1be1d678aSKris Buschelman #define PETSCMAT_DLL 28a729477SBarry Smith 3b47fd4b1SSatish Balay #include "src/mat/impls/aij/mpi/mpiaij.h" /*I "petscmat.h" I*/ 4d9942c19SSatish Balay #include "src/inline/spops.h" 58a729477SBarry Smith 60f5bd95cSBarry Smith /* 70f5bd95cSBarry Smith Local utility routine that creates a mapping from the global column 89e25ed09SBarry Smith number to the local number in the off-diagonal part of the local 90f5bd95cSBarry Smith storage of the matrix. When PETSC_USE_CTABLE is used this is scalable at 100f5bd95cSBarry Smith a slightly higher hash table cost; without it it is not scalable (each processor 110f5bd95cSBarry Smith has an order N integer array but is fast to acess. 129e25ed09SBarry Smith */ 134a2ae208SSatish Balay #undef __FUNCT__ 144a2ae208SSatish Balay #define __FUNCT__ "CreateColmap_MPIAIJ_Private" 15dfbe8321SBarry Smith PetscErrorCode CreateColmap_MPIAIJ_Private(Mat mat) 169e25ed09SBarry Smith { 1744a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 186849ba73SBarry Smith PetscErrorCode ierr; 19899cda47SBarry Smith PetscInt n = aij->B->cmap.n,i; 20dbb450caSBarry Smith 213a40ed3dSBarry Smith PetscFunctionBegin; 22aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 23273d9f13SBarry Smith ierr = PetscTableCreate(n,&aij->colmap);CHKERRQ(ierr); 24b1fc9764SSatish Balay for (i=0; i<n; i++){ 250f5bd95cSBarry Smith ierr = PetscTableAdd(aij->colmap,aij->garray[i]+1,i+1);CHKERRQ(ierr); 26b1fc9764SSatish Balay } 27b1fc9764SSatish Balay #else 28899cda47SBarry Smith ierr = PetscMalloc((mat->cmap.N+1)*sizeof(PetscInt),&aij->colmap);CHKERRQ(ierr); 29899cda47SBarry Smith ierr = PetscLogObjectMemory(mat,mat->cmap.N*sizeof(PetscInt));CHKERRQ(ierr); 30899cda47SBarry Smith ierr = PetscMemzero(aij->colmap,mat->cmap.N*sizeof(PetscInt));CHKERRQ(ierr); 31905e6a2fSBarry Smith for (i=0; i<n; i++) aij->colmap[aij->garray[i]] = i+1; 32b1fc9764SSatish Balay #endif 333a40ed3dSBarry Smith PetscFunctionReturn(0); 349e25ed09SBarry Smith } 359e25ed09SBarry Smith 36085a36d4SBarry Smith 370520107fSSatish Balay #define CHUNKSIZE 15 3830770e4dSSatish Balay #define MatSetValues_SeqAIJ_A_Private(row,col,value,addv) \ 390520107fSSatish Balay { \ 407cd84e04SBarry Smith if (col <= lastcol1) low1 = 0; else high1 = nrow1; \ 41fd3458f5SBarry Smith lastcol1 = col;\ 42fd3458f5SBarry Smith while (high1-low1 > 5) { \ 43fd3458f5SBarry Smith t = (low1+high1)/2; \ 44fd3458f5SBarry Smith if (rp1[t] > col) high1 = t; \ 45fd3458f5SBarry Smith else low1 = t; \ 46ba4e3ef2SSatish Balay } \ 47fd3458f5SBarry Smith for (_i=low1; _i<high1; _i++) { \ 48fd3458f5SBarry Smith if (rp1[_i] > col) break; \ 49fd3458f5SBarry Smith if (rp1[_i] == col) { \ 50fd3458f5SBarry Smith if (addv == ADD_VALUES) ap1[_i] += value; \ 51fd3458f5SBarry Smith else ap1[_i] = value; \ 5230770e4dSSatish Balay goto a_noinsert; \ 530520107fSSatish Balay } \ 540520107fSSatish Balay } \ 55abc0a331SBarry Smith if (value == 0.0 && ignorezeroentries) goto a_noinsert; \ 5689280ab3SLois Curfman McInnes if (nonew == 1) goto a_noinsert; \ 57085a36d4SBarry Smith if (nonew == -1) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", row, col); \ 58421e10b8SBarry Smith MatSeqXAIJReallocateAIJ(A,am,1,nrow1,row,col,rmax1,aa,ai,aj,rp1,ap1,aimax,nonew,MatScalar); \ 59669a8dbcSSatish Balay N = nrow1++ - 1; a->nz++; high1++; \ 600520107fSSatish Balay /* shift up all the later entries in this row */ \ 610520107fSSatish Balay for (ii=N; ii>=_i; ii--) { \ 62fd3458f5SBarry Smith rp1[ii+1] = rp1[ii]; \ 63fd3458f5SBarry Smith ap1[ii+1] = ap1[ii]; \ 640520107fSSatish Balay } \ 65fd3458f5SBarry Smith rp1[_i] = col; \ 66fd3458f5SBarry Smith ap1[_i] = value; \ 6730770e4dSSatish Balay a_noinsert: ; \ 68fd3458f5SBarry Smith ailen[row] = nrow1; \ 690520107fSSatish Balay } 700a198c4cSBarry Smith 71085a36d4SBarry Smith 7230770e4dSSatish Balay #define MatSetValues_SeqAIJ_B_Private(row,col,value,addv) \ 7330770e4dSSatish Balay { \ 747cd84e04SBarry Smith if (col <= lastcol2) low2 = 0; else high2 = nrow2; \ 75fd3458f5SBarry Smith lastcol2 = col;\ 76fd3458f5SBarry Smith while (high2-low2 > 5) { \ 77fd3458f5SBarry Smith t = (low2+high2)/2; \ 78fd3458f5SBarry Smith if (rp2[t] > col) high2 = t; \ 79fd3458f5SBarry Smith else low2 = t; \ 80ba4e3ef2SSatish Balay } \ 81fd3458f5SBarry Smith for (_i=low2; _i<high2; _i++) { \ 82fd3458f5SBarry Smith if (rp2[_i] > col) break; \ 83fd3458f5SBarry Smith if (rp2[_i] == col) { \ 84fd3458f5SBarry Smith if (addv == ADD_VALUES) ap2[_i] += value; \ 85fd3458f5SBarry Smith else ap2[_i] = value; \ 8630770e4dSSatish Balay goto b_noinsert; \ 8730770e4dSSatish Balay } \ 8830770e4dSSatish Balay } \ 89abc0a331SBarry Smith if (value == 0.0 && ignorezeroentries) goto b_noinsert; \ 9089280ab3SLois Curfman McInnes if (nonew == 1) goto b_noinsert; \ 91085a36d4SBarry Smith if (nonew == -1) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", row, col); \ 92421e10b8SBarry Smith MatSeqXAIJReallocateAIJ(B,bm,1,nrow2,row,col,rmax2,ba,bi,bj,rp2,ap2,bimax,nonew,MatScalar); \ 93669a8dbcSSatish Balay N = nrow2++ - 1; b->nz++; high2++;\ 9430770e4dSSatish Balay /* shift up all the later entries in this row */ \ 9530770e4dSSatish Balay for (ii=N; ii>=_i; ii--) { \ 96fd3458f5SBarry Smith rp2[ii+1] = rp2[ii]; \ 97fd3458f5SBarry Smith ap2[ii+1] = ap2[ii]; \ 9830770e4dSSatish Balay } \ 99fd3458f5SBarry Smith rp2[_i] = col; \ 100fd3458f5SBarry Smith ap2[_i] = value; \ 10130770e4dSSatish Balay b_noinsert: ; \ 102fd3458f5SBarry Smith bilen[row] = nrow2; \ 10330770e4dSSatish Balay } 10430770e4dSSatish Balay 1054a2ae208SSatish Balay #undef __FUNCT__ 1062fd7e33dSBarry Smith #define __FUNCT__ "MatSetValuesRow_MPIAIJ" 1072fd7e33dSBarry Smith PetscErrorCode MatSetValuesRow_MPIAIJ(Mat A,PetscInt row,const PetscScalar v[]) 1082fd7e33dSBarry Smith { 1092fd7e33dSBarry Smith Mat_MPIAIJ *mat = (Mat_MPIAIJ*)A->data; 1102fd7e33dSBarry Smith Mat_SeqAIJ *a = (Mat_SeqAIJ*)mat->A->data,*b = (Mat_SeqAIJ*)mat->B->data; 1112fd7e33dSBarry Smith PetscErrorCode ierr; 1122fd7e33dSBarry Smith PetscInt l,*garray = mat->garray,diag; 1132fd7e33dSBarry Smith 1142fd7e33dSBarry Smith PetscFunctionBegin; 1152fd7e33dSBarry Smith /* code only works for square matrices A */ 1162fd7e33dSBarry Smith 1172fd7e33dSBarry Smith /* find size of row to the left of the diagonal part */ 1182fd7e33dSBarry Smith ierr = MatGetOwnershipRange(A,&diag,0);CHKERRQ(ierr); 1192fd7e33dSBarry Smith row = row - diag; 1202fd7e33dSBarry Smith for (l=0; l<b->i[row+1]-b->i[row]; l++) { 1212fd7e33dSBarry Smith if (garray[b->j[b->i[row]+l]] > diag) break; 1222fd7e33dSBarry Smith } 1232fd7e33dSBarry Smith ierr = PetscMemcpy(b->a+b->i[row],v,l*sizeof(PetscScalar));CHKERRQ(ierr); 1242fd7e33dSBarry Smith 1252fd7e33dSBarry Smith /* diagonal part */ 1262fd7e33dSBarry Smith ierr = PetscMemcpy(a->a+a->i[row],v+l,(a->i[row+1]-a->i[row])*sizeof(PetscScalar));CHKERRQ(ierr); 1272fd7e33dSBarry Smith 1282fd7e33dSBarry Smith /* right of diagonal part */ 1292fd7e33dSBarry Smith ierr = PetscMemcpy(b->a+b->i[row]+l,v+l+a->i[row+1]-a->i[row],(b->i[row+1]-b->i[row]-l)*sizeof(PetscScalar));CHKERRQ(ierr); 1302fd7e33dSBarry Smith PetscFunctionReturn(0); 1312fd7e33dSBarry Smith } 1322fd7e33dSBarry Smith 1332fd7e33dSBarry Smith #undef __FUNCT__ 1344a2ae208SSatish Balay #define __FUNCT__ "MatSetValues_MPIAIJ" 135b1d57f15SBarry Smith PetscErrorCode MatSetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode addv) 1368a729477SBarry Smith { 13744a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 13887828ca2SBarry Smith PetscScalar value; 139dfbe8321SBarry Smith PetscErrorCode ierr; 140899cda47SBarry Smith PetscInt i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend; 141899cda47SBarry Smith PetscInt cstart = mat->cmap.rstart,cend = mat->cmap.rend,row,col; 142273d9f13SBarry Smith PetscTruth roworiented = aij->roworiented; 1438a729477SBarry Smith 1440520107fSSatish Balay /* Some Variables required in the macro */ 1454ee7247eSSatish Balay Mat A = aij->A; 1464ee7247eSSatish Balay Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 14757809a77SBarry Smith PetscInt *aimax = a->imax,*ai = a->i,*ailen = a->ilen,*aj = a->j; 14887828ca2SBarry Smith PetscScalar *aa = a->a; 149329f5518SBarry Smith PetscTruth ignorezeroentries = (((a->ignorezeroentries)&&(addv==ADD_VALUES))?PETSC_TRUE:PETSC_FALSE); 15030770e4dSSatish Balay Mat B = aij->B; 15130770e4dSSatish Balay Mat_SeqAIJ *b = (Mat_SeqAIJ*)B->data; 152899cda47SBarry Smith PetscInt *bimax = b->imax,*bi = b->i,*bilen = b->ilen,*bj = b->j,bm = aij->B->rmap.n,am = aij->A->rmap.n; 15387828ca2SBarry Smith PetscScalar *ba = b->a; 15430770e4dSSatish Balay 155fd3458f5SBarry Smith PetscInt *rp1,*rp2,ii,nrow1,nrow2,_i,rmax1,rmax2,N,low1,high1,low2,high2,t,lastcol1,lastcol2; 156fd3458f5SBarry Smith PetscInt nonew = a->nonew; 157fd3458f5SBarry Smith PetscScalar *ap1,*ap2; 1584ee7247eSSatish Balay 1593a40ed3dSBarry Smith PetscFunctionBegin; 1608a729477SBarry Smith for (i=0; i<m; i++) { 1615ef9f2a5SBarry Smith if (im[i] < 0) continue; 1622515c552SBarry Smith #if defined(PETSC_USE_DEBUG) 163899cda47SBarry Smith if (im[i] >= mat->rmap.N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",im[i],mat->rmap.N-1); 1640a198c4cSBarry Smith #endif 1654b0e389bSBarry Smith if (im[i] >= rstart && im[i] < rend) { 1664b0e389bSBarry Smith row = im[i] - rstart; 167fd3458f5SBarry Smith lastcol1 = -1; 168fd3458f5SBarry Smith rp1 = aj + ai[row]; 169fd3458f5SBarry Smith ap1 = aa + ai[row]; 170fd3458f5SBarry Smith rmax1 = aimax[row]; 171fd3458f5SBarry Smith nrow1 = ailen[row]; 172fd3458f5SBarry Smith low1 = 0; 173fd3458f5SBarry Smith high1 = nrow1; 174fd3458f5SBarry Smith lastcol2 = -1; 175fd3458f5SBarry Smith rp2 = bj + bi[row]; 176d498b1e9SBarry Smith ap2 = ba + bi[row]; 177fd3458f5SBarry Smith rmax2 = bimax[row]; 178d498b1e9SBarry Smith nrow2 = bilen[row]; 179fd3458f5SBarry Smith low2 = 0; 180fd3458f5SBarry Smith high2 = nrow2; 181fd3458f5SBarry Smith 1821eb62cbbSBarry Smith for (j=0; j<n; j++) { 1834b0e389bSBarry Smith if (roworiented) value = v[i*n+j]; else value = v[i+j*m]; 184abc0a331SBarry Smith if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES)) continue; 185fd3458f5SBarry Smith if (in[j] >= cstart && in[j] < cend){ 186fd3458f5SBarry Smith col = in[j] - cstart; 18730770e4dSSatish Balay MatSetValues_SeqAIJ_A_Private(row,col,value,addv); 188273d9f13SBarry Smith } else if (in[j] < 0) continue; 1892515c552SBarry Smith #if defined(PETSC_USE_DEBUG) 190899cda47SBarry Smith else if (in[j] >= mat->cmap.N) {SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",in[j],mat->cmap.N-1);} 1910a198c4cSBarry Smith #endif 1921eb62cbbSBarry Smith else { 193227d817aSBarry Smith if (mat->was_assembled) { 194905e6a2fSBarry Smith if (!aij->colmap) { 195905e6a2fSBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 196905e6a2fSBarry Smith } 197aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 1980f5bd95cSBarry Smith ierr = PetscTableFind(aij->colmap,in[j]+1,&col);CHKERRQ(ierr); 199fa46199cSSatish Balay col--; 200b1fc9764SSatish Balay #else 201905e6a2fSBarry Smith col = aij->colmap[in[j]] - 1; 202b1fc9764SSatish Balay #endif 203ec8511deSBarry Smith if (col < 0 && !