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 342bc5ccf88SSatish Balay 3434a2ae208SSatish Balay #undef __FUNCT__ 3444a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyEnd_MPIAIJ" 345dfbe8321SBarry Smith PetscErrorCode MatAssemblyEnd_MPIAIJ(Mat mat,MatAssemblyType mode) 346bc5ccf88SSatish Balay { 347bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 34824f910e3SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ *)aij->A->data,*b= (Mat_SeqAIJ *)aij->B->data; 3496849ba73SBarry Smith PetscErrorCode ierr; 350b1d57f15SBarry Smith PetscMPIInt n; 351b1d57f15SBarry Smith PetscInt i,j,rstart,ncols,flg; 352b1d57f15SBarry Smith PetscInt *row,*col,other_disassembled; 35387828ca2SBarry Smith PetscScalar *val; 354bc5ccf88SSatish Balay InsertMode addv = mat->insertmode; 355bc5ccf88SSatish Balay 356bc5ccf88SSatish Balay PetscFunctionBegin; 357bc5ccf88SSatish Balay if (!aij->donotstash) { 358a2d1c673SSatish Balay while (1) { 3598798bf22SSatish Balay ierr = MatStashScatterGetMesg_Private(&mat->stash,&n,&row,&col,&val,&flg);CHKERRQ(ierr); 360a2d1c673SSatish Balay if (!flg) break; 361a2d1c673SSatish Balay 362bc5ccf88SSatish Balay for (i=0; i<n;) { 363bc5ccf88SSatish Balay /* Now identify the consecutive vals belonging to the same row */ 364bc5ccf88SSatish Balay for (j=i,rstart=row[j]; j<n; j++) { if (row[j] != rstart) break; } 365bc5ccf88SSatish Balay if (j < n) ncols = j-i; 366bc5ccf88SSatish Balay else ncols = n-i; 367bc5ccf88SSatish Balay /* Now assemble all these values with a single function call */ 368bc5ccf88SSatish Balay ierr = MatSetValues_MPIAIJ(mat,1,row+i,ncols,col+i,val+i,addv);CHKERRQ(ierr); 369bc5ccf88SSatish Balay i = j; 370bc5ccf88SSatish Balay } 371bc5ccf88SSatish Balay } 3728798bf22SSatish Balay ierr = MatStashScatterEnd_Private(&mat->stash);CHKERRQ(ierr); 373bc5ccf88SSatish Balay } 374bc5ccf88SSatish Balay 375*46f35f0bSHong Zhang a->compressedrow.use = PETSC_FALSE; 376bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->A,mode);CHKERRQ(ierr); 377bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->A,mode);CHKERRQ(ierr); 378bc5ccf88SSatish Balay 379bc5ccf88SSatish Balay /* determine if any processor has disassembled, if so we must 380bc5ccf88SSatish Balay also disassemble ourselfs, in order that we may reassemble. */ 381bc5ccf88SSatish Balay /* 382bc5ccf88SSatish Balay if nonzero structure of submatrix B cannot change then we know that 383bc5ccf88SSatish Balay no processor disassembled thus we can skip this stuff 384bc5ccf88SSatish Balay */ 385bc5ccf88SSatish Balay if (!((Mat_SeqAIJ*)aij->B->data)->nonew) { 386bc5ccf88SSatish Balay ierr = MPI_Allreduce(&mat->was_assembled,&other_disassembled,1,MPI_INT,MPI_PROD,mat->comm);CHKERRQ(ierr); 387bc5ccf88SSatish Balay if (mat->was_assembled && !other_disassembled) { 388bc5ccf88SSatish Balay ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 389f8a12787SBarry Smith /* reaccess the b because aij->B was changed */ 390f8a12787SBarry Smith b = (Mat_SeqAIJ *)aij->B->data; 391bc5ccf88SSatish Balay } 392bc5ccf88SSatish Balay } 393bc5ccf88SSatish Balay 394bc5ccf88SSatish Balay if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) { 395bc5ccf88SSatish Balay ierr = MatSetUpMultiply_MPIAIJ(mat);CHKERRQ(ierr); 396bc5ccf88SSatish Balay } 397*46f35f0bSHong Zhang b->compressedrow.use = PETSC_TRUE; 398bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->B,mode);CHKERRQ(ierr); 399bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->B,mode);CHKERRQ(ierr); 400bc5ccf88SSatish Balay 401606d414cSSatish Balay if (aij->rowvalues) { 402606d414cSSatish Balay ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr); 403606d414cSSatish Balay aij->rowvalues = 0; 404606d414cSSatish Balay } 405a30b2313SHong Zhang 406a30b2313SHong Zhang /* used by MatAXPY() */ 407a30b2313SHong Zhang a->xtoy = 0; b->xtoy = 0; 408a30b2313SHong Zhang a->XtoY = 0; b->XtoY = 0; 409a30b2313SHong Zhang 410bc5ccf88SSatish Balay PetscFunctionReturn(0); 411bc5ccf88SSatish Balay } 412bc5ccf88SSatish Balay 4134a2ae208SSatish Balay #undef __FUNCT__ 4144a2ae208SSatish Balay #define __FUNCT__ "MatZeroEntries_MPIAIJ" 415dfbe8321SBarry Smith PetscErrorCode MatZeroEntries_MPIAIJ(Mat A) 4161eb62cbbSBarry Smith { 41744a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 418dfbe8321SBarry Smith PetscErrorCode ierr; 4193a40ed3dSBarry Smith 4203a40ed3dSBarry Smith PetscFunctionBegin; 42178b31e54SBarry Smith ierr = MatZeroEntries(l->A);CHKERRQ(ierr); 42278b31e54SBarry Smith ierr = MatZeroEntries(l->B);CHKERRQ(ierr); 4233a40ed3dSBarry Smith PetscFunctionReturn(0); 4241eb62cbbSBarry Smith } 4251eb62cbbSBarry Smith 4264a2ae208SSatish Balay #undef __FUNCT__ 4274a2ae208SSatish Balay #define __FUNCT__ "MatZeroRows_MPIAIJ" 428dfbe8321SBarry Smith PetscErrorCode MatZeroRows_MPIAIJ(Mat A,IS is,const PetscScalar *diag) 4291eb62cbbSBarry Smith { 43044a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 4316849ba73SBarry Smith PetscErrorCode ierr; 432b1d57f15SBarry Smith PetscMPIInt size = l->size,imdex,n,rank = l->rank,tag = A->tag; 433b1d57f15SBarry Smith PetscInt i,N,*rows,*owners = l->rowners; 434b1d57f15SBarry Smith PetscInt *nprocs,j,idx,nsends,row; 435b1d57f15SBarry Smith PetscInt nmax,*svalues,*starts,*owner,nrecvs; 436b1d57f15SBarry Smith PetscInt *rvalues,count,base,slen,*source; 437b1d57f15SBarry Smith PetscInt *lens,*lrows,*values,rstart=l->rstart; 438d6dfbf8fSBarry Smith MPI_Comm comm = A->comm; 4391eb62cbbSBarry Smith MPI_Request *send_waits,*recv_waits; 4401eb62cbbSBarry Smith MPI_Status recv_status,*send_status; 4411eb62cbbSBarry Smith IS istmp; 44235d8aa7fSBarry Smith PetscTruth found; 4431eb62cbbSBarry Smith 4443a40ed3dSBarry Smith PetscFunctionBegin; 445e03a110bSBarry Smith ierr = ISGetLocalSize(is,&N);CHKERRQ(ierr); 44678b31e54SBarry Smith ierr = ISGetIndices(is,&rows);CHKERRQ(ierr); 4471eb62cbbSBarry Smith 4481eb62cbbSBarry Smith /* first count number of contributors to each processor */ 449b1d57f15SBarry Smith ierr = PetscMalloc(2*size*sizeof(PetscInt),&nprocs);CHKERRQ(ierr); 450b1d57f15SBarry Smith ierr = PetscMemzero(nprocs,2*size*sizeof(PetscInt));CHKERRQ(ierr); 451b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&owner);CHKERRQ(ierr); /* see note*/ 4521eb62cbbSBarry Smith for (i=0; i<N; i++) { 4531eb62cbbSBarry Smith idx = rows[i]; 45435d8aa7fSBarry Smith found = PETSC_FALSE; 45517699dbbSLois Curfman McInnes for (j=0; j<size; j++) { 4561eb62cbbSBarry Smith if (idx >= owners[j] && idx < owners[j+1]) { 457c1dc657dSBarry Smith nprocs[2*j]++; nprocs[2*j+1] = 1; owner[i] = j; found = PETSC_TRUE; break; 4581eb62cbbSBarry Smith } 4591eb62cbbSBarry Smith } 46029bbc08cSBarry Smith if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Index out of range"); 4611eb62cbbSBarry Smith } 462c1dc657dSBarry Smith nsends = 0; for (i=0; i<size; i++) { nsends += nprocs[2*i+1];} 4631eb62cbbSBarry Smith 4641eb62cbbSBarry Smith /* inform other processors of number of messages and max length*/ 465c1dc657dSBarry Smith ierr = PetscMaxSum(comm,nprocs,&nmax,&nrecvs);CHKERRQ(ierr); 4661eb62cbbSBarry Smith 4671eb62cbbSBarry Smith /* post receives: */ 468b1d57f15SBarry Smith ierr = PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(PetscInt),&rvalues);CHKERRQ(ierr); 469b0a32e0cSBarry Smith ierr = PetscMalloc((nrecvs+1)*sizeof(MPI_Request),&recv_waits);CHKERRQ(ierr); 4701eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 471b1d57f15SBarry Smith ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPIU_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr); 4721eb62cbbSBarry Smith } 4731eb62cbbSBarry Smith 4741eb62cbbSBarry Smith /* do sends: 4751eb62cbbSBarry Smith 1) starts[i] gives the starting index in svalues for stuff going to 4761eb62cbbSBarry Smith the ith processor 4771eb62cbbSBarry Smith */ 478b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&svalues);CHKERRQ(ierr); 479b0a32e0cSBarry Smith ierr = PetscMalloc((nsends+1)*sizeof(MPI_Request),&send_waits);CHKERRQ(ierr); 480b1d57f15SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&starts);CHKERRQ(ierr); 4811eb62cbbSBarry Smith starts[0] = 0; 482c1dc657dSBarry Smith for (i=1; i<size; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4831eb62cbbSBarry Smith for (i=0; i<N; i++) { 4841eb62cbbSBarry Smith svalues[starts[owner[i]]++] = rows[i]; 4851eb62cbbSBarry Smith } 4866831982aSBarry Smith ierr = ISRestoreIndices(is,&rows);CHKERRQ(ierr); 4871eb62cbbSBarry Smith 4881eb62cbbSBarry Smith starts[0] = 0; 489c1dc657dSBarry Smith for (i=1; i<size+1; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4901eb62cbbSBarry Smith count = 0; 49117699dbbSLois Curfman McInnes for (i=0; i<size; i++) { 492c1dc657dSBarry Smith if (nprocs[2*i+1]) { 493b1d57f15SBarry Smith ierr = MPI_Isend(svalues+starts[i],nprocs[2*i],MPIU_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr); 4941eb62cbbSBarry Smith } 4951eb62cbbSBarry Smith } 496606d414cSSatish Balay ierr = PetscFree(starts);CHKERRQ(ierr); 4971eb62cbbSBarry Smith 49817699dbbSLois Curfman McInnes base = owners[rank]; 4991eb62cbbSBarry Smith 5001eb62cbbSBarry Smith /* wait on receives */ 501b1d57f15SBarry Smith ierr = PetscMalloc(2*(nrecvs+1)*sizeof(PetscInt),&lens);CHKERRQ(ierr); 5021eb62cbbSBarry Smith source = lens + nrecvs; 5031eb62cbbSBarry Smith count = nrecvs; slen = 0; 5041eb62cbbSBarry Smith while (count) { 505ca161407SBarry Smith ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr); 5061eb62cbbSBarry Smith /* unpack receives into our local space */ 507b1d57f15SBarry Smith ierr = MPI_Get_count(&recv_status,MPIU_INT,&n);CHKERRQ(ierr); 508d6dfbf8fSBarry Smith source[imdex] = recv_status.MPI_SOURCE; 509d6dfbf8fSBarry Smith lens[imdex] = n; 5101eb62cbbSBarry Smith slen += n; 5111eb62cbbSBarry Smith count--; 5121eb62cbbSBarry Smith } 513606d414cSSatish Balay ierr = PetscFree(recv_waits);CHKERRQ(ierr); 5141eb62cbbSBarry Smith 5151eb62cbbSBarry Smith /* move the data into the send scatter */ 516b1d57f15SBarry Smith ierr = PetscMalloc((slen+1)*sizeof(PetscInt),&lrows);CHKERRQ(ierr); 5171eb62cbbSBarry Smith count = 0; 5181eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 5191eb62cbbSBarry Smith values = rvalues + i*nmax; 5201eb62cbbSBarry Smith for (j=0; j<lens[i]; j++) { 5211eb62cbbSBarry Smith lrows[count++] = values[j] - base; 5221eb62cbbSBarry Smith } 5231eb62cbbSBarry Smith } 524606d414cSSatish Balay ierr = PetscFree(rvalues);CHKERRQ(ierr); 525606d414cSSatish Balay ierr = PetscFree(lens);CHKERRQ(ierr); 526606d414cSSatish Balay ierr = PetscFree(owner);CHKERRQ(ierr); 527606d414cSSatish Balay ierr = PetscFree(nprocs);CHKERRQ(ierr); 5281eb62cbbSBarry Smith 5291eb62cbbSBarry Smith /* actually zap the local rows */ 530029af93fSBarry Smith ierr = ISCreateGeneral(PETSC_COMM_SELF,slen,lrows,&istmp);CHKERRQ(ierr); 531b0a32e0cSBarry Smith PetscLogObjectParent(A,istmp); 5326a5c57faSSatish Balay 5336eb55b6aSBarry Smith /* 5346eb55b6aSBarry Smith Zero the required rows. If the "diagonal block" of the matrix 5356eb55b6aSBarry Smith is square and the user wishes to set the diagonal we use seperate 5366eb55b6aSBarry Smith code so that MatSetValues() is not called for each diagonal allocating 5376eb55b6aSBarry Smith new memory, thus calling lots of mallocs and slowing things down. 5386eb55b6aSBarry Smith 5396eb55b6aSBarry Smith Contributed by: Mathew Knepley 5406eb55b6aSBarry Smith */ 541e2d53e46SBarry Smith /* must zero l->B before l->A because the (diag) case below may put values into l->B*/ 542e2d53e46SBarry Smith ierr = MatZeroRows(l->B,istmp,0);CHKERRQ(ierr); 5436eb55b6aSBarry Smith if (diag && (l->A->M == l->A->N)) { 5446eb55b6aSBarry Smith ierr = MatZeroRows(l->A,istmp,diag);CHKERRQ(ierr); 545e2d53e46SBarry Smith } else if (diag) { 546e2d53e46SBarry Smith ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr); 547fa46199cSSatish Balay if (((Mat_SeqAIJ*)l->A->data)->nonew) { 54829bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MatZeroRows() on rectangular matrices cannot be used with the Mat options\n\ 549fa46199cSSatish Balay MAT_NO_NEW_NONZERO_LOCATIONS,MAT_NEW_NONZERO_LOCATION_ERR,MAT_NEW_NONZERO_ALLOCATION_ERR"); 5506525c446SSatish Balay } 551e2d53e46SBarry Smith for (i = 0; i < slen; i++) { 552e2d53e46SBarry Smith row = lrows[i] + rstart; 553e2d53e46SBarry Smith ierr = MatSetValues(A,1,&row,1,&row,diag,INSERT_VALUES);CHKERRQ(ierr); 554e2d53e46SBarry Smith } 555e2d53e46SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 556e2d53e46SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 5576eb55b6aSBarry Smith } else { 5586a5c57faSSatish Balay ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr); 5596eb55b6aSBarry Smith } 56078b31e54SBarry Smith ierr = ISDestroy(istmp);CHKERRQ(ierr); 561606d414cSSatish Balay ierr = PetscFree(lrows);CHKERRQ(ierr); 56272dacd9aSBarry Smith 5631eb62cbbSBarry Smith /* wait on sends */ 5641eb62cbbSBarry Smith if (nsends) { 565b0a32e0cSBarry Smith ierr = PetscMalloc(nsends*sizeof(MPI_Status),&send_status);CHKERRQ(ierr); 566ca161407SBarry Smith ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr); 567606d414cSSatish Balay ierr = PetscFree(send_status);CHKERRQ(ierr); 5681eb62cbbSBarry Smith } 569606d414cSSatish Balay ierr = PetscFree(send_waits);CHKERRQ(ierr); 570606d414cSSatish Balay ierr = PetscFree(svalues);CHKERRQ(ierr); 5711eb62cbbSBarry Smith 5723a40ed3dSBarry Smith PetscFunctionReturn(0); 5731eb62cbbSBarry Smith } 5741eb62cbbSBarry Smith 5754a2ae208SSatish Balay #undef __FUNCT__ 5764a2ae208SSatish Balay #define __FUNCT__ "MatMult_MPIAIJ" 577dfbe8321SBarry Smith PetscErrorCode MatMult_MPIAIJ(Mat A,Vec xx,Vec yy) 5781eb62cbbSBarry Smith { 579416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 580dfbe8321SBarry Smith PetscErrorCode ierr; 581b1d57f15SBarry Smith PetscInt nt; 582416022c9SBarry Smith 5833a40ed3dSBarry Smith PetscFunctionBegin; 584a2ce50c7SBarry Smith ierr = VecGetLocalSize(xx,&nt);CHKERRQ(ierr); 585273d9f13SBarry Smith if (nt != A->n) { 58677431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Incompatible partition of A (%D) and xx (%D)",A->n,nt); 587fbd6ef76SBarry Smith } 58843a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 589f830108cSBarry Smith ierr = (*a->A->ops->mult)(a->A,xx,yy);CHKERRQ(ierr); 59043a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 591f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,yy,yy);CHKERRQ(ierr); 5923a40ed3dSBarry Smith PetscFunctionReturn(0); 5931eb62cbbSBarry Smith } 5941eb62cbbSBarry Smith 5954a2ae208SSatish Balay #undef __FUNCT__ 5964a2ae208SSatish Balay #define __FUNCT__ "MatMultAdd_MPIAIJ" 597dfbe8321SBarry Smith PetscErrorCode MatMultAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 598da3a660dSBarry Smith { 599416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 600dfbe8321SBarry Smith PetscErrorCode ierr; 6013a40ed3dSBarry Smith 6023a40ed3dSBarry Smith PetscFunctionBegin; 60343a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 604f830108cSBarry Smith ierr = (*a->A->ops->multadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 60543a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 606f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,zz,zz);CHKERRQ(ierr); 6073a40ed3dSBarry Smith PetscFunctionReturn(0); 608da3a660dSBarry Smith } 609da3a660dSBarry Smith 6104a2ae208SSatish Balay #undef __FUNCT__ 6114a2ae208SSatish Balay #define __FUNCT__ "MatMultTranspose_MPIAIJ" 612dfbe8321SBarry Smith PetscErrorCode MatMultTranspose_MPIAIJ(Mat A,Vec xx,Vec yy) 613da3a660dSBarry Smith { 614416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 615dfbe8321SBarry Smith PetscErrorCode ierr; 616da3a660dSBarry Smith 6173a40ed3dSBarry Smith PetscFunctionBegin; 618da3a660dSBarry Smith /* do nondiagonal part */ 6197c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 620da3a660dSBarry Smith /* send it on its way */ 621537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 622da3a660dSBarry Smith /* do local part */ 6237c922b88SBarry Smith ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 624da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 625da3a660dSBarry Smith /* inserted in yy until the next line, which is true for my implementation*/ 626da3a660dSBarry Smith /* but is not perhaps always true. */ 627537820f0SBarry Smith ierr = VecScatterEnd(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6283a40ed3dSBarry Smith PetscFunctionReturn(0); 629da3a660dSBarry Smith } 630da3a660dSBarry Smith 631cd0d46ebSvictorle EXTERN_C_BEGIN 632cd0d46ebSvictorle #undef __FUNCT__ 6335fbd3699SBarry Smith #define __FUNCT__ "MatIsTranspose_MPIAIJ" 634dfbe8321SBarry Smith PetscErrorCode MatIsTranspose_MPIAIJ(Mat Amat,Mat Bmat,PetscTruth tol,PetscTruth *f) 635cd0d46ebSvictorle { 6364f423910Svictorle MPI_Comm comm; 637cd0d46ebSvictorle Mat_MPIAIJ *Aij = (Mat_MPIAIJ *) Amat->data, *Bij; 63866501d38Svictorle Mat Adia = Aij->A, Bdia, Aoff,Boff,*Aoffs,*Boffs; 639cd0d46ebSvictorle IS Me,Notme; 6406849ba73SBarry Smith PetscErrorCode ierr; 641b1d57f15SBarry Smith PetscInt M,N,first,last,*notme,i; 642b1d57f15SBarry Smith PetscMPIInt size; 643cd0d46ebSvictorle 644cd0d46ebSvictorle PetscFunctionBegin; 64542e5f5b4Svictorle 64642e5f5b4Svictorle /* Easy test: symmetric diagonal block */ 64766501d38Svictorle Bij = (Mat_MPIAIJ *) Bmat->data; Bdia = Bij->A; 6485485867bSBarry Smith ierr = MatIsTranspose(Adia,Bdia,tol,f);CHKERRQ(ierr); 649cd0d46ebSvictorle if (!*f) PetscFunctionReturn(0); 6504f423910Svictorle ierr = PetscObjectGetComm((PetscObject)Amat,&comm);CHKERRQ(ierr); 651b1d57f15SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 652b1d57f15SBarry Smith if (size == 1) PetscFunctionReturn(0); 65342e5f5b4Svictorle 65442e5f5b4Svictorle /* Hard test: off-diagonal block. This takes a MatGetSubMatrix. */ 655cd0d46ebSvictorle ierr = MatGetSize(Amat,&M,&N);CHKERRQ(ierr); 656cd0d46ebSvictorle ierr = MatGetOwnershipRange(Amat,&first,&last);CHKERRQ(ierr); 657b1d57f15SBarry Smith ierr = PetscMalloc((N-last+first)*sizeof(PetscInt),¬me);CHKERRQ(ierr); 658cd0d46ebSvictorle for (i=0; i<first; i++) notme[i] = i; 659cd0d46ebSvictorle for (i=last; i<M; i++) notme[i-last+first] = i; 660268466fbSBarry Smith ierr = ISCreateGeneral(MPI_COMM_SELF,N-last+first,notme,&Notme);CHKERRQ(ierr); 661268466fbSBarry Smith ierr = ISCreateStride(MPI_COMM_SELF,last-first,first,1,&Me);CHKERRQ(ierr); 662268466fbSBarry Smith ierr = MatGetSubMatrices(Amat,1,&Me,&Notme,MAT_INITIAL_MATRIX,&Aoffs);CHKERRQ(ierr); 66366501d38Svictorle Aoff = Aoffs[0]; 664268466fbSBarry Smith ierr = MatGetSubMatrices(Bmat,1,&Notme,&Me,MAT_INITIAL_MATRIX,&Boffs);CHKERRQ(ierr); 66566501d38Svictorle Boff = Boffs[0]; 6665485867bSBarry Smith ierr = MatIsTranspose(Aoff,Boff,tol,f);CHKERRQ(ierr); 66766501d38Svictorle ierr = MatDestroyMatrices(1,&Aoffs);CHKERRQ(ierr); 66866501d38Svictorle ierr = MatDestroyMatrices(1,&Boffs);CHKERRQ(ierr); 66942e5f5b4Svictorle ierr = ISDestroy(Me);CHKERRQ(ierr); 67042e5f5b4Svictorle ierr = ISDestroy(Notme);CHKERRQ(ierr); 67142e5f5b4Svictorle 672cd0d46ebSvictorle PetscFunctionReturn(0); 673cd0d46ebSvictorle } 674cd0d46ebSvictorle EXTERN_C_END 675cd0d46ebSvictorle 6764a2ae208SSatish Balay #undef __FUNCT__ 6774a2ae208SSatish Balay #define __FUNCT__ "MatMultTransposeAdd_MPIAIJ" 678dfbe8321SBarry Smith PetscErrorCode MatMultTransposeAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 679da3a660dSBarry Smith { 680416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 681dfbe8321SBarry Smith PetscErrorCode ierr; 682da3a660dSBarry Smith 6833a40ed3dSBarry Smith PetscFunctionBegin; 684da3a660dSBarry Smith /* do nondiagonal part */ 6857c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 686da3a660dSBarry Smith /* send it on its way */ 687537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 688da3a660dSBarry Smith /* do local part */ 6897c922b88SBarry Smith ierr = (*a->A->ops->multtransposeadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 690da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 691da3a660dSBarry Smith /* inserted in yy until the next line, which is true for my implementation*/ 692da3a660dSBarry Smith /* but is not perhaps always true. */ 6930a198c4cSBarry Smith ierr = VecScatterEnd(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6943a40ed3dSBarry Smith PetscFunctionReturn(0); 695da3a660dSBarry Smith } 696da3a660dSBarry Smith 6971eb62cbbSBarry Smith /* 6981eb62cbbSBarry Smith This only works correctly for square matrices where the subblock A->A is the 6991eb62cbbSBarry Smith diagonal block 7001eb62cbbSBarry Smith */ 7014a2ae208SSatish Balay #undef __FUNCT__ 7024a2ae208SSatish Balay #define __FUNCT__ "MatGetDiagonal_MPIAIJ" 703dfbe8321SBarry Smith PetscErrorCode MatGetDiagonal_MPIAIJ(Mat A,Vec v) 7041eb62cbbSBarry Smith { 705dfbe8321SBarry Smith PetscErrorCode ierr; 706416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 7073a40ed3dSBarry Smith 7083a40ed3dSBarry Smith PetscFunctionBegin; 709273d9f13SBarry Smith if (A->M != A->N) SETERRQ(PETSC_ERR_SUP,"Supports only square matrix where A->A is diag block"); 7105baf8537SBarry Smith if (a->rstart != a->cstart || a->rend != a->cend) { 71129bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"row partition must equal col partition"); 7123a40ed3dSBarry Smith } 7133a40ed3dSBarry Smith ierr = MatGetDiagonal(a->A,v);CHKERRQ(ierr); 7143a40ed3dSBarry Smith PetscFunctionReturn(0); 7151eb62cbbSBarry Smith } 7161eb62cbbSBarry Smith 7174a2ae208SSatish Balay #undef __FUNCT__ 7184a2ae208SSatish Balay #define __FUNCT__ "MatScale_MPIAIJ" 719dfbe8321SBarry Smith PetscErrorCode MatScale_MPIAIJ(const PetscScalar aa[],Mat A) 720052efed2SBarry Smith { 721052efed2SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 722dfbe8321SBarry Smith PetscErrorCode ierr; 7233a40ed3dSBarry Smith 7243a40ed3dSBarry Smith PetscFunctionBegin; 725052efed2SBarry Smith ierr = MatScale(aa,a->A);CHKERRQ(ierr); 726052efed2SBarry Smith ierr = MatScale(aa,a->B);CHKERRQ(ierr); 7273a40ed3dSBarry Smith PetscFunctionReturn(0); 728052efed2SBarry Smith } 729052efed2SBarry Smith 7304a2ae208SSatish Balay #undef __FUNCT__ 7314a2ae208SSatish Balay #define __FUNCT__ "MatDestroy_MPIAIJ" 732dfbe8321SBarry Smith PetscErrorCode MatDestroy_MPIAIJ(Mat mat) 7331eb62cbbSBarry Smith { 73444a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 735dfbe8321SBarry Smith PetscErrorCode ierr; 73683e2fdc7SBarry Smith 7373a40ed3dSBarry Smith PetscFunctionBegin; 738aa482453SBarry Smith #if defined(PETSC_USE_LOG) 73977431f27SBarry Smith PetscLogObjectState((PetscObject)mat,"Rows=%D, Cols=%D",mat->M,mat->N); 740a5a9c739SBarry Smith #endif 7418798bf22SSatish Balay ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr); 742606d414cSSatish Balay ierr = PetscFree(aij->rowners);CHKERRQ(ierr); 74378b31e54SBarry Smith ierr = MatDestroy(aij->A);CHKERRQ(ierr); 74478b31e54SBarry Smith ierr = MatDestroy(aij->B);CHKERRQ(ierr); 745aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 7460f5bd95cSBarry Smith if (aij->colmap) {ierr = PetscTableDelete(aij->colmap);CHKERRQ(ierr);} 747b1fc9764SSatish Balay #else 748606d414cSSatish Balay if (aij->colmap) {ierr = PetscFree(aij->colmap);CHKERRQ(ierr);} 749b1fc9764SSatish Balay #endif 750606d414cSSatish Balay if (aij->garray) {ierr = PetscFree(aij->garray);CHKERRQ(ierr);} 7517c922b88SBarry Smith if (aij->lvec) {ierr = VecDestroy(aij->lvec);CHKERRQ(ierr);} 7527c922b88SBarry Smith if (aij->Mvctx) {ierr = VecScatterDestroy(aij->Mvctx);CHKERRQ(ierr);} 753606d414cSSatish Balay if (aij->rowvalues) {ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr);} 754606d414cSSatish Balay ierr = PetscFree(aij);CHKERRQ(ierr); 755901853e0SKris Buschelman 756901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatStoreValues_C","",PETSC_NULL);CHKERRQ(ierr); 757901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatRetrieveValues_C","",PETSC_NULL);CHKERRQ(ierr); 758901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatGetDiagonalBlock_C","",PETSC_NULL);CHKERRQ(ierr); 759901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatIsTranspose_C","",PETSC_NULL);CHKERRQ(ierr); 760901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocation_C","",PETSC_NULL);CHKERRQ(ierr); 761ff69c46cSKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocationCSR_C","",PETSC_NULL);CHKERRQ(ierr); 762901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatDiagonalScaleLocal_C","",PETSC_NULL);CHKERRQ(ierr); 7633a40ed3dSBarry Smith PetscFunctionReturn(0); 7641eb62cbbSBarry Smith } 765ee50ffe9SBarry Smith 7664a2ae208SSatish Balay #undef __FUNCT__ 