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2567273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2568273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2569273d9f13SBarry Smith .vb 2570273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2571273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2572273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2573273d9f13SBarry Smith .ve 2574273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2575273d9f13SBarry Smith hence pre-allocation is perfect. 2576273d9f13SBarry Smith 2577273d9f13SBarry Smith Level: intermediate 2578273d9f13SBarry Smith 2579273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2580273d9f13SBarry Smith 2581ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 2582ccd8e176SBarry Smith MPIAIJ 2583273d9f13SBarry Smith @*/ 2584b1d57f15SBarry 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) 2585273d9f13SBarry Smith { 25866849ba73SBarry Smith PetscErrorCode ierr; 2587b1d57f15SBarry Smith PetscMPIInt size; 2588273d9f13SBarry Smith 2589273d9f13SBarry Smith PetscFunctionBegin; 2590273d9f13SBarry Smith ierr = MatCreate(comm,m,n,M,N,A);CHKERRQ(ierr); 2591273d9f13SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 2592273d9f13SBarry Smith if (size > 1) { 2593273d9f13SBarry Smith ierr = MatSetType(*A,MATMPIAIJ);CHKERRQ(ierr); 2594273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(*A,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2595273d9f13SBarry Smith } else { 2596273d9f13SBarry Smith ierr = MatSetType(*A,MATSEQAIJ);CHKERRQ(ierr); 2597273d9f13SBarry Smith ierr = MatSeqAIJSetPreallocation(*A,d_nz,d_nnz);CHKERRQ(ierr); 2598273d9f13SBarry Smith } 2599273d9f13SBarry Smith PetscFunctionReturn(0); 2600273d9f13SBarry Smith } 2601195d93cdSBarry Smith 26024a2ae208SSatish Balay #undef __FUNCT__ 26034a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJGetSeqAIJ" 2604b1d57f15SBarry Smith PetscErrorCode MatMPIAIJGetSeqAIJ(Mat A,Mat *Ad,Mat *Ao,PetscInt *colmap[]) 2605195d93cdSBarry Smith { 2606195d93cdSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2607b1d57f15SBarry Smith 2608195d93cdSBarry Smith PetscFunctionBegin; 2609195d93cdSBarry Smith *Ad = a->A; 2610195d93cdSBarry Smith *Ao = a->B; 2611195d93cdSBarry Smith *colmap = a->garray; 2612195d93cdSBarry Smith PetscFunctionReturn(0); 2613195d93cdSBarry Smith } 2614a2243be0SBarry Smith 2615a2243be0SBarry Smith #undef __FUNCT__ 2616a2243be0SBarry Smith #define __FUNCT__ "MatSetColoring_MPIAIJ" 2617dfbe8321SBarry Smith PetscErrorCode MatSetColoring_MPIAIJ(Mat A,ISColoring coloring) 2618a2243be0SBarry Smith { 2619dfbe8321SBarry Smith PetscErrorCode ierr; 2620b1d57f15SBarry Smith PetscInt i; 2621a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2622a2243be0SBarry Smith 2623a2243be0SBarry Smith PetscFunctionBegin; 2624a2243be0SBarry Smith if (coloring->ctype == IS_COLORING_LOCAL) { 262508b6dcc0SBarry Smith ISColoringValue *allcolors,*colors; 2626a2243be0SBarry Smith ISColoring ocoloring; 2627a2243be0SBarry Smith 2628a2243be0SBarry Smith /* set coloring for diagonal portion */ 2629a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,coloring);CHKERRQ(ierr); 2630a2243be0SBarry Smith 2631a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 263208b6dcc0SBarry Smith ierr = ISAllGatherColors(A->comm,coloring->n,coloring->colors,PETSC_NULL,&allcolors);CHKERRQ(ierr); 263308b6dcc0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2634a2243be0SBarry Smith for (i=0; i<a->B->n; i++) { 2635a2243be0SBarry Smith colors[i] = allcolors[a->garray[i]]; 2636a2243be0SBarry Smith } 2637a2243be0SBarry Smith ierr = PetscFree(allcolors);CHKERRQ(ierr); 2638a2243be0SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr); 2639a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2640a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2641a2243be0SBarry Smith } else if (coloring->ctype == IS_COLORING_GHOSTED) { 264208b6dcc0SBarry Smith ISColoringValue *colors; 2643b1d57f15SBarry Smith PetscInt *larray; 2644a2243be0SBarry Smith ISColoring ocoloring; 2645a2243be0SBarry Smith 2646a2243be0SBarry Smith /* set coloring for diagonal portion */ 2647b1d57f15SBarry Smith ierr = PetscMalloc((a->A->n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 2648a2243be0SBarry Smith for (i=0; i<a->A->n; i++) { 2649a2243be0SBarry Smith larray[i] = i + a->cstart; 2650a2243be0SBarry Smith } 2651a2243be0SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->A->n,larray,PETSC_NULL,larray);CHKERRQ(ierr); 265208b6dcc0SBarry Smith ierr = PetscMalloc((a->A->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2653a2243be0SBarry Smith for (i=0; i<a->A->n; i++) { 2654a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2655a2243be0SBarry Smith } 2656a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 265712c595b3SBarry Smith ierr = ISColoringCreate(PETSC_COMM_SELF,a->A->n,colors,&ocoloring);CHKERRQ(ierr); 2658a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,ocoloring);CHKERRQ(ierr); 2659a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2660a2243be0SBarry Smith 2661a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 2662b1d57f15SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 2663a2243be0SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->B->n,a->garray,PETSC_NULL,larray);CHKERRQ(ierr); 266408b6dcc0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2665a2243be0SBarry Smith for (i=0; i<a->B->n; i++) { 2666a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2667a2243be0SBarry Smith } 2668a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 2669a2243be0SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr); 2670a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2671a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2672a2243be0SBarry Smith } else { 267377431f27SBarry Smith SETERRQ1(PETSC_ERR_SUP,"No support ISColoringType %d",(int)coloring->ctype); 2674a2243be0SBarry Smith } 2675a2243be0SBarry Smith 2676a2243be0SBarry Smith PetscFunctionReturn(0); 2677a2243be0SBarry Smith } 2678a2243be0SBarry Smith 2679a2243be0SBarry Smith #undef __FUNCT__ 2680779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdic_MPIAIJ" 2681dfbe8321SBarry Smith PetscErrorCode MatSetValuesAdic_MPIAIJ(Mat A,void *advalues) 2682a2243be0SBarry Smith { 2683a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2684dfbe8321SBarry Smith PetscErrorCode ierr; 2685a2243be0SBarry Smith 2686a2243be0SBarry Smith PetscFunctionBegin; 2687779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->A,advalues);CHKERRQ(ierr); 2688779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->B,advalues);CHKERRQ(ierr); 2689779c1a83SBarry Smith PetscFunctionReturn(0); 2690779c1a83SBarry Smith } 2691779c1a83SBarry Smith 2692779c1a83SBarry Smith #undef __FUNCT__ 2693779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdifor_MPIAIJ" 2694b1d57f15SBarry Smith PetscErrorCode MatSetValuesAdifor_MPIAIJ(Mat A,PetscInt nl,void *advalues) 2695779c1a83SBarry Smith { 2696779c1a83SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2697dfbe8321SBarry Smith PetscErrorCode ierr; 2698779c1a83SBarry Smith 2699779c1a83SBarry Smith PetscFunctionBegin; 2700779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->A,nl,advalues);CHKERRQ(ierr); 2701779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->B,nl,advalues);CHKERRQ(ierr); 2702a2243be0SBarry Smith PetscFunctionReturn(0); 2703a2243be0SBarry Smith } 2704c5d6d63eSBarry Smith 2705c5d6d63eSBarry Smith #undef __FUNCT__ 270651dd7536SBarry Smith #define __FUNCT__ "MatMerge" 2707c5d6d63eSBarry Smith /*@C 270851dd7536SBarry Smith MatMerge - Creates a single large PETSc matrix by concatinating sequential 270951dd7536SBarry Smith matrices from each processor 2710c5d6d63eSBarry Smith 2711c5d6d63eSBarry Smith Collective on MPI_Comm 2712c5d6d63eSBarry Smith 2713c5d6d63eSBarry Smith Input Parameters: 271451dd7536SBarry Smith + comm - the communicators the parallel matrix will live on 2715d6bb3c2dSHong Zhang . inmat - the input sequential matrices 27160e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 2717d6bb3c2dSHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 271851dd7536SBarry Smith 271951dd7536SBarry Smith Output Parameter: 272051dd7536SBarry Smith . outmat - the parallel matrix generated 2721c5d6d63eSBarry Smith 27227e25d530SSatish Balay Level: advanced 27237e25d530SSatish Balay 2724f08fae4eSHong Zhang Notes: The number of columns of the matrix in EACH processor MUST be the same. 2725c5d6d63eSBarry Smith 2726c5d6d63eSBarry Smith @*/ 27270e36024fSHong Zhang PetscErrorCode MatMerge(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat) 2728c5d6d63eSBarry Smith { 2729dfbe8321SBarry Smith PetscErrorCode ierr; 2730b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz,I,*dnz,*onz; 2731ba8c8a56SBarry Smith PetscInt *indx; 2732ba8c8a56SBarry Smith PetscScalar *values; 273351dd7536SBarry Smith PetscMap columnmap,rowmap; 2734c5d6d63eSBarry Smith 2735c5d6d63eSBarry Smith PetscFunctionBegin; 27360e36024fSHong Zhang ierr = MatGetSize(inmat,&m,&N);CHKERRQ(ierr); 