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 375bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->A,mode);CHKERRQ(ierr); 376bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->A,mode);CHKERRQ(ierr); 377bc5ccf88SSatish Balay 378bc5ccf88SSatish Balay /* determine if any processor has disassembled, if so we must 379bc5ccf88SSatish Balay also disassemble ourselfs, in order that we may reassemble. */ 380bc5ccf88SSatish Balay /* 381bc5ccf88SSatish Balay if nonzero structure of submatrix B cannot change then we know that 382bc5ccf88SSatish Balay no processor disassembled thus we can skip this stuff 383bc5ccf88SSatish Balay */ 384bc5ccf88SSatish Balay if (!((Mat_SeqAIJ*)aij->B->data)->nonew) { 385bc5ccf88SSatish Balay ierr = MPI_Allreduce(&mat->was_assembled,&other_disassembled,1,MPI_INT,MPI_PROD,mat->comm);CHKERRQ(ierr); 386bc5ccf88SSatish Balay if (mat->was_assembled && !other_disassembled) { 387bc5ccf88SSatish Balay ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 388f8a12787SBarry Smith /* reaccess the b because aij->B was changed */ 389f8a12787SBarry Smith b = (Mat_SeqAIJ *)aij->B->data; 390bc5ccf88SSatish Balay } 391bc5ccf88SSatish Balay } 392bc5ccf88SSatish Balay 393bc5ccf88SSatish Balay if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) { 394bc5ccf88SSatish Balay ierr = MatSetUpMultiply_MPIAIJ(mat);CHKERRQ(ierr); 395bc5ccf88SSatish Balay } 396bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->B,mode);CHKERRQ(ierr); 397bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->B,mode);CHKERRQ(ierr); 398bc5ccf88SSatish Balay 399606d414cSSatish Balay if (aij->rowvalues) { 400606d414cSSatish Balay ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr); 401606d414cSSatish Balay aij->rowvalues = 0; 402606d414cSSatish Balay } 403a30b2313SHong Zhang 404a30b2313SHong Zhang /* used by MatAXPY() */ 405a30b2313SHong Zhang a->xtoy = 0; b->xtoy = 0; 406a30b2313SHong Zhang a->XtoY = 0; b->XtoY = 0; 407a30b2313SHong Zhang 408bc5ccf88SSatish Balay PetscFunctionReturn(0); 409bc5ccf88SSatish Balay } 410bc5ccf88SSatish Balay 4114a2ae208SSatish Balay #undef __FUNCT__ 4124a2ae208SSatish Balay #define __FUNCT__ "MatZeroEntries_MPIAIJ" 413dfbe8321SBarry Smith PetscErrorCode MatZeroEntries_MPIAIJ(Mat A) 4141eb62cbbSBarry Smith { 41544a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 416dfbe8321SBarry Smith PetscErrorCode ierr; 4173a40ed3dSBarry Smith 4183a40ed3dSBarry Smith PetscFunctionBegin; 41978b31e54SBarry Smith ierr = MatZeroEntries(l->A);CHKERRQ(ierr); 42078b31e54SBarry Smith ierr = MatZeroEntries(l->B);CHKERRQ(ierr); 4213a40ed3dSBarry Smith PetscFunctionReturn(0); 4221eb62cbbSBarry Smith } 4231eb62cbbSBarry Smith 4244a2ae208SSatish Balay #undef __FUNCT__ 4254a2ae208SSatish Balay #define __FUNCT__ "MatZeroRows_MPIAIJ" 426dfbe8321SBarry Smith PetscErrorCode MatZeroRows_MPIAIJ(Mat A,IS is,const PetscScalar *diag) 4271eb62cbbSBarry Smith { 42844a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 4296849ba73SBarry Smith PetscErrorCode ierr; 430b1d57f15SBarry Smith PetscMPIInt size = l->size,imdex,n,rank = l->rank,tag = A->tag; 431b1d57f15SBarry Smith PetscInt i,N,*rows,*owners = l->rowners; 432b1d57f15SBarry Smith PetscInt *nprocs,j,idx,nsends,row; 433b1d57f15SBarry Smith PetscInt nmax,*svalues,*starts,*owner,nrecvs; 434b1d57f15SBarry Smith PetscInt *rvalues,count,base,slen,*source; 435b1d57f15SBarry Smith PetscInt *lens,*lrows,*values,rstart=l->rstart; 436d6dfbf8fSBarry Smith MPI_Comm comm = A->comm; 4371eb62cbbSBarry Smith MPI_Request *send_waits,*recv_waits; 4381eb62cbbSBarry Smith MPI_Status recv_status,*send_status; 4391eb62cbbSBarry Smith IS istmp; 44035d8aa7fSBarry Smith PetscTruth found; 4411eb62cbbSBarry Smith 4423a40ed3dSBarry Smith PetscFunctionBegin; 443e03a110bSBarry Smith ierr = ISGetLocalSize(is,&N);CHKERRQ(ierr); 44478b31e54SBarry Smith ierr = ISGetIndices(is,&rows);CHKERRQ(ierr); 4451eb62cbbSBarry Smith 4461eb62cbbSBarry Smith /* first count number of contributors to each processor */ 447b1d57f15SBarry Smith ierr = PetscMalloc(2*size*sizeof(PetscInt),&nprocs);CHKERRQ(ierr); 448b1d57f15SBarry Smith ierr = PetscMemzero(nprocs,2*size*sizeof(PetscInt));CHKERRQ(ierr); 449b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&owner);CHKERRQ(ierr); /* see note*/ 4501eb62cbbSBarry Smith for (i=0; i<N; i++) { 4511eb62cbbSBarry Smith idx = rows[i]; 45235d8aa7fSBarry Smith found = PETSC_FALSE; 45317699dbbSLois Curfman McInnes for (j=0; j<size; j++) { 4541eb62cbbSBarry Smith if (idx >= owners[j] && idx < owners[j+1]) { 455c1dc657dSBarry Smith nprocs[2*j]++; nprocs[2*j+1] = 1; owner[i] = j; found = PETSC_TRUE; break; 4561eb62cbbSBarry Smith } 4571eb62cbbSBarry Smith } 45829bbc08cSBarry Smith if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Index out of range"); 4591eb62cbbSBarry Smith } 460c1dc657dSBarry Smith nsends = 0; for (i=0; i<size; i++) { nsends += nprocs[2*i+1];} 4611eb62cbbSBarry Smith 4621eb62cbbSBarry Smith /* inform other processors of number of messages and max length*/ 463c1dc657dSBarry Smith ierr = PetscMaxSum(comm,nprocs,&nmax,&nrecvs);CHKERRQ(ierr); 4641eb62cbbSBarry Smith 4651eb62cbbSBarry Smith /* post receives: */ 466b1d57f15SBarry Smith ierr = PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(PetscInt),&rvalues);CHKERRQ(ierr); 467b0a32e0cSBarry Smith ierr = PetscMalloc((nrecvs+1)*sizeof(MPI_Request),&recv_waits);CHKERRQ(ierr); 4681eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 469b1d57f15SBarry Smith ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPIU_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr); 4701eb62cbbSBarry Smith } 4711eb62cbbSBarry Smith 4721eb62cbbSBarry Smith /* do sends: 4731eb62cbbSBarry Smith 1) starts[i] gives the starting index in svalues for stuff going to 4741eb62cbbSBarry Smith the ith processor 4751eb62cbbSBarry Smith */ 476b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&svalues);CHKERRQ(ierr); 477b0a32e0cSBarry Smith ierr = PetscMalloc((nsends+1)*sizeof(MPI_Request),&send_waits);CHKERRQ(ierr); 478b1d57f15SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&starts);CHKERRQ(ierr); 4791eb62cbbSBarry Smith starts[0] = 0; 480c1dc657dSBarry Smith for (i=1; i<size; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4811eb62cbbSBarry Smith for (i=0; i<N; i++) { 4821eb62cbbSBarry Smith svalues[starts[owner[i]]++] = rows[i]; 4831eb62cbbSBarry Smith } 4846831982aSBarry Smith ierr = ISRestoreIndices(is,&rows);CHKERRQ(ierr); 4851eb62cbbSBarry Smith 4861eb62cbbSBarry Smith starts[0] = 0; 487c1dc657dSBarry Smith for (i=1; i<size+1; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4881eb62cbbSBarry Smith count = 0; 48917699dbbSLois Curfman McInnes for (i=0; i<size; i++) { 490c1dc657dSBarry Smith if (nprocs[2*i+1]) { 491b1d57f15SBarry Smith ierr = MPI_Isend(svalues+starts[i],nprocs[2*i],MPIU_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr); 4921eb62cbbSBarry Smith } 4931eb62cbbSBarry Smith } 494606d414cSSatish Balay ierr = PetscFree(starts);CHKERRQ(ierr); 4951eb62cbbSBarry Smith 49617699dbbSLois Curfman McInnes base = owners[rank]; 4971eb62cbbSBarry Smith 4981eb62cbbSBarry Smith /* wait on receives */ 499b1d57f15SBarry Smith ierr = PetscMalloc(2*(nrecvs+1)*sizeof(PetscInt),&lens);CHKERRQ(ierr); 5001eb62cbbSBarry Smith source = lens + nrecvs; 5011eb62cbbSBarry Smith count = nrecvs; slen = 0; 5021eb62cbbSBarry Smith while (count) { 503ca161407SBarry Smith ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr); 5041eb62cbbSBarry Smith /* unpack receives into our local space */ 505b1d57f15SBarry Smith ierr = MPI_Get_count(&recv_status,MPIU_INT,&n);CHKERRQ(ierr); 506d6dfbf8fSBarry Smith source[imdex] = recv_status.MPI_SOURCE; 507d6dfbf8fSBarry Smith lens[imdex] = n; 5081eb62cbbSBarry Smith slen += n; 5091eb62cbbSBarry Smith count--; 5101eb62cbbSBarry Smith } 511606d414cSSatish Balay ierr = PetscFree(recv_waits);CHKERRQ(ierr); 5121eb62cbbSBarry Smith 5131eb62cbbSBarry Smith /* move the data into the send scatter */ 514b1d57f15SBarry Smith ierr = PetscMalloc((slen+1)*sizeof(PetscInt),&lrows);CHKERRQ(ierr); 5151eb62cbbSBarry Smith count = 0; 5161eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 5171eb62cbbSBarry Smith values = rvalues + i*nmax; 5181eb62cbbSBarry Smith for (j=0; j<lens[i]; j++) { 5191eb62cbbSBarry Smith lrows[count++] = values[j] - base; 5201eb62cbbSBarry Smith } 5211eb62cbbSBarry Smith } 522606d414cSSatish Balay ierr = PetscFree(rvalues);CHKERRQ(ierr); 523606d414cSSatish Balay ierr = PetscFree(lens);CHKERRQ(ierr); 524606d414cSSatish Balay ierr = PetscFree(owner);CHKERRQ(ierr); 525606d414cSSatish Balay ierr = PetscFree(nprocs);CHKERRQ(ierr); 5261eb62cbbSBarry Smith 5271eb62cbbSBarry Smith /* actually zap the local rows */ 528029af93fSBarry Smith ierr = ISCreateGeneral(PETSC_COMM_SELF,slen,lrows,&istmp);CHKERRQ(ierr); 529b0a32e0cSBarry Smith PetscLogObjectParent(A,istmp); 5306a5c57faSSatish Balay 5316eb55b6aSBarry Smith /* 5326eb55b6aSBarry Smith Zero the required rows. If the "diagonal block" of the matrix 5336eb55b6aSBarry Smith is square and the user wishes to set the diagonal we use seperate 5346eb55b6aSBarry Smith code so that MatSetValues() is not called for each diagonal allocating 5356eb55b6aSBarry Smith new memory, thus calling lots of mallocs and slowing things down. 5366eb55b6aSBarry Smith 5376eb55b6aSBarry Smith Contributed by: Mathew Knepley 5386eb55b6aSBarry Smith */ 539e2d53e46SBarry Smith /* must zero l->B before l->A because the (diag) case below may put values into l->B*/ 540e2d53e46SBarry Smith ierr = MatZeroRows(l->B,istmp,0);CHKERRQ(ierr); 5416eb55b6aSBarry Smith if (diag && (l->A->M == l->A->N)) { 5426eb55b6aSBarry Smith ierr = MatZeroRows(l->A,istmp,diag);CHKERRQ(ierr); 543e2d53e46SBarry Smith } else if (diag) { 544e2d53e46SBarry Smith ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr); 545fa46199cSSatish Balay if (((Mat_SeqAIJ*)l->A->data)->nonew) { 54629bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MatZeroRows() on rectangular matrices cannot be used with the Mat options\n\ 547fa46199cSSatish Balay MAT_NO_NEW_NONZERO_LOCATIONS,MAT_NEW_NONZERO_LOCATION_ERR,MAT_NEW_NONZERO_ALLOCATION_ERR"); 5486525c446SSatish Balay } 549e2d53e46SBarry Smith for (i = 0; i < slen; i++) { 550e2d53e46SBarry Smith row = lrows[i] + rstart; 551e2d53e46SBarry Smith ierr = MatSetValues(A,1,&row,1,&row,diag,INSERT_VALUES);CHKERRQ(ierr); 552e2d53e46SBarry Smith } 553e2d53e46SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 554e2d53e46SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 5556eb55b6aSBarry Smith } else { 5566a5c57faSSatish Balay ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr); 5576eb55b6aSBarry Smith } 55878b31e54SBarry Smith ierr = ISDestroy(istmp);CHKERRQ(ierr); 559606d414cSSatish Balay ierr = PetscFree(lrows);CHKERRQ(ierr); 56072dacd9aSBarry Smith 5611eb62cbbSBarry Smith /* wait on sends */ 5621eb62cbbSBarry Smith if (nsends) { 563b0a32e0cSBarry Smith ierr = PetscMalloc(nsends*sizeof(MPI_Status),&send_status);CHKERRQ(ierr); 564ca161407SBarry Smith ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr); 565606d414cSSatish Balay ierr = PetscFree(send_status);CHKERRQ(ierr); 5661eb62cbbSBarry Smith } 567606d414cSSatish Balay ierr = PetscFree(send_waits);CHKERRQ(ierr); 568606d414cSSatish Balay ierr = PetscFree(svalues);CHKERRQ(ierr); 5691eb62cbbSBarry Smith 5703a40ed3dSBarry Smith PetscFunctionReturn(0); 5711eb62cbbSBarry Smith } 5721eb62cbbSBarry Smith 5734a2ae208SSatish Balay #undef __FUNCT__ 5744a2ae208SSatish Balay #define __FUNCT__ "MatMult_MPIAIJ" 575dfbe8321SBarry Smith PetscErrorCode MatMult_MPIAIJ(Mat A,Vec xx,Vec yy) 5761eb62cbbSBarry Smith { 577416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 578dfbe8321SBarry Smith PetscErrorCode ierr; 579b1d57f15SBarry Smith PetscInt nt; 580416022c9SBarry Smith 5813a40ed3dSBarry Smith PetscFunctionBegin; 582a2ce50c7SBarry Smith ierr = VecGetLocalSize(xx,&nt);CHKERRQ(ierr); 583273d9f13SBarry Smith if (nt != A->n) { 58477431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Incompatible partition of A (%D) and xx (%D)",A->n,nt); 585fbd6ef76SBarry Smith } 58643a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 587f830108cSBarry Smith ierr = (*a->A->ops->mult)(a->A,xx,yy);CHKERRQ(ierr); 58843a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 589f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,yy,yy);CHKERRQ(ierr); 5903a40ed3dSBarry Smith PetscFunctionReturn(0); 5911eb62cbbSBarry Smith } 5921eb62cbbSBarry Smith 5934a2ae208SSatish Balay #undef __FUNCT__ 5944a2ae208SSatish Balay #define __FUNCT__ "MatMultAdd_MPIAIJ" 595dfbe8321SBarry Smith PetscErrorCode MatMultAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 596da3a660dSBarry Smith { 597416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 598dfbe8321SBarry Smith PetscErrorCode ierr; 5993a40ed3dSBarry Smith 6003a40ed3dSBarry Smith PetscFunctionBegin; 60143a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 602f830108cSBarry Smith ierr = (*a->A->ops->multadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 60343a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 604f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,zz,zz);CHKERRQ(ierr); 6053a40ed3dSBarry Smith PetscFunctionReturn(0); 606da3a660dSBarry Smith } 607da3a660dSBarry Smith 6084a2ae208SSatish Balay #undef __FUNCT__ 6094a2ae208SSatish Balay #define __FUNCT__ "MatMultTranspose_MPIAIJ" 610dfbe8321SBarry Smith PetscErrorCode MatMultTranspose_MPIAIJ(Mat A,Vec xx,Vec yy) 611da3a660dSBarry Smith { 612416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 613dfbe8321SBarry Smith PetscErrorCode ierr; 614da3a660dSBarry Smith 6153a40ed3dSBarry Smith PetscFunctionBegin; 616da3a660dSBarry Smith /* do nondiagonal part */ 6177c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 618da3a660dSBarry Smith /* send it on its way */ 619537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 620da3a660dSBarry Smith /* do local part */ 6217c922b88SBarry Smith ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 622da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 623da3a660dSBarry Smith /* inserted in yy until the next line, which is true for my implementation*/ 624da3a660dSBarry Smith /* but is not perhaps always true. */ 625537820f0SBarry Smith ierr = VecScatterEnd(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6263a40ed3dSBarry Smith PetscFunctionReturn(0); 627da3a660dSBarry Smith } 628da3a660dSBarry Smith 629cd0d46ebSvictorle EXTERN_C_BEGIN 630cd0d46ebSvictorle #undef __FUNCT__ 6315fbd3699SBarry Smith #define __FUNCT__ "MatIsTranspose_MPIAIJ" 632dfbe8321SBarry Smith PetscErrorCode MatIsTranspose_MPIAIJ(Mat Amat,Mat Bmat,PetscTruth tol,PetscTruth *f) 633cd0d46ebSvictorle { 6344f423910Svictorle MPI_Comm comm; 635cd0d46ebSvictorle Mat_MPIAIJ *Aij = (Mat_MPIAIJ *) Amat->data, *Bij; 63666501d38Svictorle Mat Adia = Aij->A, Bdia, Aoff,Boff,*Aoffs,*Boffs; 637cd0d46ebSvictorle IS Me,Notme; 6386849ba73SBarry Smith PetscErrorCode ierr; 639b1d57f15SBarry Smith PetscInt M,N,first,last,*notme,i; 640b1d57f15SBarry Smith PetscMPIInt size; 641cd0d46ebSvictorle 642cd0d46ebSvictorle PetscFunctionBegin; 64342e5f5b4Svictorle 64442e5f5b4Svictorle /* Easy test: symmetric diagonal block */ 64566501d38Svictorle Bij = (Mat_MPIAIJ *) Bmat->data; Bdia = Bij->A; 6465485867bSBarry Smith ierr = MatIsTranspose(Adia,Bdia,tol,f);CHKERRQ(ierr); 647cd0d46ebSvictorle if (!*f) PetscFunctionReturn(0); 6484f423910Svictorle ierr = PetscObjectGetComm((PetscObject)Amat,&comm);CHKERRQ(ierr); 649b1d57f15SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 650b1d57f15SBarry Smith if (size == 1) PetscFunctionReturn(0); 65142e5f5b4Svictorle 65242e5f5b4Svictorle /* Hard test: off-diagonal block. This takes a MatGetSubMatrix. */ 653cd0d46ebSvictorle ierr = MatGetSize(Amat,&M,&N);CHKERRQ(ierr); 654cd0d46ebSvictorle ierr = MatGetOwnershipRange(Amat,&first,&last);CHKERRQ(ierr); 655b1d57f15SBarry Smith ierr = PetscMalloc((N-last+first)*sizeof(PetscInt),¬me);CHKERRQ(ierr); 656cd0d46ebSvictorle for (i=0; i<first; i++) notme[i] = i; 657cd0d46ebSvictorle for (i=last; i<M; i++) notme[i-last+first] = i; 658268466fbSBarry Smith ierr = ISCreateGeneral(MPI_COMM_SELF,N-last+first,notme,&Notme);CHKERRQ(ierr); 659268466fbSBarry Smith ierr = ISCreateStride(MPI_COMM_SELF,last-first,first,1,&Me);CHKERRQ(ierr); 660268466fbSBarry Smith ierr = MatGetSubMatrices(Amat,1,&Me,&Notme,MAT_INITIAL_MATRIX,&Aoffs);CHKERRQ(ierr); 66166501d38Svictorle Aoff = Aoffs[0]; 662268466fbSBarry Smith ierr = MatGetSubMatrices(Bmat,1,&Notme,&Me,MAT_INITIAL_MATRIX,&Boffs);CHKERRQ(ierr); 66366501d38Svictorle Boff = Boffs[0]; 6645485867bSBarry Smith ierr = MatIsTranspose(Aoff,Boff,tol,f);CHKERRQ(ierr); 66566501d38Svictorle ierr = MatDestroyMatrices(1,&Aoffs);CHKERRQ(ierr); 66666501d38Svictorle ierr = MatDestroyMatrices(1,&Boffs);CHKERRQ(ierr); 66742e5f5b4Svictorle ierr = ISDestroy(Me);CHKERRQ(ierr); 66842e5f5b4Svictorle ierr = ISDestroy(Notme);CHKERRQ(ierr); 66942e5f5b4Svictorle 670cd0d46ebSvictorle PetscFunctionReturn(0); 671cd0d46ebSvictorle } 672cd0d46ebSvictorle EXTERN_C_END 673cd0d46ebSvictorle 6744a2ae208SSatish Balay #undef __FUNCT__ 6754a2ae208SSatish Balay #define __FUNCT__ "MatMultTransposeAdd_MPIAIJ" 676dfbe8321SBarry Smith PetscErrorCode MatMultTransposeAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 677da3a660dSBarry Smith { 678416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 679dfbe8321SBarry Smith PetscErrorCode ierr; 680da3a660dSBarry Smith 6813a40ed3dSBarry Smith PetscFunctionBegin; 682da3a660dSBarry Smith /* do nondiagonal part */ 6837c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 684da3a660dSBarry Smith /* send it on its way */ 685537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 686da3a660dSBarry Smith /* do local part */ 6877c922b88SBarry Smith ierr = (*a->A->ops->multtransposeadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 688da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 689da3a660dSBarry Smith /* inserted in yy until the next line, which is true for my implementation*/ 690da3a660dSBarry Smith /* but is not perhaps always true. */ 6910a198c4cSBarry Smith ierr = VecScatterEnd(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6923a40ed3dSBarry Smith PetscFunctionReturn(0); 693da3a660dSBarry Smith } 694da3a660dSBarry Smith 6951eb62cbbSBarry Smith /* 6961eb62cbbSBarry Smith This only works correctly for square matrices where the subblock A->A is the 6971eb62cbbSBarry Smith diagonal block 6981eb62cbbSBarry Smith */ 6994a2ae208SSatish Balay #undef __FUNCT__ 7004a2ae208SSatish Balay #define __FUNCT__ "MatGetDiagonal_MPIAIJ" 701dfbe8321SBarry Smith PetscErrorCode MatGetDiagonal_MPIAIJ(Mat A,Vec v) 7021eb62cbbSBarry Smith { 703dfbe8321SBarry Smith PetscErrorCode ierr; 704416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 7053a40ed3dSBarry Smith 7063a40ed3dSBarry Smith PetscFunctionBegin; 707273d9f13SBarry Smith if (A->M != A->N) SETERRQ(PETSC_ERR_SUP,"Supports only square matrix where A->A is diag block"); 7085baf8537SBarry Smith if (a->rstart != a->cstart || a->rend != a->cend) { 70929bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"row partition must equal col partition"); 7103a40ed3dSBarry Smith } 7113a40ed3dSBarry Smith ierr = MatGetDiagonal(a->A,v);CHKERRQ(ierr); 7123a40ed3dSBarry Smith PetscFunctionReturn(0); 7131eb62cbbSBarry Smith } 7141eb62cbbSBarry Smith 7154a2ae208SSatish Balay #undef __FUNCT__ 7164a2ae208SSatish Balay #define __FUNCT__ "MatScale_MPIAIJ" 717dfbe8321SBarry Smith PetscErrorCode MatScale_MPIAIJ(const PetscScalar aa[],Mat A) 718052efed2SBarry Smith { 719052efed2SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 720dfbe8321SBarry Smith PetscErrorCode ierr; 7213a40ed3dSBarry Smith 7223a40ed3dSBarry Smith PetscFunctionBegin; 723052efed2SBarry Smith ierr = MatScale(aa,a->A);CHKERRQ(ierr); 724052efed2SBarry Smith ierr = MatScale(aa,a->B);CHKERRQ(ierr); 7253a40ed3dSBarry Smith PetscFunctionReturn(0); 726052efed2SBarry Smith } 727052efed2SBarry Smith 7284a2ae208SSatish Balay #undef __FUNCT__ 7294a2ae208SSatish Balay #define __FUNCT__ "MatDestroy_MPIAIJ" 730dfbe8321SBarry Smith PetscErrorCode MatDestroy_MPIAIJ(Mat mat) 7311eb62cbbSBarry Smith { 73244a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 733dfbe8321SBarry Smith PetscErrorCode ierr; 73483e2fdc7SBarry Smith 7353a40ed3dSBarry Smith PetscFunctionBegin; 736aa482453SBarry Smith #if defined(PETSC_USE_LOG) 73777431f27SBarry Smith PetscLogObjectState((PetscObject)mat,"Rows=%D, Cols=%D",mat->M,mat->N); 738a5a9c739SBarry Smith #endif 7398798bf22SSatish Balay ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr); 740606d414cSSatish Balay ierr = PetscFree(aij->rowners);CHKERRQ(ierr); 74178b31e54SBarry Smith ierr = MatDestroy(aij->A);CHKERRQ(ierr); 74278b31e54SBarry Smith ierr = MatDestroy(aij->B);CHKERRQ(ierr); 743aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 7440f5bd95cSBarry Smith if (aij->colmap) {ierr = PetscTableDelete(aij->colmap);CHKERRQ(ierr);} 745b1fc9764SSatish Balay #else 746606d414cSSatish Balay if (aij->colmap) {ierr = PetscFree(aij->colmap);CHKERRQ(ierr);} 747b1fc9764SSatish Balay #endif 748606d414cSSatish Balay if (aij->garray) {ierr = PetscFree(aij->garray);CHKERRQ(ierr);} 7497c922b88SBarry Smith if (aij->lvec) {ierr = VecDestroy(aij->lvec);CHKERRQ(ierr);} 7507c922b88SBarry Smith if (aij->Mvctx) {ierr = VecScatterDestroy(aij->Mvctx);CHKERRQ(ierr);} 751606d414cSSatish Balay if (aij->rowvalues) {ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr);} 752606d414cSSatish Balay ierr = PetscFree(aij);CHKERRQ(ierr); 753901853e0SKris Buschelman 754901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatStoreValues_C","",PETSC_NULL);CHKERRQ(ierr); 755901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatRetrieveValues_C","",PETSC_NULL);CHKERRQ(ierr); 756901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatGetDiagonalBlock_C","",PETSC_NULL);CHKERRQ(ierr); 757901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatIsTranspose_C","",PETSC_NULL);CHKERRQ(ierr); 758901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocation_C","",PETSC_NULL);CHKERRQ(ierr); 759ff69c46cSKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocationCSR_C","",PETSC_NULL);CHKERRQ(ierr); 760901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatDiagonalScaleLocal_C","",PETSC_NULL);CHKERRQ(ierr); 7613a40ed3dSBarry Smith PetscFunctionReturn(0); 7621eb62cbbSBarry Smith } 763ee50ffe9SBarry Smith 7644a2ae208SSatish Balay #undef __FUNCT__ 7658e2fed03SBarry Smith #define __FUNCT__ "MatView_MPIAIJ_Binary" 766dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_Binary(Mat mat,PetscViewer viewer) 7678e2fed03SBarry Smith { 7688e2fed03SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 7698e2fed03SBarry Smith Mat_SeqAIJ* A = (Mat_SeqAIJ*)aij->A->data; 7708e2fed03SBarry Smith Mat_SeqAIJ* B = (Mat_SeqAIJ*)aij->B->data; 7716849ba73SBarry Smith PetscErrorCode ierr; 77232dcc486SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag; 7736f69ff64SBarry Smith int fd; 7746f69ff64SBarry Smith PetscInt nz,header[4],*row_lengths,*range,rlen,i; 7756f69ff64SBarry Smith PetscInt nzmax,*column_indices,j,k,col,*garray = aij->garray,cnt,cstart = aij->cstart,rnz; 7768e2fed03SBarry Smith PetscScalar *column_values; 7778e2fed03SBarry Smith 7788e2fed03SBarry Smith PetscFunctionBegin; 7798e2fed03SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 7808e2fed03SBarry Smith ierr = MPI_Comm_size(mat->comm,&size);CHKERRQ(ierr); 7818e2fed03SBarry Smith nz = A->nz + B->nz; 782958c9bccSBarry Smith if (!rank) { 7838e2fed03SBarry Smith header[0] = MAT_FILE_COOKIE; 7848e2fed03SBarry Smith header[1] = mat->M; 7858e2fed03SBarry Smith header[2] = mat->N; 786b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,&header[3],1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr); 7878e2fed03SBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 7886f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,header,4,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 7898e2fed03SBarry Smith /* get largest number of rows any processor has */ 7908e2fed03SBarry Smith rlen = mat->m; 7918e2fed03SBarry Smith ierr = PetscMapGetGlobalRange(mat->rmap,&range);CHKERRQ(ierr); 