((Mat_SeqAIJ*)(aij->A->data))->nonew) { 2042493cbb0SBarry Smith ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 2054b0e389bSBarry Smith col = in[j]; 2069bf004c3SSatish Balay /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 207f9508a3cSSatish Balay B = aij->B; 208f9508a3cSSatish Balay b = (Mat_SeqAIJ*)B->data; 209f9508a3cSSatish Balay bimax = b->imax; bi = b->i; bilen = b->ilen; bj = b->j; 210d498b1e9SBarry Smith rp2 = bj + bi[row]; 211d498b1e9SBarry Smith ap2 = ba + bi[row]; 212d498b1e9SBarry Smith rmax2 = bimax[row]; 213d498b1e9SBarry Smith nrow2 = bilen[row]; 214d498b1e9SBarry Smith low2 = 0; 215d498b1e9SBarry Smith high2 = nrow2; 216899cda47SBarry Smith bm = aij->B->rmap.n; 217f9508a3cSSatish Balay ba = b->a; 218d6dfbf8fSBarry Smith } 219c48de900SBarry Smith } else col = in[j]; 22030770e4dSSatish Balay MatSetValues_SeqAIJ_B_Private(row,col,value,addv); 2211eb62cbbSBarry Smith } 2221eb62cbbSBarry Smith } 2235ef9f2a5SBarry Smith } else { 22490f02eecSBarry Smith if (!aij->donotstash) { 225d36fbae8SSatish Balay if (roworiented) { 2265b8514ebSBarry Smith if (ignorezeroentries && v[i*n] == 0.0) continue; 2278798bf22SSatish Balay ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n);CHKERRQ(ierr); 228d36fbae8SSatish Balay } else { 2295b8514ebSBarry Smith if (ignorezeroentries && v[i] == 0.0) continue; 2308798bf22SSatish Balay ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m);CHKERRQ(ierr); 2314b0e389bSBarry Smith } 2321eb62cbbSBarry Smith } 2338a729477SBarry Smith } 23490f02eecSBarry Smith } 2353a40ed3dSBarry Smith PetscFunctionReturn(0); 2368a729477SBarry Smith } 2378a729477SBarry Smith 238085a36d4SBarry Smith 2394a2ae208SSatish Balay #undef __FUNCT__ 2404a2ae208SSatish Balay #define __FUNCT__ "MatGetValues_MPIAIJ" 241b1d57f15SBarry Smith PetscErrorCode MatGetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt idxm[],PetscInt n,const PetscInt idxn[],PetscScalar v[]) 242b49de8d1SLois Curfman McInnes { 243b49de8d1SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 244dfbe8321SBarry Smith PetscErrorCode ierr; 245899cda47SBarry Smith PetscInt i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend; 246899cda47SBarry Smith PetscInt cstart = mat->cmap.rstart,cend = mat->cmap.rend,row,col; 247b49de8d1SLois Curfman McInnes 2483a40ed3dSBarry Smith PetscFunctionBegin; 249b49de8d1SLois Curfman McInnes for (i=0; i<m; i++) { 25077431f27SBarry Smith if (idxm[i] < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative row: %D",idxm[i]); 251899cda47SBarry Smith if (idxm[i] >= mat->rmap.N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",idxm[i],mat->rmap.N-1); 252b49de8d1SLois Curfman McInnes if (idxm[i] >= rstart && idxm[i] < rend) { 253b49de8d1SLois Curfman McInnes row = idxm[i] - rstart; 254b49de8d1SLois Curfman McInnes for (j=0; j<n; j++) { 25577431f27SBarry Smith if (idxn[j] < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative column: %D",idxn[j]); 256899cda47SBarry Smith if (idxn[j] >= mat->cmap.N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",idxn[j],mat->cmap.N-1); 257b49de8d1SLois Curfman McInnes if (idxn[j] >= cstart && idxn[j] < cend){ 258b49de8d1SLois Curfman McInnes col = idxn[j] - cstart; 259b49de8d1SLois Curfman McInnes ierr = MatGetValues(aij->A,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 260fa852ad4SSatish Balay } else { 261905e6a2fSBarry Smith if (!aij->colmap) { 262905e6a2fSBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 263905e6a2fSBarry Smith } 264aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 2650f5bd95cSBarry Smith ierr = PetscTableFind(aij->colmap,idxn[j]+1,&col);CHKERRQ(ierr); 266fa46199cSSatish Balay col --; 267b1fc9764SSatish Balay #else 268905e6a2fSBarry Smith col = aij->colmap[idxn[j]] - 1; 269b1fc9764SSatish Balay #endif 270e60e1c95SSatish Balay if ((col < 0) || (aij->garray[col] != idxn[j])) *(v+i*n+j) = 0.0; 271d9d09a02SSatish Balay else { 272b49de8d1SLois Curfman McInnes ierr = MatGetValues(aij->B,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 273b49de8d1SLois Curfman McInnes } 274b49de8d1SLois Curfman McInnes } 275b49de8d1SLois Curfman McInnes } 276a8c6a408SBarry Smith } else { 27729bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Only local values currently supported"); 278b49de8d1SLois Curfman McInnes } 279b49de8d1SLois Curfman McInnes } 2803a40ed3dSBarry Smith PetscFunctionReturn(0); 281b49de8d1SLois Curfman McInnes } 282bc5ccf88SSatish Balay 2834a2ae208SSatish Balay #undef __FUNCT__ 2844a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyBegin_MPIAIJ" 285dfbe8321SBarry Smith PetscErrorCode MatAssemblyBegin_MPIAIJ(Mat mat,MatAssemblyType mode) 286bc5ccf88SSatish Balay { 287bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 288dfbe8321SBarry Smith PetscErrorCode ierr; 289b1d57f15SBarry Smith PetscInt nstash,reallocs; 290bc5ccf88SSatish Balay InsertMode addv; 291bc5ccf88SSatish Balay 292bc5ccf88SSatish Balay PetscFunctionBegin; 293bc5ccf88SSatish Balay if (aij->donotstash) { 294bc5ccf88SSatish Balay PetscFunctionReturn(0); 295bc5ccf88SSatish Balay } 296bc5ccf88SSatish Balay 297bc5ccf88SSatish Balay /* make sure all processors are either in INSERTMODE or ADDMODE */ 298bc5ccf88SSatish Balay ierr = MPI_Allreduce(&mat->insertmode,&addv,1,MPI_INT,MPI_BOR,mat->comm);CHKERRQ(ierr); 299bc5ccf88SSatish Balay if (addv == (ADD_VALUES|INSERT_VALUES)) { 30029bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Some processors inserted others added"); 301bc5ccf88SSatish Balay } 302bc5ccf88SSatish Balay mat->insertmode = addv; /* in case this processor had no cache */ 303bc5ccf88SSatish Balay 304899cda47SBarry Smith ierr = MatStashScatterBegin_Private(&mat->stash,mat->rmap.range);CHKERRQ(ierr); 3058798bf22SSatish Balay ierr = MatStashGetInfo_Private(&mat->stash,&nstash,&reallocs);CHKERRQ(ierr); 306ae15b995SBarry Smith ierr = PetscInfo2(aij->A,"Stash has %D entries, uses %D mallocs.\n",nstash,reallocs);CHKERRQ(ierr); 307bc5ccf88SSatish Balay PetscFunctionReturn(0); 308bc5ccf88SSatish Balay } 309bc5ccf88SSatish Balay 3104a2ae208SSatish Balay #undef __FUNCT__ 3114a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyEnd_MPIAIJ" 312dfbe8321SBarry Smith PetscErrorCode MatAssemblyEnd_MPIAIJ(Mat mat,MatAssemblyType mode) 313bc5ccf88SSatish Balay { 314bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 31591c97fd4SSatish Balay Mat_SeqAIJ *a=(Mat_SeqAIJ *)aij->A->data; 3166849ba73SBarry Smith PetscErrorCode ierr; 317b1d57f15SBarry Smith PetscMPIInt n; 318b1d57f15SBarry Smith PetscInt i,j,rstart,ncols,flg; 319b1d57f15SBarry Smith PetscInt *row,*col,other_disassembled; 32087828ca2SBarry Smith PetscScalar *val; 321bc5ccf88SSatish Balay InsertMode addv = mat->insertmode; 322bc5ccf88SSatish Balay 32391c97fd4SSatish Balay /* do not use 'b = (Mat_SeqAIJ *)aij->B->data' as B can be reset in disassembly */ 324bc5ccf88SSatish Balay PetscFunctionBegin; 325bc5ccf88SSatish Balay if (!aij->donotstash) { 326a2d1c673SSatish Balay while (1) { 3278798bf22SSatish Balay ierr = MatStashScatterGetMesg_Private(&mat->stash,&n,&row,&col,&val,&flg);CHKERRQ(ierr); 328a2d1c673SSatish Balay if (!flg) break; 329a2d1c673SSatish Balay 330bc5ccf88SSatish Balay for (i=0; i<n;) { 331bc5ccf88SSatish Balay /* Now identify the consecutive vals belonging to the same row */ 332bc5ccf88SSatish Balay for (j=i,rstart=row[j]; j<n; j++) { if (row[j] != rstart) break; } 333bc5ccf88SSatish Balay if (j < n) ncols = j-i; 334bc5ccf88SSatish Balay else ncols = n-i; 335bc5ccf88SSatish Balay /* Now assemble all these values with a single function call */ 336bc5ccf88SSatish Balay ierr = MatSetValues_MPIAIJ(mat,1,row+i,ncols,col+i,val+i,addv);CHKERRQ(ierr); 337bc5ccf88SSatish Balay i = j; 338bc5ccf88SSatish Balay } 339bc5ccf88SSatish Balay } 3408798bf22SSatish Balay ierr = MatStashScatterEnd_Private(&mat->stash);CHKERRQ(ierr); 341bc5ccf88SSatish Balay } 3422f53aa61SHong Zhang a->compressedrow.use = PETSC_FALSE; 343bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->A,mode);CHKERRQ(ierr); 344bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->A,mode);CHKERRQ(ierr); 345bc5ccf88SSatish Balay 346bc5ccf88SSatish Balay /* determine if any processor has disassembled, if so we must 347bc5ccf88SSatish Balay also disassemble ourselfs, in order that we may reassemble. */ 348bc5ccf88SSatish Balay /* 349bc5ccf88SSatish Balay if nonzero structure of submatrix B cannot change then we know that 350bc5ccf88SSatish Balay no processor disassembled thus we can skip this stuff 351bc5ccf88SSatish Balay */ 352bc5ccf88SSatish Balay if (!((Mat_SeqAIJ*)aij->B->data)->nonew) { 353bc5ccf88SSatish Balay ierr = MPI_Allreduce(&mat->was_assembled,&other_disassembled,1,MPI_INT,MPI_PROD,mat->comm);CHKERRQ(ierr); 354bc5ccf88SSatish Balay if (mat->was_assembled && !other_disassembled) { 355bc5ccf88SSatish Balay ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 356ad59fb31SSatish Balay } 357ad59fb31SSatish Balay } 358bc5ccf88SSatish Balay if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) { 359bc5ccf88SSatish Balay ierr = MatSetUpMultiply_MPIAIJ(mat);CHKERRQ(ierr); 360bc5ccf88SSatish Balay } 361923f20ffSKris Buschelman ierr = MatSetOption(aij->B,MAT_DO_NOT_USE_INODES);CHKERRQ(ierr); 36291c97fd4SSatish Balay ((Mat_SeqAIJ *)aij->B->data)->compressedrow.use = PETSC_TRUE; /* b->compressedrow.use */ 363bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->B,mode);CHKERRQ(ierr); 364bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->B,mode);CHKERRQ(ierr); 365bc5ccf88SSatish Balay 366606d414cSSatish Balay ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr); 367606d414cSSatish Balay aij->rowvalues = 0; 368a30b2313SHong Zhang 369a30b2313SHong Zhang /* used by MatAXPY() */ 37091c97fd4SSatish Balay a->xtoy = 0; ((Mat_SeqAIJ *)aij->B->data)->xtoy = 0; /* b->xtoy = 0 */ 37191c97fd4SSatish Balay a->XtoY = 0; ((Mat_SeqAIJ *)aij->B->data)->XtoY = 0; /* b->XtoY = 0 */ 372a30b2313SHong Zhang 373bc5ccf88SSatish Balay PetscFunctionReturn(0); 374bc5ccf88SSatish Balay } 375bc5ccf88SSatish Balay 3764a2ae208SSatish Balay #undef __FUNCT__ 3774a2ae208SSatish Balay #define __FUNCT__ "MatZeroEntries_MPIAIJ" 378dfbe8321SBarry Smith PetscErrorCode MatZeroEntries_MPIAIJ(Mat A) 3791eb62cbbSBarry Smith { 38044a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 381dfbe8321SBarry Smith PetscErrorCode ierr; 3823a40ed3dSBarry Smith 3833a40ed3dSBarry Smith PetscFunctionBegin; 38478b31e54SBarry Smith ierr = MatZeroEntries(l->A);CHKERRQ(ierr); 38578b31e54SBarry Smith ierr = MatZeroEntries(l->B);CHKERRQ(ierr); 3863a40ed3dSBarry Smith PetscFunctionReturn(0); 3871eb62cbbSBarry Smith } 3881eb62cbbSBarry Smith 3894a2ae208SSatish Balay #undef __FUNCT__ 3904a2ae208SSatish Balay #define __FUNCT__ "MatZeroRows_MPIAIJ" 391f4df32b1SMatthew Knepley PetscErrorCode MatZeroRows_MPIAIJ(Mat A,PetscInt N,const PetscInt rows[],PetscScalar diag) 3921eb62cbbSBarry Smith { 39344a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 3946849ba73SBarry Smith PetscErrorCode ierr; 3956543fbbaSBarry Smith PetscMPIInt size = l->size,imdex,n,rank = l->rank,tag = A->tag,lastidx = -1; 396899cda47SBarry Smith PetscInt i,*owners = A->rmap.range; 397b1d57f15SBarry Smith PetscInt *nprocs,j,idx,nsends,row; 398b1d57f15SBarry Smith PetscInt nmax,*svalues,*starts,*owner,nrecvs; 399b1d57f15SBarry Smith PetscInt *rvalues,count,base,slen,*source; 400899cda47SBarry Smith PetscInt *lens,*lrows,*values,rstart=A->rmap.rstart; 401d6dfbf8fSBarry Smith MPI_Comm comm = A->comm; 4021eb62cbbSBarry Smith MPI_Request *send_waits,*recv_waits; 4031eb62cbbSBarry Smith MPI_Status recv_status,*send_status; 4046543fbbaSBarry Smith #if defined(PETSC_DEBUG) 4056543fbbaSBarry Smith PetscTruth found = PETSC_FALSE; 4066543fbbaSBarry Smith #endif 4071eb62cbbSBarry Smith 4083a40ed3dSBarry Smith PetscFunctionBegin; 4091eb62cbbSBarry Smith /* first count number of contributors to each processor */ 410b1d57f15SBarry Smith ierr = PetscMalloc(2*size*sizeof(PetscInt),&nprocs);CHKERRQ(ierr); 411b1d57f15SBarry Smith ierr = PetscMemzero(nprocs,2*size*sizeof(PetscInt));CHKERRQ(ierr); 412b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&owner);CHKERRQ(ierr); /* see note*/ 4136543fbbaSBarry Smith j = 0; 4141eb62cbbSBarry Smith for (i=0; i<N; i++) { 4156543fbbaSBarry Smith if (lastidx > (idx = rows[i])) j = 0; 4166543fbbaSBarry Smith lastidx = idx; 4176543fbbaSBarry Smith for (; j<size; j++) { 4181eb62cbbSBarry Smith if (idx >= owners[j] && idx < owners[j+1]) { 4196543fbbaSBarry Smith nprocs[2*j]++; 4206543fbbaSBarry Smith nprocs[2*j+1] = 1; 4216543fbbaSBarry Smith owner[i] = j; 4226543fbbaSBarry Smith #if defined(PETSC_DEBUG) 4236543fbbaSBarry Smith found = PETSC_TRUE; 4246543fbbaSBarry Smith #endif 4256543fbbaSBarry Smith break; 4261eb62cbbSBarry Smith } 4271eb62cbbSBarry Smith } 4286543fbbaSBarry Smith #if defined(PETSC_DEBUG) 42929bbc08cSBarry Smith if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Index out of range"); 4306543fbbaSBarry Smith found = PETSC_FALSE; 4316543fbbaSBarry Smith #endif 4321eb62cbbSBarry Smith } 433c1dc657dSBarry Smith nsends = 0; for (i=0; i<size; i++) { nsends += nprocs[2*i+1];} 4341eb62cbbSBarry Smith 4351eb62cbbSBarry Smith /* inform other processors of number of messages and max length*/ 436c1dc657dSBarry Smith ierr = PetscMaxSum(comm,nprocs,&nmax,&nrecvs);CHKERRQ(ierr); 4371eb62cbbSBarry Smith 4381eb62cbbSBarry Smith /* post receives: */ 439b1d57f15SBarry Smith ierr = PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(PetscInt),&rvalues);CHKERRQ(ierr); 440b0a32e0cSBarry Smith ierr = PetscMalloc((nrecvs+1)*sizeof(MPI_Request),&recv_waits);CHKERRQ(ierr); 4411eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 442b1d57f15SBarry Smith ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPIU_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr); 4431eb62cbbSBarry Smith } 4441eb62cbbSBarry Smith 4451eb62cbbSBarry Smith /* do sends: 4461eb62cbbSBarry Smith 1) starts[i] gives the starting index in svalues for stuff going to 4471eb62cbbSBarry Smith the ith processor 4481eb62cbbSBarry Smith */ 449b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&svalues);CHKERRQ(ierr); 450b0a32e0cSBarry Smith ierr = PetscMalloc((nsends+1)*sizeof(MPI_Request),&send_waits);CHKERRQ(ierr); 451b1d57f15SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&starts);CHKERRQ(ierr); 4521eb62cbbSBarry Smith starts[0] = 0; 453c1dc657dSBarry Smith for (i=1; i<size; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4541eb62cbbSBarry Smith for (i=0; i<N; i++) { 4551eb62cbbSBarry Smith svalues[starts[owner[i]]++] = rows[i]; 4561eb62cbbSBarry Smith } 4571eb62cbbSBarry Smith 4581eb62cbbSBarry Smith starts[0] = 0; 459c1dc657dSBarry Smith for (i=1; i<size+1; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4601eb62cbbSBarry Smith count = 0; 46117699dbbSLois Curfman McInnes for (i=0; i<size; i++) { 462c1dc657dSBarry Smith if (nprocs[2*i+1]) { 463b1d57f15SBarry Smith ierr = MPI_Isend(svalues+starts[i],nprocs[2*i],MPIU_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr); 4641eb62cbbSBarry Smith } 4651eb62cbbSBarry Smith } 466606d414cSSatish Balay ierr = PetscFree(starts);CHKERRQ(ierr); 4671eb62cbbSBarry Smith 46817699dbbSLois Curfman McInnes base = owners[rank]; 4691eb62cbbSBarry Smith 4701eb62cbbSBarry Smith /* wait on receives */ 471b1d57f15SBarry Smith ierr = PetscMalloc(2*(nrecvs+1)*sizeof(PetscInt),&lens);CHKERRQ(ierr); 4721eb62cbbSBarry Smith source = lens + nrecvs; 4731eb62cbbSBarry Smith count = nrecvs; slen = 0; 4741eb62cbbSBarry Smith while (count) { 475ca161407SBarry Smith ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr); 4761eb62cbbSBarry Smith /* unpack receives into our local space */ 477b1d57f15SBarry Smith ierr = MPI_Get_count(&recv_status,MPIU_INT,&n);CHKERRQ(ierr); 478d6dfbf8fSBarry Smith source[imdex] = recv_status.MPI_SOURCE; 479d6dfbf8fSBarry Smith lens[imdex] = n; 4801eb62cbbSBarry Smith slen += n; 4811eb62cbbSBarry Smith count--; 4821eb62cbbSBarry Smith } 483606d414cSSatish Balay ierr = PetscFree(recv_waits);CHKERRQ(ierr); 4841eb62cbbSBarry Smith 4851eb62cbbSBarry Smith /* move the data into the send scatter */ 486b1d57f15SBarry Smith ierr = PetscMalloc((slen+1)*sizeof(PetscInt),&lrows);CHKERRQ(ierr); 4871eb62cbbSBarry Smith count = 0; 4881eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 4891eb62cbbSBarry Smith values = rvalues + i*nmax; 4901eb62cbbSBarry Smith for (j=0; j<lens[i]; j++) { 4911eb62cbbSBarry Smith lrows[count++] = values[j] - base; 4921eb62cbbSBarry Smith } 4931eb62cbbSBarry Smith } 494606d414cSSatish Balay ierr = PetscFree(rvalues);CHKERRQ(ierr); 495606d414cSSatish Balay ierr = PetscFree(lens);CHKERRQ(ierr); 496606d414cSSatish Balay ierr = PetscFree(owner);CHKERRQ(ierr); 497606d414cSSatish Balay ierr = PetscFree(nprocs);CHKERRQ(ierr); 4981eb62cbbSBarry Smith 4991eb62cbbSBarry Smith /* actually zap the local rows */ 5006eb55b6aSBarry Smith /* 5016eb55b6aSBarry Smith Zero the required rows. If the "diagonal block" of the matrix 502a8c7a070SBarry Smith is square and the user wishes to set the diagonal we use separate 5036eb55b6aSBarry Smith code so that MatSetValues() is not called for each diagonal allocating 5046eb55b6aSBarry Smith new memory, thus calling lots of mallocs and slowing things down. 5056eb55b6aSBarry Smith 506f4df32b1SMatthew Knepley Contributed by: Matthew Knepley 5076eb55b6aSBarry Smith */ 508e2d53e46SBarry Smith /* must zero l->B before l->A because the (diag) case below may put values into l->B*/ 509f4df32b1SMatthew Knepley ierr = MatZeroRows(l->B,slen,lrows,0.0);CHKERRQ(ierr); 510899cda47SBarry Smith if ((diag != 0.0) && (l->A->rmap.N == l->A->cmap.N)) { 511f4df32b1SMatthew Knepley ierr = MatZeroRows(l->A,slen,lrows,diag);CHKERRQ(ierr); 512f4df32b1SMatthew Knepley } else if (diag != 0.0) { 513f4df32b1SMatthew Knepley ierr = MatZeroRows(l->A,slen,lrows,0.0);CHKERRQ(ierr); 514fa46199cSSatish Balay if (((Mat_SeqAIJ*)l->A->data)->nonew) { 51529bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MatZeroRows() on rectangular matrices cannot be used with the Mat options\n\ 516fa46199cSSatish Balay MAT_NO_NEW_NONZERO_LOCATIONS,MAT_NEW_NONZERO_LOCATION_ERR,MAT_NEW_NONZERO_ALLOCATION_ERR"); 5176525c446SSatish Balay } 518e2d53e46SBarry Smith for (i = 0; i < slen; i++) { 519e2d53e46SBarry Smith row = lrows[i] + rstart; 520f4df32b1SMatthew Knepley ierr = MatSetValues(A,1,&row,1,&row,&diag,INSERT_VALUES);CHKERRQ(ierr); 521e2d53e46SBarry Smith } 522e2d53e46SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 523e2d53e46SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 5246eb55b6aSBarry Smith } else { 525f4df32b1SMatthew Knepley ierr = MatZeroRows(l->A,slen,lrows,0.0);CHKERRQ(ierr); 5266eb55b6aSBarry Smith } 527606d414cSSatish Balay ierr = PetscFree(lrows);CHKERRQ(ierr); 52872dacd9aSBarry Smith 5291eb62cbbSBarry Smith /* wait on sends */ 5301eb62cbbSBarry Smith if (nsends) { 531b0a32e0cSBarry Smith ierr = PetscMalloc(nsends*sizeof(MPI_Status),&send_status);CHKERRQ(ierr); 532ca161407SBarry Smith ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr); 533606d414cSSatish Balay ierr = PetscFree(send_status);CHKERRQ(ierr); 5341eb62cbbSBarry Smith } 535606d414cSSatish Balay ierr = PetscFree(send_waits);CHKERRQ(ierr); 536606d414cSSatish Balay ierr = PetscFree(svalues);CHKERRQ(ierr); 5371eb62cbbSBarry Smith 5383a40ed3dSBarry Smith PetscFunctionReturn(0); 5391eb62cbbSBarry Smith } 5401eb62cbbSBarry Smith 5414a2ae208SSatish Balay #undef __FUNCT__ 5424a2ae208SSatish Balay #define __FUNCT__ "MatMult_MPIAIJ" 543dfbe8321SBarry Smith PetscErrorCode MatMult_MPIAIJ(Mat A,Vec xx,Vec yy) 5441eb62cbbSBarry Smith { 545416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 546dfbe8321SBarry Smith PetscErrorCode ierr; 547b1d57f15SBarry Smith PetscInt nt; 548416022c9SBarry Smith 5493a40ed3dSBarry Smith PetscFunctionBegin; 550a2ce50c7SBarry Smith ierr = VecGetLocalSize(xx,&nt);CHKERRQ(ierr); 551899cda47SBarry Smith if (nt != A->cmap.n) { 552899cda47SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Incompatible partition of A (%D) and xx (%D)",A->cmap.n,nt); 553fbd6ef76SBarry Smith } 55443a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 555f830108cSBarry Smith ierr = (*a->A->ops->mult)(a->A,xx,yy);CHKERRQ(ierr); 55643a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 557f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,yy,yy);CHKERRQ(ierr); 5583a40ed3dSBarry Smith PetscFunctionReturn(0); 5591eb62cbbSBarry Smith } 5601eb62cbbSBarry Smith 5614a2ae208SSatish Balay #undef __FUNCT__ 5624a2ae208SSatish Balay #define __FUNCT__ "MatMultAdd_MPIAIJ" 563dfbe8321SBarry Smith PetscErrorCode MatMultAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 564da3a660dSBarry Smith { 565416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 566dfbe8321SBarry Smith PetscErrorCode ierr; 5673a40ed3dSBarry Smith 5683a40ed3dSBarry Smith PetscFunctionBegin; 56943a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 570f830108cSBarry Smith ierr = (*a->A->ops->multadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 57143a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 572f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,zz,zz);CHKERRQ(ierr); 5733a40ed3dSBarry Smith PetscFunctionReturn(0); 574da3a660dSBarry Smith } 575da3a660dSBarry Smith 5764a2ae208SSatish Balay #undef __FUNCT__ 5774a2ae208SSatish Balay #define __FUNCT__ "MatMultTranspose_MPIAIJ" 578dfbe8321SBarry Smith PetscErrorCode MatMultTranspose_MPIAIJ(Mat A,Vec xx,Vec yy) 579da3a660dSBarry Smith { 580416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 581dfbe8321SBarry Smith PetscErrorCode ierr; 582a5ff213dSBarry Smith PetscTruth merged; 583da3a660dSBarry Smith 5843a40ed3dSBarry Smith PetscFunctionBegin; 585a5ff213dSBarry Smith ierr = VecScatterGetMerged(a->Mvctx,&merged);CHKERRQ(ierr); 586da3a660dSBarry Smith /* do nondiagonal part */ 5877c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 588a5ff213dSBarry Smith if (!merged) { 589da3a660dSBarry Smith /* send it on its way */ 590537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 591da3a660dSBarry Smith /* do local part */ 5927c922b88SBarry Smith ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 593da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 594a5ff213dSBarry Smith /* added in yy until the next line, */ 595537820f0SBarry Smith ierr = VecScatterEnd(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 596a5ff213dSBarry Smith } else { 597a5ff213dSBarry Smith /* do local part */ 598a5ff213dSBarry Smith ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 599a5ff213dSBarry Smith /* send it on its way */ 600a5ff213dSBarry Smith ierr = VecScatterBegin(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 601a5ff213dSBarry Smith /* values actually were received in the Begin() but we need to call this nop */ 602a5ff213dSBarry Smith ierr = VecScatterEnd(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 603a5ff213dSBarry Smith } 6043a40ed3dSBarry Smith PetscFunctionReturn(0); 605da3a660dSBarry Smith } 606da3a660dSBarry Smith 607cd0d46ebSvictorle EXTERN_C_BEGIN 608cd0d46ebSvictorle #undef __FUNCT__ 6095fbd3699SBarry Smith #define __FUNCT__ "MatIsTranspose_MPIAIJ" 61013c77408SMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatIsTranspose_MPIAIJ(Mat Amat,Mat Bmat,PetscReal tol,PetscTruth *f) 611cd0d46ebSvictorle { 6124f423910Svictorle MPI_Comm comm; 613cd0d46ebSvictorle Mat_MPIAIJ *Aij = (Mat_MPIAIJ *) Amat->data, *Bij; 61466501d38Svictorle Mat Adia = Aij->A, Bdia, Aoff,Boff,*Aoffs,*Boffs; 615cd0d46ebSvictorle IS Me,Notme; 6166849ba73SBarry Smith PetscErrorCode ierr; 617b1d57f15SBarry Smith PetscInt M,N,first,last,*notme,i; 618b1d57f15SBarry Smith PetscMPIInt size; 619cd0d46ebSvictorle 620cd0d46ebSvictorle PetscFunctionBegin; 62142e5f5b4Svictorle 62242e5f5b4Svictorle /* Easy test: symmetric diagonal block */ 62366501d38Svictorle Bij = (Mat_MPIAIJ *) Bmat->data; Bdia = Bij->A; 6245485867bSBarry Smith ierr = MatIsTranspose(Adia,Bdia,tol,f);CHKERRQ(ierr); 625cd0d46ebSvictorle if (!