27372257cef7SHong Zhang /* 27382257cef7SHong Zhang PetscMPIInt rank; 27392257cef7SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 274055d1abb9SHong Zhang ierr = PetscPrintf(PETSC_COMM_SELF," [%d] inmat m=%d, n=%d, N=%d\n",rank,m,n,N); 274155d1abb9SHong Zhang */ 2742d6bb3c2dSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 2743d6bb3c2dSHong Zhang /* count nonzeros in each row, for diagonal and off diagonal portion of matrix */ 27440e36024fSHong Zhang if (n == PETSC_DECIDE){ 2745d6bb3c2dSHong Zhang ierr = PetscMapCreate(comm,&columnmap);CHKERRQ(ierr); 27460e36024fSHong Zhang ierr = PetscMapSetSize(columnmap,N);CHKERRQ(ierr); 2747d6bb3c2dSHong Zhang ierr = PetscMapSetType(columnmap,MAP_MPI);CHKERRQ(ierr); 2748d6bb3c2dSHong Zhang ierr = PetscMapGetLocalSize(columnmap,&n);CHKERRQ(ierr); 2749d6bb3c2dSHong Zhang ierr = PetscMapDestroy(columnmap);CHKERRQ(ierr); 27500e36024fSHong Zhang } 2751d6bb3c2dSHong Zhang 2752d6bb3c2dSHong Zhang ierr = PetscMapCreate(comm,&rowmap);CHKERRQ(ierr); 2753d6bb3c2dSHong Zhang ierr = PetscMapSetLocalSize(rowmap,m);CHKERRQ(ierr); 2754d6bb3c2dSHong Zhang ierr = PetscMapSetType(rowmap,MAP_MPI);CHKERRQ(ierr); 2755d6bb3c2dSHong Zhang ierr = PetscMapGetLocalRange(rowmap,&rstart,0);CHKERRQ(ierr); 2756d6bb3c2dSHong Zhang ierr = PetscMapDestroy(rowmap);CHKERRQ(ierr); 2757d6bb3c2dSHong Zhang 2758d6bb3c2dSHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 2759d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 2760ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 2761d6bb3c2dSHong Zhang ierr = MatPreallocateSet(i+rstart,nnz,indx,dnz,onz);CHKERRQ(ierr); 2762ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 2763d6bb3c2dSHong Zhang } 2764d6bb3c2dSHong Zhang /* This routine will ONLY return MPIAIJ type matrix */ 2765d6bb3c2dSHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,PETSC_DETERMINE,outmat);CHKERRQ(ierr); 2766d6bb3c2dSHong Zhang ierr = MatSetType(*outmat,MATMPIAIJ);CHKERRQ(ierr); 2767d6bb3c2dSHong Zhang ierr = MatMPIAIJSetPreallocation(*outmat,0,dnz,0,onz);CHKERRQ(ierr); 2768d6bb3c2dSHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 2769d6bb3c2dSHong Zhang 2770d6bb3c2dSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 2771d6bb3c2dSHong Zhang ierr = MatGetOwnershipRange(*outmat,&rstart,PETSC_NULL);CHKERRQ(ierr); 2772d6bb3c2dSHong Zhang } else { 277377431f27SBarry Smith SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 2774d6bb3c2dSHong Zhang } 2775d6bb3c2dSHong Zhang 2776d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 2777ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 2778d6bb3c2dSHong Zhang I = i + rstart; 2779906b51c7SHong Zhang ierr = MatSetValues(*outmat,1,&I,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 2780ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 2781d6bb3c2dSHong Zhang } 2782d6bb3c2dSHong Zhang ierr = MatDestroy(inmat);CHKERRQ(ierr); 2783d6bb3c2dSHong Zhang ierr = MatAssemblyBegin(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2784d6bb3c2dSHong Zhang ierr = MatAssemblyEnd(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 278551dd7536SBarry Smith 2786c5d6d63eSBarry Smith PetscFunctionReturn(0); 2787c5d6d63eSBarry Smith } 2788c5d6d63eSBarry Smith 2789c5d6d63eSBarry Smith #undef __FUNCT__ 2790c5d6d63eSBarry Smith #define __FUNCT__ "MatFileSplit" 2791dfbe8321SBarry Smith PetscErrorCode MatFileSplit(Mat A,char *outfile) 2792c5d6d63eSBarry Smith { 2793dfbe8321SBarry Smith PetscErrorCode ierr; 279432dcc486SBarry Smith PetscMPIInt rank; 2795b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz; 2796de4209c5SBarry Smith size_t len; 2797b1d57f15SBarry Smith const PetscInt *indx; 2798c5d6d63eSBarry Smith PetscViewer out; 2799c5d6d63eSBarry Smith char *name; 2800c5d6d63eSBarry Smith Mat B; 2801b3cc6726SBarry Smith const PetscScalar *values; 2802c5d6d63eSBarry Smith 2803c5d6d63eSBarry Smith PetscFunctionBegin; 2804c5d6d63eSBarry Smith ierr = MatGetLocalSize(A,&m,0);CHKERRQ(ierr); 2805c5d6d63eSBarry Smith ierr = MatGetSize(A,0,&N);CHKERRQ(ierr); 2806f204ca49SKris Buschelman /* Should this be the type of the diagonal block of A? */ 2807f204ca49SKris Buschelman ierr = MatCreate(PETSC_COMM_SELF,m,N,m,N,&B);CHKERRQ(ierr); 2808f204ca49SKris Buschelman ierr = MatSetType(B,MATSEQAIJ);CHKERRQ(ierr); 2809f204ca49SKris Buschelman ierr = MatSeqAIJSetPreallocation(B,0,PETSC_NULL);CHKERRQ(ierr); 2810c5d6d63eSBarry Smith ierr = MatGetOwnershipRange(A,&rstart,0);CHKERRQ(ierr); 2811c5d6d63eSBarry Smith for (i=0;i<m;i++) { 2812c5d6d63eSBarry Smith ierr = MatGetRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 2813c5d6d63eSBarry Smith ierr = MatSetValues(B,1,&i,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 2814c5d6d63eSBarry Smith ierr = MatRestoreRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 2815c5d6d63eSBarry Smith } 2816c5d6d63eSBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2817c5d6d63eSBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2818c5d6d63eSBarry Smith 2819c5d6d63eSBarry Smith ierr = MPI_Comm_rank(A->comm,&rank);CHKERRQ(ierr); 2820c5d6d63eSBarry Smith ierr = PetscStrlen(outfile,&len);CHKERRQ(ierr); 2821c5d6d63eSBarry Smith ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr); 2822c5d6d63eSBarry Smith sprintf(name,"%s.%d",outfile,rank); 282345f7d322SBarry Smith ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,PETSC_FILE_CREATE,&out);CHKERRQ(ierr); 2824c5d6d63eSBarry Smith ierr = PetscFree(name); 2825c5d6d63eSBarry Smith ierr = MatView(B,out);CHKERRQ(ierr); 2826c5d6d63eSBarry Smith ierr = PetscViewerDestroy(out);CHKERRQ(ierr); 2827c5d6d63eSBarry Smith ierr = MatDestroy(B);CHKERRQ(ierr); 2828c5d6d63eSBarry Smith PetscFunctionReturn(0); 2829c5d6d63eSBarry Smith } 2830e5f2cdd8SHong Zhang 283151a7d1a8SHong Zhang EXTERN PetscErrorCode MatDestroy_MPIAIJ(Mat); 283251a7d1a8SHong Zhang #undef __FUNCT__ 283351a7d1a8SHong Zhang #define __FUNCT__ "MatDestroy_MPIAIJ_SeqsToMPI" 283451a7d1a8SHong Zhang PetscErrorCode MatDestroy_MPIAIJ_SeqsToMPI(Mat A) 283551a7d1a8SHong Zhang { 283651a7d1a8SHong Zhang PetscErrorCode ierr; 2837671beff6SHong Zhang Mat_Merge_SeqsToMPI *merge; 2838671beff6SHong Zhang PetscObjectContainer container; 283951a7d1a8SHong Zhang 284051a7d1a8SHong Zhang PetscFunctionBegin; 2841671beff6SHong Zhang ierr = PetscObjectQuery((PetscObject)A,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 2842671beff6SHong Zhang if (container) { 28437f79fd58SMatthew Knepley ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 284451a7d1a8SHong Zhang ierr = PetscFree(merge->id_r);CHKERRQ(ierr); 28453e06a4e6SHong Zhang ierr = PetscFree(merge->len_s);CHKERRQ(ierr); 28463e06a4e6SHong Zhang ierr = PetscFree(merge->len_r);CHKERRQ(ierr); 284751a7d1a8SHong Zhang ierr = PetscFree(merge->bi);CHKERRQ(ierr); 284851a7d1a8SHong Zhang ierr = PetscFree(merge->bj);CHKERRQ(ierr); 284902c68681SHong Zhang ierr = PetscFree(merge->buf_ri);CHKERRQ(ierr); 285002c68681SHong Zhang ierr = PetscFree(merge->buf_rj);CHKERRQ(ierr); 285151a7d1a8SHong Zhang ierr = PetscMapDestroy(merge->rowmap);CHKERRQ(ierr); 2852de0260b3SHong Zhang if (merge->coi){ierr = PetscFree(merge->coi);CHKERRQ(ierr);} 2853de0260b3SHong Zhang if (merge->coj){ierr = PetscFree(merge->coj);CHKERRQ(ierr);} 2854de0260b3SHong Zhang if (merge->owners_co){ierr = PetscFree(merge->owners_co);CHKERRQ(ierr);} 2855671beff6SHong Zhang 2856671beff6SHong Zhang ierr = PetscObjectContainerDestroy(container);CHKERRQ(ierr); 2857671beff6SHong Zhang ierr = PetscObjectCompose((PetscObject)A,"MatMergeSeqsToMPI",0);CHKERRQ(ierr); 2858671beff6SHong Zhang } 285951a7d1a8SHong Zhang ierr = PetscFree(merge);CHKERRQ(ierr); 286051a7d1a8SHong Zhang 286151a7d1a8SHong Zhang ierr = MatDestroy_MPIAIJ(A);CHKERRQ(ierr); 286251a7d1a8SHong Zhang PetscFunctionReturn(0); 286351a7d1a8SHong Zhang } 286451a7d1a8SHong Zhang 286558cb9c82SHong Zhang #include "src/mat/utils/freespace.h" 2866be0fcf8dSHong Zhang #include "petscbt.h" 2867e5f2cdd8SHong Zhang #undef __FUNCT__ 2868e5f2cdd8SHong Zhang #define __FUNCT__ "MatMerge_SeqsToMPI" 2869e5f2cdd8SHong Zhang /*@C 2870f08fae4eSHong Zhang MatMerge_SeqsToMPI - Creates a MPIAIJ matrix by adding sequential 2871e5f2cdd8SHong Zhang matrices from each processor 2872e5f2cdd8SHong Zhang 2873e5f2cdd8SHong Zhang Collective on MPI_Comm 2874e5f2cdd8SHong Zhang 2875e5f2cdd8SHong Zhang Input Parameters: 2876e5f2cdd8SHong Zhang + comm - the communicators the parallel matrix will live on 2877f08fae4eSHong Zhang . seqmat - the input sequential matrices 28780e36024fSHong Zhang . m - number of local rows (or PETSC_DECIDE) 28790e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 2880e5f2cdd8SHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 2881e5f2cdd8SHong Zhang 2882e5f2cdd8SHong Zhang Output Parameter: 2883f08fae4eSHong Zhang . mpimat - the parallel matrix generated 2884e5f2cdd8SHong Zhang 2885e5f2cdd8SHong Zhang Level: advanced 2886e5f2cdd8SHong Zhang 2887affca5deSHong Zhang Notes: 2888affca5deSHong Zhang The dimensions of the sequential matrix in each processor MUST be the same. 2889affca5deSHong Zhang The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be 2890affca5deSHong Zhang destroyed when mpimat is destroyed. Call PetscObjectQuery() to access seqmat. 