7928e2fed03SBarry Smith for (i=1; i<size; i++) { 7938e2fed03SBarry Smith rlen = PetscMax(rlen,range[i+1] - range[i]); 7948e2fed03SBarry Smith } 7958e2fed03SBarry Smith } else { 796b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,0,1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr); 7978e2fed03SBarry Smith rlen = mat->m; 7988e2fed03SBarry Smith } 7998e2fed03SBarry Smith 8008e2fed03SBarry Smith /* load up the local row counts */ 801b1d57f15SBarry Smith ierr = PetscMalloc((rlen+1)*sizeof(PetscInt),&row_lengths);CHKERRQ(ierr); 8028e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8038e2fed03SBarry Smith row_lengths[i] = A->i[i+1] - A->i[i] + B->i[i+1] - B->i[i]; 8048e2fed03SBarry Smith } 8058e2fed03SBarry Smith 8068e2fed03SBarry Smith /* store the row lengths to the file */ 807958c9bccSBarry Smith if (!rank) { 8088e2fed03SBarry Smith MPI_Status status; 8096f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,mat->m,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8108e2fed03SBarry Smith for (i=1; i<size; i++) { 8118e2fed03SBarry Smith rlen = range[i+1] - range[i]; 812b1d57f15SBarry Smith ierr = MPI_Recv(row_lengths,rlen,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 8136f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,rlen,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8148e2fed03SBarry Smith } 8158e2fed03SBarry Smith } else { 816b1d57f15SBarry Smith ierr = MPI_Send(row_lengths,mat->m,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8178e2fed03SBarry Smith } 8188e2fed03SBarry Smith ierr = PetscFree(row_lengths);CHKERRQ(ierr); 8198e2fed03SBarry Smith 8208e2fed03SBarry Smith /* load up the local column indices */ 8218e2fed03SBarry Smith nzmax = nz; /* )th processor needs space a largest processor needs */ 822b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,&nzmax,1,MPIU_INT,MPI_MAX,0,mat->comm);CHKERRQ(ierr); 823b1d57f15SBarry Smith ierr = PetscMalloc((nzmax+1)*sizeof(PetscInt),&column_indices);CHKERRQ(ierr); 8248e2fed03SBarry Smith cnt = 0; 8258e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8268e2fed03SBarry Smith for (j=B->i[i]; j<B->i[i+1]; j++) { 8278e2fed03SBarry Smith if ( (col = garray[B->j[j]]) > cstart) break; 8288e2fed03SBarry Smith column_indices[cnt++] = col; 8298e2fed03SBarry Smith } 8308e2fed03SBarry Smith for (k=A->i[i]; k<A->i[i+1]; k++) { 8318e2fed03SBarry Smith column_indices[cnt++] = A->j[k] + cstart; 8328e2fed03SBarry Smith } 8338e2fed03SBarry Smith for (; j<B->i[i+1]; j++) { 8348e2fed03SBarry Smith column_indices[cnt++] = garray[B->j[j]]; 8358e2fed03SBarry Smith } 8368e2fed03SBarry Smith } 83777431f27SBarry Smith if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz); 8388e2fed03SBarry Smith 8398e2fed03SBarry Smith /* store the column indices to the file */ 840958c9bccSBarry Smith if (!rank) { 8418e2fed03SBarry Smith MPI_Status status; 8426f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,nz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8438e2fed03SBarry Smith for (i=1; i<size; i++) { 844b1d57f15SBarry Smith ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 84577431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 846b1d57f15SBarry Smith ierr = MPI_Recv(column_indices,rnz,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 8476f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,rnz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8488e2fed03SBarry Smith } 8498e2fed03SBarry Smith } else { 850b1d57f15SBarry Smith ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 851b1d57f15SBarry Smith ierr = MPI_Send(column_indices,nz,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8528e2fed03SBarry Smith } 8538e2fed03SBarry Smith ierr = PetscFree(column_indices);CHKERRQ(ierr); 8548e2fed03SBarry Smith 8558e2fed03SBarry Smith /* load up the local column values */ 8568e2fed03SBarry Smith ierr = PetscMalloc((nzmax+1)*sizeof(PetscScalar),&column_values);CHKERRQ(ierr); 8578e2fed03SBarry Smith cnt = 0; 8588e2fed03SBarry Smith for (i=0; i<mat->m; i++) { 8598e2fed03SBarry Smith for (j=B->i[i]; j<B->i[i+1]; j++) { 8608e2fed03SBarry Smith if ( garray[B->j[j]] > cstart) break; 8618e2fed03SBarry Smith column_values[cnt++] = B->a[j]; 8628e2fed03SBarry Smith } 8638e2fed03SBarry Smith for (k=A->i[i]; k<A->i[i+1]; k++) { 8648e2fed03SBarry Smith column_values[cnt++] = A->a[k]; 8658e2fed03SBarry Smith } 8668e2fed03SBarry Smith for (; j<B->i[i+1]; j++) { 8678e2fed03SBarry Smith column_values[cnt++] = B->a[j]; 8688e2fed03SBarry Smith } 8698e2fed03SBarry Smith } 87077431f27SBarry Smith if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_PLIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz); 8718e2fed03SBarry Smith 8728e2fed03SBarry Smith /* store the column values to the file */ 873958c9bccSBarry Smith if (!rank) { 8748e2fed03SBarry Smith MPI_Status status; 8756f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,nz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8768e2fed03SBarry Smith for (i=1; i<size; i++) { 877b1d57f15SBarry Smith ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 87877431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 879b021249fSBarry Smith ierr = MPI_Recv(column_values,rnz,MPIU_SCALAR,i,tag,mat->comm,&status);CHKERRQ(ierr); 8806f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,rnz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8818e2fed03SBarry Smith } 8828e2fed03SBarry Smith } else { 883b1d57f15SBarry Smith ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8848e2fed03SBarry Smith ierr = MPI_Send(column_values,nz,MPIU_SCALAR,0,tag,mat->comm);CHKERRQ(ierr); 8858e2fed03SBarry Smith } 8868e2fed03SBarry Smith ierr = PetscFree(column_values);CHKERRQ(ierr); 8878e2fed03SBarry Smith PetscFunctionReturn(0); 8888e2fed03SBarry Smith } 8898e2fed03SBarry Smith 8908e2fed03SBarry Smith #undef __FUNCT__ 8914a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ_ASCIIorDraworSocket" 892dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_ASCIIorDraworSocket(Mat mat,PetscViewer viewer) 893416022c9SBarry Smith { 89444a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 895dfbe8321SBarry Smith PetscErrorCode ierr; 89632dcc486SBarry Smith PetscMPIInt rank = aij->rank,size = aij->size; 89732077d6dSBarry Smith PetscTruth isdraw,iascii,flg,isbinary; 898b0a32e0cSBarry Smith PetscViewer sviewer; 899f3ef73ceSBarry Smith PetscViewerFormat format; 900416022c9SBarry Smith 9013a40ed3dSBarry Smith PetscFunctionBegin; 902fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 90332077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 9048e2fed03SBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 90532077d6dSBarry Smith if (iascii) { 906b0a32e0cSBarry Smith ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 907456192e2SBarry Smith if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 9084e220ebcSLois Curfman McInnes MatInfo info; 9091dab6e02SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 910888f2ed8SSatish Balay ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr); 911b0a32e0cSBarry Smith ierr = PetscOptionsHasName(PETSC_NULL,"-mat_aij_no_inode",&flg);CHKERRQ(ierr); 9126831982aSBarry Smith if (flg) { 91377431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, not using I-node routines\n", 91477431f27SBarry Smith rank,mat->m,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 9156831982aSBarry Smith } else { 91677431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, using I-node routines\n", 91777431f27SBarry Smith rank,mat->m,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 9186831982aSBarry Smith } 919888f2ed8SSatish Balay ierr = MatGetInfo(aij->A,MAT_LOCAL,&info);CHKERRQ(ierr); 92077431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] on-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 921888f2ed8SSatish Balay ierr = MatGetInfo(aij->B,MAT_LOCAL,&info);CHKERRQ(ierr); 92277431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] off-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 923b0a32e0cSBarry Smith ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 924a40aa06bSLois Curfman McInnes ierr = VecScatterView(aij->Mvctx,viewer);CHKERRQ(ierr); 9253a40ed3dSBarry Smith PetscFunctionReturn(0); 926fb9695e5SSatish Balay } else if (format == PETSC_VIEWER_ASCII_INFO) { 9273a40ed3dSBarry Smith PetscFunctionReturn(0); 9284aedb280SBarry Smith } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) { 9294aedb280SBarry Smith PetscFunctionReturn(0); 93008480c60SBarry Smith } 9318e2fed03SBarry Smith } else if (isbinary) { 9328e2fed03SBarry Smith if (size == 1) { 9338e2fed03SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 9348e2fed03SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9358e2fed03SBarry Smith } else { 9368e2fed03SBarry Smith ierr = MatView_MPIAIJ_Binary(mat,viewer);CHKERRQ(ierr); 9378e2fed03SBarry Smith } 9388e2fed03SBarry Smith PetscFunctionReturn(0); 9390f5bd95cSBarry Smith } else if (isdraw) { 940b0a32e0cSBarry Smith PetscDraw draw; 94119bcc07fSBarry Smith PetscTruth isnull; 942b0a32e0cSBarry Smith ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr); 943b0a32e0cSBarry Smith ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); if (isnull) PetscFunctionReturn(0); 94419bcc07fSBarry Smith } 94519bcc07fSBarry Smith 94617699dbbSLois Curfman McInnes if (size == 1) { 947e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 94878b31e54SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9493a40ed3dSBarry Smith } else { 95095373324SBarry Smith /* assemble the entire matrix onto first processor. */ 95195373324SBarry Smith Mat A; 952ec8511deSBarry Smith Mat_SeqAIJ *Aloc; 953b1d57f15SBarry Smith PetscInt M = mat->M,N = mat->N,m,*ai,*aj,row,*cols,i,*ct; 95487828ca2SBarry Smith PetscScalar *a; 9552ee70a88SLois Curfman McInnes 95617699dbbSLois Curfman McInnes if (!rank) { 957f204ca49SKris Buschelman ierr = MatCreate(mat->comm,M,N,M,N,&A);CHKERRQ(ierr); 9583a40ed3dSBarry Smith } else { 959f204ca49SKris Buschelman ierr = MatCreate(mat->comm,0,0,M,N,&A);CHKERRQ(ierr); 96095373324SBarry Smith } 961f204ca49SKris Buschelman /* This is just a temporary matrix, so explicitly using MATMPIAIJ is probably best */ 962f204ca49SKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 963f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 964b0a32e0cSBarry Smith PetscLogObjectParent(mat,A); 965416022c9SBarry Smith 96695373324SBarry Smith /* copy over the A part */ 967ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->A->data; 968273d9f13SBarry Smith m = aij->A->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 96995373324SBarry Smith row = aij->rstart; 970bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] += aij->cstart ;} 97195373324SBarry Smith for (i=0; i<m; i++) { 972416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],aj,a,INSERT_VALUES);CHKERRQ(ierr); 97395373324SBarry Smith row++; a += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 97495373324SBarry Smith } 9752ee70a88SLois Curfman McInnes aj = Aloc->j; 976bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] -= aij->cstart;} 97795373324SBarry Smith 97895373324SBarry Smith /* copy over the B part */ 979ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->B->data; 980273d9f13SBarry Smith m = aij->B->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 98195373324SBarry Smith row = aij->rstart; 982b1d57f15SBarry Smith ierr = PetscMalloc((ai[m]+1)*sizeof(PetscInt),&cols);CHKERRQ(ierr); 983b0a32e0cSBarry Smith ct = cols; 984bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = aij->garray[aj[i]];} 98595373324SBarry Smith for (i=0; i<m; i++) { 986416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],cols,a,INSERT_VALUES);CHKERRQ(ierr); 98795373324SBarry Smith row++; a += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 98895373324SBarry Smith } 989606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 9906d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 9916d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 99255843e3eSBarry Smith /* 99355843e3eSBarry Smith Everyone has to call to draw the matrix since the graphics waits are 994b0a32e0cSBarry Smith synchronized across all processors that share the PetscDraw object 99555843e3eSBarry Smith */ 996b0a32e0cSBarry Smith ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr); 997e03a110bSBarry Smith if (!rank) { 998e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)((Mat_MPIAIJ*)(A->data))->A,mat->name);CHKERRQ(ierr); 9996831982aSBarry Smith ierr = MatView(((Mat_MPIAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr); 100095373324SBarry Smith } 1001b0a32e0cSBarry Smith ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr); 100278b31e54SBarry Smith ierr = MatDestroy(A);CHKERRQ(ierr); 100395373324SBarry Smith } 10043a40ed3dSBarry Smith PetscFunctionReturn(0); 10051eb62cbbSBarry Smith } 10061eb62cbbSBarry Smith 10074a2ae208SSatish Balay #undef __FUNCT__ 10084a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ" 1009dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ(Mat mat,PetscViewer viewer) 1010416022c9SBarry Smith { 1011dfbe8321SBarry Smith PetscErrorCode ierr; 101232077d6dSBarry Smith PetscTruth iascii,isdraw,issocket,isbinary; 1013416022c9SBarry Smith 10143a40ed3dSBarry Smith PetscFunctionBegin; 101532077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 1016fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 1017fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 1018b0a32e0cSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr); 101932077d6dSBarry Smith if (iascii || isdraw || isbinary || issocket) { 10207b2a1423SBarry Smith ierr = MatView_MPIAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr); 10215cd90555SBarry Smith } else { 102279a5c55eSBarry Smith SETERRQ1(PETSC_ERR_SUP,"Viewer type %s not supported by MPIAIJ matrices",((PetscObject)viewer)->type_name); 1023416022c9SBarry Smith } 10243a40ed3dSBarry Smith PetscFunctionReturn(0); 1025416022c9SBarry Smith } 1026416022c9SBarry Smith 10271eb62cbbSBarry Smith 1028c14dc6b6SHong Zhang 10294a2ae208SSatish Balay #undef __FUNCT__ 10304a2ae208SSatish Balay #define __FUNCT__ "MatRelax_MPIAIJ" 1031b1d57f15SBarry Smith PetscErrorCode MatRelax_MPIAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx) 10328a729477SBarry Smith { 103344a69424SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1034dfbe8321SBarry Smith PetscErrorCode ierr; 1035c14dc6b6SHong Zhang Vec bb1; 1036a6c309e7SHong Zhang PetscScalar mone=-1.0; 10378a729477SBarry Smith 10383a40ed3dSBarry Smith PetscFunctionBegin; 103977431f27SBarry Smith if (its <= 0 || lits <= 0) SETERRQ2(PETSC_ERR_ARG_WRONG,"Relaxation requires global its %D and local its %D both positive",its,lits); 1040c14dc6b6SHong Zhang 1041c14dc6b6SHong Zhang ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr); 10422798e883SHong Zhang 1043c16cb8f2SBarry Smith if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP){ 1044da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1045bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,lits,xx);CHKERRQ(ierr); 10462798e883SHong Zhang its--; 1047da3a660dSBarry Smith } 10482798e883SHong Zhang 10492798e883SHong Zhang while (its--) { 10503a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10513a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10522798e883SHong Zhang 1053c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1054c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1055c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10562798e883SHong Zhang 1057c14dc6b6SHong Zhang /* local sweep */ 1058bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,lits,xx); 1059c14dc6b6SHong Zhang CHKERRQ(ierr); 10602798e883SHong Zhang } 10613a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_FORWARD_SWEEP){ 1062da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1063c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10642798e883SHong Zhang its--; 1065da3a660dSBarry Smith } 10662798e883SHong Zhang while (its--) { 10673a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10683a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10692798e883SHong Zhang 1070c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1071c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1072c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 1073c14dc6b6SHong Zhang 1074c14dc6b6SHong Zhang /* local sweep */ 1075a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 1076c14dc6b6SHong Zhang CHKERRQ(ierr); 10772798e883SHong Zhang } 10783a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_BACKWARD_SWEEP){ 1079da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1080c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10812798e883SHong Zhang its--; 1082da3a660dSBarry Smith } 10832798e883SHong Zhang while (its--) { 10842e8a6d31SBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10852e8a6d31SBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10862798e883SHong Zhang 1087c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1088c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 1089c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10902798e883SHong Zhang 1091c14dc6b6SHong Zhang /* local sweep */ 1092a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 1093c14dc6b6SHong Zhang CHKERRQ(ierr); 10942798e883SHong Zhang } 10953a40ed3dSBarry Smith } else { 109629bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Parallel SOR not supported"); 1097c16cb8f2SBarry Smith } 1098c14dc6b6SHong Zhang 1099c14dc6b6SHong Zhang ierr = VecDestroy(bb1);CHKERRQ(ierr); 11003a40ed3dSBarry Smith PetscFunctionReturn(0); 11018a729477SBarry Smith } 1102a66be287SLois Curfman McInnes 11034a2ae208SSatish Balay #undef __FUNCT__ 11044a2ae208SSatish Balay #define __FUNCT__ "MatGetInfo_MPIAIJ" 1105dfbe8321SBarry Smith PetscErrorCode MatGetInfo_MPIAIJ(Mat matin,MatInfoType flag,MatInfo *info) 1106a66be287SLois Curfman McInnes { 1107a66be287SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1108a66be287SLois Curfman McInnes Mat A = mat->A,B = mat->B; 1109dfbe8321SBarry Smith PetscErrorCode ierr; 1110329f5518SBarry Smith PetscReal isend[5],irecv[5]; 1111a66be287SLois Curfman McInnes 11123a40ed3dSBarry Smith PetscFunctionBegin; 11134e220ebcSLois Curfman McInnes info->block_size = 1.0; 11144e220ebcSLois Curfman McInnes ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr); 11154e220ebcSLois Curfman McInnes isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 11164e220ebcSLois Curfman McInnes isend[3] = info->memory; isend[4] = info->mallocs; 11174e220ebcSLois Curfman McInnes ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr); 11184e220ebcSLois Curfman McInnes isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded; 11194e220ebcSLois Curfman McInnes isend[3] += info->memory; isend[4] += info->mallocs; 1120a66be287SLois Curfman McInnes if (flag == MAT_LOCAL) { 11214e220ebcSLois Curfman McInnes info->nz_used = isend[0]; 11224e220ebcSLois Curfman McInnes info->nz_allocated = isend[1]; 11234e220ebcSLois Curfman McInnes info->nz_unneeded = isend[2]; 11244e220ebcSLois Curfman McInnes info->memory = isend[3]; 11254e220ebcSLois Curfman McInnes info->mallocs = isend[4]; 1126a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_MAX) { 1127d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,matin->comm);CHKERRQ(ierr); 11284e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11294e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11304e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11314e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11324e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1133a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_SUM) { 1134d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,matin->comm);CHKERRQ(ierr); 11354e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11364e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11374e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11384e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11394e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1140a66be287SLois Curfman McInnes } 11414e220ebcSLois Curfman McInnes info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 11424e220ebcSLois Curfman McInnes info->fill_ratio_needed = 0; 11434e220ebcSLois Curfman McInnes info->factor_mallocs = 0; 1144273d9f13SBarry Smith info->rows_global = (double)matin->M; 1145273d9f13SBarry Smith info->columns_global = (double)matin->N; 1146273d9f13SBarry Smith info->rows_local = (double)matin->m; 1147273d9f13SBarry Smith info->columns_local = (double)matin->N; 11484e220ebcSLois Curfman McInnes 11493a40ed3dSBarry Smith PetscFunctionReturn(0); 1150a66be287SLois Curfman McInnes } 1151a66be287SLois Curfman McInnes 11524a2ae208SSatish Balay #undef __FUNCT__ 11534a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_MPIAIJ" 1154dfbe8321SBarry Smith PetscErrorCode MatSetOption_MPIAIJ(Mat A,MatOption op) 1155c74985f6SBarry Smith { 1156c0bbcb79SLois Curfman McInnes Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1157dfbe8321SBarry Smith PetscErrorCode ierr; 1158c74985f6SBarry Smith 11593a40ed3dSBarry Smith PetscFunctionBegin; 116012c028f9SKris Buschelman switch (op) { 116112c028f9SKris Buschelman case MAT_NO_NEW_NONZERO_LOCATIONS: 116212c028f9SKris Buschelman case MAT_YES_NEW_NONZERO_LOCATIONS: 116312c028f9SKris Buschelman case MAT_COLUMNS_UNSORTED: 116412c028f9SKris Buschelman case MAT_COLUMNS_SORTED: 116512c028f9SKris Buschelman case MAT_NEW_NONZERO_ALLOCATION_ERR: 116612c028f9SKris Buschelman case MAT_KEEP_ZEROED_ROWS: 116712c028f9SKris Buschelman case MAT_NEW_NONZERO_LOCATION_ERR: 116812c028f9SKris Buschelman case MAT_USE_INODES: 116912c028f9SKris Buschelman case MAT_DO_NOT_USE_INODES: 117012c028f9SKris Buschelman case MAT_IGNORE_ZERO_ENTRIES: 11711dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11721dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 117312c028f9SKris Buschelman break; 117412c028f9SKris Buschelman case MAT_ROW_ORIENTED: 11757c922b88SBarry Smith a->roworiented = PETSC_TRUE; 11761dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11771dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 117812c028f9SKris Buschelman break; 117912c028f9SKris Buschelman case MAT_ROWS_SORTED: 118012c028f9SKris Buschelman case MAT_ROWS_UNSORTED: 118112c028f9SKris Buschelman case MAT_YES_NEW_DIAGONALS: 1182b0a32e0cSBarry Smith PetscLogInfo(A,"MatSetOption_MPIAIJ:Option ignored\n"); 118312c028f9SKris Buschelman break; 118412c028f9SKris Buschelman case MAT_COLUMN_ORIENTED: 11857c922b88SBarry Smith a->roworiented = PETSC_FALSE; 11861dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 11871dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 118812c028f9SKris Buschelman break; 118912c028f9SKris Buschelman case MAT_IGNORE_OFF_PROC_ENTRIES: 11907c922b88SBarry Smith a->donotstash = PETSC_TRUE; 119112c028f9SKris Buschelman break; 119212c028f9SKris Buschelman case MAT_NO_NEW_DIAGONALS: 119329bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MAT_NO_NEW_DIAGONALS"); 119477e54ba9SKris Buschelman case MAT_SYMMETRIC: 119577e54ba9SKris Buschelman case MAT_STRUCTURALLY_SYMMETRIC: 1196bf108f30SBarry Smith case MAT_HERMITIAN: 1197bf108f30SBarry Smith case MAT_SYMMETRY_ETERNAL: 1198bf108f30SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 1199bf108f30SBarry Smith break; 12009a4540c5SBarry Smith case MAT_NOT_SYMMETRIC: 12019a4540c5SBarry Smith case MAT_NOT_STRUCTURALLY_SYMMETRIC: 12029a4540c5SBarry Smith case MAT_NOT_HERMITIAN: 12039a4540c5SBarry Smith case MAT_NOT_SYMMETRY_ETERNAL: 120477e54ba9SKris Buschelman break; 120512c028f9SKris Buschelman default: 120629bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"unknown option"); 12073a40ed3dSBarry Smith } 12083a40ed3dSBarry Smith PetscFunctionReturn(0); 1209c74985f6SBarry Smith } 1210c74985f6SBarry Smith 12114a2ae208SSatish Balay #undef __FUNCT__ 12124a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_MPIAIJ" 1213b1d57f15SBarry Smith PetscErrorCode MatGetRow_MPIAIJ(Mat matin,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 121439e00950SLois Curfman McInnes { 1215154123eaSLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 121687828ca2SBarry Smith PetscScalar *vworkA,*vworkB,**pvA,**pvB,*v_p; 12176849ba73SBarry Smith PetscErrorCode ierr; 1218b1d57f15SBarry Smith PetscInt i,*cworkA,*cworkB,**pcA,**pcB,cstart = mat->cstart; 1219b1d57f15SBarry Smith PetscInt nztot,nzA,nzB,lrow,rstart = mat->rstart,rend = mat->rend; 1220b1d57f15SBarry Smith PetscInt *cmap,*idx_p; 122139e00950SLois Curfman McInnes 12223a40ed3dSBarry Smith PetscFunctionBegin; 122329bbc08cSBarry Smith if (mat->getrowactive == PETSC_TRUE) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Already active"); 12247a0afa10SBarry Smith mat->getrowactive = PETSC_TRUE; 12257a0afa10SBarry Smith 122670f0671dSBarry Smith if (!mat->rowvalues && (idx || v)) { 12277a0afa10SBarry Smith /* 12287a0afa10SBarry Smith allocate enough space to hold information from the longest row. 12297a0afa10SBarry Smith */ 12307a0afa10SBarry Smith Mat_SeqAIJ *Aa = (Mat_SeqAIJ*)mat->A->data,*Ba = (Mat_SeqAIJ*)mat->B->data; 1231b1d57f15SBarry Smith PetscInt max = 1,tmp; 1232273d9f13SBarry Smith for (i=0; i<matin->m; i++) { 12337a0afa10SBarry Smith tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i]; 12347a0afa10SBarry Smith if (max < tmp) { max = tmp; } 12357a0afa10SBarry Smith } 1236b1d57f15SBarry Smith ierr = PetscMalloc(max*(sizeof(PetscInt)+sizeof(PetscScalar)),&mat->rowvalues);CHKERRQ(ierr); 1237b1d57f15SBarry Smith mat->rowindices = (PetscInt*)(mat->rowvalues + max); 12387a0afa10SBarry Smith } 12397a0afa10SBarry Smith 124029bbc08cSBarry Smith if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Only local rows") 1241abc0e9e4SLois Curfman McInnes lrow = row - rstart; 124239e00950SLois Curfman McInnes 1243154123eaSLois Curfman McInnes pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB; 1244154123eaSLois Curfman McInnes if (!v) {pvA = 0; pvB = 0;} 1245154123eaSLois Curfman McInnes if (!idx) {pcA = 0; if (!v) pcB = 0;} 1246f830108cSBarry Smith ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1247f830108cSBarry Smith ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 1248154123eaSLois Curfman McInnes nztot = nzA + nzB; 1249154123eaSLois Curfman McInnes 125070f0671dSBarry Smith cmap = mat->garray; 1251154123eaSLois Curfman McInnes if (v || idx) { 1252154123eaSLois Curfman McInnes if (nztot) { 1253154123eaSLois Curfman McInnes /* Sort by increasing column numbers, assuming A and B already sorted */ 1254b1d57f15SBarry Smith PetscInt imark = -1; 1255154123eaSLois Curfman McInnes if (v) { 125670f0671dSBarry Smith *v = v_p = mat->rowvalues; 125739e00950SLois Curfman McInnes for (i=0; i<nzB; i++) { 125870f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) v_p[i] = vworkB[i]; 1259154123eaSLois Curfman McInnes else break; 1260154123eaSLois Curfman McInnes } 1261154123eaSLois Curfman McInnes imark = i; 126270f0671dSBarry Smith for (i=0; i<nzA; i++) v_p[imark+i] = vworkA[i]; 126370f0671dSBarry Smith for (i=imark; i<nzB; i++) v_p[nzA+i] = vworkB[i]; 1264154123eaSLois Curfman McInnes } 1265154123eaSLois Curfman McInnes if (idx) { 126670f0671dSBarry Smith *idx = idx_p = mat->rowindices; 126770f0671dSBarry Smith if (imark > -1) { 126870f0671dSBarry Smith for (i=0; i<imark; i++) { 126970f0671dSBarry Smith idx_p[i] = cmap[cworkB[i]]; 127070f0671dSBarry Smith } 127170f0671dSBarry Smith } else { 1272154123eaSLois Curfman McInnes for (i=0; i<nzB; i++) { 127370f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) idx_p[i] = cmap[cworkB[i]]; 1274154123eaSLois Curfman McInnes else break; 1275154123eaSLois Curfman McInnes } 1276154123eaSLois Curfman McInnes imark = i; 127770f0671dSBarry Smith } 127870f0671dSBarry Smith for (i=0; i<nzA; i++) idx_p[imark+i] = cstart + cworkA[i]; 127970f0671dSBarry Smith for (i=imark; i<nzB; i++) idx_p[nzA+i] = cmap[cworkB[i]]; 128039e00950SLois Curfman McInnes } 12813f97c4b0SBarry Smith } else { 12821ca473b0SSatish Balay if (idx) *idx = 0; 12831ca473b0SSatish Balay if (v) *v = 0; 12841ca473b0SSatish Balay } 1285154123eaSLois Curfman McInnes } 128639e00950SLois Curfman McInnes *nz = nztot; 1287f830108cSBarry Smith ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1288f830108cSBarry Smith ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 12893a40ed3dSBarry Smith PetscFunctionReturn(0); 129039e00950SLois Curfman McInnes } 129139e00950SLois Curfman McInnes 12924a2ae208SSatish Balay #undef __FUNCT__ 12934a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_MPIAIJ" 1294b1d57f15SBarry Smith PetscErrorCode MatRestoreRow_MPIAIJ(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 129539e00950SLois Curfman McInnes { 12967a0afa10SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 12973a40ed3dSBarry Smith 12983a40ed3dSBarry Smith PetscFunctionBegin; 12997a0afa10SBarry Smith if (aij->getrowactive == PETSC_FALSE) { 130029bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"MatGetRow not called"); 13017a0afa10SBarry Smith } 13027a0afa10SBarry Smith aij->getrowactive = PETSC_FALSE; 13033a40ed3dSBarry Smith PetscFunctionReturn(0); 130439e00950SLois Curfman McInnes } 130539e00950SLois Curfman McInnes 13064a2ae208SSatish Balay #undef __FUNCT__ 13074a2ae208SSatish Balay #define __FUNCT__ "MatNorm_MPIAIJ" 1308dfbe8321SBarry Smith PetscErrorCode MatNorm_MPIAIJ(Mat mat,NormType type,PetscReal *norm) 1309855ac2c5SLois Curfman McInnes { 1310855ac2c5SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 1311ec8511deSBarry Smith Mat_SeqAIJ *amat = (Mat_SeqAIJ*)aij->A->data,*bmat = (Mat_SeqAIJ*)aij->B->data; 1312dfbe8321SBarry Smith PetscErrorCode ierr; 1313b1d57f15SBarry Smith PetscInt i,j,cstart = aij->cstart; 1314329f5518SBarry Smith PetscReal sum = 0.0; 131587828ca2SBarry Smith PetscScalar *v; 131604ca555eSLois Curfman McInnes 13173a40ed3dSBarry Smith PetscFunctionBegin; 131817699dbbSLois Curfman McInnes if (aij->size == 1) { 131914183eadSLois Curfman McInnes ierr = MatNorm(aij->A,type,norm);CHKERRQ(ierr); 132037fa93a5SLois Curfman McInnes } else { 132104ca555eSLois Curfman McInnes if (type == NORM_FROBENIUS) { 132204ca555eSLois Curfman McInnes v = amat->a; 132304ca555eSLois Curfman McInnes for (i=0; i<amat->nz; i++) { 1324aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1325329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 132604ca555eSLois Curfman McInnes #else 132704ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 132804ca555eSLois Curfman McInnes #endif 132904ca555eSLois Curfman McInnes } 133004ca555eSLois Curfman McInnes v = bmat->a; 133104ca555eSLois Curfman McInnes for (i=0; i<bmat->nz; i++) { 1332aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1333329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 133404ca555eSLois Curfman McInnes #else 133504ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 133604ca555eSLois Curfman McInnes #endif 133704ca555eSLois Curfman McInnes } 1338d7d1e502SBarry Smith ierr = MPI_Allreduce(&sum,norm,1,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 133904ca555eSLois Curfman McInnes *norm = sqrt(*norm); 13403a40ed3dSBarry Smith } else if (type == NORM_1) { /* max column norm */ 1341329f5518SBarry Smith PetscReal *tmp,*tmp2; 1342b1d57f15SBarry Smith PetscInt *jj,*garray = aij->garray; 1343b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp);CHKERRQ(ierr); 1344b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp2);CHKERRQ(ierr); 1345273d9f13SBarry Smith ierr = PetscMemzero(tmp,mat->N*sizeof(PetscReal));CHKERRQ(ierr); 134604ca555eSLois Curfman McInnes *norm = 0.0; 134704ca555eSLois Curfman McInnes v = amat->a; jj = amat->j; 134804ca555eSLois Curfman McInnes for (j=0; j<amat->nz; j++) { 1349bfec09a0SHong Zhang tmp[cstart + *jj++ ] += PetscAbsScalar(*v); v++; 135004ca555eSLois Curfman McInnes } 135104ca555eSLois Curfman McInnes v = bmat->a; jj = bmat->j; 135204ca555eSLois Curfman McInnes for (j=0; j<bmat->nz; j++) { 1353bfec09a0SHong Zhang tmp[garray[*jj++]] += PetscAbsScalar(*v); v++; 135404ca555eSLois Curfman McInnes } 1355d7d1e502SBarry Smith ierr = MPI_Allreduce(tmp,tmp2,mat->N,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 1356273d9f13SBarry Smith for (j=0; j<mat->N; j++) { 135704ca555eSLois Curfman McInnes if (tmp2[j] > *norm) *norm = tmp2[j]; 135804ca555eSLois Curfman McInnes } 1359606d414cSSatish Balay ierr = PetscFree(tmp);CHKERRQ(ierr); 1360606d414cSSatish Balay ierr = PetscFree(tmp2);CHKERRQ(ierr); 13613a40ed3dSBarry Smith } else if (type == NORM_INFINITY) { /* max row norm */ 1362329f5518SBarry Smith PetscReal ntemp = 0.0; 1363273d9f13SBarry Smith for (j=0; j<aij->A->m; j++) { 1364bfec09a0SHong Zhang v = amat->a + amat->i[j]; 136504ca555eSLois Curfman McInnes sum = 0.0; 136604ca555eSLois Curfman McInnes for (i=0; i<amat->i[j+1]-amat->i[j]; i++) { 1367cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 136804ca555eSLois Curfman McInnes } 1369bfec09a0SHong Zhang v = bmat->a + bmat->i[j]; 137004ca555eSLois Curfman McInnes for (i=0; i<bmat->i[j+1]-bmat->i[j]; i++) { 1371cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 137204ca555eSLois Curfman McInnes } 1373515d9167SLois Curfman McInnes if (sum > ntemp) ntemp = sum; 137404ca555eSLois Curfman McInnes } 1375d7d1e502SBarry Smith ierr = MPI_Allreduce(&ntemp,norm,1,MPIU_REAL,MPI_MAX,mat->comm);CHKERRQ(ierr); 1376ca161407SBarry Smith } else { 137729bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"No support for two norm"); 137804ca555eSLois Curfman McInnes } 137937fa93a5SLois Curfman McInnes } 13803a40ed3dSBarry Smith PetscFunctionReturn(0); 1381855ac2c5SLois Curfman McInnes } 1382855ac2c5SLois Curfman McInnes 13834a2ae208SSatish Balay #undef __FUNCT__ 13844a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_MPIAIJ" 1385dfbe8321SBarry Smith PetscErrorCode MatTranspose_MPIAIJ(Mat A,Mat *matout) 1386b7c46309SBarry Smith { 1387b7c46309SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1388dbb450caSBarry Smith Mat_SeqAIJ *Aloc = (Mat_SeqAIJ*)a->A->data; 1389dfbe8321SBarry Smith PetscErrorCode ierr; 1390b1d57f15SBarry Smith PetscInt M = A->M,N = A->N,m,*ai,*aj,row,*cols,i,*ct; 13913a40ed3dSBarry Smith Mat B; 139287828ca2SBarry Smith PetscScalar *array; 1393b7c46309SBarry Smith 13943a40ed3dSBarry Smith PetscFunctionBegin; 13957c922b88SBarry Smith if (!matout && M != N) { 139629bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"Square matrix only for in-place"); 1397d4bb536fSBarry Smith } 1398d4bb536fSBarry Smith 1399f204ca49SKris Buschelman ierr = MatCreate(A->comm,A->n,A->m,N,M,&B);CHKERRQ(ierr); 1400f204ca49SKris Buschelman ierr = MatSetType(B,A->type_name);CHKERRQ(ierr); 1401f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(B,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 1402b7c46309SBarry Smith 1403b7c46309SBarry Smith /* copy over the A part */ 1404ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->A->data; 1405273d9f13SBarry Smith m = a->A->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1406b7c46309SBarry Smith row = a->rstart; 1407bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] += a->cstart ;} 1408b7c46309SBarry Smith for (i=0; i<m; i++) { 1409416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],aj,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1410b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 1411b7c46309SBarry Smith } 1412b7c46309SBarry Smith aj = Aloc->j; 1413bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {aj[i] -= a->cstart ;} 1414b7c46309SBarry Smith 1415b7c46309SBarry Smith /* copy over the B part */ 1416ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->B->data; 1417273d9f13SBarry Smith m = a->B->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1418b7c46309SBarry Smith row = a->rstart; 1419b1d57f15SBarry Smith ierr = PetscMalloc((1+ai[m])*sizeof(PetscInt),&cols);CHKERRQ(ierr); 1420b0a32e0cSBarry Smith ct = cols; 1421bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = a->garray[aj[i]];} 1422b7c46309SBarry Smith for (i=0; i<m; i++) { 1423416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],cols,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1424b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 1425b7c46309SBarry Smith } 1426606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 14276d4a8577SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14286d4a8577SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14297c922b88SBarry Smith if (matout) { 14300de55854SLois Curfman McInnes *matout = B; 14310de55854SLois Curfman McInnes } else { 1432273d9f13SBarry Smith ierr = MatHeaderCopy(A,B);CHKERRQ(ierr); 14330de55854SLois Curfman McInnes } 14343a40ed3dSBarry Smith PetscFunctionReturn(0); 1435b7c46309SBarry Smith } 1436b7c46309SBarry Smith 14374a2ae208SSatish Balay #undef __FUNCT__ 14384a2ae208SSatish Balay #define __FUNCT__ "MatDiagonalScale_MPIAIJ" 1439dfbe8321SBarry Smith PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat,Vec ll,Vec rr) 1440a008b906SSatish Balay { 14414b967eb1SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 14424b967eb1SSatish Balay Mat a = aij->A,b = aij->B; 1443dfbe8321SBarry Smith PetscErrorCode ierr; 1444b1d57f15SBarry Smith PetscInt s1,s2,s3; 1445a008b906SSatish Balay 14463a40ed3dSBarry Smith PetscFunctionBegin; 14474b967eb1SSatish Balay ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr); 14484b967eb1SSatish Balay if (rr) { 1449e1311b90SBarry Smith ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr); 145029bbc08cSBarry Smith if (s1!=s3) SETERRQ(PETSC_ERR_ARG_SIZ,"right vector non-conforming local size"); 14514b967eb1SSatish Balay /* Overlap communication with computation. */ 145243a90d84SBarry Smith ierr = VecScatterBegin(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1453a008b906SSatish Balay } 14544b967eb1SSatish Balay if (ll) { 1455e1311b90SBarry Smith ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr); 145629bbc08cSBarry Smith if (s1!=s2) SETERRQ(PETSC_ERR_ARG_SIZ,"left vector non-conforming local size"); 1457f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,ll,0);CHKERRQ(ierr); 14584b967eb1SSatish Balay } 14594b967eb1SSatish Balay /* scale the diagonal block */ 1460f830108cSBarry Smith ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr); 14614b967eb1SSatish Balay 14624b967eb1SSatish Balay if (rr) { 14634b967eb1SSatish Balay /* Do a scatter end and then right scale the off-diagonal block */ 146443a90d84SBarry Smith ierr = VecScatterEnd(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1465f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,0,aij->lvec);CHKERRQ(ierr); 14664b967eb1SSatish Balay } 14674b967eb1SSatish Balay 14683a40ed3dSBarry Smith PetscFunctionReturn(0); 1469a008b906SSatish Balay } 1470a008b906SSatish Balay 1471a008b906SSatish Balay 14724a2ae208SSatish Balay #undef __FUNCT__ 14734a2ae208SSatish Balay #define __FUNCT__ "MatPrintHelp_MPIAIJ" 1474dfbe8321SBarry Smith PetscErrorCode MatPrintHelp_MPIAIJ(Mat A) 1475682d7d0cSBarry Smith { 1476682d7d0cSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1477dfbe8321SBarry Smith PetscErrorCode ierr; 1478682d7d0cSBarry Smith 14793a40ed3dSBarry Smith PetscFunctionBegin; 14803a40ed3dSBarry Smith if (!a->rank) { 14813a40ed3dSBarry Smith ierr = MatPrintHelp_SeqAIJ(a->A);CHKERRQ(ierr); 14823a40ed3dSBarry Smith } 14833a40ed3dSBarry Smith PetscFunctionReturn(0); 1484682d7d0cSBarry Smith } 1485682d7d0cSBarry Smith 14864a2ae208SSatish Balay #undef __FUNCT__ 1487521d7252SBarry Smith #define __FUNCT__ "MatSetBlockSize_MPIAIJ" 1488521d7252SBarry Smith PetscErrorCode MatSetBlockSize_MPIAIJ(Mat A,PetscInt bs) 14895a838052SSatish Balay { 1490521d7252SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1491521d7252SBarry Smith PetscErrorCode ierr; 1492521d7252SBarry Smith 14933a40ed3dSBarry Smith PetscFunctionBegin; 1494521d7252SBarry Smith ierr = MatSetBlockSize(a->A,bs);CHKERRQ(ierr); 1495521d7252SBarry Smith ierr = MatSetBlockSize(a->B,bs);CHKERRQ(ierr); 14963a40ed3dSBarry Smith PetscFunctionReturn(0); 14975a838052SSatish Balay } 14984a2ae208SSatish Balay #undef __FUNCT__ 14994a2ae208SSatish Balay #define __FUNCT__ "MatSetUnfactored_MPIAIJ" 1500dfbe8321SBarry Smith PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A) 1501bb5a7306SBarry Smith { 1502bb5a7306SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1503dfbe8321SBarry Smith PetscErrorCode ierr; 15043a40ed3dSBarry Smith 15053a40ed3dSBarry Smith PetscFunctionBegin; 1506bb5a7306SBarry Smith ierr = MatSetUnfactored(a->A);CHKERRQ(ierr); 15073a40ed3dSBarry Smith PetscFunctionReturn(0); 1508bb5a7306SBarry Smith } 1509bb5a7306SBarry Smith 15104a2ae208SSatish Balay #undef __FUNCT__ 15114a2ae208SSatish Balay #define __FUNCT__ "MatEqual_MPIAIJ" 1512dfbe8321SBarry Smith PetscErrorCode MatEqual_MPIAIJ(Mat A,Mat B,PetscTruth *flag) 1513d4bb536fSBarry Smith { 1514d4bb536fSBarry Smith Mat_MPIAIJ *matB = (Mat_MPIAIJ*)B->data,*matA = (Mat_MPIAIJ*)A->data; 1515d4bb536fSBarry Smith Mat a,b,c,d; 1516d4bb536fSBarry Smith PetscTruth flg; 1517dfbe8321SBarry Smith PetscErrorCode ierr; 1518d4bb536fSBarry Smith 15193a40ed3dSBarry Smith PetscFunctionBegin; 1520d4bb536fSBarry Smith a = matA->A; b = matA->B; 1521d4bb536fSBarry Smith c = matB->A; d = matB->B; 1522d4bb536fSBarry Smith 1523d4bb536fSBarry Smith ierr = MatEqual(a,c,&flg);CHKERRQ(ierr); 1524d4bb536fSBarry Smith if (flg == PETSC_TRUE) { 1525d4bb536fSBarry Smith ierr = MatEqual(b,d,&flg);CHKERRQ(ierr); 1526d4bb536fSBarry Smith } 1527ca161407SBarry Smith ierr = MPI_Allreduce(&flg,flag,1,MPI_INT,MPI_LAND,A->comm);CHKERRQ(ierr); 15283a40ed3dSBarry Smith PetscFunctionReturn(0); 1529d4bb536fSBarry Smith } 1530d4bb536fSBarry Smith 15314a2ae208SSatish Balay #undef __FUNCT__ 15324a2ae208SSatish Balay #define __FUNCT__ "MatCopy_MPIAIJ" 1533dfbe8321SBarry Smith PetscErrorCode MatCopy_MPIAIJ(Mat A,Mat B,MatStructure str) 1534cb5b572fSBarry Smith { 1535dfbe8321SBarry Smith PetscErrorCode ierr; 1536cb5b572fSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1537cb5b572fSBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 1538cb5b572fSBarry Smith 1539cb5b572fSBarry Smith PetscFunctionBegin; 154033f4a19fSKris Buschelman /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */ 154133f4a19fSKris Buschelman if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) { 1542cb5b572fSBarry Smith /* because of the column compression in the off-processor part of the matrix a->B, 1543cb5b572fSBarry Smith the number of columns in a->B and b->B may be different, hence we cannot call 1544cb5b572fSBarry Smith the MatCopy() directly on the two parts. If need be, we can provide a more 1545cb5b572fSBarry Smith efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices 1546cb5b572fSBarry Smith then copying the submatrices */ 1547cb5b572fSBarry Smith ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr); 1548cb5b572fSBarry Smith } else { 1549cb5b572fSBarry Smith ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 1550cb5b572fSBarry Smith ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr); 1551cb5b572fSBarry Smith } 1552cb5b572fSBarry Smith PetscFunctionReturn(0); 1553cb5b572fSBarry Smith } 1554cb5b572fSBarry Smith 15554a2ae208SSatish Balay #undef __FUNCT__ 15564a2ae208SSatish Balay #define __FUNCT__ "MatSetUpPreallocation_MPIAIJ" 1557dfbe8321SBarry Smith PetscErrorCode MatSetUpPreallocation_MPIAIJ(Mat A) 1558273d9f13SBarry Smith { 1559dfbe8321SBarry Smith PetscErrorCode ierr; 1560273d9f13SBarry Smith 1561273d9f13SBarry Smith PetscFunctionBegin; 1562273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(A,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr); 1563273d9f13SBarry Smith PetscFunctionReturn(0); 1564273d9f13SBarry Smith } 1565273d9f13SBarry Smith 1566ac90fabeSBarry Smith #include "petscblaslapack.h" 1567ac90fabeSBarry Smith #undef __FUNCT__ 1568ac90fabeSBarry Smith #define __FUNCT__ "MatAXPY_MPIAIJ" 1569dfbe8321SBarry Smith PetscErrorCode MatAXPY_MPIAIJ(const PetscScalar a[],Mat X,Mat Y,MatStructure str) 1570ac90fabeSBarry Smith { 1571dfbe8321SBarry Smith PetscErrorCode ierr; 1572b1d57f15SBarry Smith PetscInt i; 1573ac90fabeSBarry Smith Mat_MPIAIJ *xx = (Mat_MPIAIJ *)X->data,*yy = (Mat_MPIAIJ *)Y->data; 15744ce68768SBarry Smith PetscBLASInt bnz,one=1; 1575ac90fabeSBarry Smith Mat_SeqAIJ *x,*y; 1576ac90fabeSBarry Smith 1577ac90fabeSBarry Smith PetscFunctionBegin; 1578ac90fabeSBarry Smith if (str == SAME_NONZERO_PATTERN) { 1579ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->A->data; 1580ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->A->data; 15814ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 15824ce68768SBarry Smith BLaxpy_(&bnz,(PetscScalar*)a,x->a,&one,y->a,&one); 1583ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->B->data; 1584ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->B->data; 15854ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 15864ce68768SBarry Smith BLaxpy_(&bnz,(PetscScalar*)a,x->a,&one,y->a,&one); 1587a30b2313SHong Zhang } else if (str == SUBSET_NONZERO_PATTERN) { 1588c537a176SHong Zhang ierr = MatAXPY_SeqAIJ(a,xx->A,yy->A,str);CHKERRQ(ierr); 1589c537a176SHong Zhang 1590c537a176SHong Zhang x = (Mat_SeqAIJ *)xx->B->data; 1591a30b2313SHong Zhang y = (Mat_SeqAIJ *)yy->B->data; 1592a30b2313SHong Zhang if (y->xtoy && y->XtoY != xx->B) { 1593a30b2313SHong Zhang ierr = PetscFree(y->xtoy);CHKERRQ(ierr); 1594a30b2313SHong Zhang ierr = MatDestroy(y->XtoY);CHKERRQ(ierr); 1595c537a176SHong Zhang } 1596a30b2313SHong Zhang if (!y->xtoy) { /* get xtoy */ 159724f910e3SHong Zhang ierr = MatAXPYGetxtoy_Private(xx->B->m,x->i,x->j,xx->garray,y->i,y->j,yy->garray,&y->xtoy);CHKERRQ(ierr); 1598a30b2313SHong Zhang y->XtoY = xx->B; 1599c537a176SHong Zhang } 1600a30b2313SHong Zhang for (i=0; i<x->nz; i++) y->a[y->xtoy[i]] += (*a)*(x->a[i]); 1601ac90fabeSBarry Smith } else { 1602ac90fabeSBarry Smith ierr = MatAXPY_Basic(a,X,Y,str);CHKERRQ(ierr); 1603ac90fabeSBarry Smith } 1604ac90fabeSBarry Smith PetscFunctionReturn(0); 1605ac90fabeSBarry Smith } 1606ac90fabeSBarry Smith 16078a729477SBarry Smith /* -------------------------------------------------------------------*/ 1608cda55fadSBarry Smith static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ, 1609cda55fadSBarry Smith MatGetRow_MPIAIJ, 1610cda55fadSBarry Smith MatRestoreRow_MPIAIJ, 1611cda55fadSBarry Smith MatMult_MPIAIJ, 161297304618SKris Buschelman /* 4*/ MatMultAdd_MPIAIJ, 16137c922b88SBarry Smith MatMultTranspose_MPIAIJ, 16147c922b88SBarry Smith MatMultTransposeAdd_MPIAIJ, 1615cda55fadSBarry Smith 0, 1616cda55fadSBarry Smith 0, 1617cda55fadSBarry Smith 0, 161897304618SKris Buschelman /*10*/ 0, 1619cda55fadSBarry Smith 0, 1620cda55fadSBarry Smith 0, 162144a69424SLois Curfman McInnes MatRelax_MPIAIJ, 1622b7c46309SBarry Smith MatTranspose_MPIAIJ, 162397304618SKris Buschelman /*15*/ MatGetInfo_MPIAIJ, 1624cda55fadSBarry Smith MatEqual_MPIAIJ, 1625cda55fadSBarry Smith MatGetDiagonal_MPIAIJ, 1626cda55fadSBarry Smith MatDiagonalScale_MPIAIJ, 1627cda55fadSBarry Smith MatNorm_MPIAIJ, 162897304618SKris Buschelman /*20*/ MatAssemblyBegin_MPIAIJ, 1629cda55fadSBarry Smith MatAssemblyEnd_MPIAIJ, 16301eb62cbbSBarry Smith 0, 1631cda55fadSBarry Smith MatSetOption_MPIAIJ, 1632cda55fadSBarry Smith MatZeroEntries_MPIAIJ, 163397304618SKris Buschelman /*25*/ MatZeroRows_MPIAIJ, 1634cda55fadSBarry Smith 0, 1635cda55fadSBarry Smith 0, 1636cda55fadSBarry Smith 0, 1637cda55fadSBarry Smith 0, 163897304618SKris Buschelman /*30*/ MatSetUpPreallocation_MPIAIJ, 1639cda55fadSBarry Smith 0, 1640cda55fadSBarry Smith 0, 1641cda55fadSBarry Smith 0, 1642cda55fadSBarry Smith 0, 164397304618SKris Buschelman /*35*/ MatDuplicate_MPIAIJ, 1644cda55fadSBarry Smith 0, 1645cda55fadSBarry Smith 0, 1646cda55fadSBarry Smith 0, 1647cda55fadSBarry Smith 0, 164897304618SKris Buschelman /*40*/ MatAXPY_MPIAIJ, 1649cda55fadSBarry Smith MatGetSubMatrices_MPIAIJ, 1650cda55fadSBarry Smith MatIncreaseOverlap_MPIAIJ, 1651cda55fadSBarry Smith MatGetValues_MPIAIJ, 1652cb5b572fSBarry Smith MatCopy_MPIAIJ, 165397304618SKris Buschelman /*45*/ MatPrintHelp_MPIAIJ, 1654cda55fadSBarry Smith MatScale_MPIAIJ, 1655cda55fadSBarry Smith 0, 1656cda55fadSBarry Smith 0, 1657cda55fadSBarry Smith 0, 1658521d7252SBarry Smith /*50*/ MatSetBlockSize_MPIAIJ, 1659cda55fadSBarry Smith 0, 1660cda55fadSBarry Smith 0, 1661cda55fadSBarry Smith 0, 1662cda55fadSBarry Smith 0, 166397304618SKris Buschelman /*55*/ MatFDColoringCreate_MPIAIJ, 1664cda55fadSBarry Smith 0, 1665cda55fadSBarry Smith MatSetUnfactored_MPIAIJ, 