*f) PetscFunctionReturn(0); 6264f423910Svictorle ierr = PetscObjectGetComm((PetscObject)Amat,&comm);CHKERRQ(ierr); 627b1d57f15SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 628b1d57f15SBarry Smith if (size == 1) PetscFunctionReturn(0); 62942e5f5b4Svictorle 63042e5f5b4Svictorle /* Hard test: off-diagonal block. This takes a MatGetSubMatrix. */ 631cd0d46ebSvictorle ierr = MatGetSize(Amat,&M,&N);CHKERRQ(ierr); 632cd0d46ebSvictorle ierr = MatGetOwnershipRange(Amat,&first,&last);CHKERRQ(ierr); 633b1d57f15SBarry Smith ierr = PetscMalloc((N-last+first)*sizeof(PetscInt),¬me);CHKERRQ(ierr); 634cd0d46ebSvictorle for (i=0; i<first; i++) notme[i] = i; 635cd0d46ebSvictorle for (i=last; i<M; i++) notme[i-last+first] = i; 636268466fbSBarry Smith ierr = ISCreateGeneral(MPI_COMM_SELF,N-last+first,notme,&Notme);CHKERRQ(ierr); 637268466fbSBarry Smith ierr = ISCreateStride(MPI_COMM_SELF,last-first,first,1,&Me);CHKERRQ(ierr); 638268466fbSBarry Smith ierr = MatGetSubMatrices(Amat,1,&Me,&Notme,MAT_INITIAL_MATRIX,&Aoffs);CHKERRQ(ierr); 63966501d38Svictorle Aoff = Aoffs[0]; 640268466fbSBarry Smith ierr = MatGetSubMatrices(Bmat,1,&Notme,&Me,MAT_INITIAL_MATRIX,&Boffs);CHKERRQ(ierr); 64166501d38Svictorle Boff = Boffs[0]; 6425485867bSBarry Smith ierr = MatIsTranspose(Aoff,Boff,tol,f);CHKERRQ(ierr); 64366501d38Svictorle ierr = MatDestroyMatrices(1,&Aoffs);CHKERRQ(ierr); 64466501d38Svictorle ierr = MatDestroyMatrices(1,&Boffs);CHKERRQ(ierr); 64542e5f5b4Svictorle ierr = ISDestroy(Me);CHKERRQ(ierr); 64642e5f5b4Svictorle ierr = ISDestroy(Notme);CHKERRQ(ierr); 64742e5f5b4Svictorle 648cd0d46ebSvictorle PetscFunctionReturn(0); 649cd0d46ebSvictorle } 650cd0d46ebSvictorle EXTERN_C_END 651cd0d46ebSvictorle 6524a2ae208SSatish Balay #undef __FUNCT__ 6534a2ae208SSatish Balay #define __FUNCT__ "MatMultTransposeAdd_MPIAIJ" 654dfbe8321SBarry Smith PetscErrorCode MatMultTransposeAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 655da3a660dSBarry Smith { 656416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 657dfbe8321SBarry Smith PetscErrorCode ierr; 658da3a660dSBarry Smith 6593a40ed3dSBarry Smith PetscFunctionBegin; 660da3a660dSBarry Smith /* do nondiagonal part */ 6617c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 662da3a660dSBarry Smith /* send it on its way */ 663537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 664da3a660dSBarry Smith /* do local part */ 6657c922b88SBarry Smith ierr = (*a->A->ops->multtransposeadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 666a5ff213dSBarry Smith /* receive remote parts */ 6670a198c4cSBarry Smith ierr = VecScatterEnd(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6683a40ed3dSBarry Smith PetscFunctionReturn(0); 669da3a660dSBarry Smith } 670da3a660dSBarry Smith 6711eb62cbbSBarry Smith /* 6721eb62cbbSBarry Smith This only works correctly for square matrices where the subblock A->A is the 6731eb62cbbSBarry Smith diagonal block 6741eb62cbbSBarry Smith */ 6754a2ae208SSatish Balay #undef __FUNCT__ 6764a2ae208SSatish Balay #define __FUNCT__ "MatGetDiagonal_MPIAIJ" 677dfbe8321SBarry Smith PetscErrorCode MatGetDiagonal_MPIAIJ(Mat A,Vec v) 6781eb62cbbSBarry Smith { 679dfbe8321SBarry Smith PetscErrorCode ierr; 680416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 6813a40ed3dSBarry Smith 6823a40ed3dSBarry Smith PetscFunctionBegin; 683899cda47SBarry Smith if (A->rmap.N != A->cmap.N) SETERRQ(PETSC_ERR_SUP,"Supports only square matrix where A->A is diag block"); 684899cda47SBarry Smith if (A->rmap.rstart != A->cmap.rstart || A->rmap.rend != A->cmap.rend) { 68529bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"row partition must equal col partition"); 6863a40ed3dSBarry Smith } 6873a40ed3dSBarry Smith ierr = MatGetDiagonal(a->A,v);CHKERRQ(ierr); 6883a40ed3dSBarry Smith PetscFunctionReturn(0); 6891eb62cbbSBarry Smith } 6901eb62cbbSBarry Smith 6914a2ae208SSatish Balay #undef __FUNCT__ 6924a2ae208SSatish Balay #define __FUNCT__ "MatScale_MPIAIJ" 693f4df32b1SMatthew Knepley PetscErrorCode MatScale_MPIAIJ(Mat A,PetscScalar aa) 694052efed2SBarry Smith { 695052efed2SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 696dfbe8321SBarry Smith PetscErrorCode ierr; 6973a40ed3dSBarry Smith 6983a40ed3dSBarry Smith PetscFunctionBegin; 699f4df32b1SMatthew Knepley ierr = MatScale(a->A,aa);CHKERRQ(ierr); 700f4df32b1SMatthew Knepley ierr = MatScale(a->B,aa);CHKERRQ(ierr); 7013a40ed3dSBarry Smith PetscFunctionReturn(0); 702052efed2SBarry Smith } 703052efed2SBarry Smith 7044a2ae208SSatish Balay #undef __FUNCT__ 7054a2ae208SSatish Balay #define __FUNCT__ "MatDestroy_MPIAIJ" 706dfbe8321SBarry Smith PetscErrorCode MatDestroy_MPIAIJ(Mat mat) 7071eb62cbbSBarry Smith { 70844a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 709dfbe8321SBarry Smith PetscErrorCode ierr; 71083e2fdc7SBarry Smith 7113a40ed3dSBarry Smith PetscFunctionBegin; 712aa482453SBarry Smith #if defined(PETSC_USE_LOG) 713899cda47SBarry Smith PetscLogObjectState((PetscObject)mat,"Rows=%D, Cols=%D",mat->rmap.N,mat->cmap.N); 714a5a9c739SBarry Smith #endif 7158798bf22SSatish Balay ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr); 71678b31e54SBarry Smith ierr = MatDestroy(aij->A);CHKERRQ(ierr); 71778b31e54SBarry Smith ierr = MatDestroy(aij->B);CHKERRQ(ierr); 718aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 7190f5bd95cSBarry Smith if (aij->colmap) {ierr = PetscTableDelete(aij->colmap);CHKERRQ(ierr);} 720b1fc9764SSatish Balay #else 72105b42c5fSBarry Smith ierr = PetscFree(aij->colmap);CHKERRQ(ierr); 722b1fc9764SSatish Balay #endif 72305b42c5fSBarry Smith ierr = PetscFree(aij->garray);CHKERRQ(ierr); 7247c922b88SBarry Smith if (aij->lvec) {ierr = VecDestroy(aij->lvec);CHKERRQ(ierr);} 7257c922b88SBarry Smith if (aij->Mvctx) {ierr = VecScatterDestroy(aij->Mvctx);CHKERRQ(ierr);} 72605b42c5fSBarry Smith ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr); 727606d414cSSatish Balay ierr = PetscFree(aij);CHKERRQ(ierr); 728901853e0SKris Buschelman 729dbd8c25aSHong Zhang ierr = PetscObjectChangeTypeName((PetscObject)mat,0);CHKERRQ(ierr); 730901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatStoreValues_C","",PETSC_NULL);CHKERRQ(ierr); 731901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatRetrieveValues_C","",PETSC_NULL);CHKERRQ(ierr); 732901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatGetDiagonalBlock_C","",PETSC_NULL);CHKERRQ(ierr); 733901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatIsTranspose_C","",PETSC_NULL);CHKERRQ(ierr); 734901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocation_C","",PETSC_NULL);CHKERRQ(ierr); 735ff69c46cSKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocationCSR_C","",PETSC_NULL);CHKERRQ(ierr); 736901853e0SKris Buschelman ierr = PetscObjectComposeFunction((PetscObject)mat,"MatDiagonalScaleLocal_C","",PETSC_NULL);CHKERRQ(ierr); 7373a40ed3dSBarry Smith PetscFunctionReturn(0); 7381eb62cbbSBarry Smith } 739ee50ffe9SBarry Smith 7404a2ae208SSatish Balay #undef __FUNCT__ 7418e2fed03SBarry Smith #define __FUNCT__ "MatView_MPIAIJ_Binary" 742dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_Binary(Mat mat,PetscViewer viewer) 7438e2fed03SBarry Smith { 7448e2fed03SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 7458e2fed03SBarry Smith Mat_SeqAIJ* A = (Mat_SeqAIJ*)aij->A->data; 7468e2fed03SBarry Smith Mat_SeqAIJ* B = (Mat_SeqAIJ*)aij->B->data; 7476849ba73SBarry Smith PetscErrorCode ierr; 74832dcc486SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag; 7496f69ff64SBarry Smith int fd; 750a788621eSSatish Balay PetscInt nz,header[4],*row_lengths,*range=0,rlen,i; 751899cda47SBarry Smith PetscInt nzmax,*column_indices,j,k,col,*garray = aij->garray,cnt,cstart = mat->cmap.rstart,rnz; 7528e2fed03SBarry Smith PetscScalar *column_values; 7538e2fed03SBarry Smith 7548e2fed03SBarry Smith PetscFunctionBegin; 7558e2fed03SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 7568e2fed03SBarry Smith ierr = MPI_Comm_size(mat->comm,&size);CHKERRQ(ierr); 7578e2fed03SBarry Smith nz = A->nz + B->nz; 758958c9bccSBarry Smith if (!rank) { 7598e2fed03SBarry Smith header[0] = MAT_FILE_COOKIE; 760899cda47SBarry Smith header[1] = mat->rmap.N; 761899cda47SBarry Smith header[2] = mat->cmap.N; 762b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,&header[3],1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr); 7638e2fed03SBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 7646f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,header,4,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 7658e2fed03SBarry Smith /* get largest number of rows any processor has */ 766899cda47SBarry Smith rlen = mat->rmap.n; 767357abbc8SBarry Smith range = mat->rmap.range; 7688e2fed03SBarry Smith for (i=1; i<size; i++) { 7698e2fed03SBarry Smith rlen = PetscMax(rlen,range[i+1] - range[i]); 7708e2fed03SBarry Smith } 7718e2fed03SBarry Smith } else { 772b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,0,1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr); 773899cda47SBarry Smith rlen = mat->rmap.n; 7748e2fed03SBarry Smith } 7758e2fed03SBarry Smith 7768e2fed03SBarry Smith /* load up the local row counts */ 777b1d57f15SBarry Smith ierr = PetscMalloc((rlen+1)*sizeof(PetscInt),&row_lengths);CHKERRQ(ierr); 778899cda47SBarry Smith for (i=0; i<mat->rmap.n; i++) { 7798e2fed03SBarry Smith row_lengths[i] = A->i[i+1] - A->i[i] + B->i[i+1] - B->i[i]; 7808e2fed03SBarry Smith } 7818e2fed03SBarry Smith 7828e2fed03SBarry Smith /* store the row lengths to the file */ 783958c9bccSBarry Smith if (!rank) { 7848e2fed03SBarry Smith MPI_Status status; 785899cda47SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,mat->rmap.n,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 7868e2fed03SBarry Smith for (i=1; i<size; i++) { 7878e2fed03SBarry Smith rlen = range[i+1] - range[i]; 788b1d57f15SBarry Smith ierr = MPI_Recv(row_lengths,rlen,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 7896f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,rlen,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 7908e2fed03SBarry Smith } 7918e2fed03SBarry Smith } else { 792899cda47SBarry Smith ierr = MPI_Send(row_lengths,mat->rmap.n,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 7938e2fed03SBarry Smith } 7948e2fed03SBarry Smith ierr = PetscFree(row_lengths);CHKERRQ(ierr); 7958e2fed03SBarry Smith 7968e2fed03SBarry Smith /* load up the local column indices */ 7978e2fed03SBarry Smith nzmax = nz; /* )th processor needs space a largest processor needs */ 798b1d57f15SBarry Smith ierr = MPI_Reduce(&nz,&nzmax,1,MPIU_INT,MPI_MAX,0,mat->comm);CHKERRQ(ierr); 799b1d57f15SBarry Smith ierr = PetscMalloc((nzmax+1)*sizeof(PetscInt),&column_indices);CHKERRQ(ierr); 8008e2fed03SBarry Smith cnt = 0; 801899cda47SBarry Smith for (i=0; i<mat->rmap.n; i++) { 8028e2fed03SBarry Smith for (j=B->i[i]; j<B->i[i+1]; j++) { 8038e2fed03SBarry Smith if ( (col = garray[B->j[j]]) > cstart) break; 8048e2fed03SBarry Smith column_indices[cnt++] = col; 8058e2fed03SBarry Smith } 8068e2fed03SBarry Smith for (k=A->i[i]; k<A->i[i+1]; k++) { 8078e2fed03SBarry Smith column_indices[cnt++] = A->j[k] + cstart; 8088e2fed03SBarry Smith } 8098e2fed03SBarry Smith for (; j<B->i[i+1]; j++) { 8108e2fed03SBarry Smith column_indices[cnt++] = garray[B->j[j]]; 8118e2fed03SBarry Smith } 8128e2fed03SBarry Smith } 81377431f27SBarry Smith if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz); 8148e2fed03SBarry Smith 8158e2fed03SBarry Smith /* store the column indices to the file */ 816958c9bccSBarry Smith if (!rank) { 8178e2fed03SBarry Smith MPI_Status status; 8186f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,nz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8198e2fed03SBarry Smith for (i=1; i<size; i++) { 820b1d57f15SBarry Smith ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 82177431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 822b1d57f15SBarry Smith ierr = MPI_Recv(column_indices,rnz,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 8236f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,rnz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8248e2fed03SBarry Smith } 8258e2fed03SBarry Smith } else { 826b1d57f15SBarry Smith ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 827b1d57f15SBarry Smith ierr = MPI_Send(column_indices,nz,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8288e2fed03SBarry Smith } 8298e2fed03SBarry Smith ierr = PetscFree(column_indices);CHKERRQ(ierr); 8308e2fed03SBarry Smith 8318e2fed03SBarry Smith /* load up the local column values */ 8328e2fed03SBarry Smith ierr = PetscMalloc((nzmax+1)*sizeof(PetscScalar),&column_values);CHKERRQ(ierr); 8338e2fed03SBarry Smith cnt = 0; 834899cda47SBarry Smith for (i=0; i<mat->rmap.n; i++) { 8358e2fed03SBarry Smith for (j=B->i[i]; j<B->i[i+1]; j++) { 8368e2fed03SBarry Smith if ( garray[B->j[j]] > cstart) break; 8378e2fed03SBarry Smith column_values[cnt++] = B->a[j]; 8388e2fed03SBarry Smith } 8398e2fed03SBarry Smith for (k=A->i[i]; k<A->i[i+1]; k++) { 8408e2fed03SBarry Smith column_values[cnt++] = A->a[k]; 8418e2fed03SBarry Smith } 8428e2fed03SBarry Smith for (; j<B->i[i+1]; j++) { 8438e2fed03SBarry Smith column_values[cnt++] = B->a[j]; 8448e2fed03SBarry Smith } 8458e2fed03SBarry Smith } 84677431f27SBarry Smith