2891e5f2cdd8SHong Zhang @*/ 28923c2c1871SHong Zhang static PetscEvent logkey_seqstompinum = 0; 289355d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPINumeric(Mat seqmat,Mat mpimat) 289455d1abb9SHong Zhang { 289555d1abb9SHong Zhang PetscErrorCode ierr; 289655d1abb9SHong Zhang MPI_Comm comm=mpimat->comm; 289755d1abb9SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 2898b1d57f15SBarry Smith PetscMPIInt size,rank,taga,*len_s; 2899b1d57f15SBarry Smith PetscInt N=mpimat->N,i,j,*owners,*ai=a->i,*aj=a->j; 2900b1d57f15SBarry Smith PetscInt proc,m; 2901b1d57f15SBarry Smith PetscInt **buf_ri,**buf_rj; 2902b1d57f15SBarry Smith PetscInt k,anzi,*bj_i,*bi,*bj,arow,bnzi,nextaj; 2903b1d57f15SBarry Smith PetscInt nrows,**buf_ri_k,**nextrow,**nextai; 290455d1abb9SHong Zhang MPI_Request *s_waits,*r_waits; 290555d1abb9SHong Zhang MPI_Status *status; 2906ce805ee4SHong Zhang MatScalar *aa=a->a,**abuf_r,*ba_i; 290755d1abb9SHong Zhang Mat_Merge_SeqsToMPI *merge; 290855d1abb9SHong Zhang PetscObjectContainer container; 290955d1abb9SHong Zhang 291055d1abb9SHong Zhang PetscFunctionBegin; 29113c2c1871SHong Zhang if (!logkey_seqstompinum) { 29123c2c1871SHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompinum,"MatMerge_SeqsToMPINumeric",MAT_COOKIE); 29133c2c1871SHong Zhang } 29143c2c1871SHong Zhang ierr = PetscLogEventBegin(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 29153c2c1871SHong Zhang 291655d1abb9SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 291755d1abb9SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 291855d1abb9SHong Zhang 291955d1abb9SHong Zhang ierr = PetscObjectQuery((PetscObject)mpimat,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 292055d1abb9SHong Zhang if (container) { 292155d1abb9SHong Zhang ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 292255d1abb9SHong Zhang } 292355d1abb9SHong Zhang bi = merge->bi; 292455d1abb9SHong Zhang bj = merge->bj; 292555d1abb9SHong Zhang buf_ri = merge->buf_ri; 292655d1abb9SHong Zhang buf_rj = merge->buf_rj; 292755d1abb9SHong Zhang 292855d1abb9SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 292955d1abb9SHong Zhang ierr = PetscMapGetGlobalRange(merge->rowmap,&owners);CHKERRQ(ierr); 293055d1abb9SHong Zhang len_s = merge->len_s; 293155d1abb9SHong Zhang 293255d1abb9SHong Zhang /* send and recv matrix values */ 293355d1abb9SHong Zhang /*-----------------------------*/ 293455d1abb9SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&taga);CHKERRQ(ierr); 293555d1abb9SHong Zhang ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr); 293655d1abb9SHong Zhang 293755d1abb9SHong Zhang ierr = PetscMalloc((merge->nsend+1)*sizeof(MPI_Request),&s_waits);CHKERRQ(ierr); 293855d1abb9SHong Zhang for (proc=0,k=0; proc<size; proc++){ 293955d1abb9SHong Zhang if (!len_s[proc]) continue; 294055d1abb9SHong Zhang i = owners[proc]; 294155d1abb9SHong Zhang ierr = MPI_Isend(aa+ai[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRQ(ierr); 294255d1abb9SHong Zhang k++; 294355d1abb9SHong Zhang } 294455d1abb9SHong Zhang 294555d1abb9SHong Zhang ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRQ(ierr); 294655d1abb9SHong Zhang ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRQ(ierr); 294755d1abb9SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 294855d1abb9SHong Zhang 294955d1abb9SHong Zhang ierr = PetscFree(s_waits);CHKERRQ(ierr); 295055d1abb9SHong Zhang ierr = PetscFree(r_waits);CHKERRQ(ierr); 295155d1abb9SHong Zhang 295255d1abb9SHong Zhang /* insert mat values of mpimat */ 295355d1abb9SHong Zhang /*----------------------------*/ 295455d1abb9SHong Zhang ierr = PetscMalloc(N*sizeof(MatScalar),&ba_i);CHKERRQ(ierr); 2955b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 295655d1abb9SHong Zhang nextrow = buf_ri_k + merge->nrecv; 295755d1abb9SHong Zhang nextai = nextrow + merge->nrecv; 295855d1abb9SHong Zhang 295955d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ 296055d1abb9SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 296155d1abb9SHong Zhang nrows = *(buf_ri_k[k]); 296255d1abb9SHong Zhang nextrow[k] = buf_ri_k[k]+1; /* next row number of k-th recved i-structure */ 296355d1abb9SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 296455d1abb9SHong Zhang } 296555d1abb9SHong Zhang 296655d1abb9SHong Zhang /* set values of ba */ 296755d1abb9SHong Zhang ierr = PetscMapGetLocalSize(merge->rowmap,&m);CHKERRQ(ierr); 296855d1abb9SHong Zhang for (i=0; i<m; i++) { 296955d1abb9SHong Zhang arow = owners[rank] + i; 297055d1abb9SHong Zhang bj_i = bj+bi[i]; /* col indices of the i-th row of mpimat */ 297155d1abb9SHong Zhang bnzi = bi[i+1] - bi[i]; 297255d1abb9SHong Zhang ierr = PetscMemzero(ba_i,bnzi*sizeof(MatScalar));CHKERRQ(ierr); 297355d1abb9SHong Zhang 297455d1abb9SHong Zhang /* add local non-zero vals of this proc's seqmat into ba */ 297555d1abb9SHong Zhang anzi = ai[arow+1] - ai[arow]; 297655d1abb9SHong Zhang aj = a->j + ai[arow]; 297755d1abb9SHong Zhang aa = a->a + ai[arow]; 297855d1abb9SHong Zhang nextaj = 0; 297955d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 298055d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 298155d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 298255d1abb9SHong Zhang } 298355d1abb9SHong Zhang } 298455d1abb9SHong Zhang 298555d1abb9SHong Zhang /* add received vals into ba */ 298655d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 298755d1abb9SHong Zhang /* i-th row */ 298855d1abb9SHong Zhang if (i == *nextrow[k]) { 298955d1abb9SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 299055d1abb9SHong Zhang aj = buf_rj[k] + *(nextai[k]); 299155d1abb9SHong Zhang aa = abuf_r[k] + *(nextai[k]); 299255d1abb9SHong Zhang nextaj = 0; 299355d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 299455d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 299555d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 299655d1abb9SHong Zhang } 299755d1abb9SHong Zhang } 299855d1abb9SHong Zhang nextrow[k]++; nextai[k]++; 299955d1abb9SHong Zhang } 300055d1abb9SHong Zhang } 300155d1abb9SHong Zhang ierr = MatSetValues(mpimat,1,&arow,bnzi,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr); 300255d1abb9SHong Zhang } 300355d1abb9SHong Zhang ierr = MatAssemblyBegin(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 300455d1abb9SHong Zhang ierr = MatAssemblyEnd(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 300555d1abb9SHong Zhang 300655d1abb9SHong Zhang ierr = PetscFree(abuf_r);CHKERRQ(ierr); 300755d1abb9SHong Zhang ierr = PetscFree(ba_i);CHKERRQ(ierr); 300855d1abb9SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 30093c2c1871SHong Zhang ierr = PetscLogEventEnd(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 301055d1abb9SHong Zhang PetscFunctionReturn(0); 301155d1abb9SHong Zhang } 30123c2c1871SHong Zhang static PetscEvent logkey_seqstompisym = 0; 301355d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPISymbolic(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,Mat *mpimat) 3014e5f2cdd8SHong Zhang { 3015f08fae4eSHong Zhang PetscErrorCode ierr; 301655a3bba9SHong Zhang Mat B_mpi; 3017c2234fe3SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 3018b1d57f15SBarry Smith PetscMPIInt size,rank,tagi,tagj,*len_s,*len_si,*len_ri; 3019b1d57f15SBarry Smith PetscInt **buf_rj,**buf_ri,**buf_ri_k; 3020b1d57f15SBarry Smith PetscInt M=seqmat->m,N=seqmat->n,i,*owners,*ai=a->i,*aj=a->j; 3021b1d57f15SBarry Smith PetscInt len,proc,*dnz,*onz; 3022b1d57f15SBarry Smith PetscInt k,anzi,*bi,*bj,*lnk,nlnk,arow,bnzi,nspacedouble=0; 3023b1d57f15SBarry Smith PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextai; 302455d1abb9SHong Zhang MPI_Request *si_waits,*sj_waits,*ri_waits,*rj_waits; 302558cb9c82SHong Zhang MPI_Status *status; 302658cb9c82SHong Zhang FreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 3027be0fcf8dSHong Zhang PetscBT lnkbt; 302851a7d1a8SHong Zhang Mat_Merge_SeqsToMPI *merge; 3029671beff6SHong Zhang PetscObjectContainer container; 303002c68681SHong Zhang 3031e5f2cdd8SHong Zhang PetscFunctionBegin; 30323c2c1871SHong Zhang if (!logkey_seqstompisym) { 30333c2c1871SHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompisym,"MatMerge_SeqsToMPISymbolic",MAT_COOKIE); 30343c2c1871SHong Zhang } 30353c2c1871SHong Zhang ierr = PetscLogEventBegin(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 30363c2c1871SHong Zhang 3037e5f2cdd8SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3038e5f2cdd8SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 303955d1abb9SHong Zhang 304051a7d1a8SHong Zhang ierr = PetscNew(Mat_Merge_SeqsToMPI,&merge);CHKERRQ(ierr); 3041c2234fe3SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 3042e5f2cdd8SHong Zhang 30436abd8857SHong Zhang /* determine row ownership */ 3044f08fae4eSHong Zhang /*---------------------------------------------------------*/ 304551a7d1a8SHong Zhang ierr = PetscMapCreate(comm,&merge->rowmap);CHKERRQ(ierr); 30460e36024fSHong Zhang if (m == PETSC_DECIDE) { 304751a7d1a8SHong