1666cda55fadSBarry Smith 0, 1667cda55fadSBarry Smith 0, 166897304618SKris Buschelman /*60*/ MatGetSubMatrix_MPIAIJ, 1669e03a110bSBarry Smith MatDestroy_MPIAIJ, 1670e03a110bSBarry Smith MatView_MPIAIJ, 16718a124369SBarry Smith MatGetPetscMaps_Petsc, 1672a2243be0SBarry Smith 0, 167397304618SKris Buschelman /*65*/ 0, 1674a2243be0SBarry Smith 0, 1675a2243be0SBarry Smith 0, 1676a2243be0SBarry Smith 0, 1677a2243be0SBarry Smith 0, 167897304618SKris Buschelman /*70*/ 0, 1679a2243be0SBarry Smith 0, 1680a2243be0SBarry Smith MatSetColoring_MPIAIJ, 1681779c1a83SBarry Smith MatSetValuesAdic_MPIAIJ, 168297304618SKris Buschelman MatSetValuesAdifor_MPIAIJ, 168397304618SKris Buschelman /*75*/ 0, 168497304618SKris Buschelman 0, 168597304618SKris Buschelman 0, 168697304618SKris Buschelman 0, 168797304618SKris Buschelman 0, 168897304618SKris Buschelman /*80*/ 0, 168997304618SKris Buschelman 0, 169097304618SKris Buschelman 0, 169197304618SKris Buschelman 0, 169241acf15aSKris Buschelman /*84*/ MatLoad_MPIAIJ, 16936284ec50SHong Zhang 0, 16946284ec50SHong Zhang 0, 16956284ec50SHong Zhang 0, 16966284ec50SHong Zhang 0, 1697865e5f61SKris Buschelman 0, 1698865e5f61SKris Buschelman /*90*/ MatMatMult_MPIAIJ_MPIAIJ, 169926be0446SHong Zhang MatMatMultSymbolic_MPIAIJ_MPIAIJ, 170026be0446SHong Zhang MatMatMultNumeric_MPIAIJ_MPIAIJ, 1701ff134f7aSHong Zhang MatPtAP_MPIAIJ_MPIAIJ, 1702865e5f61SKris Buschelman MatPtAPSymbolic_MPIAIJ_MPIAIJ, 1703865e5f61SKris Buschelman /*95*/ MatPtAPNumeric_MPIAIJ_MPIAIJ, 1704865e5f61SKris Buschelman 0, 1705865e5f61SKris Buschelman 0, 1706865e5f61SKris Buschelman 0}; 170736ce4990SBarry Smith 17082e8a6d31SBarry Smith /* ----------------------------------------------------------------------------------------*/ 17092e8a6d31SBarry Smith 1710fb2e594dSBarry Smith EXTERN_C_BEGIN 17114a2ae208SSatish Balay #undef __FUNCT__ 17124a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_MPIAIJ" 1713dfbe8321SBarry Smith PetscErrorCode MatStoreValues_MPIAIJ(Mat mat) 17142e8a6d31SBarry Smith { 17152e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1716dfbe8321SBarry Smith PetscErrorCode ierr; 17172e8a6d31SBarry Smith 17182e8a6d31SBarry Smith PetscFunctionBegin; 17192e8a6d31SBarry Smith ierr = MatStoreValues(aij->A);CHKERRQ(ierr); 17202e8a6d31SBarry Smith ierr = MatStoreValues(aij->B);CHKERRQ(ierr); 17212e8a6d31SBarry Smith PetscFunctionReturn(0); 17222e8a6d31SBarry Smith } 1723fb2e594dSBarry Smith EXTERN_C_END 17242e8a6d31SBarry Smith 1725fb2e594dSBarry Smith EXTERN_C_BEGIN 17264a2ae208SSatish Balay #undef __FUNCT__ 17274a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_MPIAIJ" 1728dfbe8321SBarry Smith PetscErrorCode MatRetrieveValues_MPIAIJ(Mat mat) 17292e8a6d31SBarry Smith { 17302e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1731dfbe8321SBarry Smith PetscErrorCode ierr; 17322e8a6d31SBarry Smith 17332e8a6d31SBarry Smith PetscFunctionBegin; 17342e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr); 17352e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr); 17362e8a6d31SBarry Smith PetscFunctionReturn(0); 17372e8a6d31SBarry Smith } 1738fb2e594dSBarry Smith EXTERN_C_END 17398a729477SBarry Smith 1740e090d566SSatish Balay #include "petscpc.h" 174127508adbSBarry Smith EXTERN_C_BEGIN 17424a2ae208SSatish Balay #undef __FUNCT__ 1743a23d5eceSKris Buschelman #define __FUNCT__ "MatMPIAIJSetPreallocation_MPIAIJ" 1744b1d57f15SBarry Smith PetscErrorCode MatMPIAIJSetPreallocation_MPIAIJ(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 1745a23d5eceSKris Buschelman { 1746a23d5eceSKris Buschelman Mat_MPIAIJ *b; 1747dfbe8321SBarry Smith PetscErrorCode ierr; 1748b1d57f15SBarry Smith PetscInt i; 1749a23d5eceSKris Buschelman 1750a23d5eceSKris Buschelman PetscFunctionBegin; 1751a23d5eceSKris Buschelman B->preallocated = PETSC_TRUE; 1752a23d5eceSKris Buschelman if (d_nz == PETSC_DEFAULT || d_nz == PETSC_DECIDE) d_nz = 5; 1753a23d5eceSKris Buschelman if (o_nz == PETSC_DEFAULT || o_nz == PETSC_DECIDE) o_nz = 2; 175477431f27SBarry Smith if (d_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"d_nz cannot be less than 0: value %D",d_nz); 175577431f27SBarry Smith if (o_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"o_nz cannot be less than 0: value %D",o_nz); 1756a23d5eceSKris Buschelman if (d_nnz) { 1757a23d5eceSKris Buschelman for (i=0; i<B->m; i++) { 175877431f27SBarry 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]); 1759a23d5eceSKris Buschelman } 1760a23d5eceSKris Buschelman } 1761a23d5eceSKris Buschelman if (o_nnz) { 1762a23d5eceSKris Buschelman for (i=0; i<B->m; i++) { 176377431f27SBarry 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]); 1764a23d5eceSKris Buschelman } 1765a23d5eceSKris Buschelman } 1766a23d5eceSKris Buschelman b = (Mat_MPIAIJ*)B->data; 1767c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->A,d_nz,d_nnz);CHKERRQ(ierr); 1768c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->B,o_nz,o_nnz);CHKERRQ(ierr); 1769a23d5eceSKris Buschelman 1770a23d5eceSKris Buschelman PetscFunctionReturn(0); 1771a23d5eceSKris Buschelman } 1772a23d5eceSKris Buschelman EXTERN_C_END 1773a23d5eceSKris Buschelman 17740bad9183SKris Buschelman /*MC 1775002d173eSKris Buschelman MATAIJ - MATAIJ = "aij" - A matrix type to be used for sparse matrices. 1776209238afSKris Buschelman 1777209238afSKris Buschelman This matrix type is identical to MATSEQAIJ when constructed with a single process communicator, 177830e3259aSHong Zhang and MATMPIAIJ otherwise. As a result, for single process communicators, 177930e3259aSHong Zhang MatSeqAIJSetPreallocation is supported, and similarly MatMPIAIJSetPreallocation is supported 178030e3259aSHong Zhang for communicators controlling multiple processes. It is recommended that you call both of 178130e3259aSHong Zhang the above preallocation routines for simplicity. 1782209238afSKris Buschelman 1783209238afSKris Buschelman Options Database Keys: 1784209238afSKris Buschelman . -mat_type aij - sets the matrix type to "aij" during a call to MatSetFromOptions() 1785209238afSKris Buschelman 1786209238afSKris Buschelman Level: beginner 1787209238afSKris Buschelman 1788209238afSKris Buschelman .seealso: MatCreateMPIAIJ,MATSEQAIJ,MATMPIAIJ 1789209238afSKris Buschelman M*/ 1790209238afSKris Buschelman 1791209238afSKris Buschelman EXTERN_C_BEGIN 1792209238afSKris Buschelman #undef __FUNCT__ 1793209238afSKris Buschelman #define __FUNCT__ "MatCreate_AIJ" 1794dfbe8321SBarry Smith PetscErrorCode MatCreate_AIJ(Mat A) 1795dfbe8321SBarry Smith { 17966849ba73SBarry Smith PetscErrorCode ierr; 1797b1d57f15SBarry Smith PetscMPIInt size; 1798209238afSKris Buschelman 1799209238afSKris Buschelman PetscFunctionBegin; 1800209238afSKris Buschelman ierr = PetscObjectChangeTypeName((PetscObject)A,MATAIJ);CHKERRQ(ierr); 1801209238afSKris Buschelman ierr = MPI_Comm_size(A->comm,&size);CHKERRQ(ierr); 1802209238afSKris Buschelman if (size == 1) { 1803209238afSKris Buschelman ierr = MatSetType(A,MATSEQAIJ);CHKERRQ(ierr); 1804209238afSKris Buschelman } else { 1805209238afSKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 1806209238afSKris Buschelman } 1807209238afSKris Buschelman PetscFunctionReturn(0); 1808209238afSKris Buschelman } 1809209238afSKris Buschelman EXTERN_C_END 1810209238afSKris Buschelman 18114a2ae208SSatish Balay #undef __FUNCT__ 18124a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_MPIAIJ" 1813dfbe8321SBarry Smith PetscErrorCode MatDuplicate_MPIAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat) 1814d6dfbf8fSBarry Smith { 1815d6dfbf8fSBarry Smith Mat mat; 1816416022c9SBarry Smith Mat_MPIAIJ *a,*oldmat = (Mat_MPIAIJ*)matin->data; 1817dfbe8321SBarry Smith PetscErrorCode ierr; 1818d6dfbf8fSBarry Smith 18193a40ed3dSBarry Smith PetscFunctionBegin; 1820416022c9SBarry Smith *newmat = 0; 1821273d9f13SBarry Smith ierr = MatCreate(matin->comm,matin->m,matin->n,matin->M,matin->N,&mat);CHKERRQ(ierr); 1822be5d1d56SKris Buschelman ierr = MatSetType(mat,matin->type_name);CHKERRQ(ierr); 18231d5dac46SHong Zhang ierr = PetscMemcpy(mat->ops,matin->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 1824273d9f13SBarry Smith a = (Mat_MPIAIJ*)mat->data; 1825e1b6402fSHong Zhang 1826d6dfbf8fSBarry Smith mat->factor = matin->factor; 1827521d7252SBarry Smith mat->bs = matin->bs; 1828c456f294SBarry Smith mat->assembled = PETSC_TRUE; 1829e7641de0SSatish Balay mat->insertmode = NOT_SET_VALUES; 1830273d9f13SBarry Smith mat->preallocated = PETSC_TRUE; 1831d6dfbf8fSBarry Smith 1832416022c9SBarry Smith a->rstart = oldmat->rstart; 1833416022c9SBarry Smith a->rend = oldmat->rend; 1834416022c9SBarry Smith a->cstart = oldmat->cstart; 1835416022c9SBarry Smith a->cend = oldmat->cend; 183617699dbbSLois Curfman McInnes a->size = oldmat->size; 183717699dbbSLois Curfman McInnes a->rank = oldmat->rank; 1838e7641de0SSatish Balay a->donotstash = oldmat->donotstash; 1839e7641de0SSatish Balay a->roworiented = oldmat->roworiented; 1840e7641de0SSatish Balay a->rowindices = 0; 1841bcd2baecSBarry Smith a->rowvalues = 0; 1842bcd2baecSBarry Smith a->getrowactive = PETSC_FALSE; 1843d6dfbf8fSBarry Smith 1844b1d57f15SBarry Smith ierr = PetscMemcpy(a->rowners,oldmat->rowners,2*(a->size+2)*sizeof(PetscInt));CHKERRQ(ierr); 18458798bf22SSatish Balay ierr = MatStashCreate_Private(matin->comm,1,&mat->stash);CHKERRQ(ierr); 18462ee70a88SLois Curfman McInnes if (oldmat->colmap) { 1847aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 18480f5bd95cSBarry Smith ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr); 1849b1fc9764SSatish Balay #else 1850b1d57f15SBarry Smith ierr = PetscMalloc((mat->N)*sizeof(PetscInt),&a->colmap);CHKERRQ(ierr); 1851b1d57f15SBarry Smith PetscLogObjectMemory(mat,(mat->N)*sizeof(PetscInt)); 1852b1d57f15SBarry Smith ierr = PetscMemcpy(a->colmap,oldmat->colmap,(mat->N)*sizeof(PetscInt));CHKERRQ(ierr); 1853b1fc9764SSatish Balay #endif 1854416022c9SBarry Smith } else a->colmap = 0; 18553f41c07dSBarry Smith if (oldmat->garray) { 1856b1d57f15SBarry Smith PetscInt len; 1857273d9f13SBarry Smith len = oldmat->B->n; 1858b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&a->garray);CHKERRQ(ierr); 1859b1d57f15SBarry Smith PetscLogObjectMemory(mat,len*sizeof(PetscInt)); 1860b1d57f15SBarry Smith if (len) { ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(PetscInt));CHKERRQ(ierr); } 1861416022c9SBarry Smith } else a->garray = 0; 1862d6dfbf8fSBarry Smith 1863416022c9SBarry Smith ierr = VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr); 1864b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->lvec); 1865a56f8943SBarry Smith ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr); 1866b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->Mvctx); 18674efcb820SBarry Smith ierr = MatDestroy(a->A);CHKERRQ(ierr); 18682e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr); 1869b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->A); 18704efcb820SBarry Smith ierr = MatDestroy(a->B);CHKERRQ(ierr); 18712e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr); 1872b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->B); 1873b0a32e0cSBarry Smith ierr = PetscFListDuplicate(matin->qlist,&mat->qlist);CHKERRQ(ierr); 18748a729477SBarry Smith *newmat = mat; 18753a40ed3dSBarry Smith PetscFunctionReturn(0); 18768a729477SBarry Smith } 1877416022c9SBarry Smith 1878e090d566SSatish Balay #include "petscsys.h" 1879416022c9SBarry Smith 18804a2ae208SSatish Balay #undef __FUNCT__ 18814a2ae208SSatish Balay #define __FUNCT__ "MatLoad_MPIAIJ" 1882dfbe8321SBarry Smith PetscErrorCode MatLoad_MPIAIJ(PetscViewer viewer,const MatType type,Mat *newmat) 1883416022c9SBarry Smith { 1884d65a2f8fSBarry Smith Mat A; 188587828ca2SBarry Smith PetscScalar *vals,*svals; 188619bcc07fSBarry Smith MPI_Comm comm = ((PetscObject)viewer)->comm; 1887416022c9SBarry Smith MPI_Status status; 18886849ba73SBarry Smith PetscErrorCode ierr; 1889dc231df0SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag,maxnz; 1890b1d57f15SBarry Smith PetscInt i,nz,j,rstart,rend; 1891b1d57f15SBarry Smith PetscInt header[4],*rowlengths = 0,M,N,m,*cols; 1892b1d57f15SBarry Smith PetscInt *ourlens,*procsnz = 0,*offlens,jj,*mycols,*smycols; 1893dc231df0SBarry Smith PetscInt cend,cstart,n,*rowners; 1894b1d57f15SBarry Smith int fd; 1895416022c9SBarry Smith 18963a40ed3dSBarry Smith PetscFunctionBegin; 18971dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 18981dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 189917699dbbSLois Curfman McInnes if (!rank) { 1900b0a32e0cSBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 19010752156aSBarry Smith ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr); 1902552e946dSBarry Smith if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object"); 19036c5fab8fSBarry Smith } 19046c5fab8fSBarry Smith 1905b1d57f15SBarry Smith ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr); 1906416022c9SBarry Smith M = header[1]; N = header[2]; 1907416022c9SBarry Smith /* determine ownership of all rows */ 190829cdbbc8SSatish Balay m = M/size + ((M % size) > rank); 1909dc231df0SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&rowners);CHKERRQ(ierr); 1910dc231df0SBarry Smith ierr = MPI_Allgather(&m,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr); 1911416022c9SBarry Smith rowners[0] = 0; 191217699dbbSLois Curfman McInnes for (i=2; i<=size; i++) { 1913416022c9SBarry Smith rowners[i] += rowners[i-1]; 1914416022c9SBarry Smith } 191517699dbbSLois Curfman McInnes rstart = rowners[rank]; 191617699dbbSLois Curfman McInnes rend = rowners[rank+1]; 1917416022c9SBarry Smith 1918416022c9SBarry Smith /* distribute row lengths to all processors */ 1919dc231df0SBarry Smith ierr = PetscMalloc2(m,PetscInt,&ourlens,m,PetscInt,&offlens);CHKERRQ(ierr); 192017699dbbSLois Curfman McInnes if (!rank) { 1921dc231df0SBarry Smith ierr = PetscBinaryRead(fd,ourlens,m,PETSC_INT);CHKERRQ(ierr); 1922dc231df0SBarry Smith ierr = PetscMalloc(m*sizeof(PetscInt),&rowlengths);CHKERRQ(ierr); 1923b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscInt),&procsnz);CHKERRQ(ierr); 1924b1d57f15SBarry Smith ierr = PetscMemzero(procsnz,size*sizeof(PetscInt));CHKERRQ(ierr); 1925dc231df0SBarry Smith for (j=0; j<m; j++) { 1926dc231df0SBarry Smith procsnz[0] += ourlens[j]; 1927dc231df0SBarry Smith } 1928dc231df0SBarry Smith for (i=1; i<size; i++) { 1929dc231df0SBarry Smith ierr = PetscBinaryRead(fd,rowlengths,rowners[i+1]-rowners[i],PETSC_INT);CHKERRQ(ierr); 1930dc231df0SBarry Smith /* calculate the number of nonzeros on each processor */ 1931dc231df0SBarry Smith for (j=0; j<rowners[i+1]-rowners[i]; j++) { 1932416022c9SBarry Smith procsnz[i] += rowlengths[j]; 1933416022c9SBarry Smith } 1934dc231df0SBarry Smith ierr = MPI_Send(rowlengths,rowners[i+1]-rowners[i],MPIU_INT,i,tag,comm);CHKERRQ(ierr); 1935416022c9SBarry Smith } 1936606d414cSSatish Balay ierr = PetscFree(rowlengths);CHKERRQ(ierr); 1937dc231df0SBarry Smith } else { 1938dc231df0SBarry Smith ierr = MPI_Recv(ourlens,m,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 1939dc231df0SBarry Smith } 1940416022c9SBarry Smith 1941dc231df0SBarry Smith if (!rank) { 1942416022c9SBarry Smith /* determine max buffer needed and allocate it */ 1943416022c9SBarry Smith maxnz = 0; 1944*8a8e0b3aSBarry Smith for (i=0; i<size; i++) { 19450452661fSBarry Smith maxnz = PetscMax(maxnz,procsnz[i]); 1946416022c9SBarry Smith } 1947b1d57f15SBarry Smith ierr = PetscMalloc(maxnz*sizeof(PetscInt),&cols);CHKERRQ(ierr); 1948416022c9SBarry Smith 1949416022c9SBarry Smith /* read in my part of the matrix column indices */ 1950416022c9SBarry Smith nz = procsnz[0]; 1951b1d57f15SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 19520752156aSBarry Smith ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr); 1953d65a2f8fSBarry Smith 1954d65a2f8fSBarry Smith /* read in every one elses and ship off */ 195517699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 1956d65a2f8fSBarry Smith nz = procsnz[i]; 19570752156aSBarry Smith ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 1958b1d57f15SBarry Smith ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr); 1959d65a2f8fSBarry Smith } 1960606d414cSSatish Balay ierr = PetscFree(cols);CHKERRQ(ierr); 19613a40ed3dSBarry Smith } else { 1962416022c9SBarry Smith /* determine buffer space needed for message */ 1963416022c9SBarry Smith nz = 0; 1964416022c9SBarry Smith for (i=0; i<m; i++) { 1965416022c9SBarry Smith nz += ourlens[i]; 1966416022c9SBarry Smith } 1967dc231df0SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 1968416022c9SBarry Smith 1969416022c9SBarry Smith /* receive message of column indices*/ 1970b1d57f15SBarry Smith ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 1971b1d57f15SBarry Smith ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr); 197229bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 1973416022c9SBarry Smith } 1974416022c9SBarry Smith 1975b362ba68SBarry Smith /* determine column ownership if matrix is not square */ 1976b362ba68SBarry Smith if (N != M) { 1977b362ba68SBarry Smith n = N/size + ((N % size) > rank); 1978b1d57f15SBarry Smith ierr = MPI_Scan(&n,&cend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 1979b362ba68SBarry Smith cstart = cend - n; 1980b362ba68SBarry Smith } else { 1981b362ba68SBarry Smith cstart = rstart; 1982b362ba68SBarry Smith cend = rend; 1983fb2e594dSBarry Smith n = cend - cstart; 1984b362ba68SBarry Smith } 1985b362ba68SBarry Smith 1986416022c9SBarry Smith /* loop over local rows, determining number of off diagonal entries */ 1987b1d57f15SBarry Smith ierr = PetscMemzero(offlens,m*sizeof(PetscInt));CHKERRQ(ierr); 1988416022c9SBarry Smith jj = 0; 1989416022c9SBarry Smith for (i=0; i<m; i++) { 1990416022c9SBarry Smith for (j=0; j<ourlens[i]; j++) { 1991b362ba68SBarry Smith if (mycols[jj] < cstart || mycols[jj] >= cend) offlens[i]++; 1992416022c9SBarry Smith jj++; 1993416022c9SBarry Smith } 1994416022c9SBarry Smith } 1995d65a2f8fSBarry Smith 1996d65a2f8fSBarry Smith /* create our matrix */ 1997416022c9SBarry Smith for (i=0; i<m; i++) { 1998416022c9SBarry Smith ourlens[i] -= offlens[i]; 1999416022c9SBarry Smith } 2000d10c748bSKris Buschelman ierr = MatCreate(comm,m,n,M,N,&A);CHKERRQ(ierr); 2001d10c748bSKris Buschelman ierr = MatSetType(A,type);CHKERRQ(ierr); 2002d10c748bSKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,ourlens,0,offlens);CHKERRQ(ierr); 2003d10c748bSKris Buschelman 2004fb2e594dSBarry Smith ierr = MatSetOption(A,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 2005d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2006d65a2f8fSBarry Smith ourlens[i] += offlens[i]; 2007d65a2f8fSBarry Smith } 2008416022c9SBarry Smith 200917699dbbSLois Curfman McInnes if (!rank) { 201087828ca2SBarry Smith ierr = PetscMalloc(maxnz*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2011416022c9SBarry Smith 2012416022c9SBarry Smith /* read in my part of the matrix numerical values */ 2013416022c9SBarry Smith nz = procsnz[0]; 20140752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2015d65a2f8fSBarry Smith 2016d65a2f8fSBarry Smith /* insert into matrix */ 2017d65a2f8fSBarry Smith jj = rstart; 2018d65a2f8fSBarry Smith smycols = mycols; 2019d65a2f8fSBarry Smith svals = vals; 2020d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2021dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2022d65a2f8fSBarry Smith smycols += ourlens[i]; 2023d65a2f8fSBarry Smith svals += ourlens[i]; 2024d65a2f8fSBarry Smith jj++; 2025416022c9SBarry Smith } 2026416022c9SBarry Smith 2027d65a2f8fSBarry Smith /* read in other processors and ship out */ 202817699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 2029416022c9SBarry Smith nz = procsnz[i]; 20300752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2031ca161407SBarry Smith ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,A->tag,comm);CHKERRQ(ierr); 2032416022c9SBarry Smith } 2033606d414cSSatish Balay ierr = PetscFree(procsnz);CHKERRQ(ierr); 20343a40ed3dSBarry Smith } else { 2035d65a2f8fSBarry Smith /* receive numeric values */ 203687828ca2SBarry Smith ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2037416022c9SBarry Smith 2038d65a2f8fSBarry Smith /* receive message of values*/ 2039ca161407SBarry Smith ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,A->tag,comm,&status);CHKERRQ(ierr); 2040ca161407SBarry Smith ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr); 204129bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 2042d65a2f8fSBarry Smith 2043d65a2f8fSBarry Smith /* insert into matrix */ 2044d65a2f8fSBarry Smith jj = rstart; 2045d65a2f8fSBarry Smith smycols = mycols; 2046d65a2f8fSBarry Smith svals = vals; 2047d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2048dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2049d65a2f8fSBarry Smith smycols += ourlens[i]; 2050d65a2f8fSBarry Smith svals += ourlens[i]; 2051d65a2f8fSBarry Smith jj++; 2052d65a2f8fSBarry Smith } 2053d65a2f8fSBarry Smith } 2054dc231df0SBarry Smith ierr = PetscFree2(ourlens,offlens);CHKERRQ(ierr); 2055606d414cSSatish Balay ierr = PetscFree(vals);CHKERRQ(ierr); 2056606d414cSSatish Balay ierr = PetscFree(mycols);CHKERRQ(ierr); 2057606d414cSSatish Balay ierr = PetscFree(rowners);CHKERRQ(ierr); 2058d65a2f8fSBarry Smith 20596d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 20606d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2061d10c748bSKris Buschelman *newmat = A; 20623a40ed3dSBarry Smith PetscFunctionReturn(0); 2063416022c9SBarry Smith } 2064a0ff6018SBarry Smith 20654a2ae208SSatish Balay #undef __FUNCT__ 20664a2ae208SSatish Balay #define __FUNCT__ "MatGetSubMatrix_MPIAIJ" 2067a0ff6018SBarry Smith /* 206829da9460SBarry Smith Not great since it makes two copies of the submatrix, first an SeqAIJ 206929da9460SBarry Smith in local and then by concatenating the local matrices the end result. 