if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_PLIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz); 8478e2fed03SBarry Smith 8488e2fed03SBarry Smith /* store the column values to the file */ 849958c9bccSBarry Smith if (!rank) { 8508e2fed03SBarry Smith MPI_Status status; 8516f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,nz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8528e2fed03SBarry Smith for (i=1; i<size; i++) { 853b1d57f15SBarry Smith ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr); 85477431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 855b021249fSBarry Smith ierr = MPI_Recv(column_values,rnz,MPIU_SCALAR,i,tag,mat->comm,&status);CHKERRQ(ierr); 8566f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,rnz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8578e2fed03SBarry Smith } 8588e2fed03SBarry Smith } else { 859b1d57f15SBarry Smith ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr); 8608e2fed03SBarry Smith ierr = MPI_Send(column_values,nz,MPIU_SCALAR,0,tag,mat->comm);CHKERRQ(ierr); 8618e2fed03SBarry Smith } 8628e2fed03SBarry Smith ierr = PetscFree(column_values);CHKERRQ(ierr); 8638e2fed03SBarry Smith PetscFunctionReturn(0); 8648e2fed03SBarry Smith } 8658e2fed03SBarry Smith 8668e2fed03SBarry Smith #undef __FUNCT__ 8674a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ_ASCIIorDraworSocket" 868dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_ASCIIorDraworSocket(Mat mat,PetscViewer viewer) 869416022c9SBarry Smith { 87044a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 871dfbe8321SBarry Smith PetscErrorCode ierr; 87232dcc486SBarry Smith PetscMPIInt rank = aij->rank,size = aij->size; 873d38fa0fbSBarry Smith PetscTruth isdraw,iascii,isbinary; 874b0a32e0cSBarry Smith PetscViewer sviewer; 875f3ef73ceSBarry Smith PetscViewerFormat format; 876416022c9SBarry Smith 8773a40ed3dSBarry Smith PetscFunctionBegin; 878fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 87932077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 8808e2fed03SBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 88132077d6dSBarry Smith if (iascii) { 882b0a32e0cSBarry Smith ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 883456192e2SBarry Smith if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 8844e220ebcSLois Curfman McInnes MatInfo info; 885923f20ffSKris Buschelman PetscTruth inodes; 886923f20ffSKris Buschelman 8871dab6e02SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 888888f2ed8SSatish Balay ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr); 889923f20ffSKris Buschelman ierr = MatInodeGetInodeSizes(aij->A,PETSC_NULL,(PetscInt **)&inodes,PETSC_NULL);CHKERRQ(ierr); 890923f20ffSKris Buschelman if (!inodes) { 89177431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, not using I-node routines\n", 892899cda47SBarry Smith rank,mat->rmap.n,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 8936831982aSBarry Smith } else { 89477431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, using I-node routines\n", 895899cda47SBarry Smith rank,mat->rmap.n,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr); 8966831982aSBarry Smith } 897888f2ed8SSatish Balay ierr = MatGetInfo(aij->A,MAT_LOCAL,&info);CHKERRQ(ierr); 89877431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] on-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 899888f2ed8SSatish Balay ierr = MatGetInfo(aij->B,MAT_LOCAL,&info);CHKERRQ(ierr); 90077431f27SBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] off-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr); 901b0a32e0cSBarry Smith ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 902a40aa06bSLois Curfman McInnes ierr = VecScatterView(aij->Mvctx,viewer);CHKERRQ(ierr); 9033a40ed3dSBarry Smith PetscFunctionReturn(0); 904fb9695e5SSatish Balay } else if (format == PETSC_VIEWER_ASCII_INFO) { 905923f20ffSKris Buschelman PetscInt inodecount,inodelimit,*inodes; 906923f20ffSKris Buschelman ierr = MatInodeGetInodeSizes(aij->A,&inodecount,&inodes,&inodelimit);CHKERRQ(ierr); 907923f20ffSKris Buschelman if (inodes) { 908923f20ffSKris Buschelman ierr = PetscViewerASCIIPrintf(viewer,"using I-node (on process 0) routines: found %D nodes, limit used is %D\n",inodecount,inodelimit);CHKERRQ(ierr); 909d38fa0fbSBarry Smith } else { 910d38fa0fbSBarry Smith ierr = PetscViewerASCIIPrintf(viewer,"not using I-node (on process 0) routines\n");CHKERRQ(ierr); 911d38fa0fbSBarry Smith } 9123a40ed3dSBarry Smith PetscFunctionReturn(0); 9134aedb280SBarry Smith } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) { 9144aedb280SBarry Smith PetscFunctionReturn(0); 91508480c60SBarry Smith } 9168e2fed03SBarry Smith } else if (isbinary) { 9178e2fed03SBarry Smith if (size == 1) { 9188e2fed03SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 9198e2fed03SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9208e2fed03SBarry Smith } else { 9218e2fed03SBarry Smith ierr = MatView_MPIAIJ_Binary(mat,viewer);CHKERRQ(ierr); 9228e2fed03SBarry Smith } 9238e2fed03SBarry Smith PetscFunctionReturn(0); 9240f5bd95cSBarry Smith } else if (isdraw) { 925b0a32e0cSBarry Smith PetscDraw draw; 92619bcc07fSBarry Smith PetscTruth isnull; 927b0a32e0cSBarry Smith ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr); 928b0a32e0cSBarry Smith ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); if (isnull) PetscFunctionReturn(0); 92919bcc07fSBarry Smith } 93019bcc07fSBarry Smith 93117699dbbSLois Curfman McInnes if (size == 1) { 932e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 93378b31e54SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9343a40ed3dSBarry Smith } else { 93595373324SBarry Smith /* assemble the entire matrix onto first processor. */ 93695373324SBarry Smith Mat A; 937ec8511deSBarry Smith Mat_SeqAIJ *Aloc; 938899cda47SBarry Smith PetscInt M = mat->rmap.N,N = mat->cmap.N,m,*ai,*aj,row,*cols,i,*ct; 93987828ca2SBarry Smith PetscScalar *a; 9402ee70a88SLois Curfman McInnes 941f69a0ea3SMatthew Knepley ierr = MatCreate(mat->comm,&A);CHKERRQ(ierr); 94217699dbbSLois Curfman McInnes if (!rank) { 943f69a0ea3SMatthew Knepley ierr = MatSetSizes(A,M,N,M,N);CHKERRQ(ierr); 9443a40ed3dSBarry Smith } else { 945f69a0ea3SMatthew Knepley ierr = MatSetSizes(A,0,0,M,N);CHKERRQ(ierr); 94695373324SBarry Smith } 947f204ca49SKris Buschelman /* This is just a temporary matrix, so explicitly using MATMPIAIJ is probably best */ 948f204ca49SKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 949f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 95052e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,A);CHKERRQ(ierr); 951416022c9SBarry Smith 95295373324SBarry Smith /* copy over the A part */ 953ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->A->data; 954899cda47SBarry Smith m = aij->A->rmap.n; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 955899cda47SBarry Smith row = mat->rmap.rstart; 956899cda47SBarry Smith for (i=0; i<ai[m]; i++) {aj[i] += mat->cmap.rstart ;} 95795373324SBarry Smith for (i=0; i<m; i++) { 958416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],aj,a,INSERT_VALUES);CHKERRQ(ierr); 95995373324SBarry Smith row++; a += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 96095373324SBarry Smith } 9612ee70a88SLois Curfman McInnes aj = Aloc->j; 962899cda47SBarry Smith for (i=0; i<ai[m]; i++) {aj[i] -= mat->cmap.rstart;} 96395373324SBarry Smith 96495373324SBarry Smith /* copy over the B part */ 965ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->B->data; 966899cda47SBarry Smith m = aij->B->rmap.n; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 967899cda47SBarry Smith row = mat->rmap.rstart; 968b1d57f15SBarry Smith ierr = PetscMalloc((ai[m]+1)*sizeof(PetscInt),&cols);CHKERRQ(ierr); 969b0a32e0cSBarry Smith ct = cols; 970bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = aij->garray[aj[i]];} 97195373324SBarry Smith for (i=0; i<m; i++) { 972416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],cols,a,INSERT_VALUES);CHKERRQ(ierr); 97395373324SBarry Smith row++; a += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 97495373324SBarry Smith } 975606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 9766d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 9776d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 97855843e3eSBarry Smith /* 97955843e3eSBarry Smith Everyone has to call to draw the matrix since the graphics waits are 980b0a32e0cSBarry Smith synchronized across all processors that share the PetscDraw object 98155843e3eSBarry Smith */ 982b0a32e0cSBarry Smith ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr); 983e03a110bSBarry Smith if (!rank) { 984e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)((Mat_MPIAIJ*)(A->data))->A,mat->name);CHKERRQ(ierr); 9856831982aSBarry Smith ierr = MatView(((Mat_MPIAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr); 98695373324SBarry Smith } 987b0a32e0cSBarry Smith ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr); 98878b31e54SBarry Smith ierr = MatDestroy(A);CHKERRQ(ierr); 98995373324SBarry Smith } 9903a40ed3dSBarry Smith PetscFunctionReturn(0); 9911eb62cbbSBarry Smith } 9921eb62cbbSBarry Smith 9934a2ae208SSatish Balay #undef __FUNCT__ 9944a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ" 995dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ(Mat mat,PetscViewer viewer) 996416022c9SBarry Smith { 997dfbe8321SBarry Smith PetscErrorCode ierr; 99832077d6dSBarry Smith PetscTruth iascii,isdraw,issocket,isbinary; 999416022c9SBarry Smith 10003a40ed3dSBarry Smith PetscFunctionBegin; 100132077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 1002fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 1003fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 1004b0a32e0cSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr); 100532077d6dSBarry Smith if (iascii || isdraw || isbinary || issocket) { 10067b2a1423SBarry Smith ierr = MatView_MPIAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr); 10075cd90555SBarry Smith } else { 100879a5c55eSBarry Smith SETERRQ1(PETSC_ERR_SUP,"Viewer type %s not supported by MPIAIJ matrices",((PetscObject)viewer)->type_name); 1009416022c9SBarry Smith } 10103a40ed3dSBarry Smith PetscFunctionReturn(0); 1011416022c9SBarry Smith } 1012416022c9SBarry Smith 10131eb62cbbSBarry Smith 1014c14dc6b6SHong Zhang 10154a2ae208SSatish Balay #undef __FUNCT__ 10164a2ae208SSatish Balay #define __FUNCT__ "MatRelax_MPIAIJ" 1017b1d57f15SBarry Smith PetscErrorCode MatRelax_MPIAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx) 10188a729477SBarry Smith { 101944a69424SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1020dfbe8321SBarry Smith PetscErrorCode ierr; 1021c14dc6b6SHong Zhang Vec bb1; 10228a729477SBarry Smith 10233a40ed3dSBarry Smith PetscFunctionBegin; 102477431f27SBarry Smith if (its <= 0 || lits <= 0) SETERRQ2(PETSC_ERR_ARG_WRONG,"Relaxation requires global its %D and local its %D both positive",its,lits); 1025c14dc6b6SHong Zhang 1026c14dc6b6SHong Zhang ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr); 10272798e883SHong Zhang 1028c16cb8f2SBarry Smith if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP){ 1029da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1030bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,lits,xx);CHKERRQ(ierr); 10312798e883SHong Zhang its--; 1032da3a660dSBarry Smith } 10332798e883SHong Zhang 10342798e883SHong Zhang while (its--) { 10353a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10363a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10372798e883SHong Zhang 1038c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1039efb30889SBarry Smith ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 1040c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10412798e883SHong Zhang 1042c14dc6b6SHong Zhang /* local sweep */ 1043bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,lits,xx); 1044c14dc6b6SHong Zhang CHKERRQ(ierr); 10452798e883SHong Zhang } 10463a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_FORWARD_SWEEP){ 1047da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1048c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10492798e883SHong