Zhang ierr = PetscMapSetSize(merge->rowmap,M);CHKERRQ(ierr); 30480e36024fSHong Zhang } else { 30490e36024fSHong Zhang ierr = PetscMapSetLocalSize(merge->rowmap,m);CHKERRQ(ierr); 30500e36024fSHong Zhang } 305151a7d1a8SHong Zhang ierr = PetscMapSetType(merge->rowmap,MAP_MPI);CHKERRQ(ierr); 3052b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&len_si);CHKERRQ(ierr); 3053b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&merge->len_s);CHKERRQ(ierr); 305455d1abb9SHong Zhang 305555d1abb9SHong Zhang if (m == PETSC_DECIDE) {ierr = PetscMapGetLocalSize(merge->rowmap,&m);CHKERRQ(ierr); } 305651a7d1a8SHong Zhang ierr = PetscMapGetGlobalRange(merge->rowmap,&owners);CHKERRQ(ierr); 30576abd8857SHong Zhang 30586abd8857SHong Zhang /* determine the number of messages to send, their lengths */ 30596abd8857SHong Zhang /*---------------------------------------------------------*/ 30603e06a4e6SHong Zhang len_s = merge->len_s; 306151a7d1a8SHong Zhang 30622257cef7SHong Zhang len = 0; /* length of buf_si[] */ 3063c2234fe3SHong Zhang merge->nsend = 0; 3064409913e3SHong Zhang for (proc=0; proc<size; proc++){ 30652257cef7SHong Zhang len_si[proc] = 0; 30663e06a4e6SHong Zhang if (proc == rank){ 30676abd8857SHong Zhang len_s[proc] = 0; 30683e06a4e6SHong Zhang } else { 306902c68681SHong Zhang len_si[proc] = owners[proc+1] - owners[proc] + 1; 30703e06a4e6SHong Zhang len_s[proc] = ai[owners[proc+1]] - ai[owners[proc]]; /* num of rows to be sent to [proc] */ 30713e06a4e6SHong Zhang } 30723e06a4e6SHong Zhang if (len_s[proc]) { 3073c2234fe3SHong Zhang merge->nsend++; 30742257cef7SHong Zhang nrows = 0; 30752257cef7SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 30762257cef7SHong Zhang if (ai[i+1] > ai[i]) nrows++; 30772257cef7SHong Zhang } 30782257cef7SHong Zhang len_si[proc] = 2*(nrows+1); 30792257cef7SHong Zhang len += len_si[proc]; 3080409913e3SHong Zhang } 308158cb9c82SHong Zhang } 3082409913e3SHong Zhang 30832257cef7SHong Zhang /* determine the number and length of messages to receive for ij-structure */ 30842257cef7SHong Zhang /*-------------------------------------------------------------------------*/ 308551a7d1a8SHong Zhang ierr = PetscGatherNumberOfMessages(comm,PETSC_NULL,len_s,&merge->nrecv);CHKERRQ(ierr); 308655d1abb9SHong Zhang ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr); 3087671beff6SHong Zhang 30883e06a4e6SHong Zhang /* post the Irecv of j-structure */ 30893e06a4e6SHong Zhang /*-------------------------------*/ 309002c68681SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&tagj);CHKERRQ(ierr); 30913e06a4e6SHong Zhang ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rj_waits);CHKERRQ(ierr); 309202c68681SHong Zhang 30933e06a4e6SHong Zhang /* post the Isend of j-structure */ 3094affca5deSHong Zhang /*--------------------------------*/ 30952257cef7SHong Zhang ierr = PetscMalloc((2*merge->nsend+1)*sizeof(MPI_Request),&si_waits);CHKERRQ(ierr); 309602c68681SHong Zhang sj_waits = si_waits + merge->nsend; 30973e06a4e6SHong Zhang 30982257cef7SHong Zhang for (proc=0, k=0; proc<size; proc++){ 3099409913e3SHong Zhang if (!len_s[proc]) continue; 310002c68681SHong Zhang i = owners[proc]; 3101b1d57f15SBarry Smith ierr = MPI_Isend(aj+ai[i],len_s[proc],MPIU_INT,proc,tagj,comm,sj_waits+k);CHKERRQ(ierr); 310251a7d1a8SHong Zhang k++; 310351a7d1a8SHong Zhang } 310451a7d1a8SHong Zhang 31053e06a4e6SHong Zhang /* receives and sends of j-structure are complete */ 31063e06a4e6SHong Zhang /*------------------------------------------------*/ 310702c68681SHong Zhang ierr = MPI_Waitall(merge->nrecv,rj_waits,status);CHKERRQ(ierr); 310802c68681SHong Zhang ierr = MPI_Waitall(merge->nsend,sj_waits,status);CHKERRQ(ierr); 310902c68681SHong Zhang 311002c68681SHong Zhang /* send and recv i-structure */ 311102c68681SHong Zhang /*---------------------------*/ 311202c68681SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&tagi);CHKERRQ(ierr); 311302c68681SHong Zhang ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&ri_waits);CHKERRQ(ierr); 311402c68681SHong Zhang 3115b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&buf_s);CHKERRQ(ierr); 31163e06a4e6SHong Zhang buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 31172257cef7SHong Zhang for (proc=0,k=0; proc<size; proc++){ 311802c68681SHong Zhang if (!len_s[proc]) continue; 31193e06a4e6SHong Zhang /* form outgoing message for i-structure: 31203e06a4e6SHong Zhang buf_si[0]: nrows to be sent 31213e06a4e6SHong Zhang [1:nrows]: row index (global) 31223e06a4e6SHong Zhang [nrows+1:2*nrows+1]: i-structure index 31233e06a4e6SHong Zhang */ 31243e06a4e6SHong Zhang /*-------------------------------------------*/ 31252257cef7SHong Zhang nrows = len_si[proc]/2 - 1; 31263e06a4e6SHong Zhang buf_si_i = buf_si + nrows+1; 31273e06a4e6SHong Zhang buf_si[0] = nrows; 31283e06a4e6SHong Zhang buf_si_i[0] = 0; 31293e06a4e6SHong Zhang nrows = 0; 31303e06a4e6SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 31313e06a4e6SHong Zhang anzi = ai[i+1] - ai[i]; 31323e06a4e6SHong Zhang if (anzi) { 31333e06a4e6SHong Zhang buf_si_i[nrows+1] = buf_si_i[nrows] + anzi; /* i-structure */ 31343e06a4e6SHong Zhang buf_si[nrows+1] = i-owners[proc]; /* local row index */ 31353e06a4e6SHong Zhang nrows++; 31363e06a4e6SHong Zhang } 31373e06a4e6SHong Zhang } 3138b1d57f15SBarry Smith ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,si_waits+k);CHKERRQ(ierr); 313902c68681SHong Zhang k++; 31402257cef7SHong Zhang buf_si += len_si[proc]; 314102c68681SHong Zhang } 31422257cef7SHong Zhang 314302c68681SHong Zhang ierr = MPI_Waitall(merge->nrecv,ri_waits,status);CHKERRQ(ierr); 314402c68681SHong Zhang ierr = MPI_Waitall(merge->nsend,si_waits,status);CHKERRQ(ierr); 314502c68681SHong Zhang 314677431f27SBarry Smith ierr = PetscLogInfo((PetscObject)(seqmat),"MatMerge_SeqsToMPI: nsend: %D, nrecv: %D\n",merge->nsend,merge->nrecv);CHKERRQ(ierr); 31473e06a4e6SHong Zhang for (i=0; i<merge->nrecv; i++){ 314877431f27SBarry 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); 31493e06a4e6SHong Zhang } 31503e06a4e6SHong Zhang 31513e06a4e6SHong Zhang ierr = PetscFree(len_si);CHKERRQ(ierr); 315202c68681SHong Zhang ierr = PetscFree(len_ri);CHKERRQ(ierr); 315302c68681SHong Zhang ierr = PetscFree(rj_waits);CHKERRQ(ierr); 31543e06a4e6SHong Zhang ierr = PetscFree(si_waits);CHKERRQ(ierr); 31552257cef7SHong Zhang ierr = PetscFree(ri_waits);CHKERRQ(ierr); 31563e06a4e6SHong Zhang ierr = PetscFree(buf_s);CHKERRQ(ierr); 3157bcc1bcd5SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 315858cb9c82SHong Zhang 3159bcc1bcd5SHong Zhang /* compute a local seq matrix in each processor */ 3160bcc1bcd5SHong Zhang /*----------------------------------------------*/ 316158cb9c82SHong Zhang /* allocate bi array and free space for accumulating nonzero column info */ 3162b1d57f15SBarry Smith ierr = PetscMalloc((m+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr); 316358cb9c82SHong Zhang bi[0] = 0; 316458cb9c82SHong Zhang 3165be0fcf8dSHong Zhang /* create and initialize a linked list */ 3166be0fcf8dSHong Zhang nlnk = N+1; 3167be0fcf8dSHong Zhang ierr = PetscLLCreate(N,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 316858cb9c82SHong Zhang 3169bcc1bcd5SHong Zhang /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */ 317058cb9c82SHong Zhang len = 0; 3171bcc1bcd5SHong Zhang len = ai[owners[rank+1]] - ai[owners[rank]]; 3172b1d57f15SBarry Smith ierr = GetMoreSpace((PetscInt)(2*len+1),&free_space);CHKERRQ(ierr); 317358cb9c82SHong Zhang current_space = free_space; 317458cb9c82SHong Zhang 3175bcc1bcd5SHong Zhang /* determine symbolic info for each local row */ 3176b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 31773e06a4e6SHong Zhang nextrow = buf_ri_k + merge->nrecv; 31783e06a4e6SHong Zhang nextai = nextrow + merge->nrecv; 31793e06a4e6SHong Zhang for (k=0; k<merge->nrecv; k++){ 31802257cef7SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 31813e06a4e6SHong Zhang nrows = *buf_ri_k[k]; 31823e06a4e6SHong Zhang nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 31832257cef7SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 31843e06a4e6SHong Zhang } 31852257cef7SHong Zhang 3186bcc1bcd5SHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 3187bcc1bcd5SHong Zhang len = 0; 318858cb9c82SHong Zhang for (i=0;i<m;i++) { 318958cb9c82SHong Zhang bnzi = 0; 319058cb9c82SHong Zhang /* add local non-zero cols of this proc's seqmat into lnk */ 319158cb9c82SHong Zhang arow = owners[rank] + i; 319258cb9c82SHong Zhang anzi = ai[arow+1] - ai[arow]; 319358cb9c82SHong Zhang aj = a->j + ai[arow]; 3194be0fcf8dSHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 319558cb9c82SHong Zhang bnzi += nlnk; 319658cb9c82SHong Zhang /* add received col data into lnk */ 319751a7d1a8SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 319855d1abb9SHong Zhang if (i == *nextrow[k]) { /* i-th row */ 31993e06a4e6SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 32003e06a4e6SHong Zhang aj = buf_rj[k] + *nextai[k]; 32013e06a4e6SHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 32023e06a4e6SHong Zhang bnzi += nlnk; 