207029da9460SBarry Smith Writing it directly would be much like MatGetSubMatrices_MPIAIJ() 2071a0ff6018SBarry Smith */ 2072b1d57f15SBarry Smith PetscErrorCode MatGetSubMatrix_MPIAIJ(Mat mat,IS isrow,IS iscol,PetscInt csize,MatReuse call,Mat *newmat) 2073a0ff6018SBarry Smith { 2074dfbe8321SBarry Smith PetscErrorCode ierr; 207532dcc486SBarry Smith PetscMPIInt rank,size; 2076b1d57f15SBarry Smith PetscInt i,m,n,rstart,row,rend,nz,*cwork,j; 2077b1d57f15SBarry Smith PetscInt *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal; 2078fee21e36SBarry Smith Mat *local,M,Mreuse; 207987828ca2SBarry Smith PetscScalar *vwork,*aa; 208000e6dbe6SBarry Smith MPI_Comm comm = mat->comm; 208100e6dbe6SBarry Smith Mat_SeqAIJ *aij; 20827e2c5f70SBarry Smith 2083a0ff6018SBarry Smith 2084a0ff6018SBarry Smith PetscFunctionBegin; 20851dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 20861dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 208700e6dbe6SBarry Smith 2088fee21e36SBarry Smith if (call == MAT_REUSE_MATRIX) { 2089fee21e36SBarry Smith ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject *)&Mreuse);CHKERRQ(ierr); 2090e005ede5SBarry Smith if (!Mreuse) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse"); 2091fee21e36SBarry Smith local = &Mreuse; 2092fee21e36SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_REUSE_MATRIX,&local);CHKERRQ(ierr); 2093fee21e36SBarry Smith } else { 2094a0ff6018SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&local);CHKERRQ(ierr); 2095fee21e36SBarry Smith Mreuse = *local; 2096606d414cSSatish Balay ierr = PetscFree(local);CHKERRQ(ierr); 2097fee21e36SBarry Smith } 2098a0ff6018SBarry Smith 2099a0ff6018SBarry Smith /* 2100a0ff6018SBarry Smith m - number of local rows 2101a0ff6018SBarry Smith n - number of columns (same on all processors) 2102a0ff6018SBarry Smith rstart - first row in new global matrix generated 2103a0ff6018SBarry Smith */ 2104fee21e36SBarry Smith ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr); 2105a0ff6018SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2106fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 210700e6dbe6SBarry Smith ii = aij->i; 210800e6dbe6SBarry Smith jj = aij->j; 210900e6dbe6SBarry Smith 2110a0ff6018SBarry Smith /* 211100e6dbe6SBarry Smith Determine the number of non-zeros in the diagonal and off-diagonal 211200e6dbe6SBarry Smith portions of the matrix in order to do correct preallocation 2113a0ff6018SBarry Smith */ 211400e6dbe6SBarry Smith 211500e6dbe6SBarry Smith /* first get start and end of "diagonal" columns */ 21166a6a5d1dSBarry Smith if (csize == PETSC_DECIDE) { 2117ab50ec6bSBarry Smith ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr); 2118ab50ec6bSBarry Smith if (mglobal == n) { /* square matrix */ 2119e2c4fddaSBarry Smith nlocal = m; 21206a6a5d1dSBarry Smith } else { 2121ab50ec6bSBarry Smith nlocal = n/size + ((n % size) > rank); 2122ab50ec6bSBarry Smith } 2123ab50ec6bSBarry Smith } else { 21246a6a5d1dSBarry Smith nlocal = csize; 21256a6a5d1dSBarry Smith } 2126b1d57f15SBarry Smith ierr = MPI_Scan(&nlocal,&rend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 212700e6dbe6SBarry Smith rstart = rend - nlocal; 21286a6a5d1dSBarry Smith if (rank == size - 1 && rend != n) { 212977431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Local column sizes %D do not add up to total number of columns %D",rend,n); 21306a6a5d1dSBarry Smith } 213100e6dbe6SBarry Smith 213200e6dbe6SBarry Smith /* next, compute all the lengths */ 2133b1d57f15SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&dlens);CHKERRQ(ierr); 213400e6dbe6SBarry Smith olens = dlens + m; 213500e6dbe6SBarry Smith for (i=0; i<m; i++) { 213600e6dbe6SBarry Smith jend = ii[i+1] - ii[i]; 213700e6dbe6SBarry Smith olen = 0; 213800e6dbe6SBarry Smith dlen = 0; 213900e6dbe6SBarry Smith for (j=0; j<jend; j++) { 214000e6dbe6SBarry Smith if (*jj < rstart || *jj >= rend) olen++; 214100e6dbe6SBarry Smith else dlen++; 214200e6dbe6SBarry Smith jj++; 214300e6dbe6SBarry Smith } 214400e6dbe6SBarry Smith olens[i] = olen; 214500e6dbe6SBarry Smith dlens[i] = dlen; 214600e6dbe6SBarry Smith } 2147e2d9671bSKris Buschelman ierr = MatCreate(comm,m,nlocal,PETSC_DECIDE,n,&M);CHKERRQ(ierr); 2148e2d9671bSKris Buschelman ierr = MatSetType(M,mat->type_name);CHKERRQ(ierr); 2149e2d9671bSKris Buschelman ierr = MatMPIAIJSetPreallocation(M,0,dlens,0,olens);CHKERRQ(ierr); 2150606d414cSSatish Balay ierr = PetscFree(dlens);CHKERRQ(ierr); 2151a0ff6018SBarry Smith } else { 2152b1d57f15SBarry Smith PetscInt ml,nl; 2153a0ff6018SBarry Smith 2154a0ff6018SBarry Smith M = *newmat; 2155a0ff6018SBarry Smith ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr); 215629bbc08cSBarry Smith if (ml != m) SETERRQ(PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request"); 2157a0ff6018SBarry Smith ierr = MatZeroEntries(M);CHKERRQ(ierr); 2158c48de900SBarry Smith /* 2159c48de900SBarry Smith The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 2160c48de900SBarry Smith rather than the slower MatSetValues(). 2161c48de900SBarry Smith */ 2162c48de900SBarry Smith M->was_assembled = PETSC_TRUE; 2163c48de900SBarry Smith M->assembled = PETSC_FALSE; 2164a0ff6018SBarry Smith } 2165a0ff6018SBarry Smith ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr); 2166fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 216700e6dbe6SBarry Smith ii = aij->i; 216800e6dbe6SBarry Smith jj = aij->j; 216900e6dbe6SBarry Smith aa = aij->a; 2170a0ff6018SBarry Smith for (i=0; i<m; i++) { 2171a0ff6018SBarry Smith row = rstart + i; 217200e6dbe6SBarry Smith nz = ii[i+1] - ii[i]; 217300e6dbe6SBarry Smith cwork = jj; jj += nz; 217400e6dbe6SBarry Smith vwork = aa; aa += nz; 21758c638d02SBarry Smith ierr = MatSetValues_MPIAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr); 2176a0ff6018SBarry Smith } 2177a0ff6018SBarry Smith 2178a0ff6018SBarry Smith ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2179a0ff6018SBarry Smith ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2180a0ff6018SBarry Smith *newmat = M; 2181fee21e36SBarry Smith 2182fee21e36SBarry Smith /* save submatrix used in processor for next request */ 2183fee21e36SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2184fee21e36SBarry Smith ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr); 2185fee21e36SBarry Smith ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr); 2186fee21e36SBarry Smith } 2187fee21e36SBarry Smith 2188a0ff6018SBarry Smith PetscFunctionReturn(0); 2189a0ff6018SBarry Smith } 2190273d9f13SBarry Smith 2191e2e86b8fSSatish Balay EXTERN_C_BEGIN 21924a2ae208SSatish Balay #undef __FUNCT__ 2193ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR_MPIAIJ" 2194ccd8e176SBarry Smith PetscErrorCode MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B,const PetscInt I[],const PetscInt J[],const PetscScalar v[]) 2195ccd8e176SBarry Smith { 2196ccd8e176SBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 2197ccd8e176SBarry Smith PetscInt m = B->m,cstart = b->cstart, cend = b->cend,j,nnz,i,d; 2198ccd8e176SBarry Smith PetscInt *d_nnz,*o_nnz,nnz_max = 0,rstart = b->rstart,ii; 2199ccd8e176SBarry Smith const PetscInt *JJ; 2200ccd8e176SBarry Smith PetscScalar *values; 2201ccd8e176SBarry Smith PetscErrorCode ierr; 2202ccd8e176SBarry Smith 2203ccd8e176SBarry Smith PetscFunctionBegin; 2204ccd8e176SBarry Smith #if defined(PETSC_OPT_g) 2205ccd8e176SBarry Smith if (I[0]) SETERRQ1(PETSC_ERR_ARG_RANGE,"I[0] must be 0 it is %D",I[0]); 2206ccd8e176SBarry Smith #endif 2207ccd8e176SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr); 2208ccd8e176SBarry Smith o_nnz = d_nnz + m; 2209ccd8e176SBarry Smith 2210ccd8e176SBarry Smith for (i=0; i<m; i++) { 2211ccd8e176SBarry Smith nnz = I[i+1]- I[i]; 2212ccd8e176SBarry Smith JJ = J + I[i]; 2213ccd8e176SBarry Smith nnz_max = PetscMax(nnz_max,nnz); 2214ccd8e176SBarry Smith #if defined(PETSC_OPT_g) 2215ccd8e176SBarry Smith if (nnz < 0) SETERRQ1(PETSC_ERR_ARG_RANGE,"Local row %D has a negative %D number of columns",i,nnz); 2216ccd8e176SBarry Smith #endif 2217ccd8e176SBarry Smith for (j=0; j<nnz; j++) { 2218ccd8e176SBarry Smith if (*JJ >= cstart) break; 2219ccd8e176SBarry Smith JJ++; 2220ccd8e176SBarry Smith } 2221ccd8e176SBarry Smith d = 0; 2222ccd8e176SBarry Smith for (; j<nnz; j++) { 2223ccd8e176SBarry Smith if (*JJ++ >= cend) break; 2224ccd8e176SBarry Smith d++; 2225ccd8e176SBarry Smith } 2226ccd8e176SBarry Smith d_nnz[i] = d; 2227ccd8e176SBarry Smith o_nnz[i] = nnz - d; 2228ccd8e176SBarry Smith } 2229ccd8e176SBarry Smith ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,o_nnz);CHKERRQ(ierr); 2230ccd8e176SBarry Smith ierr = PetscFree(d_nnz);CHKERRQ(ierr); 2231ccd8e176SBarry Smith 2232ccd8e176SBarry Smith if (v) values = (PetscScalar*)v; 2233ccd8e176SBarry Smith else { 2234ccd8e176SBarry Smith ierr = PetscMalloc((nnz_max+1)*sizeof(PetscScalar),&values);CHKERRQ(ierr); 2235ccd8e176SBarry Smith ierr = PetscMemzero(values,nnz_max*sizeof(PetscScalar));CHKERRQ(ierr); 2236ccd8e176SBarry Smith } 2237ccd8e176SBarry Smith 2238ccd8e176SBarry Smith ierr = MatSetOption(B,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 2239ccd8e176SBarry Smith for (i=0; i<m; i++) { 2240ccd8e176SBarry Smith ii = i + rstart; 2241ccd8e176SBarry Smith nnz = I[i+1]- I[i]; 2242ccd8e176SBarry Smith ierr = MatSetValues_MPIAIJ(B,1,&ii,nnz,J+I[i],values,INSERT_VALUES);CHKERRQ(ierr); 2243ccd8e176SBarry Smith } 2244ccd8e176SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2245ccd8e176SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2246ccd8e176SBarry Smith ierr = MatSetOption(B,MAT_COLUMNS_UNSORTED);CHKERRQ(ierr); 2247ccd8e176SBarry Smith 2248ccd8e176SBarry Smith if (!v) { 2249ccd8e176SBarry Smith ierr = PetscFree(values);CHKERRQ(ierr); 2250ccd8e176SBarry Smith } 2251ccd8e176SBarry Smith PetscFunctionReturn(0); 2252ccd8e176SBarry Smith } 2253e2e86b8fSSatish Balay EXTERN_C_END 2254ccd8e176SBarry Smith 2255ccd8e176SBarry Smith #undef __FUNCT__ 2256ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR" 2257ccd8e176SBarry Smith /*@C 2258ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in AIJ format 2259ccd8e176SBarry Smith (the default parallel PETSc format). 2260ccd8e176SBarry Smith 2261ccd8e176SBarry Smith Collective on MPI_Comm 2262ccd8e176SBarry Smith 2263ccd8e176SBarry Smith Input Parameters: 2264ccd8e176SBarry Smith + A - the matrix 2265ccd8e176SBarry Smith . i - the indices into j for the start of each local row (starts with zero) 2266ccd8e176SBarry Smith . j - the column indices for each local row (starts with zero) these must be sorted for each row 2267ccd8e176SBarry Smith - v - optional values in the matrix 2268ccd8e176SBarry Smith 2269ccd8e176SBarry Smith Level: developer 2270ccd8e176SBarry Smith 2271ccd8e176SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2272ccd8e176SBarry Smith 2273ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatCreateMPIAIJ(), MPIAIJ 2274ccd8e176SBarry Smith @*/ 2275ccd8e176SBarry Smith PetscErrorCode MatMPIAIJSetPreallocationCSR(Mat B,const PetscInt i[],const PetscInt j[], const PetscScalar v[]) 2276ccd8e176SBarry Smith { 2277ccd8e176SBarry Smith PetscErrorCode ierr,(*f)(Mat,const PetscInt[],const PetscInt[],const PetscScalar[]); 2278ccd8e176SBarry Smith 2279ccd8e176SBarry Smith PetscFunctionBegin; 2280ccd8e176SBarry Smith ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",(void (**)(void))&f);CHKERRQ(ierr); 2281ccd8e176SBarry Smith if (f) { 2282ccd8e176SBarry Smith ierr = (*f)(B,i,j,v);CHKERRQ(ierr); 2283ccd8e176SBarry Smith } 2284ccd8e176SBarry Smith PetscFunctionReturn(0); 2285ccd8e176SBarry Smith } 2286ccd8e176SBarry Smith 2287ccd8e176SBarry Smith #undef __FUNCT__ 22884a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJSetPreallocation" 2289273d9f13SBarry Smith /*@C 2290ccd8e176SBarry Smith MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in AIJ format 2291273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2292273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2293273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2294273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2295273d9f13SBarry Smith 2296273d9f13SBarry Smith Collective on MPI_Comm 2297273d9f13SBarry Smith 2298273d9f13SBarry Smith Input Parameters: 2299273d9f13SBarry Smith + A - the matrix 2300273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2301273d9f13SBarry Smith (same value is used for all local rows) 2302273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2303273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2304273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2305273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2306273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2307273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2308273d9f13SBarry Smith submatrix (same value is used for all local rows). 2309273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2310273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2311273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2312273d9f13SBarry Smith structure. The size of this array is equal to the number 2313273d9f13SBarry Smith of local rows, i.e 'm'. 2314273d9f13SBarry Smith 231549a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 231649a6f317SBarry Smith 2317273d9f13SBarry Smith The AIJ format (also called the Yale sparse matrix format or 2318ccd8e176SBarry Smith compressed row storage (CSR)), is fully compatible with standard Fortran 77 2319ccd8e176SBarry Smith storage. The stored row and column indices begin with zero. See the users manual for details. 2320273d9f13SBarry Smith 2321273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2322273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2323273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2324273d9f13SBarry Smith 2325273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2326273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2327273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2328273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2329273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2330273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2331273d9f13SBarry Smith 2332273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2333273d9f13SBarry Smith 2334273d9f13SBarry Smith Example usage: 2335273d9f13SBarry Smith 2336273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2337273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2338273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2339273d9f13SBarry Smith as follows: 2340273d9f13SBarry Smith 2341273d9f13SBarry Smith .vb 2342273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2343273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2344273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2345273d9f13SBarry Smith ------------------------------------- 2346273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2347273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2348273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2349273d9f13SBarry Smith ------------------------------------- 2350273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2351273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2352273d9f13SBarry Smith .ve 2353273d9f13SBarry Smith 2354273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2355273d9f13SBarry Smith 2356273d9f13SBarry Smith .vb 2357273d9f13SBarry Smith A B C 2358273d9f13SBarry Smith D E F 2359273d9f13SBarry Smith G H I 2360273d9f13SBarry Smith .ve 2361273d9f13SBarry Smith 2362273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2363273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2364273d9f13SBarry Smith 2365273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2366273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2367273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2368273d9f13SBarry Smith 2369273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2370273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2371273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2372273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2373273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2374273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2375273d9f13SBarry Smith 2376273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2377273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2378273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2379273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2380273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2381273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2382273d9f13SBarry Smith .vb 2383273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2384273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2385273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2386273d9f13SBarry Smith .ve 2387273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2388273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2389273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2390273d9f13SBarry Smith 34 values. 2391273d9f13SBarry Smith 2392273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2393273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2394273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2395273d9f13SBarry Smith .vb 2396273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2397273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2398273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2399273d9f13SBarry Smith .ve 2400273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2401273d9f13SBarry Smith hence pre-allocation is perfect. 2402273d9f13SBarry Smith 2403273d9f13SBarry Smith Level: intermediate 2404273d9f13SBarry Smith 2405273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2406273d9f13SBarry Smith 2407ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateMPIAIJ(), MatMPIAIJSetPreallocationCSR(), 2408ccd8e176SBarry Smith MPIAIJ 2409273d9f13SBarry Smith @*/ 2410b1d57f15SBarry Smith PetscErrorCode MatMPIAIJSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 2411273d9f13SBarry Smith { 2412b1d57f15SBarry Smith PetscErrorCode ierr,(*f)(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]); 2413273d9f13SBarry Smith 2414273d9f13SBarry Smith PetscFunctionBegin; 2415a23d5eceSKris Buschelman ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocation_C",(void (**)(void))&f);CHKERRQ(ierr); 2416a23d5eceSKris Buschelman if (f) { 2417a23d5eceSKris Buschelman ierr = (*f)(B,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2418273d9f13SBarry Smith } 2419273d9f13SBarry Smith PetscFunctionReturn(0); 2420273d9f13SBarry Smith } 2421273d9f13SBarry Smith 24224a2ae208SSatish Balay #undef __FUNCT__ 24234a2ae208SSatish Balay #define __FUNCT__ "MatCreateMPIAIJ" 2424273d9f13SBarry Smith /*@C 2425273d9f13SBarry Smith MatCreateMPIAIJ - Creates a sparse parallel matrix in AIJ format 2426273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2427273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2428273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2429273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2430273d9f13SBarry Smith 2431273d9f13SBarry Smith Collective on MPI_Comm 2432273d9f13SBarry Smith 2433273d9f13SBarry Smith Input Parameters: 2434273d9f13SBarry Smith + comm - MPI communicator 2435273d9f13SBarry Smith . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 2436273d9f13SBarry Smith This value should be the same as the local size used in creating the 2437273d9f13SBarry Smith y vector for the matrix-vector product y = Ax. 2438273d9f13SBarry Smith . n - This value should be the same as the local size used in creating the 2439273d9f13SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 2440273d9f13SBarry Smith calculated if N is given) For square matrices n is almost always m. 2441273d9f13SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 2442273d9f13SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 2443273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2444273d9f13SBarry Smith (same value is used for all local rows) 2445273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2446273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2447273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2448273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2449273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2450273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2451273d9f13SBarry Smith submatrix (same value is used for all local rows). 2452273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2453273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2454273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2455273d9f13SBarry Smith structure. The size of this array is equal to the number 2456273d9f13SBarry Smith of local rows, i.e 'm'. 2457273d9f13SBarry Smith 2458273d9f13SBarry Smith Output Parameter: 2459273d9f13SBarry Smith . A - the matrix 2460273d9f13SBarry Smith 2461273d9f13SBarry Smith Notes: 246249a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 246349a6f317SBarry Smith 2464273d9f13SBarry Smith m,n,M,N parameters specify the size of the matrix, and its partitioning across 2465273d9f13SBarry Smith processors, while d_nz,d_nnz,o_nz,o_nnz parameters specify the approximate 2466273d9f13SBarry Smith storage requirements for this matrix. 2467273d9f13SBarry Smith 2468273d9f13SBarry Smith If PETSC_DECIDE or PETSC_DETERMINE is used for a particular argument on one 2469273d9f13SBarry Smith processor than it must be used on all processors that share the object for 2470273d9f13SBarry Smith that argument. 2471273d9f13SBarry Smith 2472273d9f13SBarry Smith The user MUST specify either the local or global matrix dimensions 2473273d9f13SBarry Smith (possibly both). 2474273d9f13SBarry Smith 2475273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2476273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2477273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2478273d9f13SBarry Smith 2479273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2480273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2481273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2482273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2483273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2484273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2485273d9f13SBarry Smith 2486273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2487273d9f13SBarry Smith 248897d05335SKris Buschelman When calling this routine with a single process communicator, a matrix of 248997d05335SKris Buschelman type SEQAIJ is returned. If a matrix of type MPIAIJ is desired for this 249097d05335SKris Buschelman type of communicator, use the construction mechanism: 249197d05335SKris Buschelman MatCreate(...,&A); MatSetType(A,MPIAIJ); MatMPIAIJSetPreallocation(A,...); 249297d05335SKris Buschelman 2493273d9f13SBarry Smith By default, this format uses inodes (identical nodes) when possible. 2494273d9f13SBarry Smith We search for consecutive rows with the same nonzero structure, thereby 2495273d9f13SBarry Smith reusing matrix information to achieve increased efficiency. 2496273d9f13SBarry Smith 2497273d9f13SBarry Smith Options Database Keys: 2498273d9f13SBarry Smith + -mat_aij_no_inode - Do not use inodes 2499273d9f13SBarry Smith . -mat_aij_inode_limit <limit> - Sets inode limit (max limit=5) 2500273d9f13SBarry Smith - -mat_aij_oneindex - Internally use indexing starting at 1 2501273d9f13SBarry Smith rather than 0. Note that when calling MatSetValues(), 2502273d9f13SBarry Smith the user still MUST index entries starting at 0! 2503273d9f13SBarry Smith 2504273d9f13SBarry Smith 2505273d9f13SBarry Smith Example usage: 2506273d9f13SBarry Smith 2507273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2508273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2509273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2510273d9f13SBarry Smith as follows: 2511273d9f13SBarry Smith 2512273d9f13SBarry Smith .vb 2513273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2514273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2515273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2516273d9f13SBarry Smith ------------------------------------- 2517273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2518273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2519273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2520273d9f13SBarry Smith ------------------------------------- 2521273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2522273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2523273d9f13SBarry Smith .ve 2524273d9f13SBarry Smith 2525273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2526273d9f13SBarry Smith 2527273d9f13SBarry Smith .vb 2528273d9f13SBarry Smith A B C 2529273d9f13SBarry Smith D E F 2530273d9f13SBarry Smith G H I 2531273d9f13SBarry Smith .ve 2532273d9f13SBarry Smith 2533273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2534273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2535273d9f13SBarry Smith 2536273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2537273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2538273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2539273d9f13SBarry Smith 2540273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2541273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2542273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2543273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2544273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2545273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2546273d9f13SBarry Smith 2547273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2548273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2549273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2550273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2551273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2552273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2553273d9f13SBarry Smith .vb 2554273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2555273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2556273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2557273d9f13SBarry Smith .ve 2558273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2559273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2560273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2561273d9f13SBarry Smith 34 values. 