Zhang its--; 1050da3a660dSBarry Smith } 10512798e883SHong Zhang while (its--) { 10523a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10533a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10542798e883SHong Zhang 1055c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1056efb30889SBarry Smith ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 1057c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 1058c14dc6b6SHong Zhang 1059c14dc6b6SHong Zhang /* local sweep */ 1060a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 1061c14dc6b6SHong Zhang CHKERRQ(ierr); 10622798e883SHong Zhang } 10633a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_BACKWARD_SWEEP){ 1064da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1065c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10662798e883SHong Zhang its--; 1067da3a660dSBarry Smith } 10682798e883SHong Zhang while (its--) { 10692e8a6d31SBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10702e8a6d31SBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 10712798e883SHong Zhang 1072c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1073efb30889SBarry Smith ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 1074c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10752798e883SHong Zhang 1076c14dc6b6SHong Zhang /* local sweep */ 1077a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 1078c14dc6b6SHong Zhang CHKERRQ(ierr); 10792798e883SHong Zhang } 10803a40ed3dSBarry Smith } else { 108129bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Parallel SOR not supported"); 1082c16cb8f2SBarry Smith } 1083c14dc6b6SHong Zhang 1084c14dc6b6SHong Zhang ierr = VecDestroy(bb1);CHKERRQ(ierr); 10853a40ed3dSBarry Smith PetscFunctionReturn(0); 10868a729477SBarry Smith } 1087a66be287SLois Curfman McInnes 10884a2ae208SSatish Balay #undef __FUNCT__ 108942e855d1Svictor #define __FUNCT__ "MatPermute_MPIAIJ" 109042e855d1Svictor PetscErrorCode MatPermute_MPIAIJ(Mat A,IS rowp,IS colp,Mat *B) 109142e855d1Svictor { 109242e855d1Svictor MPI_Comm comm,pcomm; 109342e855d1Svictor PetscInt first,local_size,nrows,*rows; 109442e855d1Svictor int ntids; 109542e855d1Svictor IS crowp,growp,irowp,lrowp,lcolp,icolp; 109642e855d1Svictor PetscErrorCode ierr; 109742e855d1Svictor 109842e855d1Svictor PetscFunctionBegin; 109942e855d1Svictor ierr = PetscObjectGetComm((PetscObject)A,&comm); CHKERRQ(ierr); 110042e855d1Svictor /* make a collective version of 'rowp' */ 110142e855d1Svictor ierr = PetscObjectGetComm((PetscObject)rowp,&pcomm); CHKERRQ(ierr); 110242e855d1Svictor if (pcomm==comm) { 110342e855d1Svictor crowp = rowp; 110442e855d1Svictor } else { 110542e855d1Svictor ierr = ISGetSize(rowp,&nrows); CHKERRQ(ierr); 110642e855d1Svictor ierr = ISGetIndices(rowp,&rows); CHKERRQ(ierr); 110742e855d1Svictor ierr = ISCreateGeneral(comm,nrows,rows,&crowp); CHKERRQ(ierr); 110842e855d1Svictor ierr = ISRestoreIndices(rowp,&rows); CHKERRQ(ierr); 110942e855d1Svictor } 111042e855d1Svictor /* collect the global row permutation and invert it */ 111142e855d1Svictor ierr = ISAllGather(crowp,&growp); CHKERRQ(ierr); 111242e855d1Svictor ierr = ISSetPermutation(growp); CHKERRQ(ierr); 111342e855d1Svictor if (pcomm!=comm) { 111442e855d1Svictor ierr = ISDestroy(crowp); CHKERRQ(ierr); 111542e855d1Svictor } 111642e855d1Svictor ierr = ISInvertPermutation(growp,PETSC_DECIDE,&irowp);CHKERRQ(ierr); 111742e855d1Svictor /* get the local target indices */ 111842e855d1Svictor ierr = MatGetOwnershipRange(A,&first,PETSC_NULL); CHKERRQ(ierr); 111942e855d1Svictor ierr = MatGetLocalSize(A,&local_size,PETSC_NULL); CHKERRQ(ierr); 112042e855d1Svictor ierr = ISGetIndices(irowp,&rows); CHKERRQ(ierr); 112142e855d1Svictor ierr = ISCreateGeneral(MPI_COMM_SELF,local_size,rows+first,&lrowp); CHKERRQ(ierr); 112242e855d1Svictor ierr = ISRestoreIndices(irowp,&rows); CHKERRQ(ierr); 112342e855d1Svictor ierr = ISDestroy(irowp); CHKERRQ(ierr); 112442e855d1Svictor /* the column permutation is so much easier; 112542e855d1Svictor make a local version of 'colp' and invert it */ 112642e855d1Svictor ierr = PetscObjectGetComm((PetscObject)colp,&pcomm); CHKERRQ(ierr); 112742e855d1Svictor ierr = MPI_Comm_size(pcomm,&ntids); CHKERRQ(ierr); 112842e855d1Svictor if (ntids==1) { 112942e855d1Svictor lcolp = colp; 113042e855d1Svictor } else { 113142e855d1Svictor ierr = ISGetSize(colp,&nrows); CHKERRQ(ierr); 113242e855d1Svictor ierr = ISGetIndices(colp,&rows); CHKERRQ(ierr); 113342e855d1Svictor ierr = ISCreateGeneral(MPI_COMM_SELF,nrows,rows,&lcolp); CHKERRQ(ierr); 113442e855d1Svictor } 113542e855d1Svictor ierr = ISInvertPermutation(lcolp,PETSC_DECIDE,&icolp); CHKERRQ(ierr); 113642e855d1Svictor ierr = ISSetPermutation(lcolp); CHKERRQ(ierr); 113742e855d1Svictor if (ntids>1) { 113842e855d1Svictor ierr = ISRestoreIndices(colp,&rows); CHKERRQ(ierr); 113942e855d1Svictor ierr = ISDestroy(lcolp); CHKERRQ(ierr); 114042e855d1Svictor } 114142e855d1Svictor /* now we just get the submatrix */ 114242e855d1Svictor ierr = MatGetSubMatrix(A,lrowp,icolp,local_size,MAT_INITIAL_MATRIX,B); CHKERRQ(ierr); 114342e855d1Svictor /* clean up */ 114442e855d1Svictor ierr = ISDestroy(lrowp); CHKERRQ(ierr); 114542e855d1Svictor ierr = ISDestroy(icolp); CHKERRQ(ierr); 114642e855d1Svictor PetscFunctionReturn(0); 114742e855d1Svictor } 114842e855d1Svictor 114942e855d1Svictor #undef __FUNCT__ 11504a2ae208SSatish Balay #define __FUNCT__ "MatGetInfo_MPIAIJ" 1151dfbe8321SBarry Smith PetscErrorCode MatGetInfo_MPIAIJ(Mat matin,MatInfoType flag,MatInfo *info) 1152a66be287SLois Curfman McInnes { 1153a66be287SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1154a66be287SLois Curfman McInnes Mat A = mat->A,B = mat->B; 1155dfbe8321SBarry Smith PetscErrorCode ierr; 1156329f5518SBarry Smith PetscReal isend[5],irecv[5]; 1157a66be287SLois Curfman McInnes 11583a40ed3dSBarry Smith PetscFunctionBegin; 11594e220ebcSLois Curfman McInnes info->block_size = 1.0; 11604e220ebcSLois Curfman McInnes ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr); 11614e220ebcSLois Curfman McInnes isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 11624e220ebcSLois Curfman McInnes isend[3] = info->memory; isend[4] = info->mallocs; 11634e220ebcSLois Curfman McInnes ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr); 11644e220ebcSLois Curfman McInnes isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded; 11654e220ebcSLois Curfman McInnes isend[3] += info->memory; isend[4] += info->mallocs; 1166a66be287SLois Curfman McInnes if (flag == MAT_LOCAL) { 11674e220ebcSLois Curfman McInnes info->nz_used = isend[0]; 11684e220ebcSLois Curfman McInnes info->nz_allocated = isend[1]; 11694e220ebcSLois Curfman McInnes info->nz_unneeded = isend[2]; 11704e220ebcSLois Curfman McInnes info->memory = isend[3]; 11714e220ebcSLois Curfman McInnes info->mallocs = isend[4]; 1172a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_MAX) { 1173d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,matin->comm);CHKERRQ(ierr); 11744e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11754e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11764e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11774e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11784e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1179a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_SUM) { 1180d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,matin->comm);CHKERRQ(ierr); 11814e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11824e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11834e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11844e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11854e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1186a66be287SLois Curfman McInnes } 11874e220ebcSLois Curfman McInnes info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 11884e220ebcSLois Curfman McInnes info->fill_ratio_needed = 0; 11894e220ebcSLois Curfman McInnes info->factor_mallocs = 0; 1190899cda47SBarry Smith info->rows_global = (double)matin->rmap.N; 1191899cda47SBarry Smith info->columns_global = (double)matin->cmap.N; 1192899cda47SBarry Smith info->rows_local = (double)matin->rmap.n; 1193899cda47SBarry Smith info->columns_local = (double)matin->cmap.N; 11944e220ebcSLois Curfman McInnes 11953a40ed3dSBarry Smith PetscFunctionReturn(0); 1196a66be287SLois Curfman McInnes } 1197a66be287SLois Curfman McInnes 11984a2ae208SSatish Balay #undef __FUNCT__ 11994a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_MPIAIJ" 1200dfbe8321SBarry Smith PetscErrorCode MatSetOption_MPIAIJ(Mat A,MatOption op) 1201c74985f6SBarry Smith { 1202c0bbcb79SLois Curfman McInnes Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1203dfbe8321SBarry Smith PetscErrorCode ierr; 1204c74985f6SBarry Smith 12053a40ed3dSBarry Smith PetscFunctionBegin; 120612c028f9SKris Buschelman switch (op) { 120712c028f9SKris Buschelman case MAT_NO_NEW_NONZERO_LOCATIONS: 120812c028f9SKris Buschelman case MAT_YES_NEW_NONZERO_LOCATIONS: 120912c028f9SKris Buschelman case MAT_COLUMNS_UNSORTED: 121012c028f9SKris Buschelman case MAT_COLUMNS_SORTED: 121112c028f9SKris Buschelman case MAT_NEW_NONZERO_ALLOCATION_ERR: 121212c028f9SKris Buschelman case MAT_KEEP_ZEROED_ROWS: 121312c028f9SKris Buschelman case MAT_NEW_NONZERO_LOCATION_ERR: 121412c028f9SKris Buschelman case MAT_USE_INODES: 121512c028f9SKris Buschelman case MAT_DO_NOT_USE_INODES: 121612c028f9SKris Buschelman case MAT_IGNORE_ZERO_ENTRIES: 12171dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 12181dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 121912c028f9SKris Buschelman break; 122012c028f9SKris Buschelman case MAT_ROW_ORIENTED: 12217c922b88SBarry Smith a->roworiented = PETSC_TRUE; 12221dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 12231dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 122412c028f9SKris Buschelman break; 122512c028f9SKris Buschelman case MAT_ROWS_SORTED: 122612c028f9SKris Buschelman case MAT_ROWS_UNSORTED: 122712c028f9SKris Buschelman case MAT_YES_NEW_DIAGONALS: 1228290bbb0aSBarry Smith ierr = PetscInfo1(A,"Option %s ignored\n",MatOptions[op]);CHKERRQ(ierr); 122912c028f9SKris Buschelman break; 123012c028f9SKris Buschelman case MAT_COLUMN_ORIENTED: 12317c922b88SBarry Smith a->roworiented = PETSC_FALSE; 12321dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 12331dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 123412c028f9SKris Buschelman break; 123512c028f9SKris Buschelman case MAT_IGNORE_OFF_PROC_ENTRIES: 12367c922b88SBarry Smith a->donotstash = PETSC_TRUE; 123712c028f9SKris Buschelman break; 123812c028f9SKris Buschelman case MAT_NO_NEW_DIAGONALS: 123929bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MAT_NO_NEW_DIAGONALS"); 124077e54ba9SKris Buschelman case MAT_SYMMETRIC: 124125f421beSHong Zhang ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 124225f421beSHong Zhang break; 124377e54ba9SKris Buschelman case MAT_STRUCTURALLY_SYMMETRIC: 1244bf108f30SBarry Smith case MAT_HERMITIAN: 1245bf108f30SBarry Smith case MAT_SYMMETRY_ETERNAL: 1246bf108f30SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 1247bf108f30SBarry Smith break; 12489a4540c5SBarry Smith case MAT_NOT_SYMMETRIC: 12499a4540c5SBarry Smith case MAT_NOT_STRUCTURALLY_SYMMETRIC: 12509a4540c5SBarry Smith case MAT_NOT_HERMITIAN: 12519a4540c5SBarry Smith case MAT_NOT_SYMMETRY_ETERNAL: 125277e54ba9SKris Buschelman break; 125312c028f9SKris Buschelman default: 1254ad86a440SBarry Smith SETERRQ1(PETSC_ERR_SUP,"unknown option %d",op); 12553a40ed3dSBarry Smith } 12563a40ed3dSBarry Smith PetscFunctionReturn(0); 1257c74985f6SBarry Smith } 1258c74985f6SBarry Smith 12594a2ae208SSatish Balay #undef __FUNCT__ 12604a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_MPIAIJ" 1261b1d57f15SBarry Smith PetscErrorCode MatGetRow_MPIAIJ(Mat matin,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 126239e00950SLois Curfman McInnes { 1263154123eaSLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 126487828ca2SBarry Smith PetscScalar *vworkA,*vworkB,**pvA,**pvB,*v_p; 12656849ba73SBarry Smith PetscErrorCode ierr; 1266899cda47SBarry Smith