32033e06a4e6SHong Zhang nextrow[k]++; nextai[k]++; 32043e06a4e6SHong Zhang } 320558cb9c82SHong Zhang } 3206bcc1bcd5SHong Zhang if (len < bnzi) len = bnzi; /* =max(bnzi) */ 320758cb9c82SHong Zhang 320858cb9c82SHong Zhang /* if free space is not available, make more free space */ 320958cb9c82SHong Zhang if (current_space->local_remaining<bnzi) { 321058cb9c82SHong Zhang ierr = GetMoreSpace(current_space->total_array_size,¤t_space);CHKERRQ(ierr); 321158cb9c82SHong Zhang nspacedouble++; 321258cb9c82SHong Zhang } 321358cb9c82SHong Zhang /* copy data into free space, then initialize lnk */ 3214be0fcf8dSHong Zhang ierr = PetscLLClean(N,N,bnzi,lnk,current_space->array,lnkbt);CHKERRQ(ierr); 3215bcc1bcd5SHong Zhang ierr = MatPreallocateSet(i+owners[rank],bnzi,current_space->array,dnz,onz);CHKERRQ(ierr); 3216bcc1bcd5SHong Zhang 321758cb9c82SHong Zhang current_space->array += bnzi; 321858cb9c82SHong Zhang current_space->local_used += bnzi; 321958cb9c82SHong Zhang current_space->local_remaining -= bnzi; 322058cb9c82SHong Zhang 322158cb9c82SHong Zhang bi[i+1] = bi[i] + bnzi; 322258cb9c82SHong Zhang } 3223bcc1bcd5SHong Zhang 3224bcc1bcd5SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 3225bcc1bcd5SHong Zhang 3226b1d57f15SBarry Smith ierr = PetscMalloc((bi[m]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr); 322758cb9c82SHong Zhang ierr = MakeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 3228be0fcf8dSHong Zhang ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 3229409913e3SHong Zhang 3230bcc1bcd5SHong Zhang /* create symbolic parallel matrix B_mpi */ 3231bcc1bcd5SHong Zhang /*---------------------------------------*/ 323254b84b50SHong Zhang if (n==PETSC_DECIDE) { 323354b84b50SHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,N,&B_mpi);CHKERRQ(ierr); 323454b84b50SHong Zhang } else { 3235bcc1bcd5SHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,PETSC_DETERMINE,&B_mpi);CHKERRQ(ierr); 323654b84b50SHong Zhang } 3237bcc1bcd5SHong Zhang ierr = MatSetType(B_mpi,MATMPIAIJ);CHKERRQ(ierr); 3238bcc1bcd5SHong Zhang ierr = MatMPIAIJSetPreallocation(B_mpi,0,dnz,0,onz);CHKERRQ(ierr); 3239bcc1bcd5SHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 324058cb9c82SHong Zhang 32416abd8857SHong Zhang /* B_mpi is not ready for use - assembly will be done by MatMerge_SeqsToMPINumeric() */ 32426abd8857SHong Zhang B_mpi->assembled = PETSC_FALSE; 3243affca5deSHong Zhang B_mpi->ops->destroy = MatDestroy_MPIAIJ_SeqsToMPI; 3244affca5deSHong Zhang merge->bi = bi; 3245affca5deSHong Zhang merge->bj = bj; 324602c68681SHong Zhang merge->buf_ri = buf_ri; 324702c68681SHong Zhang merge->buf_rj = buf_rj; 3248de0260b3SHong Zhang merge->coi = PETSC_NULL; 3249de0260b3SHong Zhang merge->coj = PETSC_NULL; 3250de0260b3SHong Zhang merge->owners_co = PETSC_NULL; 3251affca5deSHong Zhang 3252affca5deSHong Zhang /* attach the supporting struct to B_mpi for reuse */ 3253affca5deSHong Zhang ierr = PetscObjectContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr); 3254affca5deSHong Zhang ierr = PetscObjectContainerSetPointer(container,merge);CHKERRQ(ierr); 3255affca5deSHong Zhang ierr = PetscObjectCompose((PetscObject)B_mpi,"MatMergeSeqsToMPI",(PetscObject)container);CHKERRQ(ierr); 3256affca5deSHong Zhang *mpimat = B_mpi; 32573c2c1871SHong Zhang ierr = PetscLogEventEnd(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 3258e5f2cdd8SHong Zhang PetscFunctionReturn(0); 3259e5f2cdd8SHong Zhang } 326025616d81SHong Zhang 3261e462e02cSHong Zhang static PetscEvent logkey_seqstompi = 0; 326255d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPI(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,MatReuse scall,Mat *mpimat) 326355d1abb9SHong Zhang { 326455d1abb9SHong Zhang PetscErrorCode ierr; 326555d1abb9SHong Zhang 326655d1abb9SHong Zhang PetscFunctionBegin; 3267e462e02cSHong Zhang if (!logkey_seqstompi) { 3268e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompi,"MatMerge_SeqsToMPI",MAT_COOKIE); 3269e462e02cSHong Zhang } 3270e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 327155d1abb9SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 327255d1abb9SHong Zhang ierr = MatMerge_SeqsToMPISymbolic(comm,seqmat,m,n,mpimat);CHKERRQ(ierr); 327355d1abb9SHong Zhang } 327455d1abb9SHong Zhang ierr = MatMerge_SeqsToMPINumeric(seqmat,*mpimat);CHKERRQ(ierr); 3275e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 327655d1abb9SHong Zhang PetscFunctionReturn(0); 327755d1abb9SHong Zhang } 3278a61c8c0fSHong Zhang static PetscEvent logkey_getlocalmat = 0; 327925616d81SHong Zhang #undef __FUNCT__ 328025616d81SHong Zhang #define __FUNCT__ "MatGetLocalMat" 328125616d81SHong Zhang /*@C 328232fba14fSHong Zhang MatGetLocalMat - Creates a SeqAIJ matrix by taking all its local rows 328325616d81SHong Zhang 328432fba14fSHong Zhang Not Collective 328525616d81SHong Zhang 328625616d81SHong Zhang Input Parameters: 328725616d81SHong Zhang + A - the matrix 328825616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 328925616d81SHong Zhang 329025616d81SHong Zhang Output Parameter: 329125616d81SHong Zhang . A_loc - the local sequential matrix generated 329225616d81SHong Zhang 329325616d81SHong Zhang Level: developer 329425616d81SHong Zhang 329525616d81SHong Zhang @*/ 329632fba14fSHong Zhang PetscErrorCode MatGetLocalMat(Mat A,MatReuse scall,Mat *A_loc) 329725616d81SHong Zhang { 329825616d81SHong Zhang PetscErrorCode ierr; 329901b7ae99SHong Zhang Mat_MPIAIJ *mpimat=(Mat_MPIAIJ*)A->data; 330001b7ae99SHong Zhang Mat_SeqAIJ *mat,*a=(Mat_SeqAIJ*)(mpimat->A)->data,*b=(Mat_SeqAIJ*)(mpimat->B)->data; 330101b7ae99SHong Zhang PetscInt *ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j,*cmap=mpimat->garray; 3302dea91ad1SHong Zhang PetscScalar *aa=a->a,*ba=b->a,*ca; 3303ecc9b87dSHong Zhang PetscInt am=A->m,i,j,k,cstart=mpimat->cstart; 33045a7d977cSHong Zhang PetscInt *ci,*cj,col,ncols_d,ncols_o,jo; 330525616d81SHong Zhang 330625616d81SHong Zhang PetscFunctionBegin; 3307e462e02cSHong Zhang if (!logkey_getlocalmat) { 3308e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_getlocalmat,"MatGetLocalMat",MAT_COOKIE); 3309e462e02cSHong Zhang } 3310e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr); 331101b7ae99SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3312dea91ad1SHong Zhang ierr = PetscMalloc((1+am)*sizeof(PetscInt),&ci);CHKERRQ(ierr); 3313dea91ad1SHong Zhang ci[0] = 0; 331401b7ae99SHong Zhang for (i=0; i<am; i++){ 3315dea91ad1SHong Zhang ci[i+1] = ci[i] + (ai[i+1] - ai[i]) + (bi[i+1] - bi[i]); 331601b7ae99SHong Zhang } 3317dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscInt),&cj);CHKERRQ(ierr); 3318dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscScalar),&ca);CHKERRQ(ierr); 3319dea91ad1SHong Zhang k = 0; 332001b7ae99SHong Zhang for (i=0; i<am; i++) { 33215a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 33225a7d977cSHong Zhang ncols_d = ai[i+1] - ai[i]; 332301b7ae99SHong Zhang /* off-diagonal portion of A */ 33245a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 33255a7d977cSHong Zhang col = cmap[*bj]; 33265a7d977cSHong Zhang if (col >= cstart) break; 33275a7d977cSHong Zhang cj[k] = col; bj++; 33285a7d977cSHong Zhang ca[k++] = *ba++; 33295a7d977cSHong Zhang } 33305a7d977cSHong Zhang /* diagonal portion of A */ 33315a7d977cSHong Zhang for (j=0; j<ncols_d; j++) { 33325a7d977cSHong Zhang cj[k] = cstart + *aj++; 33335a7d977cSHong Zhang ca[k++] = *aa++; 33345a7d977cSHong Zhang } 33355a7d977cSHong Zhang /* off-diagonal portion of A */ 33365a7d977cSHong Zhang for (j=jo; j<ncols_o; j++) { 33375a7d977cSHong Zhang cj[k] = cmap[*bj++]; 33385a7d977cSHong Zhang ca[k++] = *ba++; 33395a7d977cSHong Zhang } 334025616d81SHong Zhang } 3341dea91ad1SHong Zhang /* put together the new matrix */ 3342dea91ad1SHong Zhang ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,am,A->N,ci,cj,ca,A_loc);CHKERRQ(ierr); 3343dea91ad1SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 3344dea91ad1SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 3345dea91ad1SHong Zhang mat = (Mat_SeqAIJ*)(*A_loc)->data; 3346dea91ad1SHong Zhang mat->freedata = PETSC_TRUE; 3347dea91ad1SHong Zhang mat->nonew = 0; 33485a7d977cSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 33495a7d977cSHong Zhang mat=(Mat_SeqAIJ*)(*A_loc)->data; 33505a7d977cSHong Zhang ci = mat->i; cj = mat->j; ca = mat->a; 33515a7d977cSHong Zhang for (i=0; i<am; i++) { 33525a7d977cSHong Zhang /* off-diagonal portion of A */ 33535a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 33545a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 33555a7d977cSHong Zhang col = cmap[*bj]; 33565a7d977cSHong Zhang if (col >= cstart) break; 3357f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 33585a7d977cSHong Zhang } 33595a7d977cSHong Zhang /* diagonal portion of A */ 3360ecc9b87dSHong Zhang ncols_d = ai[i+1] - ai[i]; 3361ecc9b87dSHong Zhang for (j=0; j<ncols_d; j++) *ca++ = *aa++; 33625a7d977cSHong Zhang /* off-diagonal portion of A */ 3363f33d1a9aSHong Zhang for (j=jo; j<ncols_o; j++) { 3364f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 3365f33d1a9aSHong