2562273d9f13SBarry Smith 2563273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2564273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2565273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2566273d9f13SBarry Smith .vb 2567273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2568273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2569273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2570273d9f13SBarry Smith .ve 2571273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2572273d9f13SBarry Smith hence pre-allocation is perfect. 2573273d9f13SBarry Smith 2574273d9f13SBarry Smith Level: intermediate 2575273d9f13SBarry Smith 2576273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2577273d9f13SBarry Smith 2578ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 2579ccd8e176SBarry Smith MPIAIJ 2580273d9f13SBarry Smith @*/ 2581b1d57f15SBarry 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) 2582273d9f13SBarry Smith { 25836849ba73SBarry Smith PetscErrorCode ierr; 2584b1d57f15SBarry Smith PetscMPIInt size; 2585273d9f13SBarry Smith 2586273d9f13SBarry Smith PetscFunctionBegin; 2587273d9f13SBarry Smith ierr = MatCreate(comm,m,n,M,N,A);CHKERRQ(ierr); 2588273d9f13SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 2589273d9f13SBarry Smith if (size > 1) { 2590273d9f13SBarry Smith ierr = MatSetType(*A,MATMPIAIJ);CHKERRQ(ierr); 2591273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(*A,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2592273d9f13SBarry Smith } else { 2593273d9f13SBarry Smith ierr = MatSetType(*A,MATSEQAIJ);CHKERRQ(ierr); 2594273d9f13SBarry Smith ierr = MatSeqAIJSetPreallocation(*A,d_nz,d_nnz);CHKERRQ(ierr); 2595273d9f13SBarry Smith } 2596273d9f13SBarry Smith PetscFunctionReturn(0); 2597273d9f13SBarry Smith } 2598195d93cdSBarry Smith 25994a2ae208SSatish Balay #undef __FUNCT__ 26004a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJGetSeqAIJ" 2601b1d57f15SBarry Smith PetscErrorCode MatMPIAIJGetSeqAIJ(Mat A,Mat *Ad,Mat *Ao,PetscInt *colmap[]) 2602195d93cdSBarry Smith { 2603195d93cdSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2604b1d57f15SBarry Smith 2605195d93cdSBarry Smith PetscFunctionBegin; 2606195d93cdSBarry Smith *Ad = a->A; 2607195d93cdSBarry Smith *Ao = a->B; 2608195d93cdSBarry Smith *colmap = a->garray; 2609195d93cdSBarry Smith PetscFunctionReturn(0); 2610195d93cdSBarry Smith } 2611a2243be0SBarry Smith 2612a2243be0SBarry Smith #undef __FUNCT__ 2613a2243be0SBarry Smith #define __FUNCT__ "MatSetColoring_MPIAIJ" 2614dfbe8321SBarry Smith PetscErrorCode MatSetColoring_MPIAIJ(Mat A,ISColoring coloring) 2615a2243be0SBarry Smith { 2616dfbe8321SBarry Smith PetscErrorCode ierr; 2617b1d57f15SBarry Smith PetscInt i; 2618a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2619a2243be0SBarry Smith 2620a2243be0SBarry Smith PetscFunctionBegin; 2621a2243be0SBarry Smith if (coloring->ctype == IS_COLORING_LOCAL) { 262208b6dcc0SBarry Smith ISColoringValue *allcolors,*colors; 2623a2243be0SBarry Smith ISColoring ocoloring; 2624a2243be0SBarry Smith 2625a2243be0SBarry Smith /* set coloring for diagonal portion */ 2626a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,coloring);CHKERRQ(ierr); 2627a2243be0SBarry Smith 2628a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 262908b6dcc0SBarry Smith ierr = ISAllGatherColors(A->comm,coloring->n,coloring->colors,PETSC_NULL,&allcolors);CHKERRQ(ierr); 263008b6dcc0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2631a2243be0SBarry Smith for (i=0; i<a->B->n; i++) { 2632a2243be0SBarry Smith colors[i] = allcolors[a->garray[i]]; 2633a2243be0SBarry Smith } 2634a2243be0SBarry Smith ierr = PetscFree(allcolors);CHKERRQ(ierr); 2635a2243be0SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr); 2636a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2637a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2638a2243be0SBarry Smith } else if (coloring->ctype == IS_COLORING_GHOSTED) { 263908b6dcc0SBarry Smith ISColoringValue *colors; 2640b1d57f15SBarry Smith PetscInt *larray; 2641a2243be0SBarry Smith ISColoring ocoloring; 2642a2243be0SBarry Smith 2643a2243be0SBarry Smith /* set coloring for diagonal portion */ 2644b1d57f15SBarry Smith ierr = PetscMalloc((a->A->n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 2645a2243be0SBarry Smith for (i=0; i<a->A->n; i++) { 2646a2243be0SBarry Smith larray[i] = i + a->cstart; 2647a2243be0SBarry Smith } 2648a2243be0SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->A->n,larray,PETSC_NULL,larray);CHKERRQ(ierr); 264908b6dcc0SBarry Smith ierr = PetscMalloc((a->A->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2650a2243be0SBarry Smith for (i=0; i<a->A->n; i++) { 2651a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2652a2243be0SBarry Smith } 2653a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 265412c595b3SBarry Smith ierr = ISColoringCreate(PETSC_COMM_SELF,a->A->n,colors,&ocoloring);CHKERRQ(ierr); 2655a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,ocoloring);CHKERRQ(ierr); 2656a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2657a2243be0SBarry Smith 2658a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 2659b1d57f15SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 2660a2243be0SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->B->n,a->garray,PETSC_NULL,larray);CHKERRQ(ierr); 266108b6dcc0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2662a2243be0SBarry Smith for (i=0; i<a->B->n; i++) { 2663a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2664a2243be0SBarry Smith } 2665a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 2666a2243be0SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr); 2667a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2668a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2669a2243be0SBarry Smith } else { 267077431f27SBarry Smith SETERRQ1(PETSC_ERR_SUP,"No support ISColoringType %d",(int)coloring->ctype); 2671a2243be0SBarry Smith } 2672a2243be0SBarry Smith 2673a2243be0SBarry Smith PetscFunctionReturn(0); 2674a2243be0SBarry Smith } 2675a2243be0SBarry Smith 2676a2243be0SBarry Smith #undef __FUNCT__ 2677779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdic_MPIAIJ" 2678dfbe8321SBarry Smith PetscErrorCode MatSetValuesAdic_MPIAIJ(Mat A,void *advalues) 2679a2243be0SBarry Smith { 2680a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2681dfbe8321SBarry Smith PetscErrorCode ierr; 2682a2243be0SBarry Smith 2683a2243be0SBarry Smith PetscFunctionBegin; 2684779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->A,advalues);CHKERRQ(ierr); 2685779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->B,advalues);CHKERRQ(ierr); 2686779c1a83SBarry Smith PetscFunctionReturn(0); 2687779c1a83SBarry Smith } 2688779c1a83SBarry Smith 2689779c1a83SBarry Smith #undef __FUNCT__ 2690779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdifor_MPIAIJ" 2691b1d57f15SBarry Smith PetscErrorCode MatSetValuesAdifor_MPIAIJ(Mat A,PetscInt nl,void *advalues) 2692779c1a83SBarry Smith { 2693779c1a83SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2694dfbe8321SBarry Smith PetscErrorCode ierr; 2695779c1a83SBarry Smith 2696779c1a83SBarry Smith PetscFunctionBegin; 2697779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->A,nl,advalues);CHKERRQ(ierr); 2698779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->B,nl,advalues);CHKERRQ(ierr); 2699a2243be0SBarry Smith PetscFunctionReturn(0); 2700a2243be0SBarry Smith } 2701c5d6d63eSBarry Smith 2702c5d6d63eSBarry Smith #undef __FUNCT__ 270351dd7536SBarry Smith #define __FUNCT__ "MatMerge" 2704c5d6d63eSBarry Smith /*@C 270551dd7536SBarry Smith MatMerge - Creates a single large PETSc matrix by concatinating sequential 270651dd7536SBarry Smith matrices from each processor 2707c5d6d63eSBarry Smith 2708c5d6d63eSBarry Smith Collective on MPI_Comm 2709c5d6d63eSBarry Smith 2710c5d6d63eSBarry Smith Input Parameters: 271151dd7536SBarry Smith + comm - the communicators the parallel matrix will live on 2712d6bb3c2dSHong Zhang . inmat - the input sequential matrices 27130e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 2714d6bb3c2dSHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 271551dd7536SBarry Smith 271651dd7536SBarry Smith Output Parameter: 271751dd7536SBarry Smith . outmat - the parallel matrix generated 2718c5d6d63eSBarry Smith 27197e25d530SSatish Balay Level: advanced 27207e25d530SSatish Balay 2721f08fae4eSHong Zhang Notes: The number of columns of the matrix in EACH processor MUST be the same. 2722c5d6d63eSBarry Smith 2723c5d6d63eSBarry Smith @*/ 27240e36024fSHong Zhang PetscErrorCode MatMerge(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat) 2725c5d6d63eSBarry Smith { 2726dfbe8321SBarry Smith PetscErrorCode ierr; 2727b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz,I,*dnz,*onz; 2728b1d57f15SBarry Smith const PetscInt *indx; 2729b3cc6726SBarry Smith const PetscScalar *values; 273051dd7536SBarry Smith PetscMap columnmap,rowmap; 2731c5d6d63eSBarry Smith 2732c5d6d63eSBarry Smith PetscFunctionBegin; 27330e36024fSHong Zhang ierr = MatGetSize(inmat,&m,&N);CHKERRQ(ierr); 27342257cef7SHong Zhang /* 27352257cef7SHong Zhang PetscMPIInt rank; 27362257cef7SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 273755d1abb9SHong Zhang ierr = PetscPrintf(PETSC_COMM_SELF," [%d] inmat m=%d, n=%d, N=%d\n",rank,m,n,N); 273855d1abb9SHong Zhang */ 2739d6bb3c2dSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 2740d6bb3c2dSHong Zhang /* count nonzeros in each row, for diagonal and off diagonal portion of matrix */ 27410e36024fSHong Zhang if (n == PETSC_DECIDE){ 2742d6bb3c2dSHong Zhang ierr = PetscMapCreate(comm,&columnmap);CHKERRQ(ierr); 27430e36024fSHong Zhang ierr = PetscMapSetSize(columnmap,N);CHKERRQ(ierr); 2744d6bb3c2dSHong Zhang ierr = PetscMapSetType(columnmap,MAP_MPI);CHKERRQ(ierr); 2745d6bb3c2dSHong Zhang ierr = PetscMapGetLocalSize(columnmap,&n);CHKERRQ(ierr); 2746d6bb3c2dSHong Zhang ierr = PetscMapDestroy(columnmap);CHKERRQ(ierr); 27470e36024fSHong Zhang } 2748d6bb3c2dSHong Zhang 2749d6bb3c2dSHong Zhang ierr = PetscMapCreate(comm,&rowmap);CHKERRQ(ierr); 2750d6bb3c2dSHong Zhang ierr = PetscMapSetLocalSize(rowmap,m);CHKERRQ(ierr); 2751d6bb3c2dSHong Zhang ierr = PetscMapSetType(rowmap,MAP_MPI);CHKERRQ(ierr); 2752d6bb3c2dSHong Zhang ierr = PetscMapGetLocalRange(rowmap,&rstart,0);CHKERRQ(ierr); 2753d6bb3c2dSHong Zhang ierr = PetscMapDestroy(rowmap);CHKERRQ(ierr); 2754d6bb3c2dSHong Zhang 2755d6bb3c2dSHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 2756d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 2757bcc1bcd5SHong Zhang ierr = MatGetRow(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 2758d6bb3c2dSHong Zhang ierr = MatPreallocateSet(i+rstart,nnz,indx,dnz,onz);CHKERRQ(ierr); 2759bcc1bcd5SHong Zhang ierr = MatRestoreRow(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 2760d6bb3c2dSHong Zhang } 2761d6bb3c2dSHong Zhang /* This routine will ONLY return MPIAIJ type matrix */ 2762d6bb3c2dSHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,PETSC_DETERMINE,outmat);CHKERRQ(ierr); 2763d6bb3c2dSHong Zhang ierr = MatSetType(*outmat,MATMPIAIJ);CHKERRQ(ierr); 2764d6bb3c2dSHong Zhang ierr = MatMPIAIJSetPreallocation(*outmat,0,dnz,0,onz);CHKERRQ(ierr); 2765d6bb3c2dSHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 2766d6bb3c2dSHong Zhang 2767d6bb3c2dSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 2768d6bb3c2dSHong Zhang ierr = MatGetOwnershipRange(*outmat,&rstart,PETSC_NULL);CHKERRQ(ierr); 2769d6bb3c2dSHong Zhang } else { 277077431f27SBarry Smith SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 2771d6bb3c2dSHong Zhang } 2772d6bb3c2dSHong Zhang 2773d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 2774d6bb3c2dSHong Zhang ierr = MatGetRow(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 2775d6bb3c2dSHong Zhang I = i + rstart; 2776d6bb3c2dSHong Zhang ierr = MatSetValues(*outmat,1,&I,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 2777d6bb3c2dSHong Zhang ierr = MatRestoreRow(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 2778d6bb3c2dSHong Zhang } 2779d6bb3c2dSHong Zhang ierr = MatDestroy(inmat);CHKERRQ(ierr); 2780d6bb3c2dSHong Zhang ierr = MatAssemblyBegin(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2781d6bb3c2dSHong Zhang ierr = MatAssemblyEnd(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 278251dd7536SBarry Smith 2783c5d6d63eSBarry Smith PetscFunctionReturn(0); 2784c5d6d63eSBarry Smith } 2785c5d6d63eSBarry Smith 2786c5d6d63eSBarry Smith #undef __FUNCT__ 2787c5d6d63eSBarry Smith #define __FUNCT__ "MatFileSplit" 2788dfbe8321SBarry Smith PetscErrorCode MatFileSplit(Mat A,char *outfile) 2789c5d6d63eSBarry Smith { 2790dfbe8321SBarry Smith PetscErrorCode ierr; 279132dcc486SBarry Smith PetscMPIInt rank; 2792b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz; 2793de4209c5SBarry Smith size_t len; 2794b1d57f15SBarry Smith const PetscInt *indx; 2795c5d6d63eSBarry Smith PetscViewer out; 2796c5d6d63eSBarry Smith char *name; 2797c5d6d63eSBarry Smith Mat B; 2798b3cc6726SBarry Smith const PetscScalar *values; 2799c5d6d63eSBarry Smith 2800c5d6d63eSBarry Smith PetscFunctionBegin; 2801c5d6d63eSBarry Smith ierr = MatGetLocalSize(A,&m,0);CHKERRQ(ierr); 2802c5d6d63eSBarry Smith ierr = MatGetSize(A,0,&N);CHKERRQ(ierr); 2803f204ca49SKris Buschelman /* Should this be the type of the diagonal block of A? */ 2804f204ca49SKris Buschelman ierr = MatCreate(PETSC_COMM_SELF,m,N,m,N,&B);CHKERRQ(ierr); 2805f204ca49SKris Buschelman ierr = MatSetType(B,MATSEQAIJ);CHKERRQ(ierr); 2806f204ca49SKris Buschelman ierr = MatSeqAIJSetPreallocation(B,0,PETSC_NULL);CHKERRQ(ierr); 2807c5d6d63eSBarry Smith ierr = MatGetOwnershipRange(A,&rstart,0);CHKERRQ(ierr); 2808c5d6d63eSBarry Smith for (i=0;i<m;i++) { 2809c5d6d63eSBarry Smith ierr = MatGetRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 2810c5d6d63eSBarry Smith ierr = MatSetValues(B,1,&i,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 2811c5d6d63eSBarry Smith ierr = MatRestoreRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 2812c5d6d63eSBarry Smith } 2813c5d6d63eSBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2814c5d6d63eSBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2815c5d6d63eSBarry Smith 2816c5d6d63eSBarry Smith ierr = MPI_Comm_rank(A->comm,&rank);CHKERRQ(ierr); 2817c5d6d63eSBarry Smith ierr = PetscStrlen(outfile,&len);CHKERRQ(ierr); 2818c5d6d63eSBarry Smith ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr); 2819c5d6d63eSBarry Smith sprintf(name,"%s.%d",outfile,rank); 282045f7d322SBarry Smith ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,PETSC_FILE_CREATE,&out);CHKERRQ(ierr); 2821c5d6d63eSBarry Smith ierr = PetscFree(name); 2822c5d6d63eSBarry Smith ierr = MatView(B,out);CHKERRQ(ierr); 2823c5d6d63eSBarry Smith ierr = PetscViewerDestroy(out);CHKERRQ(ierr); 2824c5d6d63eSBarry Smith ierr = MatDestroy(B);CHKERRQ(ierr); 2825c5d6d63eSBarry Smith PetscFunctionReturn(0); 2826c5d6d63eSBarry Smith } 2827e5f2cdd8SHong Zhang 282851a7d1a8SHong Zhang EXTERN PetscErrorCode MatDestroy_MPIAIJ(Mat); 282951a7d1a8SHong Zhang #undef __FUNCT__ 283051a7d1a8SHong Zhang #define __FUNCT__ "MatDestroy_MPIAIJ_SeqsToMPI" 283151a7d1a8SHong Zhang PetscErrorCode MatDestroy_MPIAIJ_SeqsToMPI(Mat A) 283251a7d1a8SHong Zhang { 283351a7d1a8SHong Zhang PetscErrorCode ierr; 2834671beff6SHong Zhang Mat_Merge_SeqsToMPI *merge; 2835671beff6SHong Zhang PetscObjectContainer container; 283651a7d1a8SHong Zhang 283751a7d1a8SHong Zhang PetscFunctionBegin; 2838671beff6SHong Zhang ierr = PetscObjectQuery((PetscObject)A,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 2839671beff6SHong Zhang if (container) { 28407f79fd58SMatthew Knepley ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 284151a7d1a8SHong Zhang ierr = PetscFree(merge->id_r);CHKERRQ(ierr); 28423e06a4e6SHong Zhang ierr = PetscFree(merge->len_s);CHKERRQ(ierr); 28433e06a4e6SHong Zhang ierr = PetscFree(merge->len_r);CHKERRQ(ierr); 284451a7d1a8SHong Zhang ierr = PetscFree(merge->bi);CHKERRQ(ierr); 284551a7d1a8SHong Zhang ierr = PetscFree(merge->bj);CHKERRQ(ierr); 284602c68681SHong Zhang ierr = PetscFree(merge->buf_ri);CHKERRQ(ierr); 284702c68681SHong Zhang ierr = PetscFree(merge->buf_rj);CHKERRQ(ierr); 284851a7d1a8SHong Zhang ierr = PetscMapDestroy(merge->rowmap);CHKERRQ(ierr); 2849de0260b3SHong Zhang if (merge->coi){ierr = PetscFree(merge->coi);CHKERRQ(ierr);} 2850de0260b3SHong Zhang if (merge->coj){ierr = PetscFree(merge->coj);CHKERRQ(ierr);} 2851de0260b3SHong Zhang if (merge->owners_co){ierr = PetscFree(merge->owners_co);CHKERRQ(ierr);} 2852671beff6SHong Zhang 2853671beff6SHong Zhang ierr = PetscObjectContainerDestroy(container);CHKERRQ(ierr); 2854671beff6SHong Zhang ierr = PetscObjectCompose((PetscObject)A,"MatMergeSeqsToMPI",0);CHKERRQ(ierr); 2855671beff6SHong Zhang } 285651a7d1a8SHong Zhang ierr = PetscFree(merge);CHKERRQ(ierr); 285751a7d1a8SHong Zhang 285851a7d1a8SHong Zhang ierr = MatDestroy_MPIAIJ(A);CHKERRQ(ierr); 285951a7d1a8SHong Zhang PetscFunctionReturn(0); 286051a7d1a8SHong Zhang } 286151a7d1a8SHong Zhang 286258cb9c82SHong Zhang #include "src/mat/utils/freespace.h" 2863be0fcf8dSHong Zhang #include "petscbt.h" 2864e5f2cdd8SHong Zhang #undef __FUNCT__ 2865e5f2cdd8SHong Zhang #define __FUNCT__ "MatMerge_SeqsToMPI" 2866e5f2cdd8SHong Zhang /*@C 2867f08fae4eSHong Zhang MatMerge_SeqsToMPI - Creates a MPIAIJ matrix by adding sequential 2868e5f2cdd8SHong Zhang matrices from each processor 2869e5f2cdd8SHong Zhang 2870e5f2cdd8SHong Zhang Collective on MPI_Comm 2871e5f2cdd8SHong Zhang 2872e5f2cdd8SHong Zhang Input Parameters: 2873e5f2cdd8SHong Zhang + comm - the communicators the parallel matrix will live on 2874f08fae4eSHong Zhang . seqmat - the input sequential matrices 28750e36024fSHong Zhang . m - number of local rows (or PETSC_DECIDE) 28760e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 2877e5f2cdd8SHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 2878e5f2cdd8SHong Zhang 2879e5f2cdd8SHong Zhang Output Parameter: 2880f08fae4eSHong Zhang . mpimat - the parallel matrix generated 2881e5f2cdd8SHong Zhang 2882e5f2cdd8SHong Zhang Level: advanced 2883e5f2cdd8SHong Zhang 2884affca5deSHong Zhang Notes: 2885affca5deSHong Zhang The dimensions of the sequential matrix in each processor MUST be the same. 2886affca5deSHong Zhang The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be 2887affca5deSHong Zhang destroyed when mpimat is destroyed. Call PetscObjectQuery() to access seqmat. 2888e5f2cdd8SHong Zhang @*/ 28893c2c1871SHong Zhang static PetscEvent logkey_seqstompinum = 0; 289055d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPINumeric(Mat seqmat,Mat mpimat) 289155d1abb9SHong Zhang { 289255d1abb9SHong Zhang PetscErrorCode ierr; 289355d1abb9SHong Zhang MPI_Comm comm=mpimat->comm; 289455d1abb9SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 2895b1d57f15SBarry Smith PetscMPIInt size,rank,taga,*len_s; 2896b1d57f15SBarry Smith PetscInt N=mpimat->N,i,j,*owners,*ai=a->i,*aj=a->j; 2897b1d57f15SBarry Smith PetscInt proc,m; 2898b1d57f15SBarry Smith PetscInt **buf_ri,**buf_rj; 2899b1d57f15SBarry Smith PetscInt k,anzi,*bj_i,*bi,*bj,arow,bnzi,nextaj; 2900b1d57f15SBarry Smith PetscInt nrows,**buf_ri_k,**nextrow,**nextai; 290155d1abb9SHong Zhang MPI_Request *s_waits,*r_waits; 290255d1abb9SHong Zhang MPI_Status *status; 2903ce805ee4SHong Zhang MatScalar *aa=a->a,**abuf_r,*ba_i; 290455d1abb9SHong Zhang Mat_Merge_SeqsToMPI *merge; 290555d1abb9SHong Zhang PetscObjectContainer container; 290655d1abb9SHong Zhang 290755d1abb9SHong Zhang PetscFunctionBegin; 29083c2c1871SHong Zhang if (!logkey_seqstompinum) { 29093c2c1871SHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompinum,"MatMerge_SeqsToMPINumeric",MAT_COOKIE); 29103c2c1871SHong Zhang } 29113c2c1871SHong Zhang ierr = PetscLogEventBegin(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 29123c2c1871SHong Zhang 291355d1abb9SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 291455d1abb9SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 291555d1abb9SHong Zhang 291655d1abb9SHong Zhang ierr = PetscObjectQuery((PetscObject)mpimat,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 291755d1abb9SHong Zhang if (container) { 291855d1abb9SHong Zhang ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 291955d1abb9SHong Zhang } 292055d1abb9SHong Zhang bi = merge->bi; 292155d1abb9SHong Zhang bj = merge->bj; 292255d1abb9SHong Zhang buf_ri = merge->buf_ri; 292355d1abb9SHong Zhang buf_rj = merge->buf_rj; 292455d1abb9SHong Zhang 292555d1abb9SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 292655d1abb9SHong Zhang ierr = PetscMapGetGlobalRange(merge->rowmap,&owners);CHKERRQ(ierr); 292755d1abb9SHong Zhang len_s = merge->len_s; 292855d1abb9SHong Zhang 292955d1abb9SHong Zhang /* send and recv matrix values */ 293055d1abb9SHong Zhang /*-----------------------------*/ 293155d1abb9SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&taga);CHKERRQ(ierr); 293255d1abb9SHong Zhang ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr); 293355d1abb9SHong Zhang 293455d1abb9SHong Zhang ierr = PetscMalloc((merge->nsend+1)*sizeof(MPI_Request),&s_waits);CHKERRQ(ierr); 293555d1abb9SHong Zhang for (proc=0,k=0; proc<size; proc++){ 293655d1abb9SHong Zhang if (!len_s[proc]) continue; 293755d1abb9SHong Zhang i = owners[proc]; 293855d1abb9SHong Zhang ierr = MPI_Isend(aa+ai[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRQ(ierr); 293955d1abb9SHong Zhang k++; 294055d1abb9SHong Zhang } 294155d1abb9SHong Zhang 294255d1abb9SHong Zhang ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRQ(ierr); 294355d1abb9SHong Zhang ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRQ(ierr); 294455d1abb9SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 294555d1abb9SHong Zhang 294655d1abb9SHong Zhang ierr = PetscFree(s_waits);CHKERRQ(ierr); 294755d1abb9SHong Zhang ierr = PetscFree(r_waits);CHKERRQ(ierr); 294855d1abb9SHong Zhang 294955d1abb9SHong Zhang /* insert mat values of mpimat */ 295055d1abb9SHong Zhang /*----------------------------*/ 295155d1abb9SHong Zhang ierr = PetscMalloc(N*sizeof(MatScalar),&ba_i);CHKERRQ(ierr); 2952b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 295355d1abb9SHong Zhang nextrow = buf_ri_k + merge->nrecv; 295455d1abb9SHong Zhang nextai = nextrow + merge->nrecv; 295555d1abb9SHong Zhang 295655d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ 295755d1abb9SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 295855d1abb9SHong Zhang nrows = *(buf_ri_k[k]); 295955d1abb9SHong Zhang nextrow[k] = buf_ri_k[k]+1; /* next row number of k-th recved i-structure */ 296055d1abb9SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 296155d1abb9SHong Zhang } 296255d1abb9SHong Zhang 296355d1abb9SHong Zhang /* set values of ba */ 296455d1abb9SHong Zhang ierr = PetscMapGetLocalSize(merge->rowmap,&m);CHKERRQ(ierr); 296555d1abb9SHong Zhang for (i=0; i<m; i++) { 296655d1abb9SHong Zhang arow = owners[rank] + i; 296755d1abb9SHong Zhang bj_i = bj+bi[i]; /* col indices of the i-th row of mpimat */ 296855d1abb9SHong Zhang bnzi = bi[i+1] - bi[i]; 296955d1abb9SHong Zhang ierr = PetscMemzero(ba_i,bnzi*sizeof(MatScalar));CHKERRQ(ierr); 297055d1abb9SHong Zhang 297155d1abb9SHong Zhang /* add local non-zero vals of this proc's seqmat into ba */ 297255d1abb9SHong Zhang anzi = ai[arow+1] - ai[arow]; 297355d1abb9SHong Zhang aj = a->j + ai[arow]; 297455d1abb9SHong Zhang aa = a->a + ai[arow]; 297555d1abb9SHong Zhang nextaj = 0; 297655d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 297755d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 297855d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 297955d1abb9SHong Zhang } 298055d1abb9SHong Zhang } 298155d1abb9SHong Zhang 298255d1abb9SHong Zhang /* add received vals into ba */ 298355d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 298455d1abb9SHong Zhang /* i-th row */ 298555d1abb9SHong Zhang if (i == *nextrow[k]) { 298655d1abb9SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 298755d1abb9SHong Zhang aj = buf_rj[k] + *(nextai[k]); 298855d1abb9SHong Zhang aa = abuf_r[k] + *(nextai[k]); 298955d1abb9SHong Zhang nextaj = 0; 299055d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 299155d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 299255d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 299355d1abb9SHong Zhang } 299455d1abb9SHong Zhang } 299555d1abb9SHong Zhang nextrow[k]++; nextai[k]++; 299655d1abb9SHong Zhang } 299755d1abb9SHong Zhang } 299855d1abb9SHong Zhang ierr = MatSetValues(mpimat,1,&arow,bnzi,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr); 299955d1abb9SHong Zhang } 300055d1abb9SHong Zhang ierr = MatAssemblyBegin(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 300155d1abb9SHong Zhang ierr = MatAssemblyEnd(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 300255d1abb9SHong Zhang 300355d1abb9SHong Zhang ierr = PetscFree(abuf_r);CHKERRQ(ierr); 300455d1abb9SHong Zhang ierr = PetscFree(ba_i);CHKERRQ(ierr); 300555d1abb9SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 30063c2c1871SHong Zhang ierr = PetscLogEventEnd(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 300755d1abb9SHong Zhang PetscFunctionReturn(0); 300855d1abb9SHong Zhang } 30093c2c1871SHong Zhang static PetscEvent logkey_seqstompisym = 0; 301055d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPISymbolic(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,Mat *mpimat) 3011e5f2cdd8SHong Zhang { 3012f08fae4eSHong Zhang PetscErrorCode ierr; 301355a3bba9SHong Zhang Mat B_mpi; 3014c2234fe3SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 3015b1d57f15SBarry Smith PetscMPIInt size,rank,tagi,tagj,*len_s,*len_si,*len_ri; 3016b1d57f15SBarry Smith PetscInt **buf_rj,**buf_ri,**buf_ri_k; 3017b1d57f15SBarry Smith PetscInt M=seqmat->m,N=seqmat->n,i,*owners,*ai=a->i,*aj=a->j; 3018b1d57f15SBarry Smith PetscInt len,proc,*dnz,*onz; 3019b1d57f15SBarry Smith PetscInt k,anzi,*bi,*bj,*lnk,nlnk,arow,bnzi,nspacedouble=0; 3020b1d57f15SBarry Smith PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextai; 302155d1abb9SHong Zhang MPI_Request *si_waits,*sj_waits,*ri_waits,*rj_waits; 302258cb9c82SHong Zhang MPI_Status *status; 302358cb9c82SHong Zhang FreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 3024be0fcf8dSHong Zhang PetscBT lnkbt; 302551a7d1a8SHong Zhang Mat_Merge_SeqsToMPI *merge; 3026671beff6SHong Zhang PetscObjectContainer container; 302702c68681SHong Zhang 3028e5f2cdd8SHong Zhang PetscFunctionBegin; 30293c2c1871SHong Zhang if (!logkey_seqstompisym) { 30303c2c1871SHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompisym,"MatMerge_SeqsToMPISymbolic",MAT_COOKIE); 30313c2c1871SHong Zhang } 30323c2c1871SHong Zhang ierr = PetscLogEventBegin(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 30333c2c1871SHong Zhang 3034e5f2cdd8SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3035e5f2cdd8SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 303655d1abb9SHong Zhang 303751a7d1a8SHong Zhang ierr = PetscNew(Mat_Merge_SeqsToMPI,&merge);CHKERRQ(ierr); 3038c2234fe3SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 3039e5f2cdd8SHong Zhang 30406abd8857SHong Zhang /* determine row ownership */ 3041f08fae4eSHong Zhang /*---------------------------------------------------------*/ 304251a7d1a8SHong Zhang ierr = PetscMapCreate(comm,&merge->rowmap);CHKERRQ(ierr); 30430e36024fSHong Zhang if (m == PETSC_DECIDE) { 304451a7d1a8SHong Zhang ierr = PetscMapSetSize(merge->rowmap,M);CHKERRQ(ierr); 30450e36024fSHong Zhang } else { 30460e36024fSHong Zhang ierr = PetscMapSetLocalSize(merge->rowmap,m);CHKERRQ(ierr); 30470e36024fSHong Zhang } 304851a7d1a8SHong Zhang ierr = PetscMapSetType(merge->rowmap,MAP_MPI);CHKERRQ(ierr); 3049b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&len_si);CHKERRQ(ierr); 3050b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&merge->len_s);CHKERRQ(ierr); 305155d1abb9SHong Zhang 305255d1abb9SHong Zhang if (m == PETSC_DECIDE) {ierr = PetscMapGetLocalSize(merge->rowmap,&m);CHKERRQ(ierr); } 305351a7d1a8SHong Zhang ierr = PetscMapGetGlobalRange(merge->rowmap,&owners);CHKERRQ(ierr); 30546abd8857SHong Zhang 30556abd8857SHong Zhang /* determine the number of messages to send, their lengths */ 30566abd8857SHong Zhang /*---------------------------------------------------------*/ 30573e06a4e6SHong Zhang len_s = merge->len_s; 305851a7d1a8SHong Zhang 30592257cef7SHong Zhang len = 0; /* length of buf_si[] */ 3060c2234fe3SHong Zhang merge->nsend = 0; 3061409913e3SHong Zhang for (proc=0; proc<size; proc++){ 30622257cef7SHong Zhang len_si[proc] = 0; 30633e06a4e6SHong Zhang if (proc == rank){ 30646abd8857SHong Zhang len_s[proc] = 0; 30653e06a4e6SHong Zhang } else { 306602c68681SHong Zhang len_si[proc] = owners[proc+1] - owners[proc] + 1; 30673e06a4e6SHong Zhang len_s[proc] = ai[owners[proc+1]] - ai[owners[proc]]; /* num of rows to be sent to [proc] */ 30683e06a4e6SHong Zhang } 30693e06a4e6SHong Zhang if (len_s[proc]) { 3070c2234fe3SHong Zhang merge->nsend++; 30712257cef7SHong Zhang nrows = 0; 30722257cef7SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 30732257cef7SHong Zhang if (ai[i+1] > ai[i]) nrows++; 30742257cef7SHong Zhang } 30752257cef7SHong Zhang len_si[proc] = 2*(nrows+1); 30762257cef7SHong Zhang len += len_si[proc]; 3077409913e3SHong Zhang } 307858cb9c82SHong Zhang } 3079409913e3SHong Zhang 30802257cef7SHong Zhang /* determine the number and length of messages to receive for ij-structure */ 30812257cef7SHong Zhang /*-------------------------------------------------------------------------*/ 308251a7d1a8SHong Zhang ierr = PetscGatherNumberOfMessages(comm,PETSC_NULL,len_s,&merge->nrecv);CHKERRQ(ierr); 308355d1abb9SHong Zhang ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr); 3084671beff6SHong Zhang 30853e06a4e6SHong Zhang /* post the Irecv of j-structure */ 30863e06a4e6SHong Zhang /*-------------------------------*/ 308702c68681SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&tagj);CHKERRQ(ierr); 30883e06a4e6SHong Zhang ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rj_waits);CHKERRQ(ierr); 308902c68681SHong Zhang 30903e06a4e6SHong Zhang /* post the Isend of j-structure */ 3091affca5deSHong Zhang /*--------------------------------*/ 30922257cef7SHong Zhang ierr = PetscMalloc((2*merge->nsend+1)*sizeof(MPI_Request),&si_waits);CHKERRQ(ierr); 309302c68681SHong Zhang sj_waits = si_waits + merge->nsend; 30943e06a4e6SHong Zhang 30952257cef7SHong Zhang for (proc=0, k=0; proc<size; proc++){ 3096409913e3SHong Zhang if (!len_s[proc]) continue; 309702c68681SHong Zhang i = owners[proc]; 3098b1d57f15SBarry Smith ierr = MPI_Isend(aj+ai[i],len_s[proc],MPIU_INT,proc,tagj,comm,sj_waits+k);CHKERRQ(ierr); 309951a7d1a8SHong Zhang k++; 310051a7d1a8SHong Zhang } 310151a7d1a8SHong Zhang 31023e06a4e6SHong Zhang /* receives and sends of j-structure are complete */ 31033e06a4e6SHong Zhang /*------------------------------------------------*/ 310402c68681SHong Zhang ierr = MPI_Waitall(merge->nrecv,rj_waits,status);CHKERRQ(ierr); 310502c68681SHong Zhang ierr = MPI_Waitall(merge->nsend,sj_waits,status);CHKERRQ(ierr); 310602c68681SHong Zhang 310702c68681SHong Zhang /* send and recv i-structure */ 310802c68681SHong Zhang /*---------------------------*/ 310902c68681SHong Zhang ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&tagi);CHKERRQ(ierr); 311002c68681SHong Zhang ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&ri_waits);CHKERRQ(ierr); 311102c68681SHong Zhang 3112b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&buf_s);CHKERRQ(ierr); 31133e06a4e6SHong Zhang buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 31142257cef7SHong Zhang for (proc=0,k=0; proc<size; proc++){ 311502c68681SHong Zhang if (!len_s[proc]) continue; 31163e06a4e6SHong Zhang /* form outgoing message for i-structure: 31173e06a4e6SHong Zhang buf_si[0]: nrows to be sent 31183e06a4e6SHong Zhang [1:nrows]: row index (global) 31193e06a4e6SHong Zhang [nrows+1:2*nrows+1]: i-structure index 31203e06a4e6SHong Zhang */ 31213e06a4e6SHong Zhang /*-------------------------------------------*/ 31222257cef7SHong Zhang nrows = len_si[proc]/2 - 1; 31233e06a4e6SHong Zhang buf_si_i = buf_si + nrows+1; 31243e06a4e6SHong Zhang buf_si[0] = nrows; 31253e06a4e6SHong Zhang buf_si_i[0] = 0; 31263e06a4e6SHong Zhang nrows = 0; 31273e06a4e6SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 31283e06a4e6SHong Zhang anzi = ai[i+1] - ai[i]; 31293e06a4e6SHong Zhang if (anzi) { 31303e06a4e6SHong Zhang buf_si_i[nrows+1] = buf_si_i[nrows] + anzi; /* i-structure */ 31313e06a4e6SHong Zhang buf_si[nrows+1] = i-owners[proc]; /* local row index */ 31323e06a4e6SHong Zhang nrows++; 31333e06a4e6SHong Zhang } 31343e06a4e6SHong Zhang } 3135b1d57f15SBarry Smith ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,si_waits+k);CHKERRQ(ierr); 313602c68681SHong Zhang k++; 31372257cef7SHong Zhang buf_si += len_si[proc]; 313802c68681SHong Zhang } 31392257cef7SHong Zhang 314002c68681SHong Zhang ierr = MPI_Waitall(merge->nrecv,ri_waits,status);CHKERRQ(ierr); 314102c68681SHong Zhang ierr = MPI_Waitall(merge->nsend,si_waits,status);CHKERRQ(ierr); 314202c68681SHong Zhang 314377431f27SBarry Smith ierr = PetscLogInfo((PetscObject)(seqmat),"MatMerge_SeqsToMPI: nsend: %D, nrecv: %D\n",merge->nsend,merge->nrecv);CHKERRQ(ierr); 31443e06a4e6SHong Zhang for (i=0; i<merge->nrecv; i++){ 314577431f27SBarry 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); 31463e06a4e6SHong Zhang } 31473e06a4e6SHong Zhang 31483e06a4e6SHong Zhang ierr = PetscFree(len_si);CHKERRQ(ierr); 314902c68681SHong Zhang ierr = PetscFree(len_ri);CHKERRQ(ierr); 315002c68681SHong Zhang ierr = PetscFree(rj_waits);CHKERRQ(ierr); 31513e06a4e6SHong Zhang ierr = PetscFree(si_waits);CHKERRQ(ierr); 31522257cef7SHong Zhang ierr = PetscFree(ri_waits);CHKERRQ(ierr); 31533e06a4e6SHong Zhang ierr = PetscFree(buf_s);CHKERRQ(ierr); 3154bcc1bcd5SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 315558cb9c82SHong Zhang 3156bcc1bcd5SHong Zhang /* compute a local seq matrix in each processor */ 3157bcc1bcd5SHong Zhang /*----------------------------------------------*/ 315858cb9c82SHong Zhang /* allocate bi array and free space for accumulating nonzero column info */ 3159b1d57f15SBarry Smith ierr = PetscMalloc((m+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr); 316058cb9c82SHong Zhang bi[0] = 0; 316158cb9c82SHong Zhang 3162be0fcf8dSHong Zhang /* create and initialize a linked list */ 3163be0fcf8dSHong Zhang nlnk = N+1; 3164be0fcf8dSHong Zhang ierr = PetscLLCreate(N,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 316558cb9c82SHong Zhang 3166bcc1bcd5SHong Zhang /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */ 316758cb9c82SHong Zhang len = 0; 3168bcc1bcd5SHong Zhang len = ai[owners[rank+1]] - ai[owners[rank]]; 3169b1d57f15SBarry Smith ierr = GetMoreSpace((PetscInt)(2*len+1),&free_space);CHKERRQ(ierr); 317058cb9c82SHong Zhang current_space = free_space; 317158cb9c82SHong Zhang 3172bcc1bcd5SHong Zhang /* determine symbolic info for each local row */ 3173b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 31743e06a4e6SHong Zhang nextrow = buf_ri_k + merge->nrecv; 31753e06a4e6SHong Zhang nextai = nextrow + merge->nrecv; 31763e06a4e6SHong Zhang for (k=0; k<merge->nrecv; k++){ 31772257cef7SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 31783e06a4e6SHong Zhang nrows = *buf_ri_k[k]; 31793e06a4e6SHong Zhang nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 31802257cef7SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 31813e06a4e6SHong Zhang } 31822257cef7SHong Zhang 3183bcc1bcd5SHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 3184bcc1bcd5SHong Zhang len = 0; 318558cb9c82SHong Zhang for (i=0;i<m;i++) { 318658cb9c82SHong Zhang bnzi = 0; 318758cb9c82SHong Zhang /* add local non-zero cols of this proc's seqmat into lnk */ 318858cb9c82SHong Zhang arow = owners[rank] + i; 318958cb9c82SHong Zhang anzi = ai[arow+1] - ai[arow]; 319058cb9c82SHong Zhang aj = a->j + ai[arow]; 3191be0fcf8dSHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 319258cb9c82SHong Zhang bnzi += nlnk; 319358cb9c82SHong Zhang /* add received col data into lnk */ 319451a7d1a8SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 319555d1abb9SHong Zhang if (i == *nextrow[k]) { /* i-th row */ 31963e06a4e6SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 31973e06a4e6SHong Zhang aj = buf_rj[k] + *nextai[k]; 31983e06a4e6SHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 31993e06a4e6SHong Zhang bnzi += nlnk; 32003e06a4e6SHong Zhang nextrow[k]++; nextai[k]++; 32013e06a4e6SHong Zhang } 320258cb9c82SHong Zhang } 3203bcc1bcd5SHong Zhang if (len < bnzi) len = bnzi; /* =max(bnzi) */ 320458cb9c82SHong Zhang 320558cb9c82SHong Zhang /* if free space is not available, make more free space */ 320658cb9c82SHong Zhang if (current_space->local_remaining<bnzi) { 320758cb9c82SHong Zhang ierr = GetMoreSpace(current_space->total_array_size,¤t_space);CHKERRQ(ierr); 320858cb9c82SHong Zhang nspacedouble++; 320958cb9c82SHong Zhang } 321058cb9c82SHong Zhang /* copy data into free space, then initialize lnk */ 3211be0fcf8dSHong Zhang ierr = PetscLLClean(N,N,bnzi,lnk,current_space->array,lnkbt);CHKERRQ(ierr); 3212bcc1bcd5SHong Zhang ierr = MatPreallocateSet(i+owners[rank],bnzi,current_space->array,dnz,onz);CHKERRQ(ierr); 3213bcc1bcd5SHong Zhang 321458cb9c82SHong Zhang current_space->array += bnzi; 321558cb9c82SHong Zhang current_space->local_used += bnzi; 321658cb9c82SHong Zhang current_space->local_remaining -= bnzi; 321758cb9c82SHong Zhang 321858cb9c82SHong Zhang bi[i+1] = bi[i] + bnzi; 321958cb9c82SHong Zhang } 3220bcc1bcd5SHong Zhang 3221bcc1bcd5SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 3222bcc1bcd5SHong Zhang 3223b1d57f15SBarry Smith ierr = PetscMalloc((bi[m]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr); 322458cb9c82SHong Zhang ierr = MakeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 3225be0fcf8dSHong Zhang ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 3226409913e3SHong Zhang 3227bcc1bcd5SHong Zhang /* create symbolic parallel matrix B_mpi */ 3228bcc1bcd5SHong Zhang /*---------------------------------------*/ 322954b84b50SHong Zhang if (n==PETSC_DECIDE) { 323054b84b50SHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,N,&B_mpi);CHKERRQ(ierr); 323154b84b50SHong Zhang } else { 3232bcc1bcd5SHong Zhang ierr = MatCreate(comm,m,n,PETSC_DETERMINE,PETSC_DETERMINE,&B_mpi);CHKERRQ(ierr); 323354b84b50SHong Zhang } 3234bcc1bcd5SHong Zhang ierr = MatSetType(B_mpi,MATMPIAIJ);CHKERRQ(ierr); 3235bcc1bcd5SHong Zhang ierr = MatMPIAIJSetPreallocation(B_mpi,0,dnz,0,onz);CHKERRQ(ierr); 3236bcc1bcd5SHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 323758cb9c82SHong Zhang 32386abd8857SHong Zhang /* B_mpi is not ready for use - assembly will be done by MatMerge_SeqsToMPINumeric() */ 32396abd8857SHong Zhang B_mpi->assembled = PETSC_FALSE; 3240affca5deSHong Zhang B_mpi->ops->destroy = MatDestroy_MPIAIJ_SeqsToMPI; 3241affca5deSHong Zhang merge->bi = bi; 3242affca5deSHong Zhang merge->bj = bj; 324302c68681SHong Zhang merge->buf_ri = buf_ri; 324402c68681SHong Zhang merge->buf_rj = buf_rj; 3245de0260b3SHong Zhang merge->coi = PETSC_NULL; 3246de0260b3SHong Zhang merge->coj = PETSC_NULL; 3247de0260b3SHong Zhang merge->owners_co = PETSC_NULL; 3248affca5deSHong Zhang 3249affca5deSHong Zhang /* attach the supporting struct to B_mpi for reuse */ 3250affca5deSHong Zhang ierr = PetscObjectContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr); 3251affca5deSHong Zhang ierr = PetscObjectContainerSetPointer(container,merge);CHKERRQ(ierr); 3252affca5deSHong Zhang ierr = PetscObjectCompose((PetscObject)B_mpi,"MatMergeSeqsToMPI",(PetscObject)container);CHKERRQ(ierr); 3253affca5deSHong Zhang *mpimat = B_mpi; 32543c2c1871SHong Zhang ierr = PetscLogEventEnd(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 3255e5f2cdd8SHong Zhang PetscFunctionReturn(0); 3256e5f2cdd8SHong Zhang } 325725616d81SHong Zhang 3258e462e02cSHong Zhang static PetscEvent logkey_seqstompi = 0; 325955d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPI(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,MatReuse scall,Mat *mpimat) 326055d1abb9SHong Zhang { 326155d1abb9SHong Zhang PetscErrorCode ierr; 326255d1abb9SHong Zhang 326355d1abb9SHong Zhang PetscFunctionBegin; 3264e462e02cSHong Zhang if (!logkey_seqstompi) { 3265e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompi,"MatMerge_SeqsToMPI",MAT_COOKIE); 3266e462e02cSHong Zhang } 3267e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 326855d1abb9SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 326955d1abb9SHong Zhang ierr = MatMerge_SeqsToMPISymbolic(comm,seqmat,m,n,mpimat);CHKERRQ(ierr); 327055d1abb9SHong Zhang } 327155d1abb9SHong Zhang ierr = MatMerge_SeqsToMPINumeric(seqmat,*mpimat);CHKERRQ(ierr); 3272e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 327355d1abb9SHong Zhang PetscFunctionReturn(0); 327455d1abb9SHong Zhang } 3275a61c8c0fSHong Zhang static PetscEvent logkey_getlocalmat = 0; 327625616d81SHong Zhang #undef __FUNCT__ 327725616d81SHong Zhang #define __FUNCT__ "MatGetLocalMat" 327825616d81SHong Zhang /*@C 327932fba14fSHong Zhang MatGetLocalMat - Creates a SeqAIJ matrix by taking all its local rows 328025616d81SHong Zhang 328132fba14fSHong Zhang Not Collective 328225616d81SHong Zhang 328325616d81SHong Zhang Input Parameters: 328425616d81SHong Zhang + A - the matrix 328525616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 328625616d81SHong Zhang 328725616d81SHong Zhang Output Parameter: 328825616d81SHong Zhang . A_loc - the local sequential matrix generated 328925616d81SHong Zhang 329025616d81SHong Zhang Level: developer 329125616d81SHong Zhang 329225616d81SHong Zhang @*/ 329332fba14fSHong Zhang PetscErrorCode MatGetLocalMat(Mat A,MatReuse scall,Mat *A_loc) 329425616d81SHong Zhang { 329525616d81SHong Zhang PetscErrorCode ierr; 329601b7ae99SHong Zhang Mat_MPIAIJ *mpimat=(Mat_MPIAIJ*)A->data; 329701b7ae99SHong Zhang Mat_SeqAIJ *mat,*a=(Mat_SeqAIJ*)(mpimat->A)->data,*b=(Mat_SeqAIJ*)(mpimat->B)->data; 329801b7ae99SHong Zhang PetscInt *ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j,*cmap=mpimat->garray; 3299dea91ad1SHong Zhang PetscScalar *aa=a->a,*ba=b->a,*ca; 3300ecc9b87dSHong Zhang PetscInt am=A->m,i,j,k,cstart=mpimat->cstart; 33015a7d977cSHong Zhang PetscInt *ci,*cj,col,ncols_d,ncols_o,jo; 330225616d81SHong Zhang 330325616d81SHong Zhang PetscFunctionBegin; 3304e462e02cSHong Zhang if (!logkey_getlocalmat) { 3305e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_getlocalmat,"MatGetLocalMat",MAT_COOKIE); 3306e462e02cSHong Zhang } 3307e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr); 330801b7ae99SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3309dea91ad1SHong Zhang ierr = PetscMalloc((1+am)*sizeof(PetscInt),&ci);CHKERRQ(ierr); 3310dea91ad1SHong Zhang ci[0] = 0; 331101b7ae99SHong Zhang for (i=0; i<am; i++){ 3312dea91ad1SHong Zhang ci[i+1] = ci[i] + (ai[i+1] - ai[i]) + (bi[i+1] - bi[i]); 331301b7ae99SHong Zhang } 3314dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscInt),&cj);CHKERRQ(ierr); 3315dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscScalar),&ca);CHKERRQ(ierr); 3316dea91ad1SHong Zhang k = 0; 331701b7ae99SHong Zhang for (i=0; i<am; i++) { 33185a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 33195a7d977cSHong Zhang ncols_d = ai[i+1] - ai[i]; 332001b7ae99SHong Zhang /* off-diagonal portion of A */ 33215a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 33225a7d977cSHong Zhang col = cmap[*bj]; 33235a7d977cSHong Zhang if (col >= cstart) break; 33245a7d977cSHong Zhang cj[k] = col; bj++; 33255a7d977cSHong Zhang ca[k++] = *ba++; 33265a7d977cSHong Zhang } 33275a7d977cSHong Zhang /* diagonal portion of A */ 33285a7d977cSHong Zhang for (j=0; j<ncols_d; j++) { 33295a7d977cSHong Zhang cj[k] = cstart + *aj++; 33305a7d977cSHong Zhang ca[k++] = *aa++; 33315a7d977cSHong Zhang } 33325a7d977cSHong Zhang /* off-diagonal portion of A */ 33335a7d977cSHong Zhang for (j=jo; j<ncols_o; j++) { 33345a7d977cSHong Zhang cj[k] = cmap[*bj++]; 33355a7d977cSHong Zhang ca[k++] = *ba++; 33365a7d977cSHong Zhang } 333725616d81SHong Zhang } 3338dea91ad1SHong Zhang /* put together the new matrix */ 3339dea91ad1SHong Zhang ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,am,A->N,ci,cj,ca,A_loc);CHKERRQ(ierr); 3340dea91ad1SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 3341dea91ad1SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 3342dea91ad1SHong Zhang mat = (Mat_SeqAIJ*)(*A_loc)->data; 3343dea91ad1SHong Zhang mat->freedata = PETSC_TRUE; 3344dea91ad1SHong Zhang mat->nonew = 0; 33455a7d977cSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 33465a7d977cSHong Zhang mat=(Mat_SeqAIJ*)(*A_loc)->data; 33475a7d977cSHong Zhang ci = mat->i; cj = mat->j; ca = mat->a; 33485a7d977cSHong Zhang for (i=0; i<am; i++) { 33495a7d977cSHong Zhang /* off-diagonal portion of A */ 33505a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 33515a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 33525a7d977cSHong Zhang col = cmap[*bj]; 33535a7d977cSHong Zhang if (col >= cstart) break; 3354f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 33555a7d977cSHong Zhang } 33565a7d977cSHong Zhang /* diagonal portion of A */ 3357ecc9b87dSHong Zhang ncols_d = ai[i+1] - ai[i]; 3358ecc9b87dSHong Zhang for (j=0; j<ncols_d; j++) *ca++ = *aa++; 33595a7d977cSHong Zhang /* off-diagonal portion of A */ 3360f33d1a9aSHong Zhang for (j=jo; j<ncols_o; j++) { 3361f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 3362f33d1a9aSHong Zhang } 33635a7d977cSHong Zhang } 33645a7d977cSHong Zhang } else { 33655a7d977cSHong Zhang SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 336625616d81SHong Zhang } 336701b7ae99SHong Zhang 3368e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr); 336925616d81SHong Zhang PetscFunctionReturn(0); 337025616d81SHong Zhang } 337125616d81SHong Zhang 337232fba14fSHong Zhang static PetscEvent logkey_getlocalmatcondensed = 0; 337332fba14fSHong Zhang #undef __FUNCT__ 337432fba14fSHong Zhang #define __FUNCT__ "MatGetLocalMatCondensed" 337532fba14fSHong Zhang /*@C 337632fba14fSHong Zhang MatGetLocalMatCondensed - Creates a SeqAIJ matrix by taking all its local rows and NON-ZERO columns 337732fba14fSHong Zhang 337832fba14fSHong Zhang Not Collective 337932fba14fSHong Zhang 338032fba14fSHong Zhang Input Parameters: 338132fba14fSHong Zhang + A - the matrix 338232fba14fSHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 338332fba14fSHong Zhang - row, col - index sets of rows and columns to extract (or PETSC_NULL) 338432fba14fSHong Zhang 338532fba14fSHong Zhang Output Parameter: 338632fba14fSHong Zhang . A_loc - the local sequential matrix generated 338732fba14fSHong Zhang 338832fba14fSHong Zhang Level: developer 338932fba14fSHong Zhang 339032fba14fSHong Zhang @*/ 339132fba14fSHong Zhang PetscErrorCode MatGetLocalMatCondensed(Mat A,MatReuse scall,IS *row,IS *col,Mat *A_loc) 339232fba14fSHong Zhang { 339332fba14fSHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 339432fba14fSHong Zhang PetscErrorCode ierr; 339532fba14fSHong Zhang PetscInt i,start,end,ncols,nzA,nzB,*cmap,imark,*idx; 339632fba14fSHong Zhang IS isrowa,iscola; 339732fba14fSHong Zhang Mat *aloc; 339832fba14fSHong Zhang 339932fba14fSHong Zhang PetscFunctionBegin; 340032fba14fSHong Zhang if (!logkey_getlocalmatcondensed) { 340132fba14fSHong Zhang ierr = PetscLogEventRegister(&logkey_getlocalmatcondensed,"MatGetLocalMatCondensed",MAT_COOKIE); 340232fba14fSHong Zhang } 340332fba14fSHong Zhang ierr = PetscLogEventBegin(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 340432fba14fSHong Zhang if (!row){ 340532fba14fSHong Zhang start = a->rstart; end = a->rend; 340632fba14fSHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,end-start,start,1,&isrowa);CHKERRQ(ierr); 340732fba14fSHong Zhang } else { 340832fba14fSHong Zhang isrowa = *row; 340932fba14fSHong Zhang } 341032fba14fSHong Zhang if (!col){ 341132fba14fSHong Zhang start = a->cstart; 341232fba14fSHong Zhang cmap = a->garray; 341332fba14fSHong Zhang nzA = a->A->n; 341432fba14fSHong Zhang nzB = a->B->n; 341532fba14fSHong Zhang ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 341632fba14fSHong Zhang ncols = 0; 341732fba14fSHong Zhang for (i=0; i<nzB; i++) { 341832fba14fSHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 341932fba14fSHong Zhang else break; 342032fba14fSHong Zhang } 342132fba14fSHong Zhang imark = i; 342232fba14fSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; 342332fba14fSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; 342432fba14fSHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&iscola);CHKERRQ(ierr); 