7678e2fed03SBarry Smith #define __FUNCT__ "MatView_MPIAIJ_Binary" 768dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_Binary(Mat mat,PetscViewer viewer) 7698e2fed03SBarry Smith { 7708e2fed03SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 7718e2fed03SBarry Smith Mat_SeqAIJ* A = (Mat_SeqAIJ*)aij->A->data; 7728e2fed03SBarry Smith Mat_SeqAIJ* B = (Mat_SeqAIJ*)aij->B->data; 7736849ba73SBarry Smith PetscErrorCode ierr; 77432dcc486SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag; 7756f69ff64SBarry Smith int fd; 7766f69ff64SBarry Smith PetscInt nz,header[4],*row_lengths,*range,rlen,i; 7776f69ff64SBarry Smith PetscInt nzmax,*column_indices,j,k,col,*garray = aij->garray,cnt,cstart = aij->cstart,rnz; 7788e2fed03SBarry Smith PetscScalar *column_values; 7798e2fed03SBarry Smith 7808e2fed03SBarry Smith PetscFunctionBegin; 7818e2fed03SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 7828e2fed03SBarry Smith ierr = MPI_Comm_size(mat->comm,&size);CHKERRQ(ierr); 7838e2fed03SBarry Smith nz = A->nz + B->nz; 784958c9bccSBarry Smith if (!rank) { 7858e2fed03SBarry Smith header[0] = MAT_FILE_COOKIE; 7868e2fed03SBarry Smith header[1] = mat->M; 7878e2fed03SBarry Smith header[2] = mat->N; 788b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,&header[3],1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr); 7898e2fed03SBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 7906f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,header,4,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 7918e2fed03SBarry Smith /* get largest number of rows any processor has */ 7928e2fed03SBarry Smith rlen = mat->m; 7938e2fed03SBarry Smith ierr = PetscMapGetGlobalRange(mat->rmap,&range);CHKERRQ(ierr); 7948e2fed03SBarry Smith for (i=1; i<size; i++) { 7958e2fed03SBarry Smith rlen = PetscMax(rlen,range[i+1] - range[i]); 7968e2fed03SBarry Smith } 7978e2fed03SBarry Smith } else { 798b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,0,1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr); 7998e2fed03SBarry Smith rlen = mat->m; 8008e2fed03SBarry Smith } 8018e2fed03SBarry Smith 8028e2fed03SBarry Smith /* load up the local row counts */ 803b1d57f15SBarry Smith ierr = PetscMalloc((rlen+1)*sizeof(PetscInt),&row_lengths);CHKERRQ(ierr); 8048e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8058e2fed03SBarry Smith row_lengths[i] = A->i[i+1] - A->i[i] + B->i[i+1] - B->i[i]; 8068e2fed03SBarry Smith } 8078e2fed03SBarry Smith 8088e2fed03SBarry Smith /* store the row lengths to the file */ 809958c9bccSBarry Smith if (!rank) { 8108e2fed03SBarry Smith MPI_Status status; 8116f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,mat->m,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8128e2fed03SBarry Smith for (i=1; i<size; i++) { 8138e2fed03SBarry Smith rlen = range[i+1] - range[i]; 814b1d57f15SBarry Smith ierr = MPI_Recv(row_lengths,rlen,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 8156f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,rlen,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8168e2fed03SBarry Smith } 8178e2fed03SBarry Smith } else { 818b1d57f15SBarry Smith ierr = MPI_Send(row_lengths,mat->m,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8198e2fed03SBarry Smith } 8208e2fed03SBarry Smith ierr = PetscFree(row_lengths);CHKERRQ(ierr); 8218e2fed03SBarry Smith 8228e2fed03SBarry Smith /* load up the local column indices */ 8238e2fed03SBarry Smith nzmax = nz; /* )th processor needs space a largest processor needs */ 824b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,&nzmax,1,MPIU_INT,MPI_MAX,0,mat->comm);CHKERRQ(ierr); 825b1d57f15SBarry Smith ierr = PetscMalloc((nzmax+1)*sizeof(PetscInt),&column_indices);CHKERRQ(ierr); 8268e2fed03SBarry Smith cnt = 0; 8278e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8288e2fed03SBarry Smith for (j=B->i[i]; j<B->i[i+1]; j++) { 8298e2fed03SBarry Smith if ( (col = garray[B->j[j]]) > cstart) break; 8308e2fed03SBarry Smith column_indices[cnt++] = col; 8318e2fed03SBarry Smith } 8328e2fed03SBarry Smith for (k=A->i[i]; k<A->i[i+1]; k++) { 8338e2fed03SBarry Smith column_indices[cnt++] = A->j[k] + cstart; 8348e2fed03SBarry Smith } 8358e2fed03SBarry Smith for (; j<B->i[i+1]; j++) { 8368e2fed03SBarry Smith column_indices[cnt++] = garray[B->j[j]]; 8378e2fed03SBarry Smith } 8388e2fed03SBarry Smith } 83977431f27SBarry Smith if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz); 8408e2fed03SBarry Smith 8418e2fed03SBarry Smith /* store the column indices to the file */ 842958c9bccSBarry Smith if (!rank) { 8438e2fed03SBarry Smith MPI_Status status; 8446f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,nz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8458e2fed03SBarry Smith for (i=1; i<size; i++) { 846b1d57f15SBarry Smith ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 84777431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 848b1d57f15SBarry Smith ierr = MPI_Recv(column_indices,rnz,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 8496f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,rnz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8508e2fed03SBarry Smith } 8518e2fed03SBarry Smith } else { 852b1d57f15SBarry Smith ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 853b1d57f15SBarry Smith ierr = MPI_Send(column_indices,nz,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8548e2fed03SBarry Smith } 8558e2fed03SBarry Smith ierr = PetscFree(column_indices);CHKERRQ(ierr); 8568e2fed03SBarry Smith 8578e2fed03SBarry Smith /* load up the local column values */ 8588e2fed03SBarry Smith ierr = PetscMalloc((nzmax+1)*sizeof(PetscScalar),&column_values);CHKERRQ(ierr); 8598e2fed03SBarry Smith cnt = 0; 8608e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8618e2fed03SBarry Smith for (j=B->i[i]; j<B->i[i+1]; j++) { 8628e2fed03SBarry Smith if ( garray[B->j[j]] > cstart) break; 8638e2fed03SBarry Smith column_values[cnt++] = B->a[j]; 8648e2fed03SBarry Smith } 8658e2fed03SBarry Smith for (k=A->i[i]; k<A->i[i+1]; k++) { 8668e2fed03SBarry Smith column_values[cnt++] = A->a[k]; 8678e2fed03SBarry Smith } 8688e2fed03SBarry Smith for (; j<B->i[i+1]; j++) { 8698e2fed03SBarry Smith column_values[cnt++] = B->a[j]; 8708e2fed03SBarry Smith } 8718e2fed03SBarry Smith } 87277431f27SBarry Smith if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_PLIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz); 8738e2fed03SBarry Smith 8748e2fed03SBarry Smith /* store the column values to the file */ 875958c9bccSBarry Smith if (!rank) { 8768e2fed03SBarry Smith MPI_Status status; 8776f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,nz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8788e2fed03SBarry Smith for (i=1; i<size; i++) { 879b1d57f15SBarry Smith ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 88077431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 881b021249fSBarry Smith ierr = MPI_Recv(column_values,rnz,MPIU_SCALAR,i,tag,mat->comm,&status);CHKERRQ(ierr); 8826f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,rnz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8838e2fed03SBarry Smith } 8848e2fed03SBarry Smith } else { 885b1d57f15SBarry Smith ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8868e2fed03SBarry Smith ierr = MPI_Send(column_values,nz,MPIU_SCALAR,0,tag,mat->comm);CHKERRQ(ierr); 8878e2fed03SBarry Smith } 8888e2fed03SBarry Smith ierr = PetscFree(column_values);CHKERRQ(ierr); 8898e2fed03SBarry Smith PetscFunctionReturn(0); 8908e2fed03SBarry Smith } 8918e2fed03SBarry Smith 8928e2fed03SBarry Smith #undef __FUNCT__ 8934a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ_ASCIIorDraworSocket" 894dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_ASCIIorDraworSocket(Mat mat,PetscViewer viewer) 895416022c9SBarry Smith { 89644a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 897dfbe8321SBarry Smith PetscErrorCode ierr; 89832dcc486SBarry Smith PetscMPIInt rank = aij->rank,size = aij->size; 89932077d6dSBarry Smith PetscTruth isdraw,iascii,flg,isbinary; 900b0a32e0cSBarry Smith PetscViewer sviewer; 901f3ef73ceSBarry Smith PetscViewerFormat format; 902416022c9SBarry Smith 9033a40ed3dSBarry Smith PetscFunctionBegin; 904fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 90532077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 9068e2fed03SBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 90732077d6dSBarry Smith if (iascii) { 908b0a32e0cSBarry Smith ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 909456192e2SBarry Smith if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 9104e220ebcSLois Curfman McInnes MatInfo info; 9111dab6e02SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 912888f2ed8SSatish Balay ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr); 913b0a32e0cSBarry Smith ierr = PetscOptionsHasName(PETSC_NULL,"-mat_aij_no_inode",&flg);CHKERRQ(ierr); 9146831982aSBarry Smith if (flg) { 91577431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, not using I-node routines\n", 91677431f27SBarry Smith rank,mat->m,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 9176831982aSBarry Smith } else { 91877431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, using I-node routines\n", 91977431f27SBarry Smith rank,mat->m,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 9206831982aSBarry Smith } 921888f2ed8SSatish Balay ierr = MatGetInfo(aij->A,MAT_LOCAL,&info);CHKERRQ(ierr); 92277431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] on-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 923888f2ed8SSatish Balay ierr = MatGetInfo(aij->B,MAT_LOCAL,&info);CHKERRQ(ierr); 92477431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] off-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 925b0a32e0cSBarry Smith ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 926a40aa06bSLois Curfman McInnes ierr = VecScatterView(aij->Mvctx,viewer);CHKERRQ(ierr); 9273a40ed3dSBarry Smith PetscFunctionReturn(0); 928fb9695e5SSatish Balay } else if (format == PETSC_VIEWER_ASCII_INFO) { 9293a40ed3dSBarry Smith PetscFunctionReturn(0); 9304aedb280SBarry Smith } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) { 9314aedb280SBarry Smith PetscFunctionReturn(0); 93208480c60SBarry Smith } 9338e2fed03SBarry Smith } else if (isbinary) { 9348e2fed03SBarry Smith if (size == 1) { 9358e2fed03SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 9368e2fed03SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9378e2fed03SBarry Smith } else { 9388e2fed03SBarry Smith ierr = MatView_MPIAIJ_Binary(mat,viewer);CHKERRQ(ierr); 9398e2fed03SBarry Smith } 9408e2fed03SBarry Smith PetscFunctionReturn(0); 9410f5bd95cSBarry Smith } else if (isdraw) { 942b0a32e0cSBarry Smith PetscDraw draw; 94319bcc07fSBarry Smith PetscTruth isnull; 944b0a32e0cSBarry Smith ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr); 945b0a32e0cSBarry Smith ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); if (isnull) PetscFunctionReturn(0); 94619bcc07fSBarry Smith } 94719bcc07fSBarry Smith 94817699dbbSLois Curfman McInnes if (size == 1) { 949e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 95078b31e54SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9513a40ed3dSBarry Smith } else { 95295373324SBarry Smith /* assemble the entire matrix onto first processor. */ 95395373324SBarry Smith Mat A; 954ec8511deSBarry Smith Mat_SeqAIJ *Aloc; 955b1d57f15SBarry Smith PetscInt M = mat->M,N = mat->N,m,*ai,*aj,row,*cols,i,*ct; 95687828ca2SBarry Smith PetscScalar *a; 9572ee70a88SLois Curfman McInnes 95817699dbbSLois Curfman McInnes if (!rank) { 959f204ca49SKris Buschelman ierr = MatCreate(mat->comm,M,N,M,N,&A);CHKERRQ(ierr); 9603a40ed3dSBarry Smith } else { 961f204ca49SKris Buschelman ierr = MatCreate(mat->comm,0,0,M,N,&A);CHKERRQ(ierr); 96295373324SBarry Smith } 963f204ca49SKris Buschelman /* This is just a temporary matrix, so explicitly using MATMPIAIJ is probably best */ 964f204ca49SKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 965f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 966b0a32e0cSBarry Smith PetscLogObjectParent(mat,A); 967416022c9SBarry Smith 96895373324SBarry Smith /* copy over the A part */ 969ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->A->data; 970273d9f13SBarry Smith m = aij->A->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 97195373324SBarry Smith row = aij->rstart; 972bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] += aij->cstart ;} 97395373324SBarry Smith for (i=0; i<m; i++) { 974416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],aj,a,INSERT_VALUES);CHKERRQ(ierr); 97595373324SBarry Smith row++; a += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 97695373324SBarry Smith } 9772ee70a88SLois Curfman McInnes aj = Aloc->j; 978bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] -= aij->cstart;} 97995373324SBarry Smith 98095373324SBarry Smith /* copy over the B part */ 981ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->B->data; 982273d9f13SBarry Smith m = aij->B->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 98395373324SBarry Smith row = aij->rstart; 984b1d57f15SBarry Smith ierr = PetscMalloc((ai[m]+1)*sizeof(PetscInt),&cols);CHKERRQ(ierr); 985b0a32e0cSBarry Smith ct = cols; 986bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = aij->garray[aj[i]];} 98795373324SBarry Smith for (i=0; i<m; i++) { 988416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],cols,a,INSERT_VALUES);CHKERRQ(ierr); 98995373324SBarry Smith row++; a += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 99095373324SBarry Smith } 991606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 9926d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 9936d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 99455843e3eSBarry Smith /* 99555843e3eSBarry Smith Everyone has to call to draw the matrix since the graphics waits are 996b0a32e0cSBarry Smith synchronized across all processors that share the PetscDraw object 99755843e3eSBarry Smith */ 998b0a32e0cSBarry Smith ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr); 999e03a110bSBarry Smith if (!rank) { 1000e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)((Mat_MPIAIJ*)(A->data))->A,mat->name);CHKERRQ(ierr); 10016831982aSBarry Smith ierr = MatView(((Mat_MPIAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr); 100295373324SBarry Smith } 1003b0a32e0cSBarry Smith ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr); 100478b31e54SBarry Smith ierr = MatDestroy(A);CHKERRQ(ierr); 100595373324SBarry Smith } 10063a40ed3dSBarry Smith PetscFunctionReturn(0); 10071eb62cbbSBarry Smith } 10081eb62cbbSBarry Smith 10094a2ae208SSatish Balay #undef __FUNCT__ 10104a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ" 1011dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ(Mat mat,PetscViewer viewer) 1012416022c9SBarry Smith { 1013dfbe8321SBarry Smith PetscErrorCode ierr; 101432077d6dSBarry Smith PetscTruth iascii,isdraw,issocket,isbinary; 1015416022c9SBarry Smith 10163a40ed3dSBarry Smith PetscFunctionBegin; 101732077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 1018fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 1019fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 1020b0a32e0cSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr); 102132077d6dSBarry Smith if (iascii || isdraw || isbinary || issocket) { 10227b2a1423SBarry Smith ierr = MatView_MPIAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr); 10235cd90555SBarry Smith } else { 102479a5c55eSBarry Smith SETERRQ1(PETSC_ERR_SUP,"Viewer type %s not supported by MPIAIJ matrices",((PetscObject)viewer)->type_name); 1025416022c9SBarry Smith } 10263a40ed3dSBarry Smith PetscFunctionReturn(0); 1027416022c9SBarry Smith } 1028416022c9SBarry Smith 10291eb62cbbSBarry Smith 1030c14dc6b6SHong Zhang 10314a2ae208SSatish Balay #undef __FUNCT__ 10324a2ae208SSatish Balay #define __FUNCT__ "MatRelax_MPIAIJ" 1033b1d57f15SBarry Smith PetscErrorCode MatRelax_MPIAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx) 10348a729477SBarry Smith { 103544a69424SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1036dfbe8321SBarry Smith PetscErrorCode ierr; 1037c14dc6b6SHong Zhang Vec bb1; 1038a6c309e7SHong Zhang PetscScalar mone=-1.0; 10398a729477SBarry Smith 10403a40ed3dSBarry Smith PetscFunctionBegin; 104177431f27SBarry Smith if (its <= 0 || lits <= 0) SETERRQ2(PETSC_ERR_ARG_WRONG,"Relaxation requires global its %D and local its %D both positive",its,lits); 1042c14dc6b6SHong Zhang 1043c14dc6b6SHong Zhang ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr); 10442798e883SHong Zhang 1045c16cb8f2SBarry Smith if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP){ 1046da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1047bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,lits,xx);CHKERRQ(ierr); 10482798e883SHong Zhang its--; 1049da3a660dSBarry Smith } 10502798e883SHong Zhang 10512798e883SHong Zhang while (its--) { 10523a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10533a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10542798e883SHong Zhang 1055c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1056c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1057c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10582798e883SHong Zhang 1059c14dc6b6SHong Zhang /* local sweep */ 1060bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,lits,xx); 1061c14dc6b6SHong Zhang CHKERRQ(ierr); 10622798e883SHong Zhang } 10633a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_FORWARD_SWEEP){ 1064da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1065c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10662798e883SHong Zhang its--; 1067da3a660dSBarry Smith } 10682798e883SHong Zhang while (its--) { 10693a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10703a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10712798e883SHong Zhang 1072c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1073c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1074c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 1075c14dc6b6SHong Zhang 1076c14dc6b6SHong Zhang /* local sweep */ 1077a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 1078c14dc6b6SHong Zhang CHKERRQ(ierr); 10792798e883SHong Zhang } 10803a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_BACKWARD_SWEEP){ 1081da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1082c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10832798e883SHong Zhang its--; 1084da3a660dSBarry Smith } 10852798e883SHong Zhang while (its--) { 10862e8a6d31SBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10872e8a6d31SBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10882798e883SHong Zhang 1089c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1090c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1091c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10922798e883SHong Zhang 1093c14dc6b6SHong Zhang /* local sweep */ 1094a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 1095c14dc6b6SHong Zhang CHKERRQ(ierr); 10962798e883SHong Zhang } 10973a40ed3dSBarry Smith } else { 109829bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Parallel SOR not supported"); 1099c16cb8f2SBarry Smith } 1100c14dc6b6SHong Zhang 1101c14dc6b6SHong Zhang ierr = VecDestroy(bb1);CHKERRQ(ierr); 11023a40ed3dSBarry Smith PetscFunctionReturn(0); 11038a729477SBarry Smith } 1104a66be287SLois Curfman McInnes 11054a2ae208SSatish Balay #undef __FUNCT__ 11064a2ae208SSatish Balay #define __FUNCT__ "MatGetInfo_MPIAIJ" 1107dfbe8321SBarry Smith PetscErrorCode MatGetInfo_MPIAIJ(Mat matin,MatInfoType flag,MatInfo *info) 1108a66be287SLois Curfman McInnes { 1109a66be287SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1110a66be287SLois Curfman McInnes Mat A = mat->A,B = mat->B; 1111dfbe8321SBarry Smith PetscErrorCode ierr; 1112329f5518SBarry Smith PetscReal isend[5],irecv[5]; 1113a66be287SLois Curfman McInnes 11143a40ed3dSBarry Smith PetscFunctionBegin; 11154e220ebcSLois Curfman McInnes info->block_size = 1.0; 11164e220ebcSLois Curfman McInnes ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr); 11174e220ebcSLois Curfman McInnes isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 11184e220ebcSLois Curfman McInnes isend[3] = info->memory; isend[4] = info->mallocs; 11194e220ebcSLois Curfman McInnes ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr); 11204e220ebcSLois Curfman McInnes isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded; 11214e220ebcSLois Curfman McInnes isend[3] += info->memory; isend[4] += info->mallocs; 1122a66be287SLois Curfman McInnes if (flag == MAT_LOCAL) { 11234e220ebcSLois Curfman McInnes info->nz_used = isend[0]; 11244e220ebcSLois Curfman McInnes info->nz_allocated = isend[1]; 11254e220ebcSLois Curfman McInnes info->nz_unneeded = isend[2]; 11264e220ebcSLois Curfman McInnes info->memory = isend[3]; 11274e220ebcSLois Curfman McInnes info->mallocs = isend[4]; 1128a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_MAX) { 1129d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,matin->comm);CHKERRQ(ierr); 11304e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11314e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11324e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11334e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11344e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1135a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_SUM) { 1136d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,matin->comm);CHKERRQ(ierr); 11374e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11384e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11394e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11404e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11414e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1142a66be287SLois Curfman McInnes } 11434e220ebcSLois Curfman McInnes info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 11444e220ebcSLois Curfman McInnes info->fill_ratio_needed = 0; 11454e220ebcSLois Curfman McInnes info->factor_mallocs = 0; 1146273d9f13SBarry Smith info->rows_global = (double)matin->M; 1147273d9f13SBarry Smith info->columns_global = (double)matin->N; 1148273d9f13SBarry Smith info->rows_local = (double)matin->m; 1149273d9f13SBarry Smith info->columns_local = (double)matin->N; 11504e220ebcSLois Curfman McInnes 11513a40ed3dSBarry Smith PetscFunctionReturn(0); 1152a66be287SLois Curfman McInnes } 1153a66be287SLois Curfman McInnes 11544a2ae208SSatish Balay #undef __FUNCT__ 11554a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_MPIAIJ" 1156dfbe8321SBarry Smith PetscErrorCode MatSetOption_MPIAIJ(Mat A,MatOption op) 1157c74985f6SBarry Smith { 1158c0bbcb79SLois Curfman McInnes Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1159dfbe8321SBarry Smith PetscErrorCode ierr; 1160c74985f6SBarry Smith 11613a40ed3dSBarry Smith PetscFunctionBegin; 116212c028f9SKris Buschelman switch (op) { 116312c028f9SKris Buschelman case MAT_NO_NEW_NONZERO_LOCATIONS: 116412c028f9SKris Buschelman case MAT_YES_NEW_NONZERO_LOCATIONS: 116512c028f9SKris Buschelman case MAT_COLUMNS_UNSORTED: 116612c028f9SKris Buschelman case MAT_COLUMNS_SORTED: 116712c028f9SKris Buschelman case MAT_NEW_NONZERO_ALLOCATION_ERR: 116812c028f9SKris Buschelman case MAT_KEEP_ZEROED_ROWS: 116912c028f9SKris Buschelman case MAT_NEW_NONZERO_LOCATION_ERR: 117012c028f9SKris Buschelman case MAT_USE_INODES: 117112c028f9SKris Buschelman case MAT_DO_NOT_USE_INODES: 117212c028f9SKris Buschelman case MAT_IGNORE_ZERO_ENTRIES: 11731dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11741dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 117512c028f9SKris Buschelman break; 117612c028f9SKris Buschelman case MAT_ROW_ORIENTED: 11777c922b88SBarry Smith a->roworiented = PETSC_TRUE; 11781dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11791dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 118012c028f9SKris Buschelman break; 118112c028f9SKris Buschelman case MAT_ROWS_SORTED: 118212c028f9SKris Buschelman case MAT_ROWS_UNSORTED: 118312c028f9SKris Buschelman case MAT_YES_NEW_DIAGONALS: 1184b0a32e0cSBarry Smith PetscLogInfo(A,"MatSetOption_MPIAIJ:Option ignored\n"); 118512c028f9SKris Buschelman break; 118612c028f9SKris Buschelman case MAT_COLUMN_ORIENTED: 11877c922b88SBarry Smith a->roworiented = PETSC_FALSE; 11881dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11891dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 