Zhang } 33665a7d977cSHong Zhang } 33675a7d977cSHong Zhang } else { 33685a7d977cSHong Zhang SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 336925616d81SHong Zhang } 337001b7ae99SHong Zhang 3371e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr); 337225616d81SHong Zhang PetscFunctionReturn(0); 337325616d81SHong Zhang } 337425616d81SHong Zhang 337532fba14fSHong Zhang static PetscEvent logkey_getlocalmatcondensed = 0; 337632fba14fSHong Zhang #undef __FUNCT__ 337732fba14fSHong Zhang #define __FUNCT__ "MatGetLocalMatCondensed" 337832fba14fSHong Zhang /*@C 337932fba14fSHong Zhang MatGetLocalMatCondensed - Creates a SeqAIJ matrix by taking all its local rows and NON-ZERO columns 338032fba14fSHong Zhang 338132fba14fSHong Zhang Not Collective 338232fba14fSHong Zhang 338332fba14fSHong Zhang Input Parameters: 338432fba14fSHong Zhang + A - the matrix 338532fba14fSHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 338632fba14fSHong Zhang - row, col - index sets of rows and columns to extract (or PETSC_NULL) 338732fba14fSHong Zhang 338832fba14fSHong Zhang Output Parameter: 338932fba14fSHong Zhang . A_loc - the local sequential matrix generated 339032fba14fSHong Zhang 339132fba14fSHong Zhang Level: developer 339232fba14fSHong Zhang 339332fba14fSHong Zhang @*/ 339432fba14fSHong Zhang PetscErrorCode MatGetLocalMatCondensed(Mat A,MatReuse scall,IS *row,IS *col,Mat *A_loc) 339532fba14fSHong Zhang { 339632fba14fSHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 339732fba14fSHong Zhang PetscErrorCode ierr; 339832fba14fSHong Zhang PetscInt i,start,end,ncols,nzA,nzB,*cmap,imark,*idx; 339932fba14fSHong Zhang IS isrowa,iscola; 340032fba14fSHong Zhang Mat *aloc; 340132fba14fSHong Zhang 340232fba14fSHong Zhang PetscFunctionBegin; 340332fba14fSHong Zhang if (!logkey_getlocalmatcondensed) { 340432fba14fSHong Zhang ierr = PetscLogEventRegister(&logkey_getlocalmatcondensed,"MatGetLocalMatCondensed",MAT_COOKIE); 340532fba14fSHong Zhang } 340632fba14fSHong Zhang ierr = PetscLogEventBegin(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 340732fba14fSHong Zhang if (!row){ 340832fba14fSHong Zhang start = a->rstart; end = a->rend; 340932fba14fSHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,end-start,start,1,&isrowa);CHKERRQ(ierr); 341032fba14fSHong Zhang } else { 341132fba14fSHong Zhang isrowa = *row; 341232fba14fSHong Zhang } 341332fba14fSHong Zhang if (!col){ 341432fba14fSHong Zhang start = a->cstart; 341532fba14fSHong Zhang cmap = a->garray; 341632fba14fSHong Zhang nzA = a->A->n; 341732fba14fSHong Zhang nzB = a->B->n; 341832fba14fSHong Zhang ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 341932fba14fSHong Zhang ncols = 0; 342032fba14fSHong Zhang for (i=0; i<nzB; i++) { 342132fba14fSHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 342232fba14fSHong Zhang else break; 342332fba14fSHong Zhang } 342432fba14fSHong Zhang imark = i; 342532fba14fSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; 342632fba14fSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; 342732fba14fSHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&iscola);CHKERRQ(ierr); 342832fba14fSHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 342932fba14fSHong Zhang } else { 343032fba14fSHong Zhang iscola = *col; 343132fba14fSHong Zhang } 343232fba14fSHong Zhang if (scall != MAT_INITIAL_MATRIX){ 343332fba14fSHong Zhang ierr = PetscMalloc(sizeof(Mat),&aloc);CHKERRQ(ierr); 343432fba14fSHong Zhang aloc[0] = *A_loc; 343532fba14fSHong Zhang } 343632fba14fSHong Zhang ierr = MatGetSubMatrices(A,1,&isrowa,&iscola,scall,&aloc);CHKERRQ(ierr); 343732fba14fSHong Zhang *A_loc = aloc[0]; 343832fba14fSHong Zhang ierr = PetscFree(aloc);CHKERRQ(ierr); 343932fba14fSHong Zhang if (!row){ 344032fba14fSHong Zhang ierr = ISDestroy(isrowa);CHKERRQ(ierr); 344132fba14fSHong Zhang } 344232fba14fSHong Zhang if (!col){ 344332fba14fSHong Zhang ierr = ISDestroy(iscola);CHKERRQ(ierr); 344432fba14fSHong Zhang } 344532fba14fSHong Zhang ierr = PetscLogEventEnd(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 344632fba14fSHong Zhang PetscFunctionReturn(0); 344732fba14fSHong Zhang } 344832fba14fSHong Zhang 3449a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAcols = 0; 345025616d81SHong Zhang #undef __FUNCT__ 345125616d81SHong Zhang #define __FUNCT__ "MatGetBrowsOfAcols" 345225616d81SHong Zhang /*@C 345332fba14fSHong Zhang MatGetBrowsOfAcols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A 345425616d81SHong Zhang 345525616d81SHong Zhang Collective on Mat 345625616d81SHong Zhang 345725616d81SHong Zhang Input Parameters: 3458e240928fSHong Zhang + A,B - the matrices in mpiaij format 345925616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 346025616d81SHong Zhang - rowb, colb - index sets of rows and columns of B to extract (or PETSC_NULL) 346125616d81SHong Zhang 346225616d81SHong Zhang Output Parameter: 346325616d81SHong Zhang + rowb, colb - index sets of rows and columns of B to extract 346425616d81SHong Zhang . brstart - row index of B_seq from which next B->m rows are taken from B's local rows 346525616d81SHong Zhang - B_seq - the sequential matrix generated 346625616d81SHong Zhang 346725616d81SHong Zhang Level: developer 346825616d81SHong Zhang 346925616d81SHong Zhang @*/ 347025616d81SHong Zhang PetscErrorCode MatGetBrowsOfAcols(Mat A,Mat B,MatReuse scall,IS *rowb,IS *colb,PetscInt *brstart,Mat *B_seq) 347125616d81SHong Zhang { 347225616d81SHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data,*b=(Mat_MPIAIJ*)B->data; 347325616d81SHong Zhang PetscErrorCode ierr; 3474b1d57f15SBarry Smith PetscInt *idx,i,start,ncols,nzA,nzB,*cmap,imark; 347525616d81SHong Zhang IS isrowb,iscolb; 347625616d81SHong Zhang Mat *bseq; 347725616d81SHong Zhang 347825616d81SHong Zhang PetscFunctionBegin; 347925616d81SHong Zhang if (a->cstart != b->rstart || a->cend != b->rend){ 348077431f27SBarry Smith SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",a->cstart,a->cend,b->rstart,b->rend); 348125616d81SHong Zhang } 3482e462e02cSHong Zhang if (!logkey_GetBrowsOfAcols) { 3483e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_GetBrowsOfAcols,"MatGetBrowsOfAcols",MAT_COOKIE); 3484e462e02cSHong Zhang } 3485e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 348625616d81SHong Zhang 348725616d81SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 348825616d81SHong Zhang start = a->cstart; 348925616d81SHong Zhang cmap = a->garray; 349025616d81SHong Zhang nzA = a->A->n; 349125616d81SHong Zhang nzB = a->B->n; 3492b1d57f15SBarry Smith ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 349325616d81SHong Zhang ncols = 0; 34940390132cSHong Zhang for (i=0; i<nzB; i++) { /* row < local row index */ 349525616d81SHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 349625616d81SHong Zhang else break; 349725616d81SHong Zhang } 349825616d81SHong Zhang imark = i; 34990390132cSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; /* local rows */ 35000390132cSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */ 350125616d81SHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&isrowb);CHKERRQ(ierr); 350225616d81SHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 350325616d81SHong Zhang *brstart = imark; 350425616d81SHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,B->N,0,1,&iscolb);CHKERRQ(ierr); 350525616d81SHong Zhang } else { 350625616d81SHong Zhang if (!rowb || !colb) SETERRQ(PETSC_ERR_SUP,"IS rowb and colb must be provided for MAT_REUSE_MATRIX"); 350725616d81SHong Zhang isrowb = *rowb; iscolb = *colb; 350825616d81SHong Zhang ierr = PetscMalloc(sizeof(Mat),&bseq);CHKERRQ(ierr); 350925616d81SHong Zhang bseq[0] = *B_seq; 351025616d81SHong Zhang } 351125616d81SHong Zhang ierr = MatGetSubMatrices(B,1,&isrowb,&iscolb,scall,&bseq);CHKERRQ(ierr); 351225616d81SHong Zhang *B_seq = bseq[0]; 351325616d81SHong Zhang ierr = PetscFree(bseq);CHKERRQ(ierr); 351425616d81SHong Zhang if (!rowb){ 351525616d81SHong Zhang ierr = ISDestroy(isrowb);CHKERRQ(ierr); 351625616d81SHong Zhang } else { 351725616d81SHong Zhang *rowb = isrowb; 351825616d81SHong Zhang } 351925616d81SHong Zhang if (!colb){ 352025616d81SHong Zhang ierr = ISDestroy(iscolb);CHKERRQ(ierr); 352125616d81SHong Zhang } else { 352225616d81SHong Zhang *colb = iscolb; 352325616d81SHong Zhang } 3524e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 352525616d81SHong Zhang PetscFunctionReturn(0); 352625616d81SHong Zhang } 3527429d309bSHong Zhang 3528a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAocols = 0; 3529a61c8c0fSHong Zhang #undef __FUNCT__ 3530a61c8c0fSHong Zhang #define __FUNCT__ "MatGetBrowsOfAoCols" 3531429d309bSHong Zhang /*@C 3532429d309bSHong Zhang MatGetBrowsOfAoCols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns 353301b7ae99SHong Zhang of the OFF-DIAGONAL portion of local A 3534429d309bSHong Zhang 3535429d309bSHong Zhang Collective on Mat 3536429d309bSHong Zhang 3537429d309bSHong Zhang Input Parameters: 3538429d309bSHong Zhang + A,B - the matrices in mpiaij format 353987025532SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 354087025532SHong