342532fba14fSHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 342632fba14fSHong Zhang } else { 342732fba14fSHong Zhang iscola = *col; 342832fba14fSHong Zhang } 342932fba14fSHong Zhang if (scall != MAT_INITIAL_MATRIX){ 343032fba14fSHong Zhang ierr = PetscMalloc(sizeof(Mat),&aloc);CHKERRQ(ierr); 343132fba14fSHong Zhang aloc[0] = *A_loc; 343232fba14fSHong Zhang } 343332fba14fSHong Zhang ierr = MatGetSubMatrices(A,1,&isrowa,&iscola,scall,&aloc);CHKERRQ(ierr); 343432fba14fSHong Zhang *A_loc = aloc[0]; 343532fba14fSHong Zhang ierr = PetscFree(aloc);CHKERRQ(ierr); 343632fba14fSHong Zhang if (!row){ 343732fba14fSHong Zhang ierr = ISDestroy(isrowa);CHKERRQ(ierr); 343832fba14fSHong Zhang } 343932fba14fSHong Zhang if (!col){ 344032fba14fSHong Zhang ierr = ISDestroy(iscola);CHKERRQ(ierr); 344132fba14fSHong Zhang } 344232fba14fSHong Zhang ierr = PetscLogEventEnd(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 344332fba14fSHong Zhang PetscFunctionReturn(0); 344432fba14fSHong Zhang } 344532fba14fSHong Zhang 3446a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAcols = 0; 344725616d81SHong Zhang #undef __FUNCT__ 344825616d81SHong Zhang #define __FUNCT__ "MatGetBrowsOfAcols" 344925616d81SHong Zhang /*@C 345032fba14fSHong Zhang MatGetBrowsOfAcols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A 345125616d81SHong Zhang 345225616d81SHong Zhang Collective on Mat 345325616d81SHong Zhang 345425616d81SHong Zhang Input Parameters: 3455e240928fSHong Zhang + A,B - the matrices in mpiaij format 345625616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 345725616d81SHong Zhang - rowb, colb - index sets of rows and columns of B to extract (or PETSC_NULL) 345825616d81SHong Zhang 345925616d81SHong Zhang Output Parameter: 346025616d81SHong Zhang + rowb, colb - index sets of rows and columns of B to extract 346125616d81SHong Zhang . brstart - row index of B_seq from which next B->m rows are taken from B's local rows 346225616d81SHong Zhang - B_seq - the sequential matrix generated 346325616d81SHong Zhang 346425616d81SHong Zhang Level: developer 346525616d81SHong Zhang 346625616d81SHong Zhang @*/ 346725616d81SHong Zhang PetscErrorCode MatGetBrowsOfAcols(Mat A,Mat B,MatReuse scall,IS *rowb,IS *colb,PetscInt *brstart,Mat *B_seq) 346825616d81SHong Zhang { 346925616d81SHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data,*b=(Mat_MPIAIJ*)B->data; 347025616d81SHong Zhang PetscErrorCode ierr; 3471b1d57f15SBarry Smith PetscInt *idx,i,start,ncols,nzA,nzB,*cmap,imark; 347225616d81SHong Zhang IS isrowb,iscolb; 347325616d81SHong Zhang Mat *bseq; 347425616d81SHong Zhang 347525616d81SHong Zhang PetscFunctionBegin; 347625616d81SHong Zhang if (a->cstart != b->rstart || a->cend != b->rend){ 347777431f27SBarry Smith SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",a->cstart,a->cend,b->rstart,b->rend); 347825616d81SHong Zhang } 3479e462e02cSHong Zhang if (!logkey_GetBrowsOfAcols) { 3480e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_GetBrowsOfAcols,"MatGetBrowsOfAcols",MAT_COOKIE); 3481e462e02cSHong Zhang } 3482e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 348325616d81SHong Zhang 348425616d81SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 348525616d81SHong Zhang start = a->cstart; 348625616d81SHong Zhang cmap = a->garray; 348725616d81SHong Zhang nzA = a->A->n; 348825616d81SHong Zhang nzB = a->B->n; 3489b1d57f15SBarry Smith ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 349025616d81SHong Zhang ncols = 0; 34910390132cSHong Zhang for (i=0; i<nzB; i++) { /* row < local row index */ 349225616d81SHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 349325616d81SHong Zhang else break; 349425616d81SHong Zhang } 349525616d81SHong Zhang imark = i; 34960390132cSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; /* local rows */ 34970390132cSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */ 349825616d81SHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&isrowb);CHKERRQ(ierr); 349925616d81SHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 350025616d81SHong Zhang *brstart = imark; 350125616d81SHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,B->N,0,1,&iscolb);CHKERRQ(ierr); 350225616d81SHong Zhang } else { 350325616d81SHong Zhang if (!rowb || !colb) SETERRQ(PETSC_ERR_SUP,"IS rowb and colb must be provided for MAT_REUSE_MATRIX"); 350425616d81SHong Zhang isrowb = *rowb; iscolb = *colb; 350525616d81SHong Zhang ierr = PetscMalloc(sizeof(Mat),&bseq);CHKERRQ(ierr); 350625616d81SHong Zhang bseq[0] = *B_seq; 350725616d81SHong Zhang } 350825616d81SHong Zhang ierr = MatGetSubMatrices(B,1,&isrowb,&iscolb,scall,&bseq);CHKERRQ(ierr); 350925616d81SHong Zhang *B_seq = bseq[0]; 351025616d81SHong Zhang ierr = PetscFree(bseq);CHKERRQ(ierr); 351125616d81SHong Zhang if (!rowb){ 351225616d81SHong Zhang ierr = ISDestroy(isrowb);CHKERRQ(ierr); 351325616d81SHong Zhang } else { 351425616d81SHong Zhang *rowb = isrowb; 351525616d81SHong Zhang } 351625616d81SHong Zhang if (!colb){ 351725616d81SHong Zhang ierr = ISDestroy(iscolb);CHKERRQ(ierr); 351825616d81SHong Zhang } else { 351925616d81SHong Zhang *colb = iscolb; 352025616d81SHong Zhang } 3521e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 352225616d81SHong Zhang PetscFunctionReturn(0); 352325616d81SHong Zhang } 3524429d309bSHong Zhang 3525a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAocols = 0; 3526a61c8c0fSHong Zhang #undef __FUNCT__ 3527a61c8c0fSHong Zhang #define __FUNCT__ "MatGetBrowsOfAoCols" 3528429d309bSHong Zhang /*@C 3529429d309bSHong Zhang MatGetBrowsOfAoCols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns 353001b7ae99SHong Zhang of the OFF-DIAGONAL portion of local A 3531429d309bSHong Zhang 3532429d309bSHong Zhang Collective on Mat 3533429d309bSHong Zhang 3534429d309bSHong Zhang Input Parameters: 3535429d309bSHong Zhang + A,B - the matrices in mpiaij format 353687025532SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 353787025532SHong Zhang . startsj - starting point in B's sending and receiving j-arrays, saved for MAT_REUSE (or PETSC_NULL) 353887025532SHong Zhang - bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or PETSC_NULL) 3539429d309bSHong Zhang 3540429d309bSHong Zhang Output Parameter: 354187025532SHong Zhang + B_oth - the sequential matrix generated 3542429d309bSHong Zhang 3543429d309bSHong Zhang Level: developer 3544429d309bSHong Zhang 3545429d309bSHong Zhang @*/ 354687025532SHong Zhang PetscErrorCode MatGetBrowsOfAoCols(Mat A,Mat B,MatReuse scall,PetscInt **startsj,PetscScalar **bufa_ptr,Mat *B_oth) 3547429d309bSHong Zhang { 3548a6b2eed2SHong Zhang VecScatter_MPI_General *gen_to,*gen_from; 3549429d309bSHong Zhang PetscErrorCode ierr; 355087025532SHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data,*b=(Mat_MPIAIJ*)B->data; 355187025532SHong Zhang Mat_SeqAIJ *b_oth; 3552a6b2eed2SHong Zhang VecScatter ctx=a->Mvctx; 3553a6b2eed2SHong Zhang MPI_Comm comm=ctx->comm; 355487025532SHong Zhang PetscMPIInt *rprocs,*sprocs,tag=ctx->tag,rank; 355568733de6SHong Zhang PetscInt *rowlen,*bufj,*bufJ,ncols,aBn=a->B->n,row,*b_othi,*b_othj; 355687025532SHong Zhang PetscScalar *rvalues,*svalues,*b_otha,*bufa,*bufA; 355713f74950SBarry Smith PetscInt i,k,l,nrecvs,nsends,nrows,*rrow,*srow,*rstarts,*rstartsj,*sstarts,*sstartsj,len; 3558a6b2eed2SHong Zhang MPI_Request *rwaits,*swaits; 355987025532SHong Zhang MPI_Status *sstatus,rstatus; 3560a6b2eed2SHong Zhang const PetscInt *cols; 3561a6b2eed2SHong Zhang const PetscScalar *vals; 356213f74950SBarry Smith PetscMPIInt j; 3563429d309bSHong Zhang 3564429d309bSHong Zhang PetscFunctionBegin; 3565429d309bSHong Zhang if (a->cstart != b->rstart || a->cend != b->rend){ 3566a6b2eed2SHong Zhang SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%d, %d) != (%d,%d)",a->cstart,a->cend,b->rstart,b->rend); 3567429d309bSHong Zhang } 3568429d309bSHong Zhang if (!logkey_GetBrowsOfAocols) { 35691677a5d7SHong Zhang ierr = PetscLogEventRegister(&logkey_GetBrowsOfAocols,"MatGetBrAoCol",MAT_COOKIE); 3570429d309bSHong Zhang } 3571429d309bSHong Zhang ierr = PetscLogEventBegin(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 3572a6b2eed2SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 3573a6b2eed2SHong Zhang 3574a6b2eed2SHong Zhang gen_to = (VecScatter_MPI_General*)ctx->todata; 3575a6b2eed2SHong Zhang gen_from = (VecScatter_MPI_General*)ctx->fromdata; 3576a6b2eed2SHong Zhang rvalues = gen_from->values; /* holds the length of sending row */ 3577a6b2eed2SHong Zhang svalues = gen_to->values; /* holds the length of receiving row */ 3578a6b2eed2SHong Zhang nrecvs = gen_from->n; 3579a6b2eed2SHong Zhang nsends = gen_to->n; 3580a6b2eed2SHong Zhang rwaits = gen_from->requests; 3581a6b2eed2SHong Zhang swaits = gen_to->requests; 3582a6b2eed2SHong Zhang rrow = gen_from->indices; /* local row index to be received */ 3583a6b2eed2SHong Zhang srow = gen_to->indices; /* local row index to be sent */ 3584a6b2eed2SHong Zhang rstarts = gen_from->starts; 3585a6b2eed2SHong Zhang sstarts = gen_to->starts; 3586a6b2eed2SHong Zhang rprocs = gen_from->procs; 3587a6b2eed2SHong Zhang sprocs = gen_to->procs; 3588a6b2eed2SHong Zhang sstatus = gen_to->sstatus; 3589429d309bSHong Zhang 3590dea91ad1SHong Zhang if (!startsj || !bufa_ptr) scall = MAT_INITIAL_MATRIX; 3591429d309bSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3592a6b2eed2SHong Zhang /* i-array */ 3593a6b2eed2SHong Zhang /*---------*/ 3594a6b2eed2SHong Zhang /* post receives */ 3595a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 3596a6b2eed2SHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]; 359787025532SHong Zhang nrows = rstarts[i+1]-rstarts[i]; 359887025532SHong Zhang ierr = MPI_Irecv(rowlen,nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 3599429d309bSHong Zhang } 3600a6b2eed2SHong Zhang 3601a6b2eed2SHong Zhang /* pack the outgoing message */ 360287025532SHong Zhang ierr = PetscMalloc((nsends+nrecvs+3)*sizeof(PetscInt),&sstartsj);CHKERRQ(ierr); 3603a6b2eed2SHong Zhang rstartsj = sstartsj + nsends +1; 3604a6b2eed2SHong Zhang sstartsj[0] = 0; rstartsj[0] = 0; 3605a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be sent */ 3606a6b2eed2SHong Zhang k = 0; 3607a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 3608a6b2eed2SHong Zhang rowlen = (PetscInt*)svalues + sstarts[i]; 360987025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of rows */ 361087025532SHong Zhang for (j=0; j<nrows; j++) { 3611a6b2eed2SHong Zhang row = srow[k] + b->rowners[rank]; /* global row idx */ 3612a6b2eed2SHong Zhang ierr = MatGetRow(B,row,&rowlen[j],PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); /* rowlength */ 3613a6b2eed2SHong Zhang len += rowlen[j]; 3614a6b2eed2SHong Zhang ierr = MatRestoreRow(B,row,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); 3615a6b2eed2SHong Zhang k++; 3616429d309bSHong Zhang } 361787025532SHong Zhang ierr = MPI_Isend(rowlen,nrows,MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 3618dea91ad1SHong Zhang sstartsj[i+1] = len; /* starting point of (i+1)-th outgoing msg in bufj and bufa */ 3619429d309bSHong Zhang } 362087025532SHong Zhang /* recvs and sends of i-array are completed */ 362187025532SHong Zhang i = nrecvs; 362287025532SHong Zhang while (i--) { 362387025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 362487025532SHong Zhang } 3625a6b2eed2SHong Zhang if (nsends) { 3626a6b2eed2SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 3627a6b2eed2SHong Zhang } 3628a6b2eed2SHong Zhang /* allocate buffers for sending j and a arrays */ 3629a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscInt),&bufj);CHKERRQ(ierr); 3630a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscScalar),&bufa);CHKERRQ(ierr); 3631a6b2eed2SHong Zhang 363287025532SHong Zhang /* create i-array of B_oth */ 363387025532SHong Zhang ierr = PetscMalloc((aBn+2)*sizeof(PetscInt),&b_othi);CHKERRQ(ierr); 363487025532SHong Zhang b_othi[0] = 0; 3635a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be received */ 3636a6b2eed2SHong Zhang k = 0; 3637a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 3638a6b2eed2SHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]; 363987025532SHong Zhang nrows = rstarts[i+1]-rstarts[i]; 364087025532SHong Zhang for (j=0; j<nrows; j++) { 364187025532SHong Zhang b_othi[k+1] = b_othi[k] + rowlen[j]; 3642a6b2eed2SHong Zhang len += rowlen[j]; k++; 3643a6b2eed2SHong Zhang } 3644dea91ad1SHong Zhang rstartsj[i+1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */ 3645a6b2eed2SHong Zhang } 3646a6b2eed2SHong Zhang 364787025532SHong Zhang /* allocate space for j and a arrrays of B_oth */ 364887025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscInt),&b_othj);CHKERRQ(ierr); 364987025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscScalar),&b_otha);CHKERRQ(ierr); 3650a6b2eed2SHong Zhang 365187025532SHong Zhang /* j-array */ 365287025532SHong Zhang /*---------*/ 3653a6b2eed2SHong Zhang /* post receives of j-array */ 3654a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 365587025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 365687025532SHong Zhang ierr = MPI_Irecv(b_othj+rstartsj[i],nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 3657a6b2eed2SHong Zhang } 3658a6b2eed2SHong Zhang k = 0; 3659a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 366087025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of rows */ 3661a6b2eed2SHong Zhang bufJ = bufj+sstartsj[i]; 366287025532SHong Zhang for (j=0; j<nrows; j++) { 366387025532SHong Zhang row = srow[k++] + b->rowners[rank]; /* global row idx */ 366487025532SHong Zhang ierr = MatGetRow(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 3665a6b2eed2SHong Zhang for (l=0; l<ncols; l++){ 3666a6b2eed2SHong Zhang *bufJ++ = cols[l]; 366787025532SHong Zhang } 3668dea91ad1SHong Zhang ierr = MatRestoreRow(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 366987025532SHong Zhang } 367087025532SHong Zhang ierr = MPI_Isend(bufj+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 367187025532SHong Zhang } 367287025532SHong Zhang 367387025532SHong Zhang /* recvs and sends of j-array are completed */ 367487025532SHong Zhang i = nrecvs; 367587025532SHong Zhang while (i--) { 367687025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 367787025532SHong Zhang } 367887025532SHong Zhang if (nsends) { 367987025532SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 368087025532SHong Zhang } 368187025532SHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 368287025532SHong Zhang sstartsj = *startsj; 368387025532SHong Zhang rstartsj = sstartsj + nsends +1; 368487025532SHong Zhang bufa = *bufa_ptr; 368587025532SHong Zhang b_oth = (Mat_SeqAIJ*)(*B_oth)->data; 368687025532SHong Zhang b_otha = b_oth->a; 368787025532SHong Zhang } else { 368887025532SHong Zhang SETERRQ(PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not posses an object container"); 368987025532SHong Zhang } 369087025532SHong Zhang 369187025532SHong Zhang /* a-array */ 369287025532SHong Zhang /*---------*/ 369387025532SHong Zhang /* post receives of a-array */ 369487025532SHong Zhang for (i=0; i<nrecvs; i++){ 369587025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 369687025532SHong Zhang ierr = MPI_Irecv(b_otha+rstartsj[i],nrows,MPIU_SCALAR,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 369787025532SHong Zhang } 369887025532SHong Zhang k = 0; 369987025532SHong Zhang for (i=0; i<nsends; i++){ 370087025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; 370187025532SHong Zhang bufA = bufa+sstartsj[i]; 370287025532SHong Zhang for (j=0; j<nrows; j++) { 370387025532SHong Zhang row = srow[k++] + b->rowners[rank]; /* global row idx */ 370487025532SHong Zhang ierr = MatGetRow(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 370587025532SHong Zhang for (l=0; l<ncols; l++){ 3706a6b2eed2SHong Zhang *bufA++ = vals[l]; 3707a6b2eed2SHong Zhang } 3708dea91ad1SHong Zhang ierr = MatRestoreRow(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 370987025532SHong Zhang 3710a6b2eed2SHong Zhang } 371187025532SHong Zhang ierr = MPI_Isend(bufa+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_SCALAR,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 3712a6b2eed2SHong Zhang } 371387025532SHong Zhang /* recvs and sends of a-array are completed */ 371487025532SHong Zhang i = nrecvs; 371587025532SHong Zhang while (i--) { 371687025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 371787025532SHong Zhang } 3718a6b2eed2SHong Zhang if (nsends) { 3719a6b2eed2SHong Zhang ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr); 3720a6b2eed2SHong Zhang } 3721a6b2eed2SHong Zhang 372287025532SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3723a6b2eed2SHong Zhang /* put together the new matrix */ 372487025532SHong Zhang ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,aBn,B->N,b_othi,b_othj,b_otha,B_oth);CHKERRQ(ierr); 3725a6b2eed2SHong Zhang 3726a6b2eed2SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 3727a6b2eed2SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 372887025532SHong Zhang b_oth = (Mat_SeqAIJ *)(*B_oth)->data; 372987025532SHong Zhang b_oth->freedata = PETSC_TRUE; 373087025532SHong Zhang b_oth->nonew = 0; 3731a6b2eed2SHong Zhang 3732a6b2eed2SHong Zhang ierr = PetscFree(bufj);CHKERRQ(ierr); 3733dea91ad1SHong Zhang if (!startsj || !bufa_ptr){ 3734dea91ad1SHong Zhang ierr = PetscFree(sstartsj);CHKERRQ(ierr); 3735dea91ad1SHong Zhang ierr = PetscFree(bufa_ptr);CHKERRQ(ierr); 3736dea91ad1SHong Zhang } else { 373787025532SHong Zhang *startsj = sstartsj; 373887025532SHong Zhang *bufa_ptr = bufa; 373987025532SHong Zhang } 3740dea91ad1SHong Zhang } 3741429d309bSHong Zhang ierr = PetscLogEventEnd(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 3742a6b2eed2SHong Zhang 3743429d309bSHong Zhang PetscFunctionReturn(0); 3744429d309bSHong Zhang } 3745ccd8e176SBarry Smith 3746ccd8e176SBarry Smith /*MC 3747ccd8e176SBarry Smith MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices. 3748ccd8e176SBarry Smith 3749ccd8e176SBarry Smith Options Database Keys: 3750ccd8e176SBarry Smith . -mat_type mpiaij - sets the matrix type to "mpiaij" during a call to MatSetFromOptions() 3751ccd8e176SBarry Smith 3752ccd8e176SBarry Smith Level: beginner 3753ccd8e176SBarry Smith 3754ccd8e176SBarry Smith .seealso: MatCreateMPIAIJ 3755ccd8e176SBarry Smith M*/ 3756ccd8e176SBarry Smith 3757ccd8e176SBarry Smith EXTERN_C_BEGIN 3758ccd8e176SBarry Smith #undef __FUNCT__ 3759ccd8e176SBarry Smith #define __FUNCT__ "MatCreate_MPIAIJ" 3760ccd8e176SBarry Smith PetscErrorCode MatCreate_MPIAIJ(Mat B) 3761ccd8e176SBarry Smith { 3762ccd8e176SBarry Smith Mat_MPIAIJ *b; 3763ccd8e176SBarry Smith PetscErrorCode ierr; 3764ccd8e176SBarry Smith PetscInt i; 3765ccd8e176SBarry Smith PetscMPIInt size; 3766ccd8e176SBarry Smith 3767ccd8e176SBarry Smith PetscFunctionBegin; 3768ccd8e176SBarry Smith ierr = MPI_Comm_size(B->comm,&size);CHKERRQ(ierr); 3769ccd8e176SBarry Smith 3770ccd8e176SBarry Smith ierr = PetscNew(Mat_MPIAIJ,&b);CHKERRQ(ierr); 3771ccd8e176SBarry Smith B->data = (void*)b; 3772ccd8e176SBarry Smith ierr = PetscMemzero(b,sizeof(Mat_MPIAIJ));CHKERRQ(ierr); 3773ccd8e176SBarry Smith ierr = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 3774ccd8e176SBarry Smith B->factor = 0; 3775ccd8e176SBarry Smith B->assembled = PETSC_FALSE; 3776ccd8e176SBarry Smith B->mapping = 0; 3777ccd8e176SBarry Smith 3778ccd8e176SBarry Smith B->insertmode = NOT_SET_VALUES; 3779ccd8e176SBarry Smith b->size = size; 3780ccd8e176SBarry Smith ierr = MPI_Comm_rank(B->comm,&b->rank);CHKERRQ(ierr); 3781ccd8e176SBarry Smith 3782ccd8e176SBarry Smith ierr = PetscSplitOwnership(B->comm,&B->m,&B->M);CHKERRQ(ierr); 3783ccd8e176SBarry Smith ierr = PetscSplitOwnership(B->comm,&B->n,&B->N);CHKERRQ(ierr); 3784ccd8e176SBarry Smith 3785ccd8e176SBarry Smith /* the information in the maps duplicates the information computed below, eventually 3786ccd8e176SBarry Smith we should remove the duplicate information that is not contained in the maps */ 3787ccd8e176SBarry Smith ierr = PetscMapCreateMPI(B->comm,B->m,B->M,&B->rmap);CHKERRQ(ierr); 3788ccd8e176SBarry Smith ierr = PetscMapCreateMPI(B->comm,B->n,B->N,&B->cmap);CHKERRQ(ierr); 3789ccd8e176SBarry Smith 3790ccd8e176SBarry Smith /* build local table of row and column ownerships */ 3791ccd8e176SBarry Smith ierr = PetscMalloc(2*(b->size+2)*sizeof(PetscInt),&b->rowners);CHKERRQ(ierr); 3792ccd8e176SBarry Smith PetscLogObjectMemory(B,2*(b->size+2)*sizeof(PetscInt)+sizeof(struct _p_Mat)+sizeof(Mat_MPIAIJ)); 3793ccd8e176SBarry Smith b->cowners = b->rowners + b->size + 2; 3794ccd8e176SBarry Smith ierr = MPI_Allgather(&B->m,1,MPIU_INT,b->rowners+1,1,MPIU_INT,B->comm);CHKERRQ(ierr); 3795ccd8e176SBarry Smith b->rowners[0] = 0; 3796ccd8e176SBarry Smith for (i=2; i<=b->size; i++) { 3797ccd8e176SBarry Smith b->rowners[i] += b->rowners[i-1]; 3798ccd8e176SBarry Smith } 3799ccd8e176SBarry Smith b->rstart = b->rowners[b->rank]; 3800ccd8e176SBarry Smith b->rend = b->rowners[b->rank+1]; 3801ccd8e176SBarry Smith ierr = MPI_Allgather(&B->n,1,MPIU_INT,b->cowners+1,1,MPIU_INT,B->comm);CHKERRQ(ierr); 3802ccd8e176SBarry Smith b->cowners[0] = 0; 3803ccd8e176SBarry Smith for (i=2; i<=b->size; i++) { 3804ccd8e176SBarry Smith b->cowners[i] += b->cowners[i-1]; 3805ccd8e176SBarry Smith } 3806ccd8e176SBarry Smith b->cstart = b->cowners[b->rank]; 3807ccd8e176SBarry Smith b->cend = b->cowners[b->rank+1]; 3808ccd8e176SBarry Smith 3809ccd8e176SBarry Smith /* build cache for off array entries formed */ 3810ccd8e176SBarry Smith ierr = MatStashCreate_Private(B->comm,1,&B->stash);CHKERRQ(ierr); 3811ccd8e176SBarry Smith b->donotstash = PETSC_FALSE; 3812ccd8e176SBarry Smith b->colmap = 0; 3813ccd8e176SBarry Smith b->garray = 0; 3814ccd8e176SBarry Smith b->roworiented = PETSC_TRUE; 3815ccd8e176SBarry Smith 3816ccd8e176SBarry Smith /* stuff used for matrix vector multiply */ 3817ccd8e176SBarry Smith b->lvec = PETSC_NULL; 3818ccd8e176SBarry Smith b->Mvctx = PETSC_NULL; 3819ccd8e176SBarry Smith 3820ccd8e176SBarry Smith /* stuff for MatGetRow() */ 3821ccd8e176SBarry Smith b->rowindices = 0; 3822ccd8e176SBarry Smith b->rowvalues = 0; 3823ccd8e176SBarry Smith b->getrowactive = PETSC_FALSE; 3824ccd8e176SBarry Smith 3825ccd8e176SBarry Smith /* Explicitly create 2 MATSEQAIJ matrices. */ 3826ccd8e176SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,B->m,B->n,B->m,B->n,&b->A);CHKERRQ(ierr); 3827ccd8e176SBarry Smith ierr = MatSetType(b->A,MATSEQAIJ);CHKERRQ(ierr); 3828ccd8e176SBarry Smith PetscLogObjectParent(B,b->A); 3829ccd8e176SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,B->m,B->N,B->m,B->N,&b->B);CHKERRQ(ierr); 3830ccd8e176SBarry Smith ierr = MatSetType(b->B,MATSEQAIJ);CHKERRQ(ierr); 3831ccd8e176SBarry Smith PetscLogObjectParent(B,b->B); 3832ccd8e176SBarry Smith 3833ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatStoreValues_C", 3834ccd8e176SBarry Smith "MatStoreValues_MPIAIJ", 3835ccd8e176SBarry Smith MatStoreValues_MPIAIJ);CHKERRQ(ierr); 3836ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatRetrieveValues_C", 3837ccd8e176SBarry Smith "MatRetrieveValues_MPIAIJ", 3838ccd8e176SBarry Smith MatRetrieveValues_MPIAIJ);CHKERRQ(ierr); 3839ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatGetDiagonalBlock_C", 3840ccd8e176SBarry Smith "MatGetDiagonalBlock_MPIAIJ", 3841ccd8e176SBarry Smith MatGetDiagonalBlock_MPIAIJ);CHKERRQ(ierr); 3842ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatIsTranspose_C", 3843ccd8e176SBarry Smith "MatIsTranspose_MPIAIJ", 3844ccd8e176SBarry Smith MatIsTranspose_MPIAIJ);CHKERRQ(ierr); 3845ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocation_C", 3846ccd8e176SBarry Smith "MatMPIAIJSetPreallocation_MPIAIJ", 3847ccd8e176SBarry Smith MatMPIAIJSetPreallocation_MPIAIJ);CHKERRQ(ierr); 3848ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C", 3849ccd8e176SBarry Smith "MatMPIAIJSetPreallocationCSR_MPIAIJ", 3850ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR_MPIAIJ);CHKERRQ(ierr); 3851ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatDiagonalScaleLocal_C", 3852ccd8e176SBarry Smith "MatDiagonalScaleLocal_MPIAIJ", 3853ccd8e176SBarry Smith MatDiagonalScaleLocal_MPIAIJ);CHKERRQ(ierr); 3854ccd8e176SBarry Smith PetscFunctionReturn(0); 3855ccd8e176SBarry Smith } 3856ccd8e176SBarry Smith EXTERN_C_END 3857