119012c028f9SKris Buschelman break; 119112c028f9SKris Buschelman case MAT_IGNORE_OFF_PROC_ENTRIES: 11927c922b88SBarry Smith a->donotstash = PETSC_TRUE; 119312c028f9SKris Buschelman break; 119412c028f9SKris Buschelman case MAT_NO_NEW_DIAGONALS: 119529bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MAT_NO_NEW_DIAGONALS"); 119677e54ba9SKris Buschelman case MAT_SYMMETRIC: 119777e54ba9SKris Buschelman case MAT_STRUCTURALLY_SYMMETRIC: 1198bf108f30SBarry Smith case MAT_HERMITIAN: 1199bf108f30SBarry Smith case MAT_SYMMETRY_ETERNAL: 1200bf108f30SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 1201bf108f30SBarry Smith break; 12029a4540c5SBarry Smith case MAT_NOT_SYMMETRIC: 12039a4540c5SBarry Smith case MAT_NOT_STRUCTURALLY_SYMMETRIC: 12049a4540c5SBarry Smith case MAT_NOT_HERMITIAN: 12059a4540c5SBarry Smith case MAT_NOT_SYMMETRY_ETERNAL: 120677e54ba9SKris Buschelman break; 120712c028f9SKris Buschelman default: 120829bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"unknown option"); 12093a40ed3dSBarry Smith } 12103a40ed3dSBarry Smith PetscFunctionReturn(0); 1211c74985f6SBarry Smith } 1212c74985f6SBarry Smith 12134a2ae208SSatish Balay #undef __FUNCT__ 12144a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_MPIAIJ" 1215b1d57f15SBarry Smith PetscErrorCode MatGetRow_MPIAIJ(Mat matin,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 121639e00950SLois Curfman McInnes { 1217154123eaSLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 121887828ca2SBarry Smith PetscScalar *vworkA,*vworkB,**pvA,**pvB,*v_p; 12196849ba73SBarry Smith PetscErrorCode ierr; 1220b1d57f15SBarry Smith PetscInt i,*cworkA,*cworkB,**pcA,**pcB,cstart = mat->cstart; 1221b1d57f15SBarry Smith PetscInt nztot,nzA,nzB,lrow,rstart = mat->rstart,rend = mat->rend; 1222b1d57f15SBarry Smith PetscInt *cmap,*idx_p; 122339e00950SLois Curfman McInnes 12243a40ed3dSBarry Smith PetscFunctionBegin; 122529bbc08cSBarry Smith if (mat->getrowactive == PETSC_TRUE) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Already active"); 12267a0afa10SBarry Smith mat->getrowactive = PETSC_TRUE; 12277a0afa10SBarry Smith 122870f0671dSBarry Smith if (!mat->rowvalues && (idx || v)) { 12297a0afa10SBarry Smith /* 12307a0afa10SBarry Smith allocate enough space to hold information from the longest row. 12317a0afa10SBarry Smith */ 12327a0afa10SBarry Smith Mat_SeqAIJ *Aa = (Mat_SeqAIJ*)mat->A->data,*Ba = (Mat_SeqAIJ*)mat->B->data; 1233b1d57f15SBarry Smith PetscInt max = 1,tmp; 1234273d9f13SBarry Smith for (i=0; i<matin->m; i++) { 12357a0afa10SBarry Smith tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i]; 12367a0afa10SBarry Smith if (max < tmp) { max = tmp; } 12377a0afa10SBarry Smith } 1238b1d57f15SBarry Smith ierr = PetscMalloc(max*(sizeof(PetscInt)+sizeof(PetscScalar)),&mat->rowvalues);CHKERRQ(ierr); 1239b1d57f15SBarry Smith mat->rowindices = (PetscInt*)(mat->rowvalues + max); 12407a0afa10SBarry Smith } 12417a0afa10SBarry Smith 124229bbc08cSBarry Smith if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Only local rows") 1243abc0e9e4SLois Curfman McInnes lrow = row - rstart; 124439e00950SLois Curfman McInnes 1245154123eaSLois Curfman McInnes pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB; 1246154123eaSLois Curfman McInnes if (!v) {pvA = 0; pvB = 0;} 1247154123eaSLois Curfman McInnes if (!idx) {pcA = 0; if (!v) pcB = 0;} 1248f830108cSBarry Smith ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1249f830108cSBarry Smith ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 1250154123eaSLois Curfman McInnes nztot = nzA + nzB; 1251154123eaSLois Curfman McInnes 125270f0671dSBarry Smith cmap = mat->garray; 1253154123eaSLois Curfman McInnes if (v || idx) { 1254154123eaSLois Curfman McInnes if (nztot) { 1255154123eaSLois Curfman McInnes /* Sort by increasing column numbers, assuming A and B already sorted */ 1256b1d57f15SBarry Smith PetscInt imark = -1; 1257154123eaSLois Curfman McInnes if (v) { 125870f0671dSBarry Smith *v = v_p = mat->rowvalues; 125939e00950SLois Curfman McInnes for (i=0; i<nzB; i++) { 126070f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) v_p[i] = vworkB[i]; 1261154123eaSLois Curfman McInnes else break; 1262154123eaSLois Curfman McInnes } 1263154123eaSLois Curfman McInnes imark = i; 126470f0671dSBarry Smith for (i=0; i<nzA; i++) v_p[imark+i] = vworkA[i]; 126570f0671dSBarry Smith for (i=imark; i<nzB; i++) v_p[nzA+i] = vworkB[i]; 1266154123eaSLois Curfman McInnes } 1267154123eaSLois Curfman McInnes if (idx) { 126870f0671dSBarry Smith *idx = idx_p = mat->rowindices; 126970f0671dSBarry Smith if (imark > -1) { 127070f0671dSBarry Smith for (i=0; i<imark; i++) { 127170f0671dSBarry Smith idx_p[i] = cmap[cworkB[i]]; 127270f0671dSBarry Smith } 127370f0671dSBarry Smith } else { 1274154123eaSLois Curfman McInnes for (i=0; i<nzB; i++) { 127570f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) idx_p[i] = cmap[cworkB[i]]; 1276154123eaSLois Curfman McInnes else break; 1277154123eaSLois Curfman McInnes } 1278154123eaSLois Curfman McInnes imark = i; 127970f0671dSBarry Smith } 128070f0671dSBarry Smith for (i=0; i<nzA; i++) idx_p[imark+i] = cstart + cworkA[i]; 128170f0671dSBarry Smith for (i=imark; i<nzB; i++) idx_p[nzA+i] = cmap[cworkB[i]]; 128239e00950SLois Curfman McInnes } 12833f97c4b0SBarry Smith } else { 12841ca473b0SSatish Balay if (idx) *idx = 0; 12851ca473b0SSatish Balay if (v) *v = 0; 12861ca473b0SSatish Balay } 1287154123eaSLois Curfman McInnes } 128839e00950SLois Curfman McInnes *nz = nztot; 1289f830108cSBarry Smith ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1290f830108cSBarry Smith ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 12913a40ed3dSBarry Smith PetscFunctionReturn(0); 129239e00950SLois Curfman McInnes } 129339e00950SLois Curfman McInnes 12944a2ae208SSatish Balay #undef __FUNCT__ 12954a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_MPIAIJ" 1296b1d57f15SBarry Smith PetscErrorCode MatRestoreRow_MPIAIJ(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 129739e00950SLois Curfman McInnes { 12987a0afa10SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 12993a40ed3dSBarry Smith 13003a40ed3dSBarry Smith PetscFunctionBegin; 13017a0afa10SBarry Smith if (aij->getrowactive == PETSC_FALSE) { 130229bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"MatGetRow not called"); 13037a0afa10SBarry Smith } 13047a0afa10SBarry Smith aij->getrowactive = PETSC_FALSE; 13053a40ed3dSBarry Smith PetscFunctionReturn(0); 130639e00950SLois Curfman McInnes } 130739e00950SLois Curfman McInnes 13084a2ae208SSatish Balay #undef __FUNCT__ 13094a2ae208SSatish Balay #define __FUNCT__ "MatNorm_MPIAIJ" 1310dfbe8321SBarry Smith PetscErrorCode MatNorm_MPIAIJ(Mat mat,NormType type,PetscReal *norm) 1311855ac2c5SLois Curfman McInnes { 1312855ac2c5SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 1313ec8511deSBarry Smith Mat_SeqAIJ *amat = (Mat_SeqAIJ*)aij->A->data,*bmat = (Mat_SeqAIJ*)aij->B->data; 1314dfbe8321SBarry Smith PetscErrorCode ierr; 1315b1d57f15SBarry Smith PetscInt i,j,cstart = aij->cstart; 1316329f5518SBarry Smith PetscReal sum = 0.0; 131787828ca2SBarry Smith PetscScalar *v; 131804ca555eSLois Curfman McInnes 13193a40ed3dSBarry Smith PetscFunctionBegin; 132017699dbbSLois Curfman McInnes if (aij->size == 1) { 132114183eadSLois Curfman McInnes ierr = MatNorm(aij->A,type,norm);CHKERRQ(ierr); 132237fa93a5SLois Curfman McInnes } else { 132304ca555eSLois Curfman McInnes if (type == NORM_FROBENIUS) { 132404ca555eSLois Curfman McInnes v = amat->a; 132504ca555eSLois Curfman McInnes for (i=0; i<amat->nz; i++) { 1326aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1327329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 132804ca555eSLois Curfman McInnes #else 132904ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 133004ca555eSLois Curfman McInnes #endif 133104ca555eSLois Curfman McInnes } 133204ca555eSLois Curfman McInnes v = bmat->a; 133304ca555eSLois Curfman McInnes for (i=0; i<bmat->nz; i++) { 1334aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1335329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 133604ca555eSLois Curfman McInnes #else 133704ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 133804ca555eSLois Curfman McInnes #endif 133904ca555eSLois Curfman McInnes } 1340d7d1e502SBarry Smith ierr = MPI_Allreduce(&sum,norm,1,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 134104ca555eSLois Curfman McInnes *norm = sqrt(*norm); 13423a40ed3dSBarry Smith } else if (type == NORM_1) { /* max column norm */ 1343329f5518SBarry Smith PetscReal *tmp,*tmp2; 1344b1d57f15SBarry Smith PetscInt *jj,*garray = aij->garray; 1345b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp);CHKERRQ(ierr); 1346b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp2);CHKERRQ(ierr); 1347273d9f13SBarry Smith ierr = PetscMemzero(tmp,mat->N*sizeof(PetscReal));CHKERRQ(ierr); 134804ca555eSLois Curfman McInnes *norm = 0.0; 134904ca555eSLois Curfman McInnes v = amat->a; jj = amat->j; 135004ca555eSLois Curfman McInnes for (j=0; j<amat->nz; j++) { 1351bfec09a0SHong Zhang tmp[cstart + *jj++ ] += PetscAbsScalar(*v); v++; 135204ca555eSLois Curfman McInnes } 135304ca555eSLois Curfman McInnes v = bmat->a; jj = bmat->j; 135404ca555eSLois Curfman McInnes for (j=0; j<bmat->nz; j++) { 1355bfec09a0SHong Zhang tmp[garray[*jj++]] += PetscAbsScalar(*v); v++; 135604ca555eSLois Curfman McInnes } 1357d7d1e502SBarry Smith ierr = MPI_Allreduce(tmp,tmp2,mat->N,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 1358273d9f13SBarry Smith for (j=0; j<mat->N; j++) { 135904ca555eSLois Curfman McInnes if (tmp2[j] > *norm) *norm = tmp2[j]; 136004ca555eSLois Curfman McInnes } 1361606d414cSSatish Balay ierr = PetscFree(tmp);CHKERRQ(ierr); 1362606d414cSSatish Balay ierr = PetscFree(tmp2);CHKERRQ(ierr); 13633a40ed3dSBarry Smith } else if (type == NORM_INFINITY) { /* max row norm */ 1364329f5518SBarry Smith PetscReal ntemp = 0.0; 1365273d9f13SBarry Smith for (j=0; j<aij->A->m; j++) { 1366bfec09a0SHong Zhang v = amat->a + amat->i[j]; 136704ca555eSLois Curfman McInnes sum = 0.0; 136804ca555eSLois Curfman McInnes for (i=0; i<amat->i[j+1]-amat->i[j]; i++) { 1369cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 137004ca555eSLois Curfman McInnes } 1371bfec09a0SHong Zhang v = bmat->a + bmat->i[j]; 137204ca555eSLois Curfman McInnes for (i=0; i<bmat->i[j+1]-bmat->i[j]; i++) { 1373cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 137404ca555eSLois Curfman McInnes } 1375515d9167SLois Curfman McInnes if (sum > ntemp) ntemp = sum; 137604ca555eSLois Curfman McInnes } 1377d7d1e502SBarry Smith ierr = MPI_Allreduce(&ntemp,norm,1,MPIU_REAL,MPI_MAX,mat->comm);CHKERRQ(ierr); 1378ca161407SBarry Smith } else { 137929bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"No support for two norm"); 138004ca555eSLois Curfman McInnes } 138137fa93a5SLois Curfman McInnes } 13823a40ed3dSBarry Smith PetscFunctionReturn(0); 1383855ac2c5SLois Curfman McInnes } 1384855ac2c5SLois Curfman McInnes 13854a2ae208SSatish Balay #undef __FUNCT__ 13864a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_MPIAIJ" 1387dfbe8321SBarry Smith PetscErrorCode MatTranspose_MPIAIJ(Mat A,Mat *matout) 1388b7c46309SBarry Smith { 1389b7c46309SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1390dbb450caSBarry Smith Mat_SeqAIJ *Aloc = (Mat_SeqAIJ*)a->A->data; 1391dfbe8321SBarry Smith PetscErrorCode ierr; 1392b1d57f15SBarry Smith PetscInt M = A->M,N = A->N,m,*ai,*aj,row,*cols,i,*ct; 13933a40ed3dSBarry Smith Mat B; 139487828ca2SBarry Smith PetscScalar *array; 1395b7c46309SBarry Smith 13963a40ed3dSBarry Smith PetscFunctionBegin; 13977c922b88SBarry Smith if (!matout && M != N) { 139829bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"Square matrix only for in-place"); 1399d4bb536fSBarry Smith } 1400d4bb536fSBarry Smith 1401f204ca49SKris Buschelman ierr = MatCreate(A->comm,A->n,A->m,N,M,&B);CHKERRQ(ierr); 1402f204ca49SKris Buschelman ierr = MatSetType(B,A->type_name);CHKERRQ(ierr); 1403f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(B,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 1404b7c46309SBarry Smith 1405b7c46309SBarry Smith /* copy over the A part */ 1406ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->A->data; 1407273d9f13SBarry Smith m = a->A->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1408b7c46309SBarry Smith row = a->rstart; 1409bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] += a->cstart ;} 1410b7c46309SBarry Smith for (i=0; i<m; i++) { 1411416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],aj,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1412b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 1413b7c46309SBarry Smith } 1414b7c46309SBarry Smith aj = Aloc->j; 1415bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] -= a->cstart ;} 1416b7c46309SBarry Smith 1417b7c46309SBarry Smith /* copy over the B part */ 1418ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->B->data; 1419273d9f13SBarry Smith m = a->B->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1420b7c46309SBarry Smith row = a->rstart; 1421b1d57f15SBarry Smith ierr = PetscMalloc((1+ai[m])*sizeof(PetscInt),&cols);CHKERRQ(ierr); 1422b0a32e0cSBarry Smith ct = cols; 1423bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = a->garray[aj[i]];} 1424b7c46309SBarry Smith for (i=0; i<m; i++) { 1425416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],cols,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1426b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 1427b7c46309SBarry Smith } 1428606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 14296d4a8577SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14306d4a8577SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14317c922b88SBarry Smith if (matout) { 14320de55854SLois Curfman McInnes *matout = B; 14330de55854SLois Curfman McInnes } else { 1434273d9f13SBarry Smith ierr = MatHeaderCopy(A,B);CHKERRQ(ierr); 14350de55854SLois Curfman McInnes } 14363a40ed3dSBarry Smith PetscFunctionReturn(0); 1437b7c46309SBarry Smith } 1438b7c46309SBarry Smith 14394a2ae208SSatish Balay #undef __FUNCT__ 14404a2ae208SSatish Balay #define __FUNCT__ "MatDiagonalScale_MPIAIJ" 1441dfbe8321SBarry Smith PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat,Vec ll,Vec rr) 1442a008b906SSatish Balay { 14434b967eb1SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 14444b967eb1SSatish Balay Mat a = aij->A,b = aij->B; 1445dfbe8321SBarry Smith PetscErrorCode ierr; 1446b1d57f15SBarry Smith PetscInt s1,s2,s3; 1447a008b906SSatish Balay 14483a40ed3dSBarry Smith PetscFunctionBegin; 14494b967eb1SSatish Balay ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr); 14504b967eb1SSatish Balay if (rr) { 1451e1311b90SBarry Smith ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr); 145229bbc08cSBarry Smith if (s1!=s3) SETERRQ(PETSC_ERR_ARG_SIZ,"right vector non-conforming local size"); 14534b967eb1SSatish Balay /* Overlap communication with computation. */ 145443a90d84SBarry Smith ierr = VecScatterBegin(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1455a008b906SSatish Balay } 14564b967eb1SSatish Balay if (ll) { 1457e1311b90SBarry Smith ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr); 145829bbc08cSBarry Smith if (s1!=s2) SETERRQ(PETSC_ERR_ARG_SIZ,"left vector non-conforming local size"); 1459f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,ll,0);CHKERRQ(ierr); 14604b967eb1SSatish Balay } 14614b967eb1SSatish Balay /* scale the diagonal block */ 1462f830108cSBarry Smith ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr); 14634b967eb1SSatish Balay 14644b967eb1SSatish Balay if (rr) { 14654b967eb1SSatish Balay /* Do a scatter end and then right scale the off-diagonal block */ 146643a90d84SBarry Smith ierr = VecScatterEnd(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1467f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,0,aij->lvec);CHKERRQ(ierr); 14684b967eb1SSatish Balay } 14694b967eb1SSatish Balay 14703a40ed3dSBarry Smith PetscFunctionReturn(0); 1471a008b906SSatish Balay } 1472a008b906SSatish Balay 1473a008b906SSatish Balay 14744a2ae208SSatish Balay #undef __FUNCT__ 14754a2ae208SSatish Balay #define __FUNCT__ "MatPrintHelp_MPIAIJ" 1476dfbe8321SBarry Smith PetscErrorCode MatPrintHelp_MPIAIJ(Mat A) 1477682d7d0cSBarry Smith { 1478682d7d0cSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1479dfbe8321SBarry Smith PetscErrorCode ierr; 1480682d7d0cSBarry Smith 14813a40ed3dSBarry Smith PetscFunctionBegin; 14823a40ed3dSBarry Smith if (!a->rank) { 14833a40ed3dSBarry Smith ierr = MatPrintHelp_SeqAIJ(a->A);CHKERRQ(ierr); 14843a40ed3dSBarry Smith } 14853a40ed3dSBarry Smith PetscFunctionReturn(0); 1486682d7d0cSBarry Smith } 1487682d7d0cSBarry Smith 14884a2ae208SSatish Balay #undef __FUNCT__ 1489521d7252SBarry Smith #define __FUNCT__ "MatSetBlockSize_MPIAIJ" 1490521d7252SBarry Smith PetscErrorCode MatSetBlockSize_MPIAIJ(Mat A,PetscInt bs) 14915a838052SSatish Balay { 1492521d7252SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1493521d7252SBarry Smith PetscErrorCode ierr; 1494521d7252SBarry Smith 14953a40ed3dSBarry Smith PetscFunctionBegin; 1496521d7252SBarry Smith ierr = MatSetBlockSize(a->A,bs);CHKERRQ(ierr); 1497521d7252SBarry Smith ierr = MatSetBlockSize(a->B,bs);CHKERRQ(ierr); 14983a40ed3dSBarry Smith PetscFunctionReturn(0); 14995a838052SSatish Balay } 15004a2ae208SSatish Balay #undef __FUNCT__ 15014a2ae208SSatish Balay #define __FUNCT__ "MatSetUnfactored_MPIAIJ" 1502dfbe8321SBarry Smith PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A) 1503bb5a7306SBarry Smith { 1504bb5a7306SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1505dfbe8321SBarry Smith PetscErrorCode ierr; 15063a40ed3dSBarry Smith 15073a40ed3dSBarry Smith PetscFunctionBegin; 1508bb5a7306SBarry Smith ierr = MatSetUnfactored(a->A);CHKERRQ(ierr); 15093a40ed3dSBarry Smith PetscFunctionReturn(0); 1510bb5a7306SBarry Smith } 1511bb5a7306SBarry Smith 15124a2ae208SSatish Balay #undef __FUNCT__ 15134a2ae208SSatish Balay #define __FUNCT__ "MatEqual_MPIAIJ" 1514dfbe8321SBarry Smith PetscErrorCode MatEqual_MPIAIJ(Mat A,Mat B,PetscTruth *flag) 1515d4bb536fSBarry Smith { 1516d4bb536fSBarry Smith Mat_MPIAIJ *matB = (Mat_MPIAIJ*)B->data,*matA = (Mat_MPIAIJ*)A->data; 1517d4bb536fSBarry Smith Mat a,b,c,d; 1518d4bb536fSBarry Smith PetscTruth flg; 1519dfbe8321SBarry Smith PetscErrorCode ierr; 1520d4bb536fSBarry Smith 15213a40ed3dSBarry Smith PetscFunctionBegin; 1522d4bb536fSBarry Smith a = matA->A; b = matA->B; 1523d4bb536fSBarry Smith c = matB->A; d = matB->B; 1524d4bb536fSBarry Smith 1525d4bb536fSBarry Smith ierr = MatEqual(a,c,&flg);CHKERRQ(ierr); 1526d4bb536fSBarry Smith if (flg == PETSC_TRUE) { 1527d4bb536fSBarry Smith ierr = MatEqual(b,d,&flg);CHKERRQ(ierr); 1528d4bb536fSBarry Smith } 1529ca161407SBarry Smith ierr = MPI_Allreduce(&flg,flag,1,MPI_INT,MPI_LAND,A->comm);CHKERRQ(ierr); 15303a40ed3dSBarry Smith PetscFunctionReturn(0); 1531d4bb536fSBarry Smith } 1532d4bb536fSBarry Smith 15334a2ae208SSatish Balay #undef __FUNCT__ 15344a2ae208SSatish Balay #define __FUNCT__ "MatCopy_MPIAIJ" 1535dfbe8321SBarry Smith PetscErrorCode MatCopy_MPIAIJ(Mat A,Mat B,MatStructure str) 1536cb5b572fSBarry Smith { 1537dfbe8321SBarry Smith PetscErrorCode ierr; 1538cb5b572fSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1539cb5b572fSBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 1540cb5b572fSBarry Smith 1541cb5b572fSBarry Smith PetscFunctionBegin; 154233f4a19fSKris Buschelman /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */ 154333f4a19fSKris Buschelman if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) { 1544cb5b572fSBarry Smith /* because of the column compression in the off-processor part of the matrix a->B, 1545cb5b572fSBarry Smith the number of columns in a->B and b->B may be different, hence we cannot call 1546cb5b572fSBarry Smith the MatCopy() directly on the two parts. If need be, we can provide a more 1547cb5b572fSBarry Smith efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices 1548cb5b572fSBarry Smith then copying the submatrices */ 1549cb5b572fSBarry Smith ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr); 1550cb5b572fSBarry Smith } else { 1551cb5b572fSBarry Smith ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 1552cb5b572fSBarry Smith ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr); 1553cb5b572fSBarry Smith } 1554cb5b572fSBarry Smith PetscFunctionReturn(0); 1555cb5b572fSBarry Smith } 1556cb5b572fSBarry Smith 15574a2ae208SSatish Balay #undef __FUNCT__ 15584a2ae208SSatish Balay #define __FUNCT__ "MatSetUpPreallocation_MPIAIJ" 1559dfbe8321SBarry Smith PetscErrorCode MatSetUpPreallocation_MPIAIJ(Mat A) 1560273d9f13SBarry Smith { 1561dfbe8321SBarry Smith PetscErrorCode ierr; 1562273d9f13SBarry Smith 1563273d9f13SBarry Smith PetscFunctionBegin; 1564273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(A,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr); 1565273d9f13SBarry Smith PetscFunctionReturn(0); 1566273d9f13SBarry Smith } 1567273d9f13SBarry Smith 1568ac90fabeSBarry Smith #include "petscblaslapack.h" 1569ac90fabeSBarry Smith #undef __FUNCT__ 1570ac90fabeSBarry Smith #define __FUNCT__ "MatAXPY_MPIAIJ" 1571dfbe8321SBarry Smith PetscErrorCode MatAXPY_MPIAIJ(const PetscScalar a[],Mat X,Mat Y,MatStructure str) 1572ac90fabeSBarry Smith { 1573dfbe8321SBarry Smith PetscErrorCode ierr; 1574b1d57f15SBarry Smith PetscInt i; 1575ac90fabeSBarry Smith Mat_MPIAIJ *xx = (Mat_MPIAIJ *)X->data,*yy = (Mat_MPIAIJ *)Y->data; 15764ce68768SBarry Smith PetscBLASInt bnz,one=1; 1577ac90fabeSBarry Smith Mat_SeqAIJ *x,*y; 1578ac90fabeSBarry Smith 1579ac90fabeSBarry Smith PetscFunctionBegin; 1580ac90fabeSBarry Smith if (str == SAME_NONZERO_PATTERN) { 1581ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->A->data; 1582ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->A->data; 15834ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 15844ce68768SBarry Smith BLaxpy_(&bnz,(PetscScalar*)a,x->a,&one,y->a,&one); 1585ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->B->data; 1586ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->B->data; 15874ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 15884ce68768SBarry Smith BLaxpy_(&bnz,(PetscScalar*)a,x->a,&one,y->a,&one); 1589a30b2313SHong Zhang } else if (str == SUBSET_NONZERO_PATTERN) { 1590c537a176SHong Zhang ierr = MatAXPY_SeqAIJ(a,xx->A,yy->A,str);CHKERRQ(ierr); 1591c537a176SHong Zhang 1592c537a176SHong Zhang x = (Mat_SeqAIJ *)xx->B->data; 1593a30b2313SHong Zhang y = (Mat_SeqAIJ *)yy->B->data; 1594a30b2313SHong Zhang if (y->xtoy && y->XtoY != xx->B) { 1595a30b2313SHong Zhang ierr = PetscFree(y->xtoy);CHKERRQ(ierr); 1596a30b2313SHong Zhang ierr = MatDestroy(y->XtoY);CHKERRQ(ierr); 1597c537a176SHong Zhang } 1598a30b2313SHong Zhang if (!y->xtoy) { /* get xtoy */ 159924f910e3SHong Zhang ierr = MatAXPYGetxtoy_Private(xx->B->m,x->i,x->j,xx->garray,y->i,y->j,yy->garray,&y->xtoy);CHKERRQ(ierr); 1600a30b2313SHong Zhang y->XtoY = xx->B; 1601c537a176SHong Zhang } 1602a30b2313SHong Zhang for (i=0; i<x->nz; i++) y->a[y->xtoy[i]] += (*a)*(x->a[i]); 1603ac90fabeSBarry Smith } else { 1604ac90fabeSBarry Smith ierr = MatAXPY_Basic(a,X,Y,str);CHKERRQ(ierr); 1605ac90fabeSBarry Smith } 1606ac90fabeSBarry Smith PetscFunctionReturn(0); 1607ac90fabeSBarry Smith } 1608ac90fabeSBarry Smith 16098a729477SBarry Smith /* -------------------------------------------------------------------*/ 1610cda55fadSBarry Smith static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ, 1611cda55fadSBarry Smith MatGetRow_MPIAIJ, 1612cda55fadSBarry Smith MatRestoreRow_MPIAIJ, 1613cda55fadSBarry Smith MatMult_MPIAIJ, 161497304618SKris Buschelman /* 4*/ MatMultAdd_MPIAIJ, 16157c922b88SBarry Smith MatMultTranspose_MPIAIJ, 16167c922b88SBarry Smith MatMultTransposeAdd_MPIAIJ, 1617cda55fadSBarry Smith 0, 1618cda55fadSBarry Smith 0, 1619cda55fadSBarry Smith 0, 162097304618SKris Buschelman /*10*/ 0, 1621cda55fadSBarry Smith 0, 1622cda55fadSBarry Smith 0, 162344a69424SLois Curfman McInnes MatRelax_MPIAIJ, 1624b7c46309SBarry Smith MatTranspose_MPIAIJ, 162597304618SKris Buschelman /*15*/ MatGetInfo_MPIAIJ, 1626cda55fadSBarry Smith MatEqual_MPIAIJ, 1627cda55fadSBarry Smith MatGetDiagonal_MPIAIJ, 1628cda55fadSBarry Smith MatDiagonalScale_MPIAIJ, 1629cda55fadSBarry Smith MatNorm_MPIAIJ, 163097304618SKris Buschelman /*20*/ MatAssemblyBegin_MPIAIJ, 1631cda55fadSBarry Smith MatAssemblyEnd_MPIAIJ, 16321eb62cbbSBarry