Zhang . startsj - starting point in B's sending and receiving j-arrays, saved for MAT_REUSE (or PETSC_NULL) 354187025532SHong Zhang - bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or PETSC_NULL) 3542429d309bSHong Zhang 3543429d309bSHong Zhang Output Parameter: 354487025532SHong Zhang + B_oth - the sequential matrix generated 3545429d309bSHong Zhang 3546429d309bSHong Zhang Level: developer 3547429d309bSHong Zhang 3548429d309bSHong Zhang @*/ 354987025532SHong Zhang PetscErrorCode MatGetBrowsOfAoCols(Mat A,Mat B,MatReuse scall,PetscInt **startsj,PetscScalar **bufa_ptr,Mat *B_oth) 3550429d309bSHong Zhang { 3551a6b2eed2SHong Zhang VecScatter_MPI_General *gen_to,*gen_from; 3552429d309bSHong Zhang PetscErrorCode ierr; 355387025532SHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data,*b=(Mat_MPIAIJ*)B->data; 355487025532SHong Zhang Mat_SeqAIJ *b_oth; 3555a6b2eed2SHong Zhang VecScatter ctx=a->Mvctx; 3556a6b2eed2SHong Zhang MPI_Comm comm=ctx->comm; 355787025532SHong Zhang PetscMPIInt *rprocs,*sprocs,tag=ctx->tag,rank; 355868733de6SHong Zhang PetscInt *rowlen,*bufj,*bufJ,ncols,aBn=a->B->n,row,*b_othi,*b_othj; 355987025532SHong Zhang PetscScalar *rvalues,*svalues,*b_otha,*bufa,*bufA; 356013f74950SBarry Smith PetscInt i,k,l,nrecvs,nsends,nrows,*rrow,*srow,*rstarts,*rstartsj,*sstarts,*sstartsj,len; 3561a6b2eed2SHong Zhang MPI_Request *rwaits,*swaits; 356287025532SHong Zhang MPI_Status *sstatus,rstatus; 3563ba8c8a56SBarry Smith PetscInt *cols; 3564ba8c8a56SBarry Smith PetscScalar *vals; 356513f74950SBarry Smith PetscMPIInt j; 3566429d309bSHong Zhang 3567429d309bSHong Zhang PetscFunctionBegin; 3568429d309bSHong Zhang if (a->cstart != b->rstart || a->cend != b->rend){ 3569a6b2eed2SHong Zhang SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%d, %d) != (%d,%d)",a->cstart,a->cend,b->rstart,b->rend); 3570429d309bSHong Zhang } 3571429d309bSHong Zhang if (!logkey_GetBrowsOfAocols) { 35721677a5d7SHong Zhang ierr = PetscLogEventRegister(&logkey_GetBrowsOfAocols,"MatGetBrAoCol",MAT_COOKIE); 3573429d309bSHong Zhang } 3574429d309bSHong Zhang ierr = PetscLogEventBegin(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 3575a6b2eed2SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 3576a6b2eed2SHong Zhang 3577a6b2eed2SHong Zhang gen_to = (VecScatter_MPI_General*)ctx->todata; 3578a6b2eed2SHong Zhang gen_from = (VecScatter_MPI_General*)ctx->fromdata; 3579a6b2eed2SHong Zhang rvalues = gen_from->values; /* holds the length of sending row */ 3580a6b2eed2SHong Zhang svalues = gen_to->values; /* holds the length of receiving row */ 3581a6b2eed2SHong Zhang nrecvs = gen_from->n; 3582a6b2eed2SHong Zhang nsends = gen_to->n; 3583a6b2eed2SHong Zhang rwaits = gen_from->requests; 3584a6b2eed2SHong Zhang swaits = gen_to->requests; 3585a6b2eed2SHong Zhang rrow = gen_from->indices; /* local row index to be received */ 3586a6b2eed2SHong Zhang srow = gen_to->indices; /* local row index to be sent */ 3587a6b2eed2SHong Zhang rstarts = gen_from->starts; 3588a6b2eed2SHong Zhang sstarts = gen_to->starts; 3589a6b2eed2SHong Zhang rprocs = gen_from->procs; 3590a6b2eed2SHong Zhang sprocs = gen_to->procs; 3591a6b2eed2SHong Zhang sstatus = gen_to->sstatus; 3592429d309bSHong Zhang 3593dea91ad1SHong Zhang if (!startsj || !bufa_ptr) scall = MAT_INITIAL_MATRIX; 3594429d309bSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3595a6b2eed2SHong Zhang /* i-array */ 3596a6b2eed2SHong Zhang /*---------*/ 3597a6b2eed2SHong Zhang /* post receives */ 3598a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 3599a6b2eed2SHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]; 360087025532SHong Zhang nrows = rstarts[i+1]-rstarts[i]; 360187025532SHong Zhang ierr = MPI_Irecv(rowlen,nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 3602429d309bSHong Zhang } 3603a6b2eed2SHong Zhang 3604a6b2eed2SHong Zhang /* pack the outgoing message */ 360587025532SHong Zhang ierr = PetscMalloc((nsends+nrecvs+3)*sizeof(PetscInt),&sstartsj);CHKERRQ(ierr); 3606a6b2eed2SHong Zhang rstartsj = sstartsj + nsends +1; 3607a6b2eed2SHong Zhang sstartsj[0] = 0; rstartsj[0] = 0; 3608a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be sent */ 3609a6b2eed2SHong Zhang k = 0; 3610a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 3611a6b2eed2SHong Zhang rowlen = (PetscInt*)svalues + sstarts[i]; 361287025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of rows */ 361387025532SHong Zhang for (j=0; j<nrows; j++) { 3614a6b2eed2SHong Zhang row = srow[k] + b->rowners[rank]; /* global row idx */ 3615ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&rowlen[j],PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); /* rowlength */ 3616a6b2eed2SHong Zhang len += rowlen[j]; 3617ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); 3618a6b2eed2SHong Zhang k++; 3619429d309bSHong Zhang } 362087025532SHong Zhang ierr = MPI_Isend(rowlen,nrows,MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 3621dea91ad1SHong Zhang sstartsj[i+1] = len; /* starting point of (i+1)-th outgoing msg in bufj and bufa */ 3622429d309bSHong Zhang } 362387025532SHong Zhang /* recvs and sends of i-array are completed */ 362487025532SHong Zhang i = nrecvs; 362587025532SHong Zhang while (i--) { 362687025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 362787025532SHong Zhang } 3628a6b2eed2SHong Zhang if (nsends) { 3629a6b2eed2SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 3630a6b2eed2SHong Zhang } 3631a6b2eed2SHong Zhang /* allocate buffers for sending j and a arrays */ 3632a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscInt),&bufj);CHKERRQ(ierr); 3633a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscScalar),&bufa);CHKERRQ(ierr); 3634a6b2eed2SHong Zhang 363587025532SHong Zhang /* create i-array of B_oth */ 363687025532SHong Zhang ierr = PetscMalloc((aBn+2)*sizeof(PetscInt),&b_othi);CHKERRQ(ierr); 363787025532SHong Zhang b_othi[0] = 0; 3638a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be received */ 3639a6b2eed2SHong Zhang k = 0; 3640a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 3641a6b2eed2SHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]; 364287025532SHong Zhang nrows = rstarts[i+1]-rstarts[i]; 364387025532SHong Zhang for (j=0; j<nrows; j++) { 364487025532SHong Zhang b_othi[k+1] = b_othi[k] + rowlen[j]; 3645a6b2eed2SHong Zhang len += rowlen[j]; k++; 3646a6b2eed2SHong Zhang } 3647dea91ad1SHong Zhang rstartsj[i+1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */ 3648a6b2eed2SHong Zhang } 3649a6b2eed2SHong Zhang 365087025532SHong Zhang /* allocate space for j and a arrrays of B_oth */ 365187025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscInt),&b_othj);CHKERRQ(ierr); 365287025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscScalar),&b_otha);CHKERRQ(ierr); 3653a6b2eed2SHong Zhang 365487025532SHong Zhang /* j-array */ 365587025532SHong Zhang /*---------*/ 3656a6b2eed2SHong Zhang /* post receives of j-array */ 3657a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 365887025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 365987025532SHong Zhang ierr = MPI_Irecv(b_othj+rstartsj[i],nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 3660a6b2eed2SHong Zhang } 3661a6b2eed2SHong Zhang k = 0; 3662a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 366387025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of rows */ 3664a6b2eed2SHong Zhang bufJ = bufj+sstartsj[i]; 366587025532SHong Zhang for (j=0; j<nrows; j++) { 366687025532SHong Zhang row = srow[k++] + b->rowners[rank]; /* global row idx */ 3667ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 3668a6b2eed2SHong Zhang for (l=0; l<ncols; l++){ 3669a6b2eed2SHong Zhang *bufJ++ = cols[l]; 367087025532SHong Zhang } 3671ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 367287025532SHong Zhang } 367387025532SHong Zhang ierr = MPI_Isend(bufj+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 367487025532SHong Zhang } 367587025532SHong Zhang 367687025532SHong Zhang /* recvs and sends of j-array are completed */ 367787025532SHong Zhang i = nrecvs; 367887025532SHong Zhang while (i--) { 367987025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 368087025532SHong Zhang } 368187025532SHong Zhang if (nsends) { 368287025532SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 368387025532SHong Zhang } 368487025532SHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 368587025532SHong Zhang sstartsj = *startsj; 368687025532SHong Zhang rstartsj = sstartsj + nsends +1; 368787025532SHong Zhang bufa = *bufa_ptr; 368887025532SHong Zhang b_oth = (Mat_SeqAIJ*)(*B_oth)->data; 368987025532SHong Zhang b_otha = b_oth->a; 369087025532SHong Zhang } else { 369187025532SHong Zhang SETERRQ(PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not posses an object container"); 369287025532SHong Zhang } 369387025532SHong Zhang 369487025532SHong Zhang /* a-array */ 369587025532SHong Zhang /*---------*/ 369687025532SHong Zhang /* post receives of a-array */ 369787025532SHong Zhang for (i=0; i<nrecvs; i++){ 369887025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 