PetscInt i,*cworkA,*cworkB,**pcA,**pcB,cstart = matin->cmap.rstart; 1267899cda47SBarry Smith PetscInt nztot,nzA,nzB,lrow,rstart = matin->rmap.rstart,rend = matin->rmap.rend; 1268b1d57f15SBarry Smith PetscInt *cmap,*idx_p; 126939e00950SLois Curfman McInnes 12703a40ed3dSBarry Smith PetscFunctionBegin; 1271abc0a331SBarry Smith if (mat->getrowactive) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Already active"); 12727a0afa10SBarry Smith mat->getrowactive = PETSC_TRUE; 12737a0afa10SBarry Smith 127470f0671dSBarry Smith if (!mat->rowvalues && (idx || v)) { 12757a0afa10SBarry Smith /* 12767a0afa10SBarry Smith allocate enough space to hold information from the longest row. 12777a0afa10SBarry Smith */ 12787a0afa10SBarry Smith Mat_SeqAIJ *Aa = (Mat_SeqAIJ*)mat->A->data,*Ba = (Mat_SeqAIJ*)mat->B->data; 1279b1d57f15SBarry Smith PetscInt max = 1,tmp; 1280899cda47SBarry Smith for (i=0; i<matin->rmap.n; i++) { 12817a0afa10SBarry Smith tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i]; 12827a0afa10SBarry Smith if (max < tmp) { max = tmp; } 12837a0afa10SBarry Smith } 1284b1d57f15SBarry Smith ierr = PetscMalloc(max*(sizeof(PetscInt)+sizeof(PetscScalar)),&mat->rowvalues);CHKERRQ(ierr); 1285b1d57f15SBarry Smith mat->rowindices = (PetscInt*)(mat->rowvalues + max); 12867a0afa10SBarry Smith } 12877a0afa10SBarry Smith 128829bbc08cSBarry Smith if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Only local rows") 1289abc0e9e4SLois Curfman McInnes lrow = row - rstart; 129039e00950SLois Curfman McInnes 1291154123eaSLois Curfman McInnes pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB; 1292154123eaSLois Curfman McInnes if (!v) {pvA = 0; pvB = 0;} 1293154123eaSLois Curfman McInnes if (!idx) {pcA = 0; if (!v) pcB = 0;} 1294f830108cSBarry Smith ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1295f830108cSBarry Smith ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 1296154123eaSLois Curfman McInnes nztot = nzA + nzB; 1297154123eaSLois Curfman McInnes 129870f0671dSBarry Smith cmap = mat->garray; 1299154123eaSLois Curfman McInnes if (v || idx) { 1300154123eaSLois Curfman McInnes if (nztot) { 1301154123eaSLois Curfman McInnes /* Sort by increasing column numbers, assuming A and B already sorted */ 1302b1d57f15SBarry Smith PetscInt imark = -1; 1303154123eaSLois Curfman McInnes if (v) { 130470f0671dSBarry Smith *v = v_p = mat->rowvalues; 130539e00950SLois Curfman McInnes for (i=0; i<nzB; i++) { 130670f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) v_p[i] = vworkB[i]; 1307154123eaSLois Curfman McInnes else break; 1308154123eaSLois Curfman McInnes } 1309154123eaSLois Curfman McInnes imark = i; 131070f0671dSBarry Smith for (i=0; i<nzA; i++) v_p[imark+i] = vworkA[i]; 131170f0671dSBarry Smith for (i=imark; i<nzB; i++) v_p[nzA+i] = vworkB[i]; 1312154123eaSLois Curfman McInnes } 1313154123eaSLois Curfman McInnes if (idx) { 131470f0671dSBarry Smith *idx = idx_p = mat->rowindices; 131570f0671dSBarry Smith if (imark > -1) { 131670f0671dSBarry Smith for (i=0; i<imark; i++) { 131770f0671dSBarry Smith idx_p[i] = cmap[cworkB[i]]; 131870f0671dSBarry Smith } 131970f0671dSBarry Smith } else { 1320154123eaSLois Curfman McInnes for (i=0; i<nzB; i++) { 132170f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) idx_p[i] = cmap[cworkB[i]]; 1322154123eaSLois Curfman McInnes else break; 1323154123eaSLois Curfman McInnes } 1324154123eaSLois Curfman McInnes imark = i; 132570f0671dSBarry Smith } 132670f0671dSBarry Smith for (i=0; i<nzA; i++) idx_p[imark+i] = cstart + cworkA[i]; 132770f0671dSBarry Smith for (i=imark; i<nzB; i++) idx_p[nzA+i] = cmap[cworkB[i]]; 132839e00950SLois Curfman McInnes } 13293f97c4b0SBarry Smith } else { 13301ca473b0SSatish Balay if (idx) *idx = 0; 13311ca473b0SSatish Balay if (v) *v = 0; 13321ca473b0SSatish Balay } 1333154123eaSLois Curfman McInnes } 133439e00950SLois Curfman McInnes *nz = nztot; 1335f830108cSBarry Smith ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1336f830108cSBarry Smith ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 13373a40ed3dSBarry Smith PetscFunctionReturn(0); 133839e00950SLois Curfman McInnes } 133939e00950SLois Curfman McInnes 13404a2ae208SSatish Balay #undef __FUNCT__ 13414a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_MPIAIJ" 1342b1d57f15SBarry Smith PetscErrorCode MatRestoreRow_MPIAIJ(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 134339e00950SLois Curfman McInnes { 13447a0afa10SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 13453a40ed3dSBarry Smith 13463a40ed3dSBarry Smith PetscFunctionBegin; 1347abc0a331SBarry Smith if (!aij->getrowactive) { 1348abc0a331SBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"MatGetRow() must be called first"); 13497a0afa10SBarry Smith } 13507a0afa10SBarry Smith aij->getrowactive = PETSC_FALSE; 13513a40ed3dSBarry Smith PetscFunctionReturn(0); 135239e00950SLois Curfman McInnes } 135339e00950SLois Curfman McInnes 13544a2ae208SSatish Balay #undef __FUNCT__ 13554a2ae208SSatish Balay #define __FUNCT__ "MatNorm_MPIAIJ" 1356dfbe8321SBarry Smith PetscErrorCode MatNorm_MPIAIJ(Mat mat,NormType type,PetscReal *norm) 1357855ac2c5SLois Curfman McInnes { 1358855ac2c5SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 1359ec8511deSBarry Smith Mat_SeqAIJ *amat = (Mat_SeqAIJ*)aij->A->data,*bmat = (Mat_SeqAIJ*)aij->B->data; 1360dfbe8321SBarry Smith PetscErrorCode ierr; 1361899cda47SBarry Smith PetscInt i,j,cstart = mat->cmap.rstart; 1362329f5518SBarry Smith PetscReal sum = 0.0; 136387828ca2SBarry Smith PetscScalar *v; 136404ca555eSLois Curfman McInnes 13653a40ed3dSBarry Smith PetscFunctionBegin; 136617699dbbSLois Curfman McInnes if (aij->size == 1) { 136714183eadSLois Curfman McInnes ierr = MatNorm(aij->A,type,norm);CHKERRQ(ierr); 136837fa93a5SLois Curfman McInnes } else { 136904ca555eSLois Curfman McInnes if (type == NORM_FROBENIUS) { 137004ca555eSLois Curfman McInnes v = amat->a; 137104ca555eSLois Curfman McInnes for (i=0; i<amat->nz; i++) { 1372aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1373329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 137404ca555eSLois Curfman McInnes #else 137504ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 137604ca555eSLois Curfman McInnes #endif 137704ca555eSLois Curfman McInnes } 137804ca555eSLois Curfman McInnes v = bmat->a; 137904ca555eSLois Curfman McInnes for (i=0; i<bmat->nz; i++) { 1380aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1381329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 138204ca555eSLois Curfman McInnes #else 138304ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 138404ca555eSLois Curfman McInnes #endif 138504ca555eSLois Curfman McInnes } 1386d7d1e502SBarry Smith ierr = MPI_Allreduce(&sum,norm,1,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 138704ca555eSLois Curfman McInnes *norm = sqrt(*norm); 13883a40ed3dSBarry Smith } else if (type == NORM_1) { /* max column norm */ 1389329f5518SBarry Smith PetscReal *tmp,*tmp2; 1390b1d57f15SBarry Smith PetscInt *jj,*garray = aij->garray; 1391899cda47SBarry Smith ierr = PetscMalloc((mat->cmap.N+1)*sizeof(PetscReal),&tmp);CHKERRQ(ierr); 1392899cda47SBarry Smith ierr = PetscMalloc((mat->cmap.N+1)*sizeof(PetscReal),&tmp2);CHKERRQ(ierr); 1393899cda47SBarry Smith ierr = PetscMemzero(tmp,mat->cmap.N*sizeof(PetscReal));CHKERRQ(ierr); 139404ca555eSLois Curfman McInnes *norm = 0.0; 139504ca555eSLois Curfman McInnes v = amat->a; jj = amat->j; 139604ca555eSLois Curfman McInnes for (j=0; j<amat->nz; j++) { 1397bfec09a0SHong Zhang tmp[cstart + *jj++ ] += PetscAbsScalar(*v); v++; 139804ca555eSLois Curfman McInnes } 139904ca555eSLois Curfman McInnes v = bmat->a; jj = bmat->j; 140004ca555eSLois Curfman McInnes for (j=0; j<bmat->nz; j++) { 1401bfec09a0SHong Zhang tmp[garray[*jj++]] += PetscAbsScalar(*v); v++; 140204ca555eSLois Curfman McInnes } 1403899cda47SBarry Smith ierr = MPI_Allreduce(tmp,tmp2,mat->cmap.N,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 1404899cda47SBarry Smith for (j=0; j<mat->cmap.N; j++) { 140504ca555eSLois Curfman McInnes if (tmp2[j] > *norm) *norm = tmp2[j]; 140604ca555eSLois Curfman McInnes } 1407606d414cSSatish Balay ierr = PetscFree(tmp);CHKERRQ(ierr); 1408606d414cSSatish Balay ierr = PetscFree(tmp2);CHKERRQ(ierr); 14093a40ed3dSBarry Smith } else if (type == NORM_INFINITY) { /* max row norm */ 1410329f5518SBarry Smith PetscReal ntemp = 0.0; 1411899cda47SBarry Smith for (j=0; j<aij->A->rmap.n; j++) { 1412bfec09a0SHong Zhang v = amat->a + amat->i[j]; 141304ca555eSLois Curfman McInnes sum = 0.0; 141404ca555eSLois Curfman McInnes for (i=0; i<amat->i[j+1]-amat->i[j]; i++) { 1415cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 141604ca555eSLois Curfman McInnes } 1417bfec09a0SHong Zhang v = bmat->a + bmat->i[j]; 141804ca555eSLois Curfman McInnes for (i=0; i<bmat->i[j+1]-bmat->i[j]; i++) { 1419cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 142004ca555eSLois Curfman McInnes } 1421515d9167SLois Curfman McInnes if (sum > ntemp) ntemp = sum; 142204ca555eSLois Curfman McInnes } 1423d7d1e502SBarry Smith ierr = MPI_Allreduce(&ntemp,norm,1,MPIU_REAL,MPI_MAX,mat->comm);CHKERRQ(ierr); 1424ca161407SBarry Smith } else { 142529bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"No support for two norm"); 142604ca555eSLois Curfman McInnes } 142737fa93a5SLois Curfman McInnes } 14283a40ed3dSBarry Smith PetscFunctionReturn(0); 1429855ac2c5SLois Curfman McInnes } 1430855ac2c5SLois Curfman McInnes 14314a2ae208SSatish Balay #undef __FUNCT__ 14324a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_MPIAIJ" 1433dfbe8321SBarry Smith PetscErrorCode MatTranspose_MPIAIJ(Mat A,Mat *matout) 1434b7c46309SBarry Smith { 1435b7c46309SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1436dbb450caSBarry Smith Mat_SeqAIJ *Aloc = (Mat_SeqAIJ*)a->A->data; 1437dfbe8321SBarry Smith PetscErrorCode ierr; 1438899cda47SBarry Smith PetscInt M = A->rmap.N,N = A->cmap.N,m,*ai,*aj,row,*cols,i,*ct; 14393a40ed3dSBarry Smith Mat B; 144087828ca2SBarry Smith PetscScalar *array; 1441b7c46309SBarry Smith 14423a40ed3dSBarry Smith PetscFunctionBegin; 14437c922b88SBarry Smith if (!matout && M != N) { 144429bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"Square matrix only for in-place"); 1445d4bb536fSBarry Smith } 1446d4bb536fSBarry Smith 1447f69a0ea3SMatthew Knepley ierr = MatCreate(A->comm,&B);CHKERRQ(ierr); 1448899cda47SBarry Smith ierr = MatSetSizes(B,A->cmap.n,A->rmap.n,N,M);CHKERRQ(ierr); 1449f204ca49SKris Buschelman ierr = MatSetType(B,A->type_name);CHKERRQ(ierr); 1450f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(B,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 1451b7c46309SBarry Smith 1452b7c46309SBarry Smith /* copy over the A part */ 1453ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->A->data; 1454899cda47SBarry Smith m = a->A->rmap.n; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1455899cda47SBarry Smith row = A->rmap.rstart; 1456899cda47SBarry Smith for (i=0; i<ai[m]; i++) {aj[i] += A->cmap.rstart ;} 1457b7c46309SBarry Smith for (i=0; i<m; i++) { 1458416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],aj,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1459b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 1460b7c46309SBarry Smith } 1461b7c46309SBarry Smith aj = Aloc->j; 1462899cda47SBarry Smith for (i=0; i<ai[m]; i++) {aj[i] -= A->cmap.rstart ;} 1463b7c46309SBarry Smith 1464b7c46309SBarry Smith /* copy over the B part */ 1465ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->B->data; 1466899cda47SBarry Smith m = a->B->rmap.n; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1467899cda47SBarry Smith row = A->rmap.rstart; 1468b1d57f15SBarry Smith ierr = PetscMalloc((1+ai[m])*sizeof(PetscInt),&cols);CHKERRQ(ierr); 1469b0a32e0cSBarry Smith ct = cols; 1470bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = a->garray[aj[i]];} 1471b7c46309SBarry Smith for (i=0; i<m; i++) { 1472416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],cols,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1473b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 1474b7c46309SBarry Smith } 1475606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 14766d4a8577SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14776d4a8577SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14787c922b88SBarry Smith if (matout) { 14790de55854SLois Curfman McInnes *matout = B; 14800de55854SLois Curfman McInnes } else { 1481273d9f13SBarry Smith ierr = MatHeaderCopy(A,B);CHKERRQ(ierr); 14820de55854SLois Curfman McInnes } 14833a40ed3dSBarry Smith PetscFunctionReturn(0); 1484b7c46309SBarry Smith } 1485b7c46309SBarry Smith 14864a2ae208SSatish Balay #undef __FUNCT__ 14874a2ae208SSatish Balay #define __FUNCT__ "MatDiagonalScale_MPIAIJ" 1488dfbe8321SBarry Smith PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat,Vec ll,Vec rr) 1489a008b906SSatish Balay { 14904b967eb1SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 14914b967eb1SSatish Balay Mat a = aij->A,b = aij->B; 1492dfbe8321SBarry Smith PetscErrorCode ierr; 1493b1d57f15SBarry Smith PetscInt s1,s2,s3; 1494a008b906SSatish Balay 14953a40ed3dSBarry Smith PetscFunctionBegin; 14964b967eb1SSatish Balay ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr); 14974b967eb1SSatish Balay if (rr) { 1498e1311b90SBarry Smith ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr); 149929bbc08cSBarry Smith if (s1!