Smith 0, 1633cda55fadSBarry Smith MatSetOption_MPIAIJ, 1634cda55fadSBarry Smith MatZeroEntries_MPIAIJ, 163597304618SKris Buschelman /*25*/ MatZeroRows_MPIAIJ, 1636cda55fadSBarry Smith 0, 1637cda55fadSBarry Smith 0, 1638cda55fadSBarry Smith 0, 1639cda55fadSBarry Smith 0, 164097304618SKris Buschelman /*30*/ MatSetUpPreallocation_MPIAIJ, 1641cda55fadSBarry Smith 0, 1642cda55fadSBarry Smith 0, 1643cda55fadSBarry Smith 0, 1644cda55fadSBarry Smith 0, 164597304618SKris Buschelman /*35*/ MatDuplicate_MPIAIJ, 1646cda55fadSBarry Smith 0, 1647cda55fadSBarry Smith 0, 1648cda55fadSBarry Smith 0, 1649cda55fadSBarry Smith 0, 165097304618SKris Buschelman /*40*/ MatAXPY_MPIAIJ, 1651cda55fadSBarry Smith MatGetSubMatrices_MPIAIJ, 1652cda55fadSBarry Smith MatIncreaseOverlap_MPIAIJ, 1653cda55fadSBarry Smith MatGetValues_MPIAIJ, 1654cb5b572fSBarry Smith MatCopy_MPIAIJ, 165597304618SKris Buschelman /*45*/ MatPrintHelp_MPIAIJ, 1656cda55fadSBarry Smith MatScale_MPIAIJ, 1657cda55fadSBarry Smith 0, 1658cda55fadSBarry Smith 0, 1659cda55fadSBarry Smith 0, 1660521d7252SBarry Smith /*50*/ MatSetBlockSize_MPIAIJ, 1661cda55fadSBarry Smith 0, 1662cda55fadSBarry Smith 0, 1663cda55fadSBarry Smith 0, 1664cda55fadSBarry Smith 0, 166597304618SKris Buschelman /*55*/ MatFDColoringCreate_MPIAIJ, 1666cda55fadSBarry Smith 0, 1667cda55fadSBarry Smith MatSetUnfactored_MPIAIJ, 1668cda55fadSBarry Smith 0, 1669cda55fadSBarry Smith 0, 167097304618SKris Buschelman /*60*/ MatGetSubMatrix_MPIAIJ, 1671e03a110bSBarry Smith MatDestroy_MPIAIJ, 1672e03a110bSBarry Smith MatView_MPIAIJ, 16738a124369SBarry Smith MatGetPetscMaps_Petsc, 1674a2243be0SBarry Smith 0, 167597304618SKris Buschelman /*65*/ 0, 1676a2243be0SBarry Smith 0, 1677a2243be0SBarry Smith 0, 1678a2243be0SBarry Smith 0, 1679a2243be0SBarry Smith 0, 168097304618SKris Buschelman /*70*/ 0, 1681a2243be0SBarry Smith 0, 1682a2243be0SBarry Smith MatSetColoring_MPIAIJ, 1683779c1a83SBarry Smith MatSetValuesAdic_MPIAIJ, 168497304618SKris Buschelman MatSetValuesAdifor_MPIAIJ, 168597304618SKris Buschelman /*75*/ 0, 168697304618SKris Buschelman 0, 168797304618SKris Buschelman 0, 168897304618SKris Buschelman 0, 168997304618SKris Buschelman 0, 169097304618SKris Buschelman /*80*/ 0, 169197304618SKris Buschelman 0, 169297304618SKris Buschelman 0, 169397304618SKris Buschelman 0, 169441acf15aSKris Buschelman /*84*/ MatLoad_MPIAIJ, 16956284ec50SHong Zhang 0, 16966284ec50SHong Zhang 0, 16976284ec50SHong Zhang 0, 16986284ec50SHong Zhang 0, 1699865e5f61SKris Buschelman 0, 1700865e5f61SKris Buschelman /*90*/ MatMatMult_MPIAIJ_MPIAIJ, 170126be0446SHong Zhang MatMatMultSymbolic_MPIAIJ_MPIAIJ, 170226be0446SHong Zhang MatMatMultNumeric_MPIAIJ_MPIAIJ, 1703ff134f7aSHong Zhang MatPtAP_MPIAIJ_MPIAIJ, 1704865e5f61SKris Buschelman MatPtAPSymbolic_MPIAIJ_MPIAIJ, 1705865e5f61SKris Buschelman /*95*/ MatPtAPNumeric_MPIAIJ_MPIAIJ, 1706865e5f61SKris Buschelman 0, 1707865e5f61SKris Buschelman 0, 1708865e5f61SKris Buschelman 0}; 170936ce4990SBarry Smith 17102e8a6d31SBarry Smith /* ----------------------------------------------------------------------------------------*/ 17112e8a6d31SBarry Smith 1712fb2e594dSBarry Smith EXTERN_C_BEGIN 17134a2ae208SSatish Balay #undef __FUNCT__ 17144a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_MPIAIJ" 1715dfbe8321SBarry Smith PetscErrorCode MatStoreValues_MPIAIJ(Mat mat) 17162e8a6d31SBarry Smith { 17172e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1718dfbe8321SBarry Smith PetscErrorCode ierr; 17192e8a6d31SBarry Smith 17202e8a6d31SBarry Smith PetscFunctionBegin; 17212e8a6d31SBarry Smith ierr = MatStoreValues(aij->A);CHKERRQ(ierr); 17222e8a6d31SBarry Smith ierr = MatStoreValues(aij->B);CHKERRQ(ierr); 17232e8a6d31SBarry Smith PetscFunctionReturn(0); 17242e8a6d31SBarry Smith } 1725fb2e594dSBarry Smith EXTERN_C_END 17262e8a6d31SBarry Smith 1727fb2e594dSBarry Smith EXTERN_C_BEGIN 17284a2ae208SSatish Balay #undef __FUNCT__ 17294a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_MPIAIJ" 1730dfbe8321SBarry Smith PetscErrorCode MatRetrieveValues_MPIAIJ(Mat mat) 17312e8a6d31SBarry Smith { 17322e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1733dfbe8321SBarry Smith PetscErrorCode ierr; 17342e8a6d31SBarry Smith 17352e8a6d31SBarry Smith PetscFunctionBegin; 17362e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr); 17372e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr); 17382e8a6d31SBarry Smith PetscFunctionReturn(0); 17392e8a6d31SBarry Smith } 1740fb2e594dSBarry Smith EXTERN_C_END 17418a729477SBarry Smith 1742e090d566SSatish Balay #include "petscpc.h" 174327508adbSBarry Smith EXTERN_C_BEGIN 17444a2ae208SSatish Balay #undef __FUNCT__ 1745a23d5eceSKris Buschelman #define __FUNCT__ "MatMPIAIJSetPreallocation_MPIAIJ" 1746b1d57f15SBarry Smith PetscErrorCode MatMPIAIJSetPreallocation_MPIAIJ(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 1747a23d5eceSKris Buschelman { 1748a23d5eceSKris Buschelman Mat_MPIAIJ *b; 1749dfbe8321SBarry Smith PetscErrorCode ierr; 1750b1d57f15SBarry Smith PetscInt i; 1751a23d5eceSKris Buschelman 1752a23d5eceSKris Buschelman PetscFunctionBegin; 1753a23d5eceSKris Buschelman B->preallocated = PETSC_TRUE; 1754a23d5eceSKris Buschelman if (d_nz == PETSC_DEFAULT || d_nz == PETSC_DECIDE) d_nz = 5; 1755a23d5eceSKris Buschelman if (o_nz == PETSC_DEFAULT || o_nz == PETSC_DECIDE) o_nz = 2; 175677431f27SBarry Smith if (d_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"d_nz cannot be less than 0: value %D",d_nz); 175777431f27SBarry Smith if (o_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"o_nz cannot be less than 0: value %D",o_nz); 1758a23d5eceSKris Buschelman if (d_nnz) { 1759a23d5eceSKris Buschelman for (i=0; i<B->m; i++) { 176077431f27SBarry 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]); 1761a23d5eceSKris Buschelman } 1762a23d5eceSKris Buschelman } 1763a23d5eceSKris Buschelman if (o_nnz) { 1764a23d5eceSKris Buschelman for (i=0; i<B->m; i++) { 176577431f27SBarry 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]); 1766a23d5eceSKris Buschelman } 1767a23d5eceSKris Buschelman } 1768a23d5eceSKris Buschelman b = (Mat_MPIAIJ*)B->data; 1769c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->A,d_nz,d_nnz);CHKERRQ(ierr); 1770c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->B,o_nz,o_nnz);CHKERRQ(ierr); 1771a23d5eceSKris Buschelman 1772a23d5eceSKris Buschelman PetscFunctionReturn(0); 1773a23d5eceSKris Buschelman } 1774a23d5eceSKris Buschelman EXTERN_C_END 1775a23d5eceSKris Buschelman 17760bad9183SKris Buschelman /*MC 1777002d173eSKris Buschelman MATAIJ - MATAIJ = "aij" - A matrix type to be used for sparse matrices. 1778209238afSKris Buschelman 1779209238afSKris Buschelman This matrix type is identical to MATSEQAIJ when constructed with a single process communicator, 178030e3259aSHong Zhang and MATMPIAIJ otherwise. As a result, for single process communicators, 178130e3259aSHong Zhang MatSeqAIJSetPreallocation is supported, and similarly MatMPIAIJSetPreallocation is supported 178230e3259aSHong Zhang for communicators controlling multiple processes. It is recommended that you call both of 178330e3259aSHong Zhang the above preallocation routines for simplicity. 1784209238afSKris Buschelman 1785209238afSKris Buschelman Options Database Keys: 1786209238afSKris Buschelman . -mat_type aij - sets the matrix type to "aij" during a call to MatSetFromOptions() 1787209238afSKris Buschelman 1788209238afSKris Buschelman Level: beginner 1789209238afSKris Buschelman 1790209238afSKris Buschelman .seealso: MatCreateMPIAIJ,MATSEQAIJ,MATMPIAIJ 1791209238afSKris Buschelman M*/ 1792209238afSKris Buschelman 1793209238afSKris Buschelman EXTERN_C_BEGIN 1794209238afSKris Buschelman #undef __FUNCT__ 1795209238afSKris Buschelman #define __FUNCT__ "MatCreate_AIJ" 1796dfbe8321SBarry Smith PetscErrorCode MatCreate_AIJ(Mat A) 1797dfbe8321SBarry Smith { 17986849ba73SBarry Smith PetscErrorCode ierr; 1799b1d57f15SBarry Smith PetscMPIInt size; 1800209238afSKris Buschelman 1801209238afSKris Buschelman PetscFunctionBegin; 1802209238afSKris Buschelman ierr = PetscObjectChangeTypeName((PetscObject)A,MATAIJ);CHKERRQ(ierr); 1803209238afSKris Buschelman ierr = MPI_Comm_size(A->comm,&size);CHKERRQ(ierr); 1804209238afSKris Buschelman if (size == 1) { 1805209238afSKris Buschelman ierr = MatSetType(A,MATSEQAIJ);CHKERRQ(ierr); 1806209238afSKris Buschelman } else { 1807209238afSKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 1808209238afSKris Buschelman } 1809209238afSKris Buschelman PetscFunctionReturn(0); 1810209238afSKris Buschelman } 1811209238afSKris Buschelman EXTERN_C_END 1812209238afSKris Buschelman 18134a2ae208SSatish Balay #undef __FUNCT__ 18144a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_MPIAIJ" 1815dfbe8321SBarry Smith PetscErrorCode MatDuplicate_MPIAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat) 1816d6dfbf8fSBarry Smith { 1817d6dfbf8fSBarry Smith Mat mat; 1818416022c9SBarry Smith Mat_MPIAIJ *a,*oldmat = (Mat_MPIAIJ*)matin->data; 1819dfbe8321SBarry Smith PetscErrorCode ierr; 1820d6dfbf8fSBarry Smith 18213a40ed3dSBarry Smith PetscFunctionBegin; 1822416022c9SBarry Smith *newmat = 0; 1823273d9f13SBarry Smith ierr = MatCreate(matin->comm,matin->m,matin->n,matin->M,matin->N,&mat);CHKERRQ(ierr); 1824be5d1d56SKris Buschelman ierr = MatSetType(mat,matin->type_name);CHKERRQ(ierr); 18251d5dac46SHong Zhang ierr = PetscMemcpy(mat->ops,matin->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 1826273d9f13SBarry Smith a = (Mat_MPIAIJ*)mat->data; 1827e1b6402fSHong Zhang 1828d6dfbf8fSBarry Smith mat->factor = matin->factor; 1829521d7252SBarry Smith mat->bs = matin->bs; 1830c456f294SBarry Smith mat->assembled = PETSC_TRUE; 1831e7641de0SSatish Balay mat->insertmode = NOT_SET_VALUES; 1832273d9f13SBarry Smith mat->preallocated = PETSC_TRUE; 1833d6dfbf8fSBarry Smith 1834416022c9SBarry Smith a->rstart = oldmat->rstart; 1835416022c9SBarry Smith a->rend = oldmat->rend; 1836416022c9SBarry Smith a->cstart = oldmat->cstart; 1837416022c9SBarry Smith a->cend = oldmat->cend; 183817699dbbSLois Curfman McInnes a->size = oldmat->size; 183917699dbbSLois Curfman McInnes a->rank = oldmat->rank; 1840e7641de0SSatish Balay a->donotstash = oldmat->donotstash; 1841e7641de0SSatish Balay a->roworiented = oldmat->roworiented; 1842e7641de0SSatish Balay a->rowindices = 0; 1843bcd2baecSBarry Smith a->rowvalues = 0; 1844bcd2baecSBarry Smith a->getrowactive = PETSC_FALSE; 1845d6dfbf8fSBarry Smith 1846b1d57f15SBarry Smith ierr = PetscMemcpy(a->rowners,oldmat->rowners,2*(a->size+2)*sizeof(PetscInt));CHKERRQ(ierr); 18478798bf22SSatish Balay ierr = MatStashCreate_Private(matin->comm,1,&mat->stash);CHKERRQ(ierr); 18482ee70a88SLois Curfman McInnes if (oldmat->colmap) { 1849aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 18500f5bd95cSBarry Smith ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr); 1851b1fc9764SSatish Balay #else 1852b1d57f15SBarry Smith ierr = PetscMalloc((mat->N)*sizeof(PetscInt),&a->colmap);CHKERRQ(ierr); 1853b1d57f15SBarry Smith PetscLogObjectMemory(mat,(mat->N)*sizeof(PetscInt)); 1854b1d57f15SBarry Smith ierr = PetscMemcpy(a->colmap,oldmat->colmap,(mat->N)*sizeof(PetscInt));CHKERRQ(ierr); 1855b1fc9764SSatish Balay #endif 1856416022c9SBarry Smith } else a->colmap = 0; 18573f41c07dSBarry Smith if (oldmat->garray) { 1858b1d57f15SBarry Smith PetscInt len; 1859273d9f13SBarry Smith len = oldmat->B->n; 1860b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&a->garray);CHKERRQ(ierr); 1861b1d57f15SBarry Smith PetscLogObjectMemory(mat,len*sizeof(PetscInt)); 1862b1d57f15SBarry Smith if (len) { ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(PetscInt));CHKERRQ(ierr); } 1863416022c9SBarry Smith } else a->garray = 0; 1864d6dfbf8fSBarry Smith 1865416022c9SBarry Smith ierr = VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr); 1866b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->lvec); 1867a56f8943SBarry Smith ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr); 1868b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->Mvctx); 18694efcb820SBarry Smith ierr = MatDestroy(a->A);CHKERRQ(ierr); 18702e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr); 1871b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->A); 18724efcb820SBarry Smith ierr = MatDestroy(a->B);CHKERRQ(ierr); 18732e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr); 1874b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->B); 1875b0a32e0cSBarry Smith ierr = PetscFListDuplicate(matin->qlist,&mat->qlist);CHKERRQ(ierr); 18768a729477SBarry Smith *newmat = mat; 18773a40ed3dSBarry Smith PetscFunctionReturn(0); 18788a729477SBarry Smith } 1879416022c9SBarry Smith 1880e090d566SSatish Balay #include "petscsys.h" 1881416022c9SBarry Smith 18824a2ae208SSatish Balay #undef __FUNCT__ 18834a2ae208SSatish Balay #define __FUNCT__ "MatLoad_MPIAIJ" 1884dfbe8321SBarry Smith PetscErrorCode MatLoad_MPIAIJ(PetscViewer viewer,const MatType type,Mat *newmat) 1885416022c9SBarry Smith { 1886d65a2f8fSBarry Smith Mat A; 188787828ca2SBarry Smith PetscScalar *vals,*svals; 188819bcc07fSBarry Smith MPI_Comm comm = ((PetscObject)viewer)->comm; 1889416022c9SBarry Smith MPI_Status status; 18906849ba73SBarry Smith PetscErrorCode ierr; 1891dc231df0SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag,maxnz; 1892b1d57f15SBarry Smith PetscInt i,nz,j,rstart,rend; 1893b1d57f15SBarry Smith PetscInt header[4],*rowlengths = 0,M,N,m,*cols; 1894b1d57f15SBarry Smith PetscInt *ourlens,*procsnz = 0,*offlens,jj,*mycols,*smycols; 1895dc231df0SBarry Smith PetscInt cend,cstart,n,*rowners; 1896b1d57f15SBarry Smith int fd; 1897416022c9SBarry Smith 18983a40ed3dSBarry Smith PetscFunctionBegin; 18991dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 19001dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 190117699dbbSLois Curfman McInnes if (!rank) { 1902b0a32e0cSBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 19030752156aSBarry Smith ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr); 1904552e946dSBarry Smith if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object"); 19056c5fab8fSBarry Smith } 19066c5fab8fSBarry Smith 1907b1d57f15SBarry Smith ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr); 1908416022c9SBarry Smith M = header[1]; N = header[2]; 1909416022c9SBarry Smith /* determine ownership of all rows */ 191029cdbbc8SSatish Balay m = M/size + ((M % size) > rank); 1911dc231df0SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&rowners);CHKERRQ(ierr); 1912dc231df0SBarry Smith ierr = MPI_Allgather(&m,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr); 1913416022c9SBarry Smith rowners[0] = 0; 191417699dbbSLois Curfman McInnes for (i=2; i<=size; i++) { 1915416022c9SBarry Smith rowners[i] += rowners[i-1]; 1916416022c9SBarry Smith } 191717699dbbSLois Curfman McInnes rstart = rowners[rank]; 191817699dbbSLois Curfman McInnes rend = rowners[rank+1]; 1919416022c9SBarry Smith 1920416022c9SBarry Smith /* distribute row lengths to all processors */ 1921dc231df0SBarry Smith ierr = PetscMalloc2(m,PetscInt,&ourlens,m,PetscInt,&offlens);CHKERRQ(ierr); 192217699dbbSLois Curfman McInnes if (!rank) { 1923dc231df0SBarry Smith ierr = PetscBinaryRead(fd,ourlens,m,PETSC_INT);CHKERRQ(ierr); 1924dc231df0SBarry Smith ierr = PetscMalloc(m*sizeof(PetscInt),&rowlengths);CHKERRQ(ierr); 1925b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscInt),&procsnz);CHKERRQ(ierr); 1926b1d57f15SBarry Smith ierr = PetscMemzero(procsnz,size*sizeof(PetscInt));CHKERRQ(ierr); 1927dc231df0SBarry Smith for (j=0; j<m; j++) { 1928dc231df0SBarry Smith procsnz[0] += ourlens[j]; 1929dc231df0SBarry Smith } 1930dc231df0SBarry Smith for (i=1; i<size; i++) { 1931dc231df0SBarry Smith ierr = PetscBinaryRead(fd,rowlengths,rowners[i+1]-rowners[i],PETSC_INT);CHKERRQ(ierr); 1932dc231df0SBarry Smith /* calculate the number of nonzeros on each processor */ 1933dc231df0SBarry Smith for (j=0; j<rowners[i+1]-rowners[i]; j++) { 1934416022c9SBarry Smith procsnz[i] += rowlengths[j]; 1935416022c9SBarry Smith } 1936dc231df0SBarry Smith ierr = MPI_Send(rowlengths,rowners[i+1]-rowners[i],MPIU_INT,i,tag,comm);CHKERRQ(ierr); 1937416022c9SBarry Smith } 1938606d414cSSatish Balay ierr = PetscFree(rowlengths);CHKERRQ(ierr); 1939dc231df0SBarry Smith } else { 1940dc231df0SBarry Smith ierr = MPI_Recv(ourlens,m,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 1941dc231df0SBarry Smith } 1942416022c9SBarry Smith 1943dc231df0SBarry Smith if (!rank) { 1944416022c9SBarry Smith /* determine max buffer needed and allocate it */ 1945416022c9SBarry Smith maxnz = 0; 19468a8e0b3aSBarry Smith for (i=0; i<size; i++) { 19470452661fSBarry Smith maxnz = PetscMax(maxnz,procsnz[i]); 1948416022c9SBarry Smith } 1949b1d57f15SBarry Smith ierr = PetscMalloc(maxnz*sizeof(PetscInt),&cols);CHKERRQ(ierr); 1950416022c9SBarry Smith 1951416022c9SBarry Smith /* read in my part of the matrix column indices */ 1952416022c9SBarry Smith nz = procsnz[0]; 1953b1d57f15SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 19540752156aSBarry Smith ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr); 1955d65a2f8fSBarry Smith 1956d65a2f8fSBarry Smith /* read in every one elses and ship off */ 195717699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 1958d65a2f8fSBarry Smith nz = procsnz[i]; 19590752156aSBarry Smith ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 1960b1d57f15SBarry Smith ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr); 1961d65a2f8fSBarry Smith } 1962606d414cSSatish Balay ierr = PetscFree(cols);CHKERRQ(ierr); 19633a40ed3dSBarry Smith } else { 1964416022c9SBarry Smith /* determine buffer space needed for message */ 1965416022c9SBarry Smith nz = 0; 1966416022c9SBarry Smith for (i=0; i<m; i++) { 1967416022c9SBarry Smith nz += ourlens[i]; 1968416022c9SBarry Smith } 1969dc231df0SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 1970416022c9SBarry Smith 1971416022c9SBarry Smith /* receive message of column indices*/ 1972b1d57f15SBarry Smith ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 1973b1d57f15SBarry Smith ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr); 197429bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 1975416022c9SBarry Smith } 1976416022c9SBarry Smith 1977b362ba68SBarry Smith /* determine column ownership if matrix is not square */ 1978b362ba68SBarry Smith if (N != M) { 1979b362ba68SBarry Smith n = N/size + ((N % size) > rank); 1980b1d57f15SBarry Smith ierr = MPI_Scan(&n,&cend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 1981b362ba68SBarry Smith cstart = cend - n; 1982b362ba68SBarry Smith } else { 1983b362ba68SBarry Smith cstart = rstart; 1984b362ba68SBarry Smith cend = rend; 1985fb2e594dSBarry Smith n = cend - cstart; 1986b362ba68SBarry Smith } 1987b362ba68SBarry Smith 1988416022c9SBarry Smith /* loop over local rows, determining number of off diagonal entries */ 1989b1d57f15SBarry Smith ierr = PetscMemzero(offlens,m*sizeof(PetscInt));CHKERRQ(ierr); 1990416022c9SBarry Smith jj = 0; 1991416022c9SBarry Smith for (i=0; i<m; i++) { 1992416022c9SBarry Smith for (j=0; j<ourlens[i]; j++) { 1993b362ba68SBarry Smith if (mycols[jj] < cstart || mycols[jj] >= cend) offlens[i]++; 1994416022c9SBarry Smith jj++; 1995416022c9SBarry Smith } 1996416022c9SBarry Smith } 1997d65a2f8fSBarry Smith 1998d65a2f8fSBarry Smith /* create our matrix */ 1999416022c9SBarry Smith for (i=0; i<m; i++) { 2000416022c9SBarry Smith ourlens[i] -= offlens[i]; 2001416022c9SBarry Smith } 2002d10c748bSKris Buschelman ierr = MatCreate(comm,m,n,M,N,&A);CHKERRQ(ierr); 2003d10c748bSKris Buschelman ierr = MatSetType(A,type);CHKERRQ(ierr); 2004d10c748bSKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,ourlens,0,offlens);CHKERRQ(ierr); 2005d10c748bSKris Buschelman 2006fb2e594dSBarry Smith ierr = MatSetOption(A,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 2007d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2008d65a2f8fSBarry Smith ourlens[i] += offlens[i]; 2009d65a2f8fSBarry Smith } 2010416022c9SBarry Smith 201117699dbbSLois Curfman McInnes if (!rank) { 2012906b51c7SHong Zhang ierr = PetscMalloc((maxnz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2013416022c9SBarry Smith 2014416022c9SBarry Smith /* read in my part of the matrix numerical values */ 2015416022c9SBarry Smith nz = procsnz[0]; 20160752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2017d65a2f8fSBarry Smith 2018d65a2f8fSBarry Smith /* insert into matrix */ 2019d65a2f8fSBarry Smith jj = rstart; 2020d65a2f8fSBarry Smith smycols = mycols; 2021d65a2f8fSBarry Smith svals = vals; 2022d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2023dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2024d65a2f8fSBarry Smith smycols += ourlens[i]; 2025d65a2f8fSBarry Smith svals += ourlens[i]; 2026d65a2f8fSBarry Smith jj++; 2027416022c9SBarry Smith } 2028416022c9SBarry Smith 2029d65a2f8fSBarry Smith /* read in other processors and ship out */ 203017699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 2031416022c9SBarry Smith nz = procsnz[i]; 20320752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2033ca161407SBarry Smith ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,A->tag,comm);CHKERRQ(ierr); 2034416022c9SBarry Smith } 2035606d414cSSatish Balay ierr = PetscFree(procsnz);CHKERRQ(ierr); 20363a40ed3dSBarry Smith } else { 2037d65a2f8fSBarry Smith /* receive numeric values */ 203887828ca2SBarry Smith ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2039416022c9SBarry Smith 2040d65a2f8fSBarry Smith /* receive message of values*/ 2041ca161407SBarry Smith ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,A->tag,comm,&status);CHKERRQ(ierr); 2042ca161407SBarry Smith ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr); 204329bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 2044d65a2f8fSBarry Smith 2045d65a2f8fSBarry Smith /* insert into matrix */ 2046d65a2f8fSBarry Smith jj = rstart; 2047d65a2f8fSBarry Smith smycols = mycols; 2048d65a2f8fSBarry Smith svals = vals; 2049d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2050dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2051d65a2f8fSBarry Smith smycols += ourlens[i]; 2052d65a2f8fSBarry Smith svals += ourlens[i]; 2053d65a2f8fSBarry Smith jj++; 2054d65a2f8fSBarry Smith } 2055d65a2f8fSBarry Smith } 2056dc231df0SBarry Smith ierr = PetscFree2(ourlens,offlens);CHKERRQ(ierr); 2057606d414cSSatish Balay ierr = PetscFree(vals);CHKERRQ(ierr); 2058606d414cSSatish Balay ierr = PetscFree(mycols);CHKERRQ(ierr); 2059606d414cSSatish Balay ierr = PetscFree(rowners);CHKERRQ(ierr); 2060d65a2f8fSBarry Smith 20616d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 20626d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2063d10c748bSKris Buschelman *newmat = A; 20643a40ed3dSBarry Smith PetscFunctionReturn(0); 2065416022c9SBarry Smith } 2066a0ff6018SBarry Smith 20674a2ae208SSatish Balay #undef __FUNCT__ 20684a2ae208SSatish Balay #define __FUNCT__ "MatGetSubMatrix_MPIAIJ" 2069a0ff6018SBarry Smith /* 207029da9460SBarry Smith Not great since it makes two copies of the submatrix, first an SeqAIJ 207129da9460SBarry Smith in local and then by concatenating the local matrices the end result. 