369987025532SHong Zhang ierr = MPI_Irecv(b_otha+rstartsj[i],nrows,MPIU_SCALAR,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 370087025532SHong Zhang } 370187025532SHong Zhang k = 0; 370287025532SHong Zhang for (i=0; i<nsends; i++){ 370387025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; 370487025532SHong Zhang bufA = bufa+sstartsj[i]; 370587025532SHong Zhang for (j=0; j<nrows; j++) { 370687025532SHong Zhang row = srow[k++] + b->rowners[rank]; /* global row idx */ 3707ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 370887025532SHong Zhang for (l=0; l<ncols; l++){ 3709a6b2eed2SHong Zhang *bufA++ = vals[l]; 3710a6b2eed2SHong Zhang } 3711ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 371287025532SHong Zhang 3713a6b2eed2SHong Zhang } 371487025532SHong Zhang ierr = MPI_Isend(bufa+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_SCALAR,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 3715a6b2eed2SHong Zhang } 371687025532SHong Zhang /* recvs and sends of a-array are completed */ 371787025532SHong Zhang i = nrecvs; 371887025532SHong Zhang while (i--) { 371987025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 372087025532SHong Zhang } 3721a6b2eed2SHong Zhang if (nsends) { 3722a6b2eed2SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 3723a6b2eed2SHong Zhang } 3724a6b2eed2SHong Zhang 372587025532SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3726a6b2eed2SHong Zhang /* put together the new matrix */ 372787025532SHong Zhang ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,aBn,B->N,b_othi,b_othj,b_otha,B_oth);CHKERRQ(ierr); 3728a6b2eed2SHong Zhang 3729a6b2eed2SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 3730a6b2eed2SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 373187025532SHong Zhang b_oth = (Mat_SeqAIJ *)(*B_oth)->data; 373287025532SHong Zhang b_oth->freedata = PETSC_TRUE; 373387025532SHong Zhang b_oth->nonew = 0; 3734a6b2eed2SHong Zhang 3735a6b2eed2SHong Zhang ierr = PetscFree(bufj);CHKERRQ(ierr); 3736dea91ad1SHong Zhang if (!startsj || !bufa_ptr){ 3737dea91ad1SHong Zhang ierr = PetscFree(sstartsj);CHKERRQ(ierr); 3738dea91ad1SHong Zhang ierr = PetscFree(bufa_ptr);CHKERRQ(ierr); 3739dea91ad1SHong Zhang } else { 374087025532SHong Zhang *startsj = sstartsj; 374187025532SHong Zhang *bufa_ptr = bufa; 374287025532SHong Zhang } 3743dea91ad1SHong Zhang } 3744429d309bSHong Zhang ierr = PetscLogEventEnd(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 3745a6b2eed2SHong Zhang 3746429d309bSHong Zhang PetscFunctionReturn(0); 3747429d309bSHong Zhang } 3748ccd8e176SBarry Smith 3749ccd8e176SBarry Smith /*MC 3750ccd8e176SBarry Smith MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices. 3751ccd8e176SBarry Smith 3752ccd8e176SBarry Smith Options Database Keys: 3753ccd8e176SBarry Smith . -mat_type mpiaij - sets the matrix type to "mpiaij" during a call to MatSetFromOptions() 3754ccd8e176SBarry Smith 3755ccd8e176SBarry Smith Level: beginner 3756ccd8e176SBarry Smith 3757ccd8e176SBarry Smith .seealso: MatCreateMPIAIJ 3758ccd8e176SBarry Smith M*/ 3759ccd8e176SBarry Smith 3760ccd8e176SBarry Smith EXTERN_C_BEGIN 3761ccd8e176SBarry Smith #undef __FUNCT__ 3762ccd8e176SBarry Smith #define __FUNCT__ "MatCreate_MPIAIJ" 3763ccd8e176SBarry Smith PetscErrorCode MatCreate_MPIAIJ(Mat B) 3764ccd8e176SBarry Smith { 3765ccd8e176SBarry Smith Mat_MPIAIJ *b; 3766ccd8e176SBarry Smith PetscErrorCode ierr; 3767ccd8e176SBarry Smith PetscInt i; 3768ccd8e176SBarry Smith PetscMPIInt size; 3769ccd8e176SBarry Smith 3770ccd8e176SBarry Smith PetscFunctionBegin; 3771ccd8e176SBarry Smith ierr = MPI_Comm_size(B->comm,&size);CHKERRQ(ierr); 3772ccd8e176SBarry Smith 3773ccd8e176SBarry Smith ierr = PetscNew(Mat_MPIAIJ,&b);CHKERRQ(ierr); 3774ccd8e176SBarry Smith B->data = (void*)b; 3775ccd8e176SBarry Smith ierr = PetscMemzero(b,sizeof(Mat_MPIAIJ));CHKERRQ(ierr); 3776ccd8e176SBarry Smith ierr = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 3777ccd8e176SBarry Smith B->factor = 0; 3778*6ad4291fSHong Zhang B->bs = 1; 3779ccd8e176SBarry Smith B->assembled = PETSC_FALSE; 3780ccd8e176SBarry Smith B->mapping = 0; 3781ccd8e176SBarry Smith 3782ccd8e176SBarry Smith B->insertmode = NOT_SET_VALUES; 3783ccd8e176SBarry Smith b->size = size; 3784ccd8e176SBarry Smith ierr = MPI_Comm_rank(B->comm,&b->rank);CHKERRQ(ierr); 3785ccd8e176SBarry Smith 3786ccd8e176SBarry Smith ierr = PetscSplitOwnership(B->comm,&B->m,&B->M);CHKERRQ(ierr); 3787ccd8e176SBarry Smith ierr = PetscSplitOwnership(B->comm,&B->n,&B->N);CHKERRQ(ierr); 3788ccd8e176SBarry Smith 3789ccd8e176SBarry Smith /* the information in the maps duplicates the information computed below, eventually 3790ccd8e176SBarry Smith we should remove the duplicate information that is not contained in the maps */ 3791ccd8e176SBarry Smith ierr = PetscMapCreateMPI(B->comm,B->m,B->M,&B->rmap);CHKERRQ(ierr); 3792ccd8e176SBarry Smith ierr = PetscMapCreateMPI(B->comm,B->n,B->N,&B->cmap);CHKERRQ(ierr); 3793ccd8e176SBarry Smith 3794ccd8e176SBarry Smith /* build local table of row and column ownerships */ 3795ccd8e176SBarry Smith ierr = PetscMalloc(2*(b->size+2)*sizeof(PetscInt),&b->rowners);CHKERRQ(ierr); 3796ccd8e176SBarry Smith PetscLogObjectMemory(B,2*(b->size+2)*sizeof(PetscInt)+sizeof(struct _p_Mat)+sizeof(Mat_MPIAIJ)); 3797ccd8e176SBarry Smith b->cowners = b->rowners + b->size + 2; 3798ccd8e176SBarry Smith ierr = MPI_Allgather(&B->m,1,MPIU_INT,b->rowners+1,1,MPIU_INT,B->comm);CHKERRQ(ierr); 3799ccd8e176SBarry Smith b->rowners[0] = 0; 3800ccd8e176SBarry Smith for (i=2; i<=b->size; i++) { 3801ccd8e176SBarry Smith b->rowners[i] += b->rowners[i-1]; 3802ccd8e176SBarry Smith } 3803ccd8e176SBarry Smith b->rstart = b->rowners[b->rank]; 3804ccd8e176SBarry Smith b->rend = b->rowners[b->rank+1]; 3805ccd8e176SBarry Smith ierr = MPI_Allgather(&B->n,1,MPIU_INT,b->cowners+1,1,MPIU_INT,B->comm);CHKERRQ(ierr); 3806ccd8e176SBarry Smith b->cowners[0] = 0; 3807ccd8e176SBarry Smith for (i=2; i<=b->size; i++) { 3808ccd8e176SBarry Smith b->cowners[i] += b->cowners[i-1]; 3809ccd8e176SBarry Smith } 3810ccd8e176SBarry Smith b->cstart = b->cowners[b->rank]; 3811ccd8e176SBarry Smith b->cend = b->cowners[b->rank+1]; 3812ccd8e176SBarry Smith 3813ccd8e176SBarry Smith /* build cache for off array entries formed */ 3814ccd8e176SBarry Smith ierr = MatStashCreate_Private(B->comm,1,&B->stash);CHKERRQ(ierr); 3815ccd8e176SBarry Smith b->donotstash = PETSC_FALSE; 3816ccd8e176SBarry Smith b->colmap = 0; 3817ccd8e176SBarry Smith b->garray = 0; 3818ccd8e176SBarry Smith b->roworiented = PETSC_TRUE; 3819ccd8e176SBarry Smith 3820ccd8e176SBarry Smith /* stuff used for matrix vector multiply */ 3821ccd8e176SBarry Smith b->lvec = PETSC_NULL; 3822ccd8e176SBarry Smith b->Mvctx = PETSC_NULL; 3823ccd8e176SBarry Smith 3824ccd8e176SBarry Smith /* stuff for MatGetRow() */ 3825ccd8e176SBarry Smith b->rowindices = 0; 3826ccd8e176SBarry Smith b->rowvalues = 0; 3827ccd8e176SBarry Smith b->getrowactive = PETSC_FALSE; 3828ccd8e176SBarry Smith 3829ccd8e176SBarry Smith /* Explicitly create 2 MATSEQAIJ matrices. */ 3830ccd8e176SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,B->m,B->n,B->m,B->n,&b->A);CHKERRQ(ierr); 3831ccd8e176SBarry Smith ierr = MatSetType(b->A,MATSEQAIJ);CHKERRQ(ierr); 3832ccd8e176SBarry Smith PetscLogObjectParent(B,b->A); 3833ccd8e176SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,B->m,B->N,B->m,B->N,&b->B);CHKERRQ(ierr); 3834ccd8e176SBarry Smith ierr = MatSetType(b->B,MATSEQAIJ);CHKERRQ(ierr); 3835ccd8e176SBarry Smith PetscLogObjectParent(B,b->B); 3836ccd8e176SBarry Smith 3837ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatStoreValues_C", 3838ccd8e176SBarry Smith "MatStoreValues_MPIAIJ", 3839ccd8e176SBarry Smith MatStoreValues_MPIAIJ);CHKERRQ(ierr); 3840ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatRetrieveValues_C", 3841ccd8e176SBarry Smith "MatRetrieveValues_MPIAIJ", 3842ccd8e176SBarry Smith MatRetrieveValues_MPIAIJ);CHKERRQ(ierr); 3843ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatGetDiagonalBlock_C", 3844ccd8e176SBarry Smith "MatGetDiagonalBlock_MPIAIJ", 3845ccd8e176SBarry Smith MatGetDiagonalBlock_MPIAIJ);CHKERRQ(ierr); 3846ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatIsTranspose_C", 3847ccd8e176SBarry Smith "MatIsTranspose_MPIAIJ", 3848ccd8e176SBarry Smith MatIsTranspose_MPIAIJ);CHKERRQ(ierr); 3849ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocation_C", 3850ccd8e176SBarry Smith "MatMPIAIJSetPreallocation_MPIAIJ", 3851ccd8e176SBarry Smith MatMPIAIJSetPreallocation_MPIAIJ);CHKERRQ(ierr); 3852ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C", 3853ccd8e176SBarry Smith "MatMPIAIJSetPreallocationCSR_MPIAIJ", 3854ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR_MPIAIJ);CHKERRQ(ierr); 3855ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatDiagonalScaleLocal_C", 3856ccd8e176SBarry Smith "MatDiagonalScaleLocal_MPIAIJ", 3857ccd8e176SBarry Smith MatDiagonalScaleLocal_MPIAIJ);CHKERRQ(ierr); 3858ccd8e176SBarry Smith PetscFunctionReturn(0); 3859ccd8e176SBarry Smith } 3860ccd8e176SBarry Smith EXTERN_C_END 3861