=s3) SETERRQ(PETSC_ERR_ARG_SIZ,"right vector non-conforming local size"); 15004b967eb1SSatish Balay /* Overlap communication with computation. */ 150143a90d84SBarry Smith ierr = VecScatterBegin(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1502a008b906SSatish Balay } 15034b967eb1SSatish Balay if (ll) { 1504e1311b90SBarry Smith ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr); 150529bbc08cSBarry Smith if (s1!=s2) SETERRQ(PETSC_ERR_ARG_SIZ,"left vector non-conforming local size"); 1506f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,ll,0);CHKERRQ(ierr); 15074b967eb1SSatish Balay } 15084b967eb1SSatish Balay /* scale the diagonal block */ 1509f830108cSBarry Smith ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr); 15104b967eb1SSatish Balay 15114b967eb1SSatish Balay if (rr) { 15124b967eb1SSatish Balay /* Do a scatter end and then right scale the off-diagonal block */ 151343a90d84SBarry Smith ierr = VecScatterEnd(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1514f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,0,aij->lvec);CHKERRQ(ierr); 15154b967eb1SSatish Balay } 15164b967eb1SSatish Balay 15173a40ed3dSBarry Smith PetscFunctionReturn(0); 1518a008b906SSatish Balay } 1519a008b906SSatish Balay 15204a2ae208SSatish Balay #undef __FUNCT__ 1521521d7252SBarry Smith #define __FUNCT__ "MatSetBlockSize_MPIAIJ" 1522521d7252SBarry Smith PetscErrorCode MatSetBlockSize_MPIAIJ(Mat A,PetscInt bs) 15235a838052SSatish Balay { 1524521d7252SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1525521d7252SBarry Smith PetscErrorCode ierr; 1526521d7252SBarry Smith 15273a40ed3dSBarry Smith PetscFunctionBegin; 1528521d7252SBarry Smith ierr = MatSetBlockSize(a->A,bs);CHKERRQ(ierr); 1529521d7252SBarry Smith ierr = MatSetBlockSize(a->B,bs);CHKERRQ(ierr); 15303a40ed3dSBarry Smith PetscFunctionReturn(0); 15315a838052SSatish Balay } 15324a2ae208SSatish Balay #undef __FUNCT__ 15334a2ae208SSatish Balay #define __FUNCT__ "MatSetUnfactored_MPIAIJ" 1534dfbe8321SBarry Smith PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A) 1535bb5a7306SBarry Smith { 1536bb5a7306SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1537dfbe8321SBarry Smith PetscErrorCode ierr; 15383a40ed3dSBarry Smith 15393a40ed3dSBarry Smith PetscFunctionBegin; 1540bb5a7306SBarry Smith ierr = MatSetUnfactored(a->A);CHKERRQ(ierr); 15413a40ed3dSBarry Smith PetscFunctionReturn(0); 1542bb5a7306SBarry Smith } 1543bb5a7306SBarry Smith 15444a2ae208SSatish Balay #undef __FUNCT__ 15454a2ae208SSatish Balay #define __FUNCT__ "MatEqual_MPIAIJ" 1546dfbe8321SBarry Smith PetscErrorCode MatEqual_MPIAIJ(Mat A,Mat B,PetscTruth *flag) 1547d4bb536fSBarry Smith { 1548d4bb536fSBarry Smith Mat_MPIAIJ *matB = (Mat_MPIAIJ*)B->data,*matA = (Mat_MPIAIJ*)A->data; 1549d4bb536fSBarry Smith Mat a,b,c,d; 1550d4bb536fSBarry Smith PetscTruth flg; 1551dfbe8321SBarry Smith PetscErrorCode ierr; 1552d4bb536fSBarry Smith 15533a40ed3dSBarry Smith PetscFunctionBegin; 1554d4bb536fSBarry Smith a = matA->A; b = matA->B; 1555d4bb536fSBarry Smith c = matB->A; d = matB->B; 1556d4bb536fSBarry Smith 1557d4bb536fSBarry Smith ierr = MatEqual(a,c,&flg);CHKERRQ(ierr); 1558abc0a331SBarry Smith if (flg) { 1559d4bb536fSBarry Smith ierr = MatEqual(b,d,&flg);CHKERRQ(ierr); 1560d4bb536fSBarry Smith } 1561ca161407SBarry Smith ierr = MPI_Allreduce(&flg,flag,1,MPI_INT,MPI_LAND,A->comm);CHKERRQ(ierr); 15623a40ed3dSBarry Smith PetscFunctionReturn(0); 1563d4bb536fSBarry Smith } 1564d4bb536fSBarry Smith 15654a2ae208SSatish Balay #undef __FUNCT__ 15664a2ae208SSatish Balay #define __FUNCT__ "MatCopy_MPIAIJ" 1567dfbe8321SBarry Smith PetscErrorCode MatCopy_MPIAIJ(Mat A,Mat B,MatStructure str) 1568cb5b572fSBarry Smith { 1569dfbe8321SBarry Smith PetscErrorCode ierr; 1570cb5b572fSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1571cb5b572fSBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 1572cb5b572fSBarry Smith 1573cb5b572fSBarry Smith PetscFunctionBegin; 157433f4a19fSKris Buschelman /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */ 157533f4a19fSKris Buschelman if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) { 1576cb5b572fSBarry Smith /* because of the column compression in the off-processor part of the matrix a->B, 1577cb5b572fSBarry Smith the number of columns in a->B and b->B may be different, hence we cannot call 1578cb5b572fSBarry Smith the MatCopy() directly on the two parts. If need be, we can provide a more 1579cb5b572fSBarry Smith efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices 1580cb5b572fSBarry Smith then copying the submatrices */ 1581cb5b572fSBarry Smith ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr); 1582cb5b572fSBarry Smith } else { 1583cb5b572fSBarry Smith ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 1584cb5b572fSBarry Smith ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr); 1585cb5b572fSBarry Smith } 1586cb5b572fSBarry Smith PetscFunctionReturn(0); 1587cb5b572fSBarry Smith } 1588cb5b572fSBarry Smith 15894a2ae208SSatish Balay #undef __FUNCT__ 15904a2ae208SSatish Balay #define __FUNCT__ "MatSetUpPreallocation_MPIAIJ" 1591dfbe8321SBarry Smith PetscErrorCode MatSetUpPreallocation_MPIAIJ(Mat A) 1592273d9f13SBarry Smith { 1593dfbe8321SBarry Smith PetscErrorCode ierr; 1594273d9f13SBarry Smith 1595273d9f13SBarry Smith PetscFunctionBegin; 1596273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(A,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr); 1597273d9f13SBarry Smith PetscFunctionReturn(0); 1598273d9f13SBarry Smith } 1599273d9f13SBarry Smith 1600ac90fabeSBarry Smith #include "petscblaslapack.h" 1601ac90fabeSBarry Smith #undef __FUNCT__ 1602ac90fabeSBarry Smith #define __FUNCT__ "MatAXPY_MPIAIJ" 1603f4df32b1SMatthew Knepley PetscErrorCode MatAXPY_MPIAIJ(Mat Y,PetscScalar a,Mat X,MatStructure str) 1604ac90fabeSBarry Smith { 1605dfbe8321SBarry Smith PetscErrorCode ierr; 1606b1d57f15SBarry Smith PetscInt i; 1607ac90fabeSBarry Smith Mat_MPIAIJ *xx = (Mat_MPIAIJ *)X->data,*yy = (Mat_MPIAIJ *)Y->data; 16084ce68768SBarry Smith PetscBLASInt bnz,one=1; 1609ac90fabeSBarry Smith Mat_SeqAIJ *x,*y; 1610ac90fabeSBarry Smith 1611ac90fabeSBarry Smith PetscFunctionBegin; 1612ac90fabeSBarry Smith if (str == SAME_NONZERO_PATTERN) { 1613f4df32b1SMatthew Knepley PetscScalar alpha = a; 1614ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->A->data; 1615ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->A->data; 16164ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 1617f4df32b1SMatthew Knepley BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one); 1618ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->B->data; 1619ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->B->data; 16204ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 1621f4df32b1SMatthew Knepley BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one); 1622a30b2313SHong Zhang } else if (str == SUBSET_NONZERO_PATTERN) { 1623f4df32b1SMatthew Knepley ierr = MatAXPY_SeqAIJ(yy->A,a,xx->A,str);CHKERRQ(ierr); 1624c537a176SHong Zhang 1625c537a176SHong Zhang x = (Mat_SeqAIJ *)xx->B->data; 1626a30b2313SHong Zhang y = (Mat_SeqAIJ *)yy->B->data; 1627a30b2313SHong Zhang if (y->xtoy && y->XtoY != xx->B) { 1628a30b2313SHong Zhang ierr = PetscFree(y->xtoy);CHKERRQ(ierr); 1629a30b2313SHong Zhang ierr = MatDestroy(y->XtoY);CHKERRQ(ierr); 1630c537a176SHong Zhang } 1631a30b2313SHong Zhang if (!y->xtoy) { /* get xtoy */ 1632899cda47SBarry Smith ierr = MatAXPYGetxtoy_Private(xx->B->rmap.n,x->i,x->j,xx->garray,y->i,y->j,yy->garray,&y->xtoy);CHKERRQ(ierr); 1633a30b2313SHong Zhang y->XtoY = xx->B; 1634c537a176SHong Zhang } 1635f4df32b1SMatthew Knepley for (i=0; i<x->nz; i++) y->a[y->xtoy[i]] += a*(x->a[i]); 1636ac90fabeSBarry Smith } else { 1637f4df32b1SMatthew Knepley ierr = MatAXPY_Basic(Y,a,X,str);CHKERRQ(ierr); 1638ac90fabeSBarry Smith } 1639ac90fabeSBarry Smith PetscFunctionReturn(0); 1640ac90fabeSBarry Smith } 1641ac90fabeSBarry Smith 1642354c94deSBarry Smith EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatConjugate_SeqAIJ(Mat); 1643354c94deSBarry Smith 1644354c94deSBarry Smith #undef __FUNCT__ 1645354c94deSBarry Smith #define __FUNCT__ "MatConjugate_MPIAIJ" 1646354c94deSBarry Smith PetscErrorCode PETSCMAT_DLLEXPORT MatConjugate_MPIAIJ(Mat mat) 1647354c94deSBarry Smith { 1648354c94deSBarry Smith #if defined(PETSC_USE_COMPLEX) 1649354c94deSBarry Smith PetscErrorCode ierr; 1650354c94deSBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1651354c94deSBarry Smith 1652354c94deSBarry Smith PetscFunctionBegin; 1653354c94deSBarry Smith ierr = MatConjugate_SeqAIJ(aij->A);CHKERRQ(ierr); 1654354c94deSBarry Smith ierr = MatConjugate_SeqAIJ(aij->B);CHKERRQ(ierr); 1655354c94deSBarry Smith #else 1656354c94deSBarry Smith PetscFunctionBegin; 1657354c94deSBarry Smith #endif 1658354c94deSBarry Smith PetscFunctionReturn(0); 1659354c94deSBarry Smith } 1660354c94deSBarry Smith 166199cafbc1SBarry Smith #undef __FUNCT__ 166299cafbc1SBarry Smith #define __FUNCT__ "MatRealPart_MPIAIJ" 166399cafbc1SBarry Smith PetscErrorCode MatRealPart_MPIAIJ(Mat A) 166499cafbc1SBarry Smith { 166599cafbc1SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 166699cafbc1SBarry Smith PetscErrorCode ierr; 166799cafbc1SBarry Smith 166899cafbc1SBarry Smith PetscFunctionBegin; 166999cafbc1SBarry Smith ierr = MatRealPart(a->A);CHKERRQ(ierr); 167099cafbc1SBarry Smith ierr = MatRealPart(a->B);CHKERRQ(ierr); 167199cafbc1SBarry Smith PetscFunctionReturn(0); 167299cafbc1SBarry Smith } 167399cafbc1SBarry Smith 167499cafbc1SBarry Smith #undef __FUNCT__ 167599cafbc1SBarry Smith #define __FUNCT__ "MatImaginaryPart_MPIAIJ" 167699cafbc1SBarry Smith PetscErrorCode MatImaginaryPart_MPIAIJ(Mat A) 167799cafbc1SBarry Smith { 167899cafbc1SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 167999cafbc1SBarry Smith PetscErrorCode ierr; 168099cafbc1SBarry Smith 168199cafbc1SBarry Smith PetscFunctionBegin; 168299cafbc1SBarry Smith ierr = MatImaginaryPart(a->A);CHKERRQ(ierr); 168399cafbc1SBarry Smith ierr = MatImaginaryPart(a->B);CHKERRQ(ierr); 168499cafbc1SBarry Smith PetscFunctionReturn(0); 168599cafbc1SBarry Smith } 168699cafbc1SBarry Smith 1687103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 1688103bf8bdSMatthew Knepley #include <boost/parallel/mpi/bsp_process_group.hpp> 1689103bf8bdSMatthew Knepley typedef boost::parallel::mpi::bsp_process_group process_group_type; 1690103bf8bdSMatthew Knepley 1691103bf8bdSMatthew Knepley #include <boost/graph/distributed/adjacency_list.hpp> 1692103bf8bdSMatthew Knepley #include <boost/parallel/mpi/bsp_process_group.hpp> 1693103bf8bdSMatthew Knepley 1694103bf8bdSMatthew Knepley #include <boost/graph/distributed/petsc/interface.hpp> 1695103bf8bdSMatthew Knepley #include <boost/graph/distributed/ilu_0.hpp> 1696103bf8bdSMatthew Knepley 1697103bf8bdSMatthew Knepley namespace petsc = boost::