207229da9460SBarry Smith Writing it directly would be much like MatGetSubMatrices_MPIAIJ() 2073a0ff6018SBarry Smith */ 2074b1d57f15SBarry Smith PetscErrorCode MatGetSubMatrix_MPIAIJ(Mat mat,IS isrow,IS iscol,PetscInt csize,MatReuse call,Mat *newmat) 2075a0ff6018SBarry Smith { 2076dfbe8321SBarry Smith PetscErrorCode ierr; 207732dcc486SBarry Smith PetscMPIInt rank,size; 2078b1d57f15SBarry Smith PetscInt i,m,n,rstart,row,rend,nz,*cwork,j; 2079b1d57f15SBarry Smith PetscInt *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal; 2080fee21e36SBarry Smith Mat *local,M,Mreuse; 208187828ca2SBarry Smith PetscScalar *vwork,*aa; 208200e6dbe6SBarry Smith MPI_Comm comm = mat->comm; 208300e6dbe6SBarry Smith Mat_SeqAIJ *aij; 20847e2c5f70SBarry Smith 2085a0ff6018SBarry Smith 2086a0ff6018SBarry Smith PetscFunctionBegin; 20871dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 20881dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 208900e6dbe6SBarry Smith 2090fee21e36SBarry Smith if (call == MAT_REUSE_MATRIX) { 2091fee21e36SBarry Smith ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject *)&Mreuse);CHKERRQ(ierr); 2092e005ede5SBarry Smith if (!Mreuse) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse"); 2093fee21e36SBarry Smith local = &Mreuse; 2094fee21e36SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_REUSE_MATRIX,&local);CHKERRQ(ierr); 2095fee21e36SBarry Smith } else { 2096a0ff6018SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&local);CHKERRQ(ierr); 2097fee21e36SBarry Smith Mreuse = *local; 2098606d414cSSatish Balay ierr = PetscFree(local);CHKERRQ(ierr); 2099fee21e36SBarry Smith } 2100a0ff6018SBarry Smith 2101a0ff6018SBarry Smith /* 2102a0ff6018SBarry Smith m - number of local rows 2103a0ff6018SBarry Smith n - number of columns (same on all processors) 2104a0ff6018SBarry Smith rstart - first row in new global matrix generated 2105a0ff6018SBarry Smith */ 2106fee21e36SBarry Smith ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr); 2107a0ff6018SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2108fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 210900e6dbe6SBarry Smith ii = aij->i; 211000e6dbe6SBarry Smith jj = aij->j; 211100e6dbe6SBarry Smith 2112a0ff6018SBarry Smith /* 211300e6dbe6SBarry Smith Determine the number of non-zeros in the diagonal and off-diagonal 211400e6dbe6SBarry Smith portions of the matrix in order to do correct preallocation 2115a0ff6018SBarry Smith */ 211600e6dbe6SBarry Smith 211700e6dbe6SBarry Smith /* first get start and end of "diagonal" columns */ 21186a6a5d1dSBarry Smith if (csize == PETSC_DECIDE) { 2119ab50ec6bSBarry Smith ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr); 2120ab50ec6bSBarry Smith if (mglobal == n) { /* square matrix */ 2121e2c4fddaSBarry Smith nlocal = m; 21226a6a5d1dSBarry Smith } else { 2123ab50ec6bSBarry Smith nlocal = n/size + ((n % size) > rank); 2124ab50ec6bSBarry Smith } 2125ab50ec6bSBarry Smith } else { 21266a6a5d1dSBarry Smith nlocal = csize; 21276a6a5d1dSBarry Smith } 2128b1d57f15SBarry Smith ierr = MPI_Scan(&nlocal,&rend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 212900e6dbe6SBarry Smith rstart = rend - nlocal; 21306a6a5d1dSBarry Smith if (rank == size - 1 && rend != n) { 213177431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Local column sizes %D do not add up to total number of columns %D",rend,n); 21326a6a5d1dSBarry Smith } 213300e6dbe6SBarry Smith 213400e6dbe6SBarry Smith /* next, compute all the lengths */ 2135b1d57f15SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&dlens);CHKERRQ(ierr); 213600e6dbe6SBarry Smith olens = dlens + m; 213700e6dbe6SBarry Smith for (i=0; i<m; i++) { 213800e6dbe6SBarry Smith jend = ii[i+1] - ii[i]; 213900e6dbe6SBarry Smith olen = 0; 214000e6dbe6SBarry Smith dlen = 0; 214100e6dbe6SBarry Smith for (j=0; j<jend; j++) { 214200e6dbe6SBarry Smith if (*jj < rstart || *jj >= rend) olen++; 214300e6dbe6SBarry Smith else dlen++; 214400e6dbe6SBarry Smith jj++; 214500e6dbe6SBarry Smith } 214600e6dbe6SBarry Smith olens[i] = olen; 214700e6dbe6SBarry Smith dlens[i] = dlen; 214800e6dbe6SBarry Smith } 2149e2d9671bSKris Buschelman ierr = MatCreate(comm,m,nlocal,PETSC_DECIDE,n,&M);CHKERRQ(ierr); 2150e2d9671bSKris Buschelman ierr = MatSetType(M,mat->type_name);CHKERRQ(ierr); 2151e2d9671bSKris Buschelman ierr = MatMPIAIJSetPreallocation(M,0,dlens,0,olens);CHKERRQ(ierr); 2152606d414cSSatish Balay ierr = PetscFree(dlens);CHKERRQ(ierr); 2153a0ff6018SBarry Smith } else { 2154b1d57f15SBarry Smith PetscInt ml,nl; 2155a0ff6018SBarry Smith 2156a0ff6018SBarry Smith M = *newmat; 2157a0ff6018SBarry Smith ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr); 215829bbc08cSBarry Smith if (ml != m) SETERRQ(PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request"); 2159a0ff6018SBarry Smith ierr = MatZeroEntries(M);CHKERRQ(ierr); 2160c48de900SBarry Smith /* 2161c48de900SBarry Smith The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 2162c48de900SBarry Smith rather than the slower MatSetValues(). 2163c48de900SBarry Smith */ 2164c48de900SBarry Smith M->was_assembled = PETSC_TRUE; 2165c48de900SBarry Smith M->assembled = PETSC_FALSE; 2166a0ff6018SBarry Smith } 2167a0ff6018SBarry Smith ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr); 2168fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 216900e6dbe6SBarry Smith ii = aij->i; 217000e6dbe6SBarry Smith jj = aij->j; 217100e6dbe6SBarry Smith aa = aij->a; 2172a0ff6018SBarry Smith for (i=0; i<m; i++) { 2173a0ff6018SBarry Smith row = rstart + i; 217400e6dbe6SBarry Smith nz = ii[i+1] - ii[i]; 217500e6dbe6SBarry Smith cwork = jj; jj += nz; 217600e6dbe6SBarry Smith vwork = aa; aa += nz; 21778c638d02SBarry Smith ierr = MatSetValues_MPIAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr); 2178a0ff6018SBarry Smith } 2179a0ff6018SBarry Smith 2180a0ff6018SBarry Smith ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2181a0ff6018SBarry Smith ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2182a0ff6018SBarry Smith *newmat = M; 2183fee21e36SBarry Smith 2184fee21e36SBarry Smith /* save submatrix used in processor for next request */ 2185fee21e36SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2186fee21e36SBarry Smith ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr); 2187fee21e36SBarry Smith ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr); 2188fee21e36SBarry Smith } 2189fee21e36SBarry Smith 2190a0ff6018SBarry Smith PetscFunctionReturn(0); 2191a0ff6018SBarry Smith } 2192273d9f13SBarry Smith 2193e2e86b8fSSatish Balay EXTERN_C_BEGIN 21944a2ae208SSatish Balay #undef __FUNCT__ 2195ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR_MPIAIJ" 2196ccd8e176SBarry Smith PetscErrorCode MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B,const PetscInt I[],const PetscInt J[],const PetscScalar v[]) 2197ccd8e176SBarry Smith { 2198ccd8e176SBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 2199ccd8e176SBarry Smith PetscInt m = B->m,cstart = b->cstart, cend = b->cend,j,nnz,i,d; 2200ccd8e176SBarry Smith PetscInt *d_nnz,*o_nnz,nnz_max = 0,rstart = b->rstart,ii; 2201ccd8e176SBarry Smith const PetscInt *JJ; 2202ccd8e176SBarry Smith PetscScalar *values; 2203ccd8e176SBarry Smith PetscErrorCode ierr; 2204ccd8e176SBarry Smith 2205ccd8e176SBarry Smith PetscFunctionBegin; 2206ccd8e176SBarry Smith #if defined(PETSC_OPT_g) 2207ccd8e176SBarry Smith if (I[0]) SETERRQ1(PETSC_ERR_ARG_RANGE,"I[0] must be 0 it is %D",I[0]); 2208ccd8e176SBarry Smith #endif 2209ccd8e176SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr); 2210ccd8e176SBarry Smith o_nnz = d_nnz + m; 2211ccd8e176SBarry Smith 2212ccd8e176SBarry Smith for (i=0; i<m; i++) { 2213ccd8e176SBarry Smith nnz = I[i+1]- I[i]; 2214ccd8e176SBarry Smith JJ = J + I[i]; 2215ccd8e176SBarry Smith nnz_max = PetscMax(nnz_max,nnz); 2216ccd8e176SBarry Smith #if defined(PETSC_OPT_g) 2217ccd8e176SBarry Smith if (nnz < 0) SETERRQ1(PETSC_ERR_ARG_RANGE,"Local row %D has a negative %D number of columns",i,nnz); 2218ccd8e176SBarry Smith #endif 2219ccd8e176SBarry Smith for (j=0; j<nnz; j++) { 2220ccd8e176SBarry Smith if (*JJ >= cstart) break; 2221ccd8e176SBarry Smith JJ++; 2222ccd8e176SBarry Smith } 2223ccd8e176SBarry Smith d = 0; 2224ccd8e176SBarry Smith for (; j<nnz; j++) { 2225ccd8e176SBarry Smith if (*JJ++ >= cend) break; 2226ccd8e176SBarry Smith d++; 2227ccd8e176SBarry Smith } 2228ccd8e176SBarry Smith d_nnz[i] = d; 2229ccd8e176SBarry Smith o_nnz[i] = nnz - d; 2230ccd8e176SBarry Smith } 2231ccd8e176SBarry Smith ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,o_nnz);CHKERRQ(ierr); 2232ccd8e176SBarry Smith ierr = PetscFree(d_nnz);CHKERRQ(ierr); 2233ccd8e176SBarry Smith 2234ccd8e176SBarry Smith if (v) values = (PetscScalar*)v; 2235ccd8e176SBarry Smith else { 2236ccd8e176SBarry Smith ierr = PetscMalloc((nnz_max+1)*sizeof(PetscScalar),&values);CHKERRQ(ierr); 2237ccd8e176SBarry Smith ierr = PetscMemzero(values,nnz_max*sizeof(PetscScalar));CHKERRQ(ierr); 2238ccd8e176SBarry Smith } 2239ccd8e176SBarry Smith 2240ccd8e176SBarry Smith ierr = MatSetOption(B,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 2241ccd8e176SBarry Smith for (i=0; i<m; i++) { 2242ccd8e176SBarry Smith ii = i + rstart; 2243ccd8e176SBarry Smith nnz = I[i+1]- I[i]; 2244ccd8e176SBarry Smith ierr = MatSetValues_MPIAIJ(B,1,&ii,nnz,J+I[i],values,INSERT_VALUES);CHKERRQ(ierr); 2245ccd8e176SBarry Smith } 2246ccd8e176SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2247ccd8e176SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2248ccd8e176SBarry Smith ierr = MatSetOption(B,MAT_COLUMNS_UNSORTED);CHKERRQ(ierr); 2249ccd8e176SBarry Smith 2250ccd8e176SBarry Smith if (!v) { 2251ccd8e176SBarry Smith ierr = PetscFree(values);CHKERRQ(ierr); 2252ccd8e176SBarry Smith } 2253ccd8e176SBarry Smith PetscFunctionReturn(0); 2254ccd8e176SBarry Smith } 2255e2e86b8fSSatish Balay EXTERN_C_END 2256ccd8e176SBarry Smith 2257ccd8e176SBarry Smith #undef __FUNCT__ 2258ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR" 2259ccd8e176SBarry Smith /*@C 2260ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in AIJ format 2261ccd8e176SBarry Smith (the default parallel PETSc format). 2262ccd8e176SBarry Smith 2263ccd8e176SBarry Smith Collective on MPI_Comm 2264ccd8e176SBarry Smith 2265ccd8e176SBarry Smith Input Parameters: 2266ccd8e176SBarry Smith + A - the matrix 2267ccd8e176SBarry Smith . i - the indices into j for the start of each local row (starts with zero) 2268ccd8e176SBarry Smith . j - the column indices for each local row (starts with zero) these must be sorted for each row 2269ccd8e176SBarry Smith - v - optional values in the matrix 2270ccd8e176SBarry Smith 2271ccd8e176SBarry Smith Level: developer 2272ccd8e176SBarry Smith 2273ccd8e176SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2274ccd8e176SBarry Smith 2275ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatCreateMPIAIJ(), MPIAIJ 2276ccd8e176SBarry Smith @*/ 2277ccd8e176SBarry Smith PetscErrorCode MatMPIAIJSetPreallocationCSR(Mat B,const PetscInt i[],const PetscInt j[], const PetscScalar v[]) 2278ccd8e176SBarry Smith { 2279ccd8e176SBarry Smith PetscErrorCode ierr,(*f)(Mat,const PetscInt[],const PetscInt[],const PetscScalar[]); 2280ccd8e176SBarry Smith 2281ccd8e176SBarry Smith PetscFunctionBegin; 2282ccd8e176SBarry Smith ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",(void (**)(void))&f);CHKERRQ(ierr); 2283ccd8e176SBarry Smith if (f) { 2284ccd8e176SBarry Smith ierr = (*f)(B,i,j,v);CHKERRQ(ierr); 2285ccd8e176SBarry Smith } 2286ccd8e176SBarry Smith PetscFunctionReturn(0); 2287ccd8e176SBarry Smith } 2288ccd8e176SBarry Smith 2289ccd8e176SBarry Smith #undef __FUNCT__ 22904a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJSetPreallocation" 2291273d9f13SBarry Smith /*@C 2292ccd8e176SBarry Smith MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in AIJ format 2293273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2294273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2295273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2296273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2297273d9f13SBarry Smith 2298273d9f13SBarry Smith Collective on MPI_Comm 2299273d9f13SBarry Smith 2300273d9f13SBarry Smith Input Parameters: 2301273d9f13SBarry Smith + A - the matrix 2302273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2303273d9f13SBarry Smith (same value is used for all local rows) 2304273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2305273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2306273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2307273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2308273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2309273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2310273d9f13SBarry Smith submatrix (same value is used for all local rows). 2311273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2312273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2313273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2314273d9f13SBarry Smith structure. The size of this array is equal to the number 2315273d9f13SBarry Smith of local rows, i.e 'm'. 2316273d9f13SBarry Smith 231749a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 231849a6f317SBarry Smith 2319273d9f13SBarry Smith The AIJ format (also called the Yale sparse matrix format or 2320ccd8e176SBarry Smith compressed row storage (CSR)), is fully compatible with standard Fortran 77 2321ccd8e176SBarry Smith storage. The stored row and column indices begin with zero. See the users manual for details. 2322273d9f13SBarry Smith 2323273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2324273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2325273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2326273d9f13SBarry Smith 2327273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2328273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2329273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2330273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2331273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2332273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2333273d9f13SBarry Smith 2334273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2335273d9f13SBarry Smith 2336273d9f13SBarry Smith Example usage: 2337273d9f13SBarry Smith 2338273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2339273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2340273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2341273d9f13SBarry Smith as follows: 2342273d9f13SBarry Smith 2343273d9f13SBarry Smith .vb 2344273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2345273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2346273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2347273d9f13SBarry Smith ------------------------------------- 2348273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2349273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2350273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2351273d9f13SBarry Smith ------------------------------------- 2352273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2353273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2354273d9f13SBarry Smith .ve 2355273d9f13SBarry Smith 2356273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2357273d9f13SBarry Smith 2358273d9f13SBarry Smith .vb 2359273d9f13SBarry Smith A B C 2360273d9f13SBarry Smith D E F 2361273d9f13SBarry Smith G H I 2362273d9f13SBarry Smith .ve 2363273d9f13SBarry Smith 2364273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2365273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2366273d9f13SBarry Smith 2367273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2368273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2369273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2370273d9f13SBarry Smith 2371273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2372273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2373273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2374273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2375273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2376273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2377273d9f13SBarry Smith 2378273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2379273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2380273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2381273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2382273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2383273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2384273d9f13SBarry Smith .vb 2385273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2386273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2387273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2388273d9f13SBarry Smith .ve 2389273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2390273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2391273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2392273d9f13SBarry Smith 34 values. 2393273d9f13SBarry Smith 2394273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2395273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2396273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2397273d9f13SBarry Smith .vb 2398273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2399273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2400273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2401273d9f13SBarry Smith .ve 2402273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2403273d9f13SBarry Smith hence pre-allocation is perfect. 2404273d9f13SBarry Smith 2405273d9f13SBarry Smith Level: intermediate 2406273d9f13SBarry Smith 2407273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2408273d9f13SBarry Smith 2409ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateMPIAIJ(), MatMPIAIJSetPreallocationCSR(), 2410ccd8e176SBarry Smith MPIAIJ 2411273d9f13SBarry Smith @*/ 2412b1d57f15SBarry Smith PetscErrorCode MatMPIAIJSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 2413273d9f13SBarry Smith { 2414b1d57f15SBarry Smith PetscErrorCode ierr,(*f)(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]); 2415273d9f13SBarry Smith 2416273d9f13SBarry Smith PetscFunctionBegin; 2417a23d5eceSKris Buschelman ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocation_C",(void (**)(void))&f);CHKERRQ(ierr); 2418a23d5eceSKris Buschelman if (f) { 2419a23d5eceSKris Buschelman ierr = (*f)(B,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2420273d9f13SBarry Smith } 2421273d9f13SBarry Smith PetscFunctionReturn(0); 2422273d9f13SBarry Smith } 2423273d9f13SBarry Smith 24244a2ae208SSatish Balay #undef __FUNCT__ 24254a2ae208SSatish Balay #define __FUNCT__ "MatCreateMPIAIJ" 2426273d9f13SBarry Smith /*@C 2427273d9f13SBarry Smith MatCreateMPIAIJ - Creates a sparse parallel matrix in AIJ format 2428273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2429273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2430273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2431273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2432273d9f13SBarry Smith 2433273d9f13SBarry Smith Collective on MPI_Comm 2434273d9f13SBarry Smith 2435273d9f13SBarry Smith Input Parameters: 2436273d9f13SBarry Smith + comm - MPI communicator 2437273d9f13SBarry Smith . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 2438273d9f13SBarry Smith This value should be the same as the local size used in creating the 2439273d9f13SBarry Smith y vector for the matrix-vector product y = Ax. 2440273d9f13SBarry Smith . n - This value should be the same as the local size used in creating the 2441273d9f13SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 2442273d9f13SBarry Smith calculated if N is given) For square matrices n is almost always m. 2443273d9f13SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 2444273d9f13SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 2445273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2446273d9f13SBarry Smith (same value is used for all local rows) 2447273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2448273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2449273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2450273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2451273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2452273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2453273d9f13SBarry Smith submatrix (same value is used for all local rows). 2454273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2455273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2456273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2457273d9f13SBarry Smith structure. The size of this array is equal to the number 2458273d9f13SBarry Smith of local rows, i.e 'm'. 2459273d9f13SBarry Smith 2460273d9f13SBarry Smith Output Parameter: 2461273d9f13SBarry Smith . A - the matrix 2462273d9f13SBarry Smith 2463273d9f13SBarry Smith Notes: 246449a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 246549a6f317SBarry Smith 2466273d9f13SBarry Smith m,n,M,N parameters specify the size of the matrix, and its partitioning across 2467273d9f13SBarry Smith processors, while d_nz,d_nnz,o_nz,o_nnz parameters specify the approximate 2468273d9f13SBarry Smith storage requirements for this matrix. 2469273d9f13SBarry Smith 2470273d9f13SBarry Smith If PETSC_DECIDE or PETSC_DETERMINE is used for a particular argument on one 2471273d9f13SBarry Smith processor than it must be used on all processors that share the object for 2472273d9f13SBarry Smith that argument. 2473273d9f13SBarry Smith 2474273d9f13SBarry Smith The user MUST specify either the local or global matrix dimensions 2475273d9f13SBarry Smith (possibly both). 2476273d9f13SBarry Smith 2477273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2478273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2479273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2480273d9f13SBarry Smith 2481273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2482273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2483273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2484273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2485273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2486273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2487273d9f13SBarry Smith 2488273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2489273d9f13SBarry Smith 249097d05335SKris Buschelman When calling this routine with a single process communicator, a matrix of 249197d05335SKris Buschelman type SEQAIJ is returned. If a matrix of type MPIAIJ is desired for this 249297d05335SKris Buschelman type of communicator, use the construction mechanism: 249397d05335SKris Buschelman MatCreate(...,&A); MatSetType(A,MPIAIJ); MatMPIAIJSetPreallocation(A,...); 249497d05335SKris Buschelman 2495273d9f13SBarry Smith By default, this format uses inodes (identical nodes) when possible. 2496273d9f13SBarry Smith We search for consecutive rows with the same nonzero structure, thereby 2497273d9f13SBarry Smith reusing matrix information to achieve increased efficiency. 2498273d9f13SBarry Smith 2499273d9f13SBarry Smith Options Database Keys: 2500273d9f13SBarry Smith + -mat_aij_no_inode - Do not use inodes 2501273d9f13SBarry Smith . -mat_aij_inode_limit <limit> - Sets inode limit (max limit=5) 2502273d9f13SBarry Smith - -mat_aij_oneindex - Internally use indexing starting at 1 2503273d9f13SBarry Smith rather than 0. Note that when calling MatSetValues(), 2504273d9f13SBarry Smith the user still MUST index entries starting at 0! 2505273d9f13SBarry Smith 2506273d9f13SBarry Smith 2507273d9f13SBarry Smith Example usage: 2508273d9f13SBarry Smith 2509273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2510273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2511273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2512273d9f13SBarry Smith as follows: 2513273d9f13SBarry Smith 2514273d9f13SBarry Smith .vb 2515273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2516273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2517273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2518273d9f13SBarry Smith ------------------------------------- 2519273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2520273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2521273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2522273d9f13SBarry Smith ------------------------------------- 2523273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2524273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2525273d9f13SBarry Smith .ve 2526273d9f13SBarry Smith 2527273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2528273d9f13SBarry Smith 2529273d9f13SBarry Smith .vb 2530273d9f13SBarry Smith A B C 2531273d9f13SBarry Smith D E F 2532273d9f13SBarry Smith G H I 2533273d9f13SBarry Smith .ve 2534273d9f13SBarry Smith 2535273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2536273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2537273d9f13SBarry Smith 2538273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2539273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2540273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2541273d9f13SBarry Smith 2542273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2543273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2544273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2545273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2546273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2547273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2548273d9f13SBarry Smith 2549273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2550273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2551273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2552273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2553273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2554273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2555273d9f13SBarry Smith .vb 2556273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2557273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2558273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2559273d9f13SBarry Smith .ve 2560273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2561273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2562273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2563273d9f13SBarry Smith 34 values. 2564273d9f13SBarry Smith 2565273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2566273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2567273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2568273d9f13SBarry Smith .vb 2569273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2570273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2571273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2572273d9f13SBarry Smith .ve 2573273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2574273d9f13SBarry Smith hence pre-allocation is perfect. 2575273d9f13SBarry Smith 2576273d9f13SBarry Smith Level: intermediate 2577273d9f13SBarry Smith 2578273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2579273d9f13SBarry Smith 2580ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 2581ccd8e176SBarry Smith MPIAIJ 2582273d9f13SBarry Smith @*/ 2583b1d57f15SBarry 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) 2584273d9f13SBarry Smith { 25856849ba73SBarry Smith PetscErrorCode ierr; 2586b1d57f15SBarry Smith PetscMPIInt size; 2587273d9f13SBarry Smith 2588273d9f13SBarry Smith PetscFunctionBegin; 2589273d9f13SBarry Smith ierr = MatCreate(comm,m,n,M,N,A);CHKERRQ(ierr); 2590273d9f13SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 2591273d9f13SBarry Smith if (size > 1) { 2592273d9f13SBarry Smith ierr = MatSetType(*A,MATMPIAIJ);CHKERRQ(ierr); 2593273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(*A,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2594273d9f13SBarry Smith } else { 2595273d9f13SBarry Smith ierr = MatSetType(*A,MATSEQAIJ);CHKERRQ(ierr); 2596273d9f13SBarry Smith ierr = MatSeqAIJSetPreallocation(*A,d_nz,d_nnz);CHKERRQ(ierr); 2597273d9f13SBarry Smith } 2598273d9f13SBarry Smith PetscFunctionReturn(0); 2599273d9f13SBarry Smith } 2600195d93cdSBarry Smith 26014a2ae208SSatish Balay #undef __FUNCT__ 26024a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJGetSeqAIJ" 2603b1d57f15SBarry Smith PetscErrorCode MatMPIAIJGetSeqAIJ(Mat A,Mat *Ad,Mat *Ao,PetscInt *colmap[]) 2604195d93cdSBarry Smith { 2605195d93cdSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2606b1d57f15SBarry Smith 2607195d93cdSBarry Smith PetscFunctionBegin; 2608195d93cdSBarry Smith *Ad = a->A; 2609195d93cdSBarry Smith *Ao = a->B; 2610195d93cdSBarry Smith *colmap = a->garray; 2611195d93cdSBarry Smith PetscFunctionReturn(0); 2612195d93cdSBarry Smith } 2613a2243be0SBarry Smith 2614a2243be0SBarry Smith #undef __FUNCT__ 2615a2243be0SBarry Smith #define __FUNCT__ "MatSetColoring_MPIAIJ" 2616dfbe8321SBarry Smith PetscErrorCode MatSetColoring_MPIAIJ(Mat A,ISColoring coloring) 2617a2243be0SBarry Smith { 2618dfbe8321SBarry Smith PetscErrorCode ierr; 2619b1d57f15SBarry Smith PetscInt i; 2620a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2621a2243be0SBarry Smith 2622a2243be0SBarry Smith PetscFunctionBegin; 2623a2243be0SBarry Smith if (coloring->ctype == IS_COLORING_LOCAL) { 262408b6dcc0SBarry Smith ISColoringValue *allcolors,*colors; 2625a2243be0SBarry Smith ISColoring ocoloring; 2626a2243be0SBarry Smith 2627a2243be0SBarry Smith /* set coloring for diagonal portion */ 2628a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,coloring);CHKERRQ(ierr); 2629a2243be0SBarry Smith 2630a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 263108b6dcc0SBarry Smith ierr = ISAllGatherColors(A->comm,coloring->n,coloring->colors,PETSC_NULL,&allcolors);CHKERRQ(ierr); 263208b6dcc0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2633a2243be0SBarry Smith for (i=0; i<a->B->n; i++) { 2634a2243be0SBarry Smith colors[i] = allcolors[a->garray[i]]; 2635a2243be0SBarry Smith } 2636a2243be0SBarry Smith ierr = PetscFree(allcolors);CHKERRQ(ierr); 2637a2243be0SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr); 2638a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2639a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2640a2243be0SBarry Smith } else if (coloring->ctype == IS_COLORING_GHOSTED) { 264108b6dcc0SBarry Smith ISColoringValue *colors; 2642b1d57f15SBarry Smith PetscInt *larray; 2643a2243be0SBarry Smith ISColoring ocoloring; 2644a2243be0SBarry Smith 2645a2243be0SBarry Smith /* set coloring for diagonal portion */ 2646b1d57f15SBarry Smith ierr = PetscMalloc((a->A->n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 2647a2243be0SBarry Smith for (i=0; i<a->A->n; i++) { 2648a2243be0SBarry Smith larray[i] = i + a->cstart; 2649a2243be0SBarry Smith } 2650a2243be0SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->A->n,larray,PETSC_NULL,larray);CHKERRQ(ierr); 265108b6dcc0SBarry Smith ierr = PetscMalloc((a->A->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2652a2243be0SBarry Smith for (i=0; i<a->A->n; i++) { 2653a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2654a2243be0SBarry Smith } 2655a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 265612c595b3SBarry Smith ierr = ISColoringCreate(PETSC_COMM_SELF,a->A->n,colors,&ocoloring);CHKERRQ(ierr); 2657a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,ocoloring);CHKERRQ(ierr); 2658a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2659a2243be0SBarry Smith 2660a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 2661b1d57f15SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 2662a2243be0SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->B->n,a->garray,PETSC_NULL,larray);CHKERRQ(ierr); 266308b6dcc0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2664a2243be0SBarry Smith for (i=0; i<a->B->n; i++) { 2665a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2666a2243be0SBarry Smith } 2667a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 2668a2243be0SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr); 2669a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2670a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2671a2243be0SBarry Smith } else { 267277431f27SBarry Smith SETERRQ1(PETSC_ERR_SUP,"No support ISColoringType %d",(int)coloring->ctype); 2673a2243be0SBarry Smith } 2674a2243be0SBarry Smith 2675a2243be0SBarry Smith PetscFunctionReturn(0); 2676a2243be0SBarry Smith } 2677a2243be0SBarry Smith 2678a2243be0SBarry Smith #undef __FUNCT__ 2679779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdic_MPIAIJ" 2680dfbe8321SBarry Smith PetscErrorCode MatSetValuesAdic_MPIAIJ(Mat A,void *advalues) 2681a2243be0SBarry Smith { 2682a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2683dfbe8321SBarry Smith PetscErrorCode ierr; 2684a2243be0SBarry Smith 2685a2243be0SBarry Smith PetscFunctionBegin; 2686779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->A,advalues);CHKERRQ(ierr); 2687779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->B,advalues);CHKERRQ(ierr); 2688779c1a83SBarry Smith PetscFunctionReturn(0); 2689779c1a83SBarry Smith } 2690779c1a83SBarry Smith 2691779c1a83SBarry Smith #undef __FUNCT__ 2692779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdifor_MPIAIJ" 2693b1d57f15SBarry Smith PetscErrorCode MatSetValuesAdifor_MPIAIJ(Mat A,PetscInt nl,void *advalues) 2694779c1a83SBarry Smith { 2695779c1a83SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2696dfbe8321SBarry Smith PetscErrorCode ierr; 2697779c1a83SBarry Smith 2698779c1a83SBarry Smith PetscFunctionBegin; 2699779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->A,nl,advalues);CHKERRQ(ierr); 2700779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->B,nl,advalues);CHKERRQ(ierr); 2701a2243be0SBarry Smith PetscFunctionReturn(0); 2702a2243be0SBarry Smith } 2703c5d6d63eSBarry Smith 2704c5d6d63eSBarry Smith #undef __FUNCT__ 270551dd7536SBarry Smith #define __FUNCT__ "MatMerge" 2706c5d6d63eSBarry Smith /*@C 270751dd7536SBarry Smith MatMerge - Creates a single large PETSc matrix by concatinating sequential 270851dd7536SBarry Smith matrices from each processor 2709c5d6d63eSBarry Smith 2710c5d6d63eSBarry Smith Collective on MPI_Comm 2711c5d6d63eSBarry Smith 2712c5d6d63eSBarry Smith Input Parameters: 271351dd7536SBarry Smith + comm - the communicators the parallel matrix will live on 2714d6bb3c2dSHong Zhang . inmat - the input sequential matrices 27150e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 2716d6bb3c2dSHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 271751dd7536SBarry Smith 271851dd7536SBarry Smith Output Parameter: 271951dd7536SBarry Smith . outmat - the parallel matrix generated 2720c5d6d63eSBarry Smith 27217e25d530SSatish Balay Level: advanced 27227e25d530SSatish Balay 2723f08fae4eSHong Zhang Notes: The number of columns of the matrix in EACH processor MUST be the same. 2724c5d6d63eSBarry Smith 2725c5d6d63eSBarry Smith @*/ 27260e36024fSHong Zhang PetscErrorCode MatMerge(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat) 2727c5d6d63eSBarry Smith { 2728dfbe8321SBarry Smith PetscErrorCode ierr; 2729b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz,I,*dnz,*onz; 2730ba8c8a56SBarry Smith PetscInt *indx; 2731ba8c8a56SBarry Smith PetscScalar *values; 273251dd7536SBarry Smith PetscMap columnmap,rowmap; 2733c5d6d63eSBarry Smith 2734c5d6d63eSBarry Smith PetscFunctionBegin; 27350e36024fSHong Zhang ierr = MatGetSize(inmat,&m,&N);CHKERRQ(ierr); 27362257cef7SHong Zhang /* 27372257cef7SHong Zhang PetscMPIInt rank; 27382257cef7SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 273955d1abb9SHong Zhang ierr = PetscPrintf(PETSC_COMM_SELF," [%d] inmat m=%d, n=%d, N=%d\n",rank,m,n,N); 274055d1abb9SHong Zhang */ 2741d6bb3c2dSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 2742d6bb3c2dSHong Zhang /* count nonzeros in each row, for diagonal and off diagonal portion of matrix */ 27430e36024fSHong Zhang if (n == PETSC_DECIDE){ 2744d6bb3c2dSHong Zhang ierr = PetscMapCreate(comm,&columnmap);CHKERRQ(ierr); 27450e36024fSHong Zhang ierr = PetscMapSetSize(columnmap,N);CHKERRQ(ierr); 2746d6bb3c2dSHong Zhang ierr = PetscMapSetType(columnmap,MAP_MPI);CHKERRQ(ierr); 2747d6bb3c2dSHong Zhang ierr = PetscMapGetLocalSize(columnmap,&n);CHKERRQ(ierr); 2748d6bb3c2dSHong Zhang ierr = PetscMapDestroy(columnmap);CHKERRQ(ierr); 27490e36024fSHong Zhang } 2750d6bb3c2dSHong Zhang 2751d6bb3c2dSHong Zhang ierr = PetscMapCreate(comm,&rowmap);CHKERRQ(ierr); 2752d6bb3c2dSHong Zhang ierr = PetscMapSetLocalSize(rowmap,m);CHKERRQ(ierr); 2753d6bb3c2dSHong Zhang ierr = PetscMapSetType(rowmap,MAP_MPI);CHKERRQ(ierr); 2754d6bb3c2dSHong Zhang ierr = PetscMapGetLocalRange(rowmap,&rstart,0);CHKERRQ(ierr); 2755d6bb3c2dSHong Zhang ierr = PetscMapDestroy(rowmap);CHKERRQ(ierr); 2756d6bb3c2dSHong Zhang 2757d6bb3c2dSHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 2758d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 2759ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 2760d6bb3c2dSHong Zhang ierr = MatPreallocateSet(i+rstart,nnz,indx,dnz,onz);CHKERRQ(ierr); 2761ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 2762d6bb3c2dSHong Zhang } 2763d6bb3c2dSHong Zhang /* This routine will ONLY return MPIAIJ type matrix */ 2764d6bb3c2dSHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,PETSC_DETERMINE,outmat);CHKERRQ(ierr); 2765d6bb3c2dSHong Zhang ierr = MatSetType(*outmat,MATMPIAIJ);CHKERRQ(ierr); 2766d6bb3c2dSHong Zhang ierr = MatMPIAIJSetPreallocation(*outmat,0,dnz,0,onz);CHKERRQ(ierr); 2767d6bb3c2dSHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 2768d6bb3c2dSHong Zhang 2769d6bb3c2dSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 2770d6bb3c2dSHong Zhang ierr = MatGetOwnershipRange(*outmat,&rstart,PETSC_NULL);CHKERRQ(ierr); 2771d6bb3c2dSHong Zhang } else { 277277431f27SBarry Smith SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 2773d6bb3c2dSHong Zhang } 2774d6bb3c2dSHong Zhang 2775d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 2776ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 2777d6bb3c2dSHong Zhang I = i + rstart; 2778906b51c7SHong Zhang ierr = MatSetValues(*outmat,1,&I,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 2779ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 2780d6bb3c2dSHong Zhang } 2781d6bb3c2dSHong Zhang ierr = MatDestroy(inmat);CHKERRQ(ierr); 2782d6bb3c2dSHong Zhang ierr = MatAssemblyBegin(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2783d6bb3c2dSHong Zhang ierr = MatAssemblyEnd(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 278451dd7536SBarry Smith 2785c5d6d63eSBarry Smith PetscFunctionReturn(0); 2786c5d6d63eSBarry Smith } 2787c5d6d63eSBarry Smith 2788c5d6d63eSBarry Smith #undef __FUNCT__ 2789c5d6d63eSBarry Smith #define __FUNCT__ "MatFileSplit" 2790dfbe8321SBarry Smith PetscErrorCode MatFileSplit(Mat A,char *outfile) 2791c5d6d63eSBarry Smith { 2792dfbe8321SBarry Smith PetscErrorCode ierr; 279332dcc486SBarry Smith PetscMPIInt rank; 2794b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz; 2795de4209c5SBarry Smith size_t len; 2796b1d57f15SBarry Smith const PetscInt *indx; 2797c5d6d63eSBarry Smith PetscViewer out; 2798c5d6d63eSBarry Smith char *name; 2799c5d6d63eSBarry Smith Mat B; 2800b3cc6726SBarry Smith const PetscScalar *values; 2801c5d6d63eSBarry Smith 2802c5d6d63eSBarry Smith PetscFunctionBegin; 2803c5d6d63eSBarry Smith ierr = MatGetLocalSize(A,&m,0);CHKERRQ(ierr); 2804c5d6d63eSBarry Smith ierr = MatGetSize(A,0,&N);CHKERRQ(ierr); 2805f204ca49SKris Buschelman /* Should this be the type of the diagonal block of A? */ 2806f204ca49SKris Buschelman ierr = MatCreate(PETSC_COMM_SELF,m,N,m,N,&B);CHKERRQ(ierr); 2807f204ca49SKris Buschelman ierr = MatSetType(B,MATSEQAIJ);CHKERRQ(ierr); 2808f204ca49SKris Buschelman ierr = MatSeqAIJSetPreallocation(B,0,PETSC_NULL);CHKERRQ(ierr); 2809c5d6d63eSBarry Smith ierr = MatGetOwnershipRange(A,&rstart,0);CHKERRQ(ierr); 2810c5d6d63eSBarry Smith for (i=0;i<m;i++) { 2811c5d6d63eSBarry Smith ierr = MatGetRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 2812c5d6d63eSBarry Smith ierr = MatSetValues(B,1,&i,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 2813c5d6d63eSBarry Smith ierr = MatRestoreRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 2814c5d6d63eSBarry Smith } 2815c5d6d63eSBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2816c5d6d63eSBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2817c5d6d63eSBarry Smith 2818c5d6d63eSBarry Smith ierr = MPI_Comm_rank(A->comm,&rank);CHKERRQ(ierr); 2819c5d6d63eSBarry Smith ierr = PetscStrlen(outfile,&len);CHKERRQ(ierr); 2820c5d6d63eSBarry Smith ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr); 2821c5d6d63eSBarry Smith sprintf(name,"%s.%d",outfile,rank); 282245f7d322SBarry Smith ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,PETSC_FILE_CREATE,&out);CHKERRQ(ierr); 2823c5d6d63eSBarry Smith ierr = PetscFree(name); 2824c5d6d63eSBarry Smith ierr = MatView(B,out);CHKERRQ(ierr); 2825c5d6d63eSBarry Smith ierr = PetscViewerDestroy(out);CHKERRQ(ierr); 2826c5d6d63eSBarry Smith ierr = MatDestroy(B);CHKERRQ(ierr); 2827c5d6d63eSBarry Smith PetscFunctionReturn(0); 2828c5d6d63eSBarry Smith } 2829e5f2cdd8SHong Zhang 283051a7d1a8SHong Zhang EXTERN PetscErrorCode MatDestroy_MPIAIJ(Mat); 283151a7d1a8SHong Zhang #undef __FUNCT__ 283251a7d1a8SHong Zhang #define __FUNCT__ "MatDestroy_MPIAIJ_SeqsToMPI" 283351a7d1a8SHong Zhang PetscErrorCode MatDestroy_MPIAIJ_SeqsToMPI(Mat A) 283451a7d1a8SHong Zhang { 283551a7d1a8SHong Zhang PetscErrorCode ierr; 2836671beff6SHong Zhang Mat_Merge_SeqsToMPI *merge; 2837671beff6SHong Zhang PetscObjectContainer container; 283851a7d1a8SHong Zhang 283951a7d1a8SHong Zhang PetscFunctionBegin; 2840671beff6SHong Zhang ierr = PetscObjectQuery((PetscObject)A,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 2841671beff6SHong Zhang if (container) { 28427f79fd58SMatthew Knepley ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 284351a7d1a8SHong Zhang ierr = PetscFree(merge->id_r);CHKERRQ(ierr); 28443e06a4e6SHong Zhang ierr = PetscFree(merge->len_s);CHKERRQ(ierr); 28453e06a4e6SHong Zhang ierr = PetscFree(merge->len_r);CHKERRQ(ierr); 284651a7d1a8SHong Zhang ierr = PetscFree(merge->bi);CHKERRQ(ierr); 284751a7d1a8SHong Zhang ierr = PetscFree(merge->bj);CHKERRQ(ierr); 284802c68681SHong Zhang ierr = PetscFree(merge->buf_ri);CHKERRQ(ierr); 284902c68681SHong Zhang ierr = PetscFree(merge->buf_rj);CHKERRQ(ierr); 285051a7d1a8SHong Zhang ierr = PetscMapDestroy(merge->rowmap);CHKERRQ(ierr); 2851de0260b3SHong Zhang if (merge->coi){ierr = PetscFree(merge->coi);CHKERRQ(ierr);} 2852de0260b3SHong Zhang if (merge->coj){ierr = PetscFree(merge->coj);CHKERRQ(ierr);} 2853de0260b3SHong Zhang if (merge->owners_co){ierr = PetscFree(merge->owners_co);CHKERRQ(ierr);} 2854671beff6SHong Zhang 2855671beff6SHong Zhang ierr = PetscObjectContainerDestroy(container);CHKERRQ(ierr); 2856671beff6SHong Zhang ierr = PetscObjectCompose((PetscObject)A,"MatMergeSeqsToMPI",0);CHKERRQ(ierr); 2857671beff6SHong Zhang } 285851a7d1a8SHong Zhang ierr = PetscFree(merge);CHKERRQ(ierr); 285951a7d1a8SHong Zhang 286051a7d1a8SHong Zhang ierr = MatDestroy_MPIAIJ(A);CHKERRQ(ierr); 286151a7d1a8SHong Zhang PetscFunctionReturn(0); 286251a7d1a8SHong Zhang } 286351a7d1a8SHong Zhang 286458cb9c82SHong Zhang #include "src/mat/utils/freespace.h" 2865be0fcf8dSHong Zhang #include "petscbt.h" 2866e5f2cdd8SHong Zhang #undef __FUNCT__ 2867e5f2cdd8SHong Zhang #define __FUNCT__ "MatMerge_SeqsToMPI" 2868e5f2cdd8SHong Zhang /*@C 2869f08fae4eSHong Zhang MatMerge_SeqsToMPI - Creates a MPIAIJ matrix by adding sequential 2870e5f2cdd8SHong Zhang matrices from each processor 2871e5f2cdd8SHong Zhang 2872e5f2cdd8SHong Zhang Collective on MPI_Comm 2873e5f2cdd8SHong Zhang 2874e5f2cdd8SHong Zhang Input Parameters: 2875e5f2cdd8SHong Zhang + comm - the communicators the parallel matrix will live on 2876f08fae4eSHong Zhang . seqmat - the input sequential matrices 28770e36024fSHong Zhang . m - number of local rows (or PETSC_DECIDE) 28780e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 2879e5f2cdd8SHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 2880e5f2cdd8SHong Zhang 2881e5f2cdd8SHong Zhang Output Parameter: 2882f08fae4eSHong Zhang . mpimat - the parallel matrix generated 2883e5f2cdd8SHong Zhang 2884e5f2cdd8SHong Zhang Level: advanced 2885e5f2cdd8SHong Zhang 2886affca5deSHong Zhang Notes: 2887affca5deSHong Zhang The dimensions of the sequential matrix in each processor MUST be the same. 2888affca5deSHong Zhang The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be 2889affca5deSHong Zhang destroyed when mpimat is destroyed. Call PetscObjectQuery() to access seqmat. 2890e5f2cdd8SHong Zhang @*/ 28913c2c1871SHong Zhang static PetscEvent logkey_seqstompinum = 0; 289255d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPINumeric(Mat seqmat,Mat mpimat) 289355d1abb9SHong Zhang { 289455d1abb9SHong Zhang PetscErrorCode ierr; 289555d1abb9SHong Zhang MPI_Comm comm=mpimat->comm; 289655d1abb9SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 2897b1d57f15SBarry Smith PetscMPIInt size,rank,taga,*len_s; 2898b1d57f15SBarry Smith PetscInt N=mpimat->N,i,j,*owners,*ai=a->i,*aj=a->j; 2899b1d57f15SBarry Smith PetscInt proc,m; 2900b1d57f15SBarry Smith PetscInt **buf_ri,**buf_rj; 2901b1d57f15SBarry Smith PetscInt k,anzi,*bj_i,*bi,*bj,arow,bnzi,nextaj; 2902b1d57f15SBarry Smith PetscInt nrows,**buf_ri_k,**nextrow,**nextai; 290355d1abb9SHong Zhang MPI_Request *s_waits,*r_waits; 290455d1abb9SHong Zhang MPI_Status *status; 2905ce805ee4SHong Zhang MatScalar *aa=a->a,**abuf_r,*ba_i; 290655d1abb9SHong Zhang Mat_Merge_SeqsToMPI *merge; 290755d1abb9SHong Zhang PetscObjectContainer container; 290855d1abb9SHong Zhang 290955d1abb9SHong Zhang PetscFunctionBegin; 29103c2c1871SHong Zhang if (!logkey_seqstompinum) { 29113c2c1871SHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompinum,"MatMerge_SeqsToMPINumeric",MAT_COOKIE); 29123c2c1871SHong Zhang } 29133c2c1871SHong Zhang ierr = PetscLogEventBegin(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 29143c2c1871SHong Zhang 291555d1abb9SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 291655d1abb9SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 291755d1abb9SHong Zhang 291855d1abb9SHong Zhang ierr = PetscObjectQuery((PetscObject)mpimat,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 291955d1abb9SHong Zhang if (container) { 292055d1abb9SHong Zhang ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 292155d1abb9SHong Zhang } 292255d1abb9SHong Zhang bi = merge->bi; 292355d1abb9SHong Zhang bj = merge->bj; 292455d1abb9SHong Zhang buf_ri = merge->buf_ri; 292555d1abb9SHong Zhang buf_rj = merge->buf_rj; 292655d1abb9SHong Zhang 292755d1abb9SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 292855d1abb9SHong Zhang ierr = PetscMapGetGlobalRange(merge->rowmap,&owners);CHKERRQ(ierr); 292955d1abb9SHong Zhang len_s = merge->len_s; 293055d1abb9SHong Zhang 293155d1abb9SHong Zhang /* send and recv matrix values */ 293255d1abb9SHong Zhang /*-----------------------------*/ 293355d1abb9SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&taga);CHKERRQ(ierr); 293455d1abb9SHong Zhang ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr); 293555d1abb9SHong Zhang 293655d1abb9SHong Zhang ierr = PetscMalloc((merge->nsend+1)*sizeof(MPI_Request),&s_waits);CHKERRQ(ierr); 293755d1abb9SHong Zhang for (proc=0,k=0; proc<size; proc++){ 293855d1abb9SHong Zhang if (!len_s[proc]) continue; 293955d1abb9SHong Zhang i = owners[proc]; 294055d1abb9SHong Zhang ierr = MPI_Isend(aa+ai[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRQ(ierr); 294155d1abb9SHong Zhang k++; 294255d1abb9SHong Zhang } 294355d1abb9SHong Zhang 294455d1abb9SHong Zhang ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRQ(ierr); 294555d1abb9SHong Zhang ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRQ(ierr); 294655d1abb9SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 294755d1abb9SHong Zhang 294855d1abb9SHong Zhang ierr = PetscFree(s_waits);CHKERRQ(ierr); 294955d1abb9SHong Zhang ierr = PetscFree(r_waits);CHKERRQ(ierr); 295055d1abb9SHong Zhang 295155d1abb9SHong Zhang /* insert mat values of mpimat */ 295255d1abb9SHong Zhang /*----------------------------*/ 295355d1abb9SHong Zhang ierr = PetscMalloc(N*sizeof(MatScalar),&ba_i);CHKERRQ(ierr); 2954b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 295555d1abb9SHong Zhang nextrow = buf_ri_k + merge->nrecv; 295655d1abb9SHong Zhang nextai = nextrow + merge->nrecv; 295755d1abb9SHong Zhang 295855d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ 295955d1abb9SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 296055d1abb9SHong Zhang nrows = *(buf_ri_k[k]); 296155d1abb9SHong Zhang nextrow[k] = buf_ri_k[k]+1; /* next row number of k-th recved i-structure */ 296255d1abb9SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 296355d1abb9SHong Zhang } 296455d1abb9SHong Zhang 296555d1abb9SHong Zhang /* set values of ba */ 296655d1abb9SHong Zhang ierr = PetscMapGetLocalSize(merge->rowmap,&m);CHKERRQ(ierr); 296755d1abb9SHong Zhang for (i=0; i<m; i++) { 296855d1abb9SHong Zhang arow = owners[rank] + i; 296955d1abb9SHong Zhang bj_i = bj+bi[i]; /* col indices of the i-th row of mpimat */ 297055d1abb9SHong Zhang bnzi = bi[i+1] - bi[i]; 297155d1abb9SHong Zhang ierr = PetscMemzero(ba_i,bnzi*sizeof(MatScalar));CHKERRQ(ierr); 297255d1abb9SHong Zhang 297355d1abb9SHong Zhang /* add local non-zero vals of this proc's seqmat into ba */ 297455d1abb9SHong Zhang anzi = ai[arow+1] - ai[arow]; 297555d1abb9SHong Zhang aj = a->j + ai[arow]; 297655d1abb9SHong Zhang aa = a->a + ai[arow]; 297755d1abb9SHong Zhang nextaj = 0; 297855d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 297955d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 298055d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 298155d1abb9SHong Zhang } 298255d1abb9SHong Zhang } 298355d1abb9SHong Zhang 298455d1abb9SHong Zhang /* add received vals into ba */ 298555d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 298655d1abb9SHong Zhang /* i-th row */ 298755d1abb9SHong Zhang if (i == *nextrow[k]) { 298855d1abb9SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 298955d1abb9SHong Zhang aj = buf_rj[k] + *(nextai[k]); 299055d1abb9SHong Zhang aa = abuf_r[k] + *(nextai[k]); 299155d1abb9SHong Zhang nextaj = 0; 299255d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 299355d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 299455d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 299555d1abb9SHong Zhang } 299655d1abb9SHong Zhang } 299755d1abb9SHong Zhang nextrow[k]++; nextai[k]++; 299855d1abb9SHong Zhang } 299955d1abb9SHong Zhang } 300055d1abb9SHong Zhang ierr = MatSetValues(mpimat,1,&arow,bnzi,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr); 300155d1abb9SHong Zhang } 300255d1abb9SHong Zhang ierr = MatAssemblyBegin(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 300355d1abb9SHong Zhang ierr = MatAssemblyEnd(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 300455d1abb9SHong Zhang 300555d1abb9SHong Zhang ierr = PetscFree(abuf_r);CHKERRQ(ierr); 300655d1abb9SHong Zhang ierr = PetscFree(ba_i);CHKERRQ(ierr); 300755d1abb9SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 30083c2c1871SHong Zhang ierr = PetscLogEventEnd(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 300955d1abb9SHong Zhang PetscFunctionReturn(0); 301055d1abb9SHong Zhang } 30113c2c1871SHong Zhang static PetscEvent logkey_seqstompisym = 0; 301255d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPISymbolic(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,Mat *mpimat) 3013e5f2cdd8SHong Zhang { 3014f08fae4eSHong Zhang PetscErrorCode ierr; 301555a3bba9SHong Zhang Mat B_mpi; 3016c2234fe3SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 3017b1d57f15SBarry Smith PetscMPIInt size,rank,tagi,tagj,*len_s,*len_si,*len_ri; 3018b1d57f15SBarry Smith PetscInt **buf_rj,**buf_ri,**buf_ri_k; 3019b1d57f15SBarry Smith PetscInt M=seqmat->m,N=seqmat->n,i,*owners,*ai=a->i,*aj=a->j; 3020b1d57f15SBarry Smith PetscInt len,proc,*dnz,*onz; 3021b1d57f15SBarry Smith PetscInt k,anzi,*bi,*bj,*lnk,nlnk,arow,bnzi,nspacedouble=0; 3022b1d57f15SBarry Smith PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextai; 302355d1abb9SHong Zhang MPI_Request *si_waits,*sj_waits,*ri_waits,*rj_waits; 302458cb9c82SHong Zhang MPI_Status *status; 302558cb9c82SHong Zhang FreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 3026be0fcf8dSHong Zhang PetscBT lnkbt; 302751a7d1a8SHong Zhang Mat_Merge_SeqsToMPI *merge; 3028671beff6SHong Zhang PetscObjectContainer container; 302902c68681SHong Zhang 3030e5f2cdd8SHong Zhang PetscFunctionBegin; 30313c2c1871SHong Zhang if (!logkey_seqstompisym) { 30323c2c1871SHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompisym,"MatMerge_SeqsToMPISymbolic",MAT_COOKIE); 30333c2c1871SHong Zhang } 30343c2c1871SHong Zhang ierr = PetscLogEventBegin(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 30353c2c1871SHong Zhang 3036e5f2cdd8SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3037e5f2cdd8SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 303855d1abb9SHong Zhang 303951a7d1a8SHong Zhang ierr = PetscNew(Mat_Merge_SeqsToMPI,&merge);CHKERRQ(ierr); 3040c2234fe3SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 3041e5f2cdd8SHong Zhang 30426abd8857SHong Zhang /* determine row ownership */ 3043f08fae4eSHong Zhang /*---------------------------------------------------------*/ 304451a7d1a8SHong Zhang ierr = PetscMapCreate(comm,&merge->rowmap);CHKERRQ(ierr); 30450e36024fSHong Zhang if (m == PETSC_DECIDE) { 304651a7d1a8SHong Zhang ierr = PetscMapSetSize(merge->rowmap,M);CHKERRQ(ierr); 30470e36024fSHong Zhang } else { 30480e36024fSHong Zhang ierr = PetscMapSetLocalSize(merge->rowmap,m);CHKERRQ(ierr); 30490e36024fSHong Zhang } 305051a7d1a8SHong Zhang ierr = PetscMapSetType(merge->rowmap,MAP_MPI);CHKERRQ(ierr); 3051b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&len_si);CHKERRQ(ierr); 3052b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&merge->len_s);CHKERRQ(ierr); 305355d1abb9SHong Zhang 305455d1abb9SHong Zhang if (m == PETSC_DECIDE) {ierr = PetscMapGetLocalSize(merge->rowmap,&m);CHKERRQ(ierr); } 305551a7d1a8SHong Zhang ierr = PetscMapGetGlobalRange(merge->rowmap,&owners);CHKERRQ(ierr); 30566abd8857SHong Zhang 30576abd8857SHong Zhang /* determine the number of messages to send, their lengths */ 30586abd8857SHong Zhang /*---------------------------------------------------------*/ 30593e06a4e6SHong Zhang len_s = merge->len_s; 306051a7d1a8SHong Zhang 30612257cef7SHong Zhang len = 0; /* length of buf_si[] */ 3062c2234fe3SHong Zhang merge->nsend = 0; 3063409913e3SHong Zhang for (proc=0; proc<size; proc++){ 30642257cef7SHong Zhang len_si[proc] = 0; 30653e06a4e6SHong Zhang if (proc == rank){ 30666abd8857SHong Zhang len_s[proc] = 0; 30673e06a4e6SHong Zhang } else { 306802c68681SHong Zhang len_si[proc] = owners[proc+1] - owners[proc] + 1; 30693e06a4e6SHong Zhang len_s[proc] = ai[owners[proc+1]] - ai[owners[proc]]; /* num of rows to be sent to [proc] */ 30703e06a4e6SHong Zhang } 30713e06a4e6SHong Zhang if (len_s[proc]) { 3072c2234fe3SHong Zhang merge->nsend++; 30732257cef7SHong Zhang nrows = 0; 30742257cef7SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 30752257cef7SHong Zhang if (ai[i+1] > ai[i]) nrows++; 30762257cef7SHong Zhang } 30772257cef7SHong Zhang len_si[proc] = 2*(nrows+1); 30782257cef7SHong Zhang len += len_si[proc]; 3079409913e3SHong Zhang } 308058cb9c82SHong Zhang } 3081409913e3SHong Zhang 30822257cef7SHong Zhang /* determine the number and length of messages to receive for ij-structure */ 30832257cef7SHong Zhang /*-------------------------------------------------------------------------*/ 308451a7d1a8SHong Zhang ierr = PetscGatherNumberOfMessages(comm,PETSC_NULL,len_s,&merge->nrecv);CHKERRQ(ierr); 308555d1abb9SHong Zhang ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr); 3086671beff6SHong Zhang 30873e06a4e6SHong Zhang /* post the Irecv of j-structure */ 30883e06a4e6SHong Zhang /*-------------------------------*/ 308902c68681SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&tagj);CHKERRQ(ierr); 30903e06a4e6SHong Zhang ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rj_waits);CHKERRQ(ierr); 309102c68681SHong Zhang 30923e06a4e6SHong Zhang /* post the Isend of j-structure */ 3093affca5deSHong Zhang /*--------------------------------*/ 30942257cef7SHong Zhang ierr = PetscMalloc((2*merge->nsend+1)*sizeof(MPI_Request),&si_waits);CHKERRQ(ierr); 309502c68681SHong Zhang sj_waits = si_waits + merge->nsend; 30963e06a4e6SHong Zhang 30972257cef7SHong Zhang for (proc=0, k=0; proc<size; proc++){ 3098409913e3SHong Zhang if (!len_s[proc]) continue; 309902c68681SHong Zhang i = owners[proc]; 3100b1d57f15SBarry Smith ierr = MPI_Isend(aj+ai[i],len_s[proc],MPIU_INT,proc,tagj,comm,sj_waits+k);CHKERRQ(ierr); 310151a7d1a8SHong Zhang k++; 310251a7d1a8SHong Zhang } 310351a7d1a8SHong Zhang 31043e06a4e6SHong Zhang /* receives and sends of j-structure are complete */ 31053e06a4e6SHong Zhang /*------------------------------------------------*/ 310602c68681SHong Zhang ierr = MPI_Waitall(merge->nrecv,rj_waits,status);CHKERRQ(ierr); 310702c68681SHong Zhang ierr = MPI_Waitall(merge->nsend,sj_waits,status);CHKERRQ(ierr); 310802c68681SHong Zhang 310902c68681SHong Zhang /* send and recv i-structure */ 311002c68681SHong Zhang /*---------------------------*/ 311102c68681SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&tagi);CHKERRQ(ierr); 311202c68681SHong Zhang ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&ri_waits);CHKERRQ(ierr); 311302c68681SHong Zhang 3114b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&buf_s);CHKERRQ(ierr); 31153e06a4e6SHong Zhang buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 31162257cef7SHong Zhang for (proc=0,k=0; proc<size; proc++){ 311702c68681SHong Zhang if (!len_s[proc]) continue; 31183e06a4e6SHong Zhang /* form outgoing message for i-structure: 31193e06a4e6SHong Zhang buf_si[0]: nrows to be sent 31203e06a4e6SHong Zhang [1:nrows]: row index (global) 31213e06a4e6SHong Zhang [nrows+1:2*nrows+1]: i-structure index 31223e06a4e6SHong Zhang */ 31233e06a4e6SHong Zhang /*-------------------------------------------*/ 31242257cef7SHong Zhang nrows = len_si[proc]/2 - 1; 31253e06a4e6SHong Zhang buf_si_i = buf_si + nrows+1; 31263e06a4e6SHong Zhang buf_si[0] = nrows; 31273e06a4e6SHong Zhang buf_si_i[0] = 0; 31283e06a4e6SHong Zhang nrows = 0; 31293e06a4e6SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 31303e06a4e6SHong Zhang anzi = ai[i+1] - ai[i]; 31313e06a4e6SHong Zhang if (anzi) { 31323e06a4e6SHong Zhang buf_si_i[nrows+1] = buf_si_i[nrows] + anzi; /* i-structure */ 31333e06a4e6SHong Zhang buf_si[nrows+1] = i-owners[proc]; /* local row index */ 31343e06a4e6SHong Zhang nrows++; 31353e06a4e6SHong Zhang } 31363e06a4e6SHong Zhang } 3137b1d57f15SBarry Smith ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,si_waits+k);CHKERRQ(ierr); 313802c68681SHong Zhang k++; 31392257cef7SHong Zhang buf_si += len_si[proc]; 314002c68681SHong Zhang } 31412257cef7SHong Zhang 314202c68681SHong Zhang ierr = MPI_Waitall(merge->nrecv,ri_waits,status);CHKERRQ(ierr); 314302c68681SHong Zhang ierr = MPI_Waitall(merge->nsend,si_waits,status);CHKERRQ(ierr); 314402c68681SHong Zhang 314577431f27SBarry Smith ierr = PetscLogInfo((PetscObject)(seqmat),"MatMerge_SeqsToMPI: nsend: %D, nrecv: %D\n",merge->nsend,merge->nrecv);CHKERRQ(ierr); 31463e06a4e6SHong Zhang for (i=0; i<merge->nrecv; i++){ 314777431f27SBarry 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); 31483e06a4e6SHong Zhang } 31493e06a4e6SHong Zhang 31503e06a4e6SHong Zhang ierr = PetscFree(len_si);CHKERRQ(ierr); 315102c68681SHong Zhang ierr = PetscFree(len_ri);CHKERRQ(ierr); 315202c68681SHong Zhang ierr = PetscFree(rj_waits);CHKERRQ(ierr); 31533e06a4e6SHong Zhang ierr = PetscFree(si_waits);CHKERRQ(ierr); 31542257cef7SHong Zhang ierr = PetscFree(ri_waits);CHKERRQ(ierr); 31553e06a4e6SHong Zhang ierr = PetscFree(buf_s);CHKERRQ(ierr); 3156bcc1bcd5SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 315758cb9c82SHong Zhang 3158bcc1bcd5SHong Zhang /* compute a local seq matrix in each processor */ 3159bcc1bcd5SHong Zhang /*----------------------------------------------*/ 316058cb9c82SHong Zhang /* allocate bi array and free space for accumulating nonzero column info */ 3161b1d57f15SBarry Smith ierr = PetscMalloc((m+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr); 316258cb9c82SHong Zhang bi[0] = 0; 316358cb9c82SHong Zhang 3164be0fcf8dSHong Zhang /* create and initialize a linked list */ 3165be0fcf8dSHong Zhang nlnk = N+1; 3166be0fcf8dSHong Zhang ierr = PetscLLCreate(N,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 316758cb9c82SHong Zhang 3168bcc1bcd5SHong Zhang /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */ 316958cb9c82SHong Zhang len = 0; 3170bcc1bcd5SHong Zhang len = ai[owners[rank+1]] - ai[owners[rank]]; 3171b1d57f15SBarry Smith ierr = GetMoreSpace((PetscInt)(2*len+1),&free_space);CHKERRQ(ierr); 317258cb9c82SHong Zhang current_space = free_space; 317358cb9c82SHong Zhang 3174bcc1bcd5SHong Zhang /* determine symbolic info for each local row */ 3175b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 31763e06a4e6SHong Zhang nextrow = buf_ri_k + merge->nrecv; 31773e06a4e6SHong Zhang nextai = nextrow + merge->nrecv; 31783e06a4e6SHong Zhang for (k=0; k<merge->nrecv; k++){ 31792257cef7SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 31803e06a4e6SHong Zhang nrows = *buf_ri_k[k]; 31813e06a4e6SHong Zhang nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 31822257cef7SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 31833e06a4e6SHong Zhang } 31842257cef7SHong Zhang 3185bcc1bcd5SHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 3186bcc1bcd5SHong Zhang len = 0; 318758cb9c82SHong Zhang for (i=0;i<m;i++) { 318858cb9c82SHong Zhang bnzi = 0; 318958cb9c82SHong Zhang /* add local non-zero cols of this proc's seqmat into lnk */ 319058cb9c82SHong Zhang arow = owners[rank] + i; 319158cb9c82SHong Zhang anzi = ai[arow+1] - ai[arow]; 319258cb9c82SHong Zhang aj = a->j + ai[arow]; 3193be0fcf8dSHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 319458cb9c82SHong Zhang bnzi += nlnk; 319558cb9c82SHong Zhang /* add received col data into lnk */ 319651a7d1a8SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 319755d1abb9SHong Zhang if (i == *nextrow[k]) { /* i-th row */ 31983e06a4e6SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 31993e06a4e6SHong Zhang aj = buf_rj[k] + *nextai[k]; 32003e06a4e6SHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 32013e06a4e6SHong Zhang bnzi += nlnk; 32023e06a4e6SHong Zhang nextrow[k]++; nextai[k]++; 32033e06a4e6SHong Zhang } 320458cb9c82SHong Zhang } 3205bcc1bcd5SHong Zhang if (len < bnzi) len = bnzi; /* =max(bnzi) */ 320658cb9c82SHong Zhang 320758cb9c82SHong Zhang /* if free space is not available, make more free space */ 320858cb9c82SHong Zhang if (current_space->local_remaining<bnzi) { 320958cb9c82SHong Zhang ierr = GetMoreSpace(current_space->total_array_size,¤t_space);CHKERRQ(ierr); 321058cb9c82SHong Zhang nspacedouble++; 321158cb9c82SHong Zhang } 321258cb9c82SHong Zhang /* copy data into free space, then initialize lnk */ 3213be0fcf8dSHong Zhang ierr = PetscLLClean(N,N,bnzi,lnk,current_space->array,lnkbt);CHKERRQ(ierr); 3214bcc1bcd5SHong Zhang ierr = MatPreallocateSet(i+owners[rank],bnzi,current_space->array,dnz,onz);CHKERRQ(ierr); 3215bcc1bcd5SHong Zhang 321658cb9c82SHong Zhang current_space->array += bnzi; 321758cb9c82SHong Zhang current_space->local_used += bnzi; 321858cb9c82SHong Zhang current_space->local_remaining -= bnzi; 321958cb9c82SHong Zhang 322058cb9c82SHong Zhang bi[i+1] = bi[i] + bnzi; 322158cb9c82SHong Zhang } 3222bcc1bcd5SHong Zhang 3223bcc1bcd5SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 3224bcc1bcd5SHong Zhang 3225b1d57f15SBarry Smith ierr = PetscMalloc((bi[m]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr); 322658cb9c82SHong Zhang ierr = MakeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 3227be0fcf8dSHong Zhang ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 3228409913e3SHong Zhang 3229bcc1bcd5SHong Zhang /* create symbolic parallel matrix B_mpi */ 3230bcc1bcd5SHong Zhang /*---------------------------------------*/ 323154b84b50SHong Zhang if (n==PETSC_DECIDE) { 323254b84b50SHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,N,&B_mpi);CHKERRQ(ierr); 323354b84b50SHong Zhang } else { 3234bcc1bcd5SHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,PETSC_DETERMINE,&B_mpi);CHKERRQ(ierr); 323554b84b50SHong Zhang } 3236bcc1bcd5SHong Zhang ierr = MatSetType(B_mpi,MATMPIAIJ);CHKERRQ(ierr); 3237bcc1bcd5SHong Zhang ierr = MatMPIAIJSetPreallocation(B_mpi,0,dnz,0,onz);CHKERRQ(ierr); 3238bcc1bcd5SHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 323958cb9c82SHong Zhang 32406abd8857SHong Zhang /* B_mpi is not ready for use - assembly will be done by MatMerge_SeqsToMPINumeric() */ 32416abd8857SHong Zhang B_mpi->assembled = PETSC_FALSE; 3242affca5deSHong Zhang B_mpi->ops->destroy = MatDestroy_MPIAIJ_SeqsToMPI; 3243affca5deSHong Zhang merge->bi = bi; 3244affca5deSHong Zhang merge->bj = bj; 324502c68681SHong Zhang merge->buf_ri = buf_ri; 324602c68681SHong Zhang merge->buf_rj = buf_rj; 3247de0260b3SHong Zhang merge->coi = PETSC_NULL; 3248de0260b3SHong Zhang merge->coj = PETSC_NULL; 3249de0260b3SHong Zhang merge->owners_co = PETSC_NULL; 3250affca5deSHong Zhang 3251affca5deSHong Zhang /* attach the supporting struct to B_mpi for reuse */ 3252affca5deSHong Zhang ierr = PetscObjectContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr); 3253affca5deSHong Zhang ierr = PetscObjectContainerSetPointer(container,merge);CHKERRQ(ierr); 3254affca5deSHong Zhang ierr = PetscObjectCompose((PetscObject)B_mpi,"MatMergeSeqsToMPI",(PetscObject)container);CHKERRQ(ierr); 3255affca5deSHong Zhang *mpimat = B_mpi; 32563c2c1871SHong Zhang ierr = PetscLogEventEnd(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 3257e5f2cdd8SHong Zhang PetscFunctionReturn(0); 3258e5f2cdd8SHong Zhang } 325925616d81SHong Zhang 3260e462e02cSHong Zhang static PetscEvent logkey_seqstompi = 0; 326155d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPI(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,MatReuse scall,Mat *mpimat) 326255d1abb9SHong Zhang { 326355d1abb9SHong Zhang PetscErrorCode ierr; 326455d1abb9SHong Zhang 326555d1abb9SHong Zhang PetscFunctionBegin; 3266e462e02cSHong Zhang if (!logkey_seqstompi) { 3267e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompi,"MatMerge_SeqsToMPI",MAT_COOKIE); 3268e462e02cSHong Zhang } 3269e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 327055d1abb9SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 327155d1abb9SHong Zhang ierr = MatMerge_SeqsToMPISymbolic(comm,seqmat,m,n,mpimat);CHKERRQ(ierr); 327255d1abb9SHong Zhang } 327355d1abb9SHong Zhang ierr = MatMerge_SeqsToMPINumeric(seqmat,*mpimat);CHKERRQ(ierr); 3274e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 327555d1abb9SHong Zhang PetscFunctionReturn(0); 327655d1abb9SHong Zhang } 3277a61c8c0fSHong Zhang static PetscEvent logkey_getlocalmat = 0; 327825616d81SHong Zhang #undef __FUNCT__ 327925616d81SHong Zhang #define __FUNCT__ "MatGetLocalMat" 328025616d81SHong Zhang /*@C 328132fba14fSHong Zhang MatGetLocalMat - Creates a SeqAIJ matrix by taking all its local rows 328225616d81SHong Zhang 328332fba14fSHong Zhang Not Collective 328425616d81SHong Zhang 328525616d81SHong Zhang Input Parameters: 328625616d81SHong Zhang + A - the matrix 328725616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 328825616d81SHong Zhang 328925616d81SHong Zhang Output Parameter: 329025616d81SHong Zhang . A_loc - the local sequential matrix generated 329125616d81SHong Zhang 329225616d81SHong Zhang Level: developer 329325616d81SHong Zhang 329425616d81SHong Zhang @*/ 329532fba14fSHong Zhang PetscErrorCode MatGetLocalMat(Mat A,MatReuse scall,Mat *A_loc) 329625616d81SHong Zhang { 329725616d81SHong Zhang PetscErrorCode ierr; 329801b7ae99SHong Zhang Mat_MPIAIJ *mpimat=(Mat_MPIAIJ*)A->data; 329901b7ae99SHong Zhang Mat_SeqAIJ *mat,*a=(Mat_SeqAIJ*)(mpimat->A)->data,*b=(Mat_SeqAIJ*)(mpimat->B)->data; 330001b7ae99SHong Zhang PetscInt *ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j,*cmap=mpimat->garray; 3301dea91ad1SHong Zhang PetscScalar *aa=a->a,*ba=b->a,*ca; 3302ecc9b87dSHong Zhang PetscInt am=A->m,i,j,k,cstart=mpimat->cstart; 33035a7d977cSHong Zhang PetscInt *ci,*cj,col,ncols_d,ncols_o,jo; 330425616d81SHong Zhang 330525616d81SHong Zhang PetscFunctionBegin; 3306e462e02cSHong Zhang if (!logkey_getlocalmat) { 3307e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_getlocalmat,"MatGetLocalMat",MAT_COOKIE); 3308e462e02cSHong Zhang } 3309e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr); 331001b7ae99SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3311dea91ad1SHong Zhang ierr = PetscMalloc((1+am)*sizeof(PetscInt),&ci);CHKERRQ(ierr); 3312dea91ad1SHong Zhang ci[0] = 0; 331301b7ae99SHong Zhang for (i=0; i<am; i++){ 3314dea91ad1SHong Zhang ci[i+1] = ci[i] + (ai[i+1] - ai[i]) + (bi[i+1] - bi[i]); 331501b7ae99SHong Zhang } 3316dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscInt),&cj);CHKERRQ(ierr); 3317dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscScalar),&ca);CHKERRQ(ierr); 3318dea91ad1SHong Zhang k = 0; 331901b7ae99SHong Zhang for (i=0; i<am; i++) { 33205a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 33215a7d977cSHong Zhang ncols_d = ai[i+1] - ai[i]; 332201b7ae99SHong Zhang /* off-diagonal portion of A */ 33235a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 33245a7d977cSHong Zhang col = cmap[*bj]; 33255a7d977cSHong Zhang if (col >= cstart) break; 33265a7d977cSHong Zhang cj[k] = col; bj++; 33275a7d977cSHong Zhang ca[k++] = *ba++; 33285a7d977cSHong Zhang } 33295a7d977cSHong Zhang /* diagonal portion of A */ 33305a7d977cSHong Zhang for (j=0; j<ncols_d; j++) { 33315a7d977cSHong Zhang cj[k] = cstart + *aj++; 33325a7d977cSHong Zhang ca[k++] = *aa++; 33335a7d977cSHong Zhang } 33345a7d977cSHong Zhang /* off-diagonal portion of A */ 33355a7d977cSHong Zhang for (j=jo; j<ncols_o; j++) { 33365a7d977cSHong Zhang cj[k] = cmap[*bj++]; 33375a7d977cSHong Zhang ca[k++] = *ba++; 33385a7d977cSHong Zhang } 333925616d81SHong Zhang } 3340dea91ad1SHong Zhang /* put together the new matrix */ 3341dea91ad1SHong Zhang ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,am,A->N,ci,cj,ca,A_loc);CHKERRQ(ierr); 3342dea91ad1SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 3343dea91ad1SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 3344dea91ad1SHong Zhang mat = (Mat_SeqAIJ*)(*A_loc)->data; 3345dea91ad1SHong Zhang mat->freedata = PETSC_TRUE; 3346dea91ad1SHong Zhang mat->nonew = 0; 33475a7d977cSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 33485a7d977cSHong Zhang mat=(Mat_SeqAIJ*)(*A_loc)->data; 33495a7d977cSHong Zhang ci = mat->i; cj = mat->j; ca = mat->a; 33505a7d977cSHong Zhang for (i=0; i<am; i++) { 33515a7d977cSHong Zhang /* off-diagonal portion of A */ 33525a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 33535a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 33545a7d977cSHong Zhang col = cmap[*bj]; 33555a7d977cSHong Zhang if (col >= cstart) break; 3356f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 33575a7d977cSHong Zhang } 33585a7d977cSHong Zhang /* diagonal portion of A */ 3359ecc9b87dSHong Zhang ncols_d = ai[i+1] - ai[i]; 3360ecc9b87dSHong Zhang for (j=0; j<ncols_d; j++) *ca++ = *aa++; 33615a7d977cSHong Zhang /* off-diagonal portion of A */ 3362f33d1a9aSHong Zhang for (j=jo; j<ncols_o; j++) { 3363f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 3364f33d1a9aSHong Zhang } 33655a7d977cSHong Zhang } 33665a7d977cSHong Zhang } else { 33675a7d977cSHong Zhang SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 336825616d81SHong Zhang } 336901b7ae99SHong Zhang 3370e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr); 337125616d81SHong Zhang PetscFunctionReturn(0); 337225616d81SHong Zhang } 337325616d81SHong Zhang 337432fba14fSHong Zhang static PetscEvent logkey_getlocalmatcondensed = 0; 337532fba14fSHong Zhang #undef __FUNCT__ 337632fba14fSHong Zhang #define __FUNCT__ "MatGetLocalMatCondensed" 337732fba14fSHong Zhang /*@C 337832fba14fSHong Zhang MatGetLocalMatCondensed - Creates a SeqAIJ matrix by taking all its local rows and NON-ZERO columns 337932fba14fSHong Zhang 338032fba14fSHong Zhang Not Collective 338132fba14fSHong Zhang 338232fba14fSHong Zhang Input Parameters: 338332fba14fSHong Zhang + A - the matrix 338432fba14fSHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 338532fba14fSHong Zhang - row, col - index sets of rows and columns to extract (or PETSC_NULL) 338632fba14fSHong Zhang 338732fba14fSHong Zhang Output Parameter: 338832fba14fSHong Zhang . A_loc - the local sequential matrix generated 338932fba14fSHong Zhang 339032fba14fSHong Zhang Level: developer 339132fba14fSHong Zhang 339232fba14fSHong Zhang @*/ 339332fba14fSHong Zhang PetscErrorCode MatGetLocalMatCondensed(Mat A,MatReuse scall,IS *row,IS *col,Mat *A_loc) 339432fba14fSHong Zhang { 339532fba14fSHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 339632fba14fSHong Zhang PetscErrorCode ierr; 339732fba14fSHong Zhang PetscInt i,start,end,ncols,nzA,nzB,*cmap,imark,*idx; 339832fba14fSHong Zhang IS isrowa,iscola; 339932fba14fSHong Zhang Mat *aloc; 340032fba14fSHong Zhang 340132fba14fSHong Zhang PetscFunctionBegin; 340232fba14fSHong Zhang if (!logkey_getlocalmatcondensed) { 340332fba14fSHong Zhang ierr = PetscLogEventRegister(&logkey_getlocalmatcondensed,"MatGetLocalMatCondensed",MAT_COOKIE); 340432fba14fSHong Zhang } 340532fba14fSHong Zhang ierr = PetscLogEventBegin(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 340632fba14fSHong Zhang if (!row){ 340732fba14fSHong Zhang start = a->rstart; end = a->rend; 340832fba14fSHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,end-start,start,1,&isrowa);CHKERRQ(ierr); 340932fba14fSHong Zhang } else { 341032fba14fSHong Zhang isrowa = *row; 341132fba14fSHong Zhang } 341232fba14fSHong Zhang if (!col){ 341332fba14fSHong Zhang start = a->cstart; 341432fba14fSHong Zhang cmap = a->garray; 341532fba14fSHong Zhang nzA = a->A->n; 341632fba14fSHong Zhang nzB = a->B->n; 341732fba14fSHong Zhang ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 341832fba14fSHong Zhang ncols = 0; 341932fba14fSHong Zhang for (i=0; i<nzB; i++) { 342032fba14fSHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 342132fba14fSHong Zhang else break; 342232fba14fSHong Zhang } 342332fba14fSHong Zhang imark = i; 342432fba14fSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; 342532fba14fSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; 342632fba14fSHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&iscola);CHKERRQ(ierr); 342732fba14fSHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 342832fba14fSHong Zhang } else { 342932fba14fSHong Zhang iscola = *col; 343032fba14fSHong Zhang } 343132fba14fSHong Zhang if (scall != MAT_INITIAL_MATRIX){ 343232fba14fSHong Zhang ierr = PetscMalloc(sizeof(Mat),&aloc);CHKERRQ(ierr); 343332fba14fSHong Zhang aloc[0] = *A_loc; 343432fba14fSHong Zhang } 343532fba14fSHong Zhang ierr = MatGetSubMatrices(A,1,&isrowa,&iscola,scall,&aloc);CHKERRQ(ierr); 343632fba14fSHong Zhang *A_loc = aloc[0]; 343732fba14fSHong Zhang ierr = PetscFree(aloc);CHKERRQ(ierr); 343832fba14fSHong Zhang if (!row){ 343932fba14fSHong Zhang ierr = ISDestroy(isrowa);CHKERRQ(ierr); 344032fba14fSHong Zhang } 344132fba14fSHong Zhang if (!col){ 344232fba14fSHong Zhang ierr = ISDestroy(iscola);CHKERRQ(ierr); 344332fba14fSHong Zhang } 344432fba14fSHong Zhang ierr = PetscLogEventEnd(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 344532fba14fSHong Zhang PetscFunctionReturn(0); 344632fba14fSHong Zhang } 344732fba14fSHong Zhang 3448a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAcols = 0; 344925616d81SHong Zhang #undef __FUNCT__ 345025616d81SHong Zhang #define __FUNCT__ "MatGetBrowsOfAcols" 345125616d81SHong Zhang /*@C 345232fba14fSHong Zhang MatGetBrowsOfAcols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A 345325616d81SHong Zhang 345425616d81SHong Zhang Collective on Mat 345525616d81SHong Zhang 345625616d81SHong Zhang Input Parameters: 3457e240928fSHong Zhang + A,B - the matrices in mpiaij format 345825616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 345925616d81SHong Zhang - rowb, colb - index sets of rows and columns of B to extract (or PETSC_NULL) 346025616d81SHong Zhang 346125616d81SHong Zhang Output Parameter: 346225616d81SHong Zhang + rowb, colb - index sets of rows and columns of B to extract 346325616d81SHong Zhang . brstart - row index of B_seq from which next B->m rows are taken from B's local rows 346425616d81SHong Zhang - B_seq - the sequential matrix generated 346525616d81SHong Zhang 346625616d81SHong Zhang Level: developer 346725616d81SHong Zhang 346825616d81SHong Zhang @*/ 346925616d81SHong Zhang PetscErrorCode MatGetBrowsOfAcols(Mat A,Mat B,MatReuse scall,IS *rowb,IS *colb,PetscInt *brstart,Mat *B_seq) 347025616d81SHong Zhang { 347125616d81SHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data,*b=(Mat_MPIAIJ*)B->data; 347225616d81SHong Zhang PetscErrorCode ierr; 3473b1d57f15SBarry Smith PetscInt *idx,i,start,ncols,nzA,nzB,*cmap,imark; 347425616d81SHong Zhang IS isrowb,iscolb; 347525616d81SHong Zhang Mat *bseq; 347625616d81SHong Zhang 347725616d81SHong Zhang PetscFunctionBegin; 347825616d81SHong Zhang if (a->cstart != b->rstart || a->cend != b->rend){ 347977431f27SBarry Smith SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",a->cstart,a->cend,b->rstart,b->rend); 348025616d81SHong Zhang } 3481e462e02cSHong Zhang if (!logkey_GetBrowsOfAcols) { 3482e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_GetBrowsOfAcols,"MatGetBrowsOfAcols",MAT_COOKIE); 3483e462e02cSHong Zhang } 3484e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 348525616d81SHong Zhang 348625616d81SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 348725616d81SHong Zhang start = a->cstart; 348825616d81SHong Zhang cmap = a->garray; 348925616d81SHong Zhang nzA = a->A->n; 349025616d81SHong Zhang nzB = a->B->n; 3491b1d57f15SBarry Smith ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 349225616d81SHong Zhang ncols = 0; 34930390132cSHong Zhang for (i=0; i<nzB; i++) { /* row < local row index */ 349425616d81SHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 349525616d81SHong Zhang else break; 349625616d81SHong Zhang } 349725616d81SHong Zhang imark = i; 34980390132cSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; /* local rows */ 34990390132cSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */ 350025616d81SHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&isrowb);CHKERRQ(ierr); 350125616d81SHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 350225616d81SHong Zhang *brstart = imark; 350325616d81SHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,B->N,0,1,&iscolb);CHKERRQ(ierr); 350425616d81SHong Zhang } else { 350525616d81SHong Zhang if (!rowb || !colb) SETERRQ(PETSC_ERR_SUP,"IS rowb and colb must be provided for MAT_REUSE_MATRIX"); 350625616d81SHong Zhang isrowb = *rowb; iscolb = *colb; 350725616d81SHong Zhang ierr = PetscMalloc(sizeof(Mat),&bseq);CHKERRQ(ierr); 350825616d81SHong Zhang bseq[0] = *B_seq; 350925616d81SHong Zhang } 351025616d81SHong Zhang ierr = MatGetSubMatrices(B,1,&isrowb,&iscolb,scall,&bseq);CHKERRQ(ierr); 351125616d81SHong Zhang *B_seq = bseq[0]; 351225616d81SHong Zhang ierr = PetscFree(bseq);CHKERRQ(ierr); 351325616d81SHong Zhang if (!rowb){ 351425616d81SHong Zhang ierr = ISDestroy(isrowb);CHKERRQ(ierr); 351525616d81SHong Zhang } else { 351625616d81SHong Zhang *rowb = isrowb; 351725616d81SHong Zhang } 351825616d81SHong Zhang if (!colb){ 351925616d81SHong Zhang ierr = ISDestroy(iscolb);CHKERRQ(ierr); 352025616d81SHong Zhang } else { 352125616d81SHong Zhang *colb = iscolb; 352225616d81SHong Zhang } 3523e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 352425616d81SHong Zhang PetscFunctionReturn(0); 352525616d81SHong Zhang } 3526429d309bSHong Zhang 3527a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAocols = 0; 3528a61c8c0fSHong Zhang #undef __FUNCT__ 3529a61c8c0fSHong Zhang #define __FUNCT__ "MatGetBrowsOfAoCols" 3530429d309bSHong Zhang /*@C 3531429d309bSHong Zhang MatGetBrowsOfAoCols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns 353201b7ae99SHong Zhang of the OFF-DIAGONAL portion of local A 3533429d309bSHong Zhang 3534429d309bSHong Zhang Collective on Mat 3535429d309bSHong Zhang 3536429d309bSHong Zhang Input Parameters: 3537429d309bSHong Zhang + A,B - the matrices in mpiaij format 353887025532SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 353987025532SHong Zhang . startsj - starting point in B's sending and receiving j-arrays, saved for MAT_REUSE (or PETSC_NULL) 354087025532SHong Zhang - bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or PETSC_NULL) 3541429d309bSHong Zhang 3542429d309bSHong Zhang Output Parameter: 354387025532SHong Zhang + B_oth - the sequential matrix generated 3544429d309bSHong Zhang 3545429d309bSHong Zhang Level: developer 3546429d309bSHong Zhang 3547429d309bSHong Zhang @*/ 354887025532SHong Zhang PetscErrorCode MatGetBrowsOfAoCols(Mat A,Mat B,MatReuse scall,PetscInt **startsj,PetscScalar **bufa_ptr,Mat *B_oth) 3549429d309bSHong Zhang { 3550a6b2eed2SHong Zhang VecScatter_MPI_General *gen_to,*gen_from; 3551429d309bSHong Zhang PetscErrorCode ierr; 355287025532SHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data,*b=(Mat_MPIAIJ*)B->data; 355387025532SHong Zhang Mat_SeqAIJ *b_oth; 3554a6b2eed2SHong Zhang VecScatter ctx=a->Mvctx; 3555a6b2eed2SHong Zhang MPI_Comm comm=ctx->comm; 355687025532SHong Zhang PetscMPIInt *rprocs,*sprocs,tag=ctx->tag,rank; 355768733de6SHong Zhang PetscInt *rowlen,*bufj,*bufJ,ncols,aBn=a->B->n,row,*b_othi,*b_othj; 355887025532SHong Zhang PetscScalar *rvalues,*svalues,*b_otha,*bufa,*bufA; 355913f74950SBarry Smith PetscInt i,k,l,nrecvs,nsends,nrows,*rrow,*srow,*rstarts,*rstartsj,*sstarts,*sstartsj,len; 3560a6b2eed2SHong Zhang MPI_Request *rwaits,*swaits; 356187025532SHong Zhang MPI_Status *sstatus,rstatus; 3562ba8c8a56SBarry Smith PetscInt *cols; 3563ba8c8a56SBarry Smith PetscScalar *vals; 356413f74950SBarry Smith PetscMPIInt j; 3565429d309bSHong Zhang 3566429d309bSHong Zhang PetscFunctionBegin; 3567429d309bSHong Zhang if (a->cstart != b->rstart || a->cend != b->rend){ 3568a6b2eed2SHong Zhang SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%d, %d) != (%d,%d)",a->cstart,a->cend,b->rstart,b->rend); 3569429d309bSHong Zhang } 3570429d309bSHong Zhang if (!logkey_GetBrowsOfAocols) { 35711677a5d7SHong Zhang ierr = PetscLogEventRegister(&logkey_GetBrowsOfAocols,"MatGetBrAoCol",MAT_COOKIE); 3572429d309bSHong Zhang } 3573429d309bSHong Zhang ierr = PetscLogEventBegin(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 3574a6b2eed2SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 3575a6b2eed2SHong Zhang 3576a6b2eed2SHong Zhang gen_to = (VecScatter_MPI_General*)ctx->todata; 3577a6b2eed2SHong Zhang gen_from = (VecScatter_MPI_General*)ctx->fromdata; 3578a6b2eed2SHong Zhang rvalues = gen_from->values; /* holds the length of sending row */ 3579a6b2eed2SHong Zhang svalues = gen_to->values; /* holds the length of receiving row */ 3580a6b2eed2SHong Zhang nrecvs = gen_from->n; 3581a6b2eed2SHong Zhang nsends = gen_to->n; 3582a6b2eed2SHong Zhang rwaits = gen_from->requests; 3583a6b2eed2SHong Zhang swaits = gen_to->requests; 3584a6b2eed2SHong Zhang rrow = gen_from->indices; /* local row index to be received */ 3585a6b2eed2SHong Zhang srow = gen_to->indices; /* local row index to be sent */ 3586a6b2eed2SHong Zhang rstarts = gen_from->starts; 3587a6b2eed2SHong Zhang sstarts = gen_to->starts; 3588a6b2eed2SHong Zhang rprocs = gen_from->procs; 3589a6b2eed2SHong Zhang sprocs = gen_to->procs; 3590a6b2eed2SHong Zhang sstatus = gen_to->sstatus; 3591429d309bSHong Zhang 3592dea91ad1SHong Zhang if (!startsj || !bufa_ptr) scall = MAT_INITIAL_MATRIX; 3593429d309bSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3594a6b2eed2SHong Zhang /* i-array */ 3595a6b2eed2SHong Zhang /*---------*/ 3596a6b2eed2SHong Zhang /* post receives */ 3597a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 3598a6b2eed2SHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]; 359987025532SHong Zhang nrows = rstarts[i+1]-rstarts[i]; 360087025532SHong Zhang ierr = MPI_Irecv(rowlen,nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 3601429d309bSHong Zhang } 3602a6b2eed2SHong Zhang 3603a6b2eed2SHong Zhang /* pack the outgoing message */ 360487025532SHong Zhang ierr = PetscMalloc((nsends+nrecvs+3)*sizeof(PetscInt),&sstartsj);CHKERRQ(ierr); 3605a6b2eed2SHong Zhang rstartsj = sstartsj + nsends +1; 3606a6b2eed2SHong Zhang sstartsj[0] = 0; rstartsj[0] = 0; 3607a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be sent */ 3608a6b2eed2SHong Zhang k = 0; 3609a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 3610a6b2eed2SHong Zhang rowlen = (PetscInt*)svalues + sstarts[i]; 361187025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of rows */ 361287025532SHong Zhang for (j=0; j<nrows; j++) { 3613a6b2eed2SHong Zhang row = srow[k] + b->rowners[rank]; /* global row idx */ 3614ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&rowlen[j],PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); /* rowlength */ 3615a6b2eed2SHong Zhang len += rowlen[j]; 3616ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); 3617a6b2eed2SHong Zhang k++; 3618429d309bSHong Zhang } 361987025532SHong Zhang ierr = MPI_Isend(rowlen,nrows,MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 3620dea91ad1SHong Zhang sstartsj[i+1] = len; /* starting point of (i+1)-th outgoing msg in bufj and bufa */ 3621429d309bSHong Zhang } 362287025532SHong Zhang /* recvs and sends of i-array are completed */ 362387025532SHong Zhang i = nrecvs; 362487025532SHong Zhang while (i--) { 362587025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 362687025532SHong Zhang } 3627a6b2eed2SHong Zhang if (nsends) { 3628a6b2eed2SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 3629a6b2eed2SHong Zhang } 3630a6b2eed2SHong Zhang /* allocate buffers for sending j and a arrays */ 3631a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscInt),&bufj);CHKERRQ(ierr); 3632a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscScalar),&bufa);CHKERRQ(ierr); 3633a6b2eed2SHong Zhang 363487025532SHong Zhang /* create i-array of B_oth */ 363587025532SHong Zhang ierr = PetscMalloc((aBn+2)*sizeof(PetscInt),&b_othi);CHKERRQ(ierr); 363687025532SHong Zhang b_othi[0] = 0; 3637a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be received */ 3638a6b2eed2SHong Zhang k = 0; 3639a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 3640a6b2eed2SHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]; 364187025532SHong Zhang nrows = rstarts[i+1]-rstarts[i]; 364287025532SHong Zhang for (j=0; j<nrows; j++) { 364387025532SHong Zhang b_othi[k+1] = b_othi[k] + rowlen[j]; 3644a6b2eed2SHong Zhang len += rowlen[j]; k++; 3645a6b2eed2SHong Zhang } 3646dea91ad1SHong Zhang rstartsj[i+1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */ 3647a6b2eed2SHong Zhang } 3648a6b2eed2SHong Zhang 364987025532SHong Zhang /* allocate space for j and a arrrays of B_oth */ 365087025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscInt),&b_othj);CHKERRQ(ierr); 365187025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscScalar),&b_otha);CHKERRQ(ierr); 3652a6b2eed2SHong Zhang 365387025532SHong Zhang /* j-array */ 365487025532SHong Zhang /*---------*/ 3655a6b2eed2SHong Zhang /* post receives of j-array */ 3656a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 365787025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 365887025532SHong Zhang ierr = MPI_Irecv(b_othj+rstartsj[i],nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 3659a6b2eed2SHong Zhang } 3660a6b2eed2SHong Zhang k = 0; 3661a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 366287025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of rows */ 3663a6b2eed2SHong Zhang bufJ = bufj+sstartsj[i]; 366487025532SHong Zhang for (j=0; j<nrows; j++) { 366587025532SHong Zhang row = srow[k++] + b->rowners[rank]; /* global row idx */ 3666ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 3667a6b2eed2SHong Zhang for (l=0; l<ncols; l++){ 3668a6b2eed2SHong Zhang *bufJ++ = cols[l]; 366987025532SHong Zhang } 3670ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 367187025532SHong Zhang } 367287025532SHong Zhang ierr = MPI_Isend(bufj+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 367387025532SHong Zhang } 367487025532SHong Zhang 367587025532SHong Zhang /* recvs and sends of j-array are completed */ 367687025532SHong Zhang i = nrecvs; 367787025532SHong Zhang while (i--) { 367887025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 367987025532SHong Zhang } 368087025532SHong Zhang if (nsends) { 368187025532SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 368287025532SHong Zhang } 368387025532SHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 368487025532SHong Zhang sstartsj = *startsj; 368587025532SHong Zhang rstartsj = sstartsj + nsends +1; 368687025532SHong Zhang bufa = *bufa_ptr; 368787025532SHong Zhang b_oth = (Mat_SeqAIJ*)(*B_oth)->data; 368887025532SHong Zhang b_otha = b_oth->a; 368987025532SHong Zhang } else { 369087025532SHong Zhang SETERRQ(PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not posses an object container"); 369187025532SHong Zhang } 369287025532SHong Zhang 369387025532SHong Zhang /* a-array */ 369487025532SHong Zhang /*---------*/ 369587025532SHong Zhang /* post receives of a-array */ 369687025532SHong Zhang for (i=0; i<nrecvs; i++){ 369787025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 369887025532SHong Zhang ierr = MPI_Irecv(b_otha+rstartsj[i],nrows,MPIU_SCALAR,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 369987025532SHong Zhang } 370087025532SHong Zhang k = 0; 370187025532SHong Zhang for (i=0; i<nsends; i++){ 370287025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; 370387025532SHong Zhang bufA = bufa+sstartsj[i]; 370487025532SHong Zhang for (j=0; j<nrows; j++) { 370587025532SHong Zhang row = srow[k++] + b->rowners[rank]; /* global row idx */ 3706ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 370787025532SHong Zhang for (l=0; l<ncols; l++){ 3708a6b2eed2SHong Zhang *bufA++ = vals[l]; 3709a6b2eed2SHong Zhang } 3710ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 371187025532SHong Zhang 3712a6b2eed2SHong Zhang } 371387025532SHong Zhang ierr = MPI_Isend(bufa+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_SCALAR,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 3714a6b2eed2SHong Zhang } 371587025532SHong Zhang /* recvs and sends of a-array are completed */ 371687025532SHong Zhang i = nrecvs; 371787025532SHong Zhang while (i--) { 371887025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 371987025532SHong Zhang } 3720a6b2eed2SHong Zhang if (nsends) { 3721a6b2eed2SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 3722a6b2eed2SHong Zhang } 3723a6b2eed2SHong Zhang 372487025532SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3725a6b2eed2SHong Zhang /* put together the new matrix */ 372687025532SHong Zhang ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,aBn,B->N,b_othi,b_othj,b_otha,B_oth);CHKERRQ(ierr); 3727a6b2eed2SHong Zhang 3728a6b2eed2SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 3729a6b2eed2SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 373087025532SHong Zhang b_oth = (Mat_SeqAIJ *)(*B_oth)->data; 373187025532SHong Zhang b_oth->freedata = PETSC_TRUE; 373287025532SHong Zhang b_oth->nonew = 0; 3733a6b2eed2SHong Zhang 3734a6b2eed2SHong Zhang ierr = PetscFree(bufj);CHKERRQ(ierr); 3735dea91ad1SHong Zhang if (!startsj || !bufa_ptr){ 3736dea91ad1SHong Zhang ierr = PetscFree(sstartsj);CHKERRQ(ierr); 3737dea91ad1SHong Zhang ierr = PetscFree(bufa_ptr);CHKERRQ(ierr); 3738dea91ad1SHong Zhang } else { 373987025532SHong Zhang *startsj = sstartsj; 374087025532SHong Zhang *bufa_ptr = bufa; 374187025532SHong Zhang } 3742dea91ad1SHong Zhang } 3743429d309bSHong Zhang ierr = PetscLogEventEnd(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 3744a6b2eed2SHong Zhang 3745429d309bSHong Zhang PetscFunctionReturn(0); 3746429d309bSHong Zhang } 3747ccd8e176SBarry Smith 3748ccd8e176SBarry Smith /*MC 3749ccd8e176SBarry Smith MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices. 3750ccd8e176SBarry Smith 3751ccd8e176SBarry Smith Options Database Keys: 3752ccd8e176SBarry Smith . -mat_type mpiaij - sets the matrix type to "mpiaij" during a call to MatSetFromOptions() 3753ccd8e176SBarry Smith 3754ccd8e176SBarry Smith Level: beginner 3755ccd8e176SBarry Smith 3756ccd8e176SBarry Smith .seealso: MatCreateMPIAIJ 3757ccd8e176SBarry Smith M*/ 3758ccd8e176SBarry Smith 3759ccd8e176SBarry Smith EXTERN_C_BEGIN 3760ccd8e176SBarry Smith #undef __FUNCT__ 3761ccd8e176SBarry Smith #define __FUNCT__ "MatCreate_MPIAIJ" 3762ccd8e176SBarry Smith PetscErrorCode MatCreate_MPIAIJ(Mat B) 3763ccd8e176SBarry Smith { 3764ccd8e176SBarry Smith Mat_MPIAIJ *b; 3765ccd8e176SBarry Smith PetscErrorCode ierr; 3766ccd8e176SBarry Smith PetscInt i; 3767ccd8e176SBarry Smith PetscMPIInt size; 3768ccd8e176SBarry Smith 3769ccd8e176SBarry Smith PetscFunctionBegin; 3770ccd8e176SBarry Smith ierr = MPI_Comm_size(B->comm,&size);CHKERRQ(ierr); 3771ccd8e176SBarry Smith 3772ccd8e176SBarry Smith ierr = PetscNew(Mat_MPIAIJ,&b);CHKERRQ(ierr); 3773ccd8e176SBarry Smith B->data = (void*)b; 3774ccd8e176SBarry Smith ierr = PetscMemzero(b,sizeof(Mat_MPIAIJ));CHKERRQ(ierr); 3775ccd8e176SBarry Smith ierr = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 3776ccd8e176SBarry Smith B->factor = 0; 3777ccd8e176SBarry Smith B->assembled = PETSC_FALSE; 3778ccd8e176SBarry Smith B->mapping = 0; 3779ccd8e176SBarry Smith 3780ccd8e176SBarry Smith B->insertmode = NOT_SET_VALUES; 3781ccd8e176SBarry Smith b->size = size; 3782ccd8e176SBarry Smith ierr = MPI_Comm_rank(B->comm,&b->rank);CHKERRQ(ierr); 3783ccd8e176SBarry Smith 3784ccd8e176SBarry Smith ierr = PetscSplitOwnership(B->comm,&B->m,&B->M);CHKERRQ(ierr); 3785ccd8e176SBarry Smith ierr = PetscSplitOwnership(B->comm,&B->n,&B->N);CHKERRQ(ierr); 3786ccd8e176SBarry Smith 3787ccd8e176SBarry Smith /* the information in the maps duplicates the information computed below, eventually 3788ccd8e176SBarry Smith we should remove the duplicate information that is not contained in the maps */ 3789ccd8e176SBarry Smith ierr = PetscMapCreateMPI(B->comm,B->m,B->M,&B->rmap);CHKERRQ(ierr); 3790ccd8e176SBarry Smith ierr = PetscMapCreateMPI(B->comm,B->n,B->N,&B->cmap);CHKERRQ(ierr); 3791ccd8e176SBarry Smith 3792ccd8e176SBarry Smith /* build local table of row and column ownerships */ 3793ccd8e176SBarry Smith ierr = PetscMalloc(2*(b->size+2)*sizeof(PetscInt),&b->rowners);CHKERRQ(ierr); 3794ccd8e176SBarry Smith PetscLogObjectMemory(B,2*(b->size+2)*sizeof(PetscInt)+sizeof(struct _p_Mat)+sizeof(Mat_MPIAIJ)); 3795ccd8e176SBarry Smith b->cowners = b->rowners + b->size + 2; 3796ccd8e176SBarry Smith ierr = MPI_Allgather(&B->m,1,MPIU_INT,b->rowners+1,1,MPIU_INT,B->comm);CHKERRQ(ierr); 3797ccd8e176SBarry Smith b->rowners[0] = 0; 3798ccd8e176SBarry Smith for (i=2; i<=b->size; i++) { 3799ccd8e176SBarry Smith b->rowners[i] += b->rowners[i-1]; 3800ccd8e176SBarry Smith } 3801ccd8e176SBarry Smith b->rstart = b->rowners[b->rank]; 3802ccd8e176SBarry Smith b->rend = b->rowners[b->rank+1]; 3803ccd8e176SBarry Smith ierr = MPI_Allgather(&B->n,1,MPIU_INT,b->cowners+1,1,MPIU_INT,B->comm);CHKERRQ(ierr); 3804ccd8e176SBarry Smith b->cowners[0] = 0; 3805ccd8e176SBarry Smith for (i=2; i<=b->size; i++) { 3806ccd8e176SBarry Smith b->cowners[i] += b->cowners[i-1]; 3807ccd8e176SBarry Smith } 3808ccd8e176SBarry Smith b->cstart = b->cowners[b->rank]; 3809ccd8e176SBarry Smith b->cend = b->cowners[b->rank+1]; 3810ccd8e176SBarry Smith 3811ccd8e176SBarry Smith /* build cache for off array entries formed */ 3812ccd8e176SBarry Smith ierr = MatStashCreate_Private(B->comm,1,&B->stash);CHKERRQ(ierr); 3813ccd8e176SBarry Smith b->donotstash = PETSC_FALSE; 3814ccd8e176SBarry Smith b->colmap = 0; 3815ccd8e176SBarry Smith b->garray = 0; 3816ccd8e176SBarry Smith b->roworiented = PETSC_TRUE; 3817ccd8e176SBarry Smith 3818ccd8e176SBarry Smith /* stuff used for matrix vector multiply */ 3819ccd8e176SBarry Smith b->lvec = PETSC_NULL; 3820ccd8e176SBarry Smith b->Mvctx = PETSC_NULL; 3821ccd8e176SBarry Smith 3822ccd8e176SBarry Smith /* stuff for MatGetRow() */ 3823ccd8e176SBarry Smith b->rowindices = 0; 3824ccd8e176SBarry Smith b->rowvalues = 0; 3825ccd8e176SBarry Smith b->getrowactive = PETSC_FALSE; 3826ccd8e176SBarry Smith 3827ccd8e176SBarry Smith /* Explicitly create 2 MATSEQAIJ matrices. */ 3828ccd8e176SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,B->m,B->n,B->m,B->n,&b->A);CHKERRQ(ierr); 3829ccd8e176SBarry Smith ierr = MatSetType(b->A,MATSEQAIJ);CHKERRQ(ierr); 3830ccd8e176SBarry Smith PetscLogObjectParent(B,b->A); 3831ccd8e176SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,B->m,B->N,B->m,B->N,&b->B);CHKERRQ(ierr); 3832ccd8e176SBarry Smith ierr = MatSetType(b->B,MATSEQAIJ);CHKERRQ(ierr); 3833ccd8e176SBarry Smith PetscLogObjectParent(B,b->B); 3834ccd8e176SBarry Smith 3835ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatStoreValues_C", 3836ccd8e176SBarry Smith "MatStoreValues_MPIAIJ", 3837ccd8e176SBarry Smith MatStoreValues_MPIAIJ);CHKERRQ(ierr); 3838ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatRetrieveValues_C", 3839ccd8e176SBarry Smith "MatRetrieveValues_MPIAIJ", 3840ccd8e176SBarry Smith MatRetrieveValues_MPIAIJ);CHKERRQ(ierr); 3841ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatGetDiagonalBlock_C", 3842ccd8e176SBarry Smith "MatGetDiagonalBlock_MPIAIJ", 3843ccd8e176SBarry Smith MatGetDiagonalBlock_MPIAIJ);CHKERRQ(ierr); 3844ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatIsTranspose_C", 3845ccd8e176SBarry Smith "MatIsTranspose_MPIAIJ", 3846ccd8e176SBarry Smith MatIsTranspose_MPIAIJ);CHKERRQ(ierr); 3847ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocation_C", 3848ccd8e176SBarry Smith "MatMPIAIJSetPreallocation_MPIAIJ", 3849ccd8e176SBarry Smith MatMPIAIJSetPreallocation_MPIAIJ);CHKERRQ(ierr); 3850ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C", 3851ccd8e176SBarry Smith "MatMPIAIJSetPreallocationCSR_MPIAIJ", 3852ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR_MPIAIJ);CHKERRQ(ierr); 3853ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatDiagonalScaleLocal_C", 3854ccd8e176SBarry Smith "MatDiagonalScaleLocal_MPIAIJ", 3855ccd8e176SBarry Smith MatDiagonalScaleLocal_MPIAIJ);CHKERRQ(ierr); 3856ccd8e176SBarry Smith PetscFunctionReturn(0); 3857ccd8e176SBarry Smith } 3858ccd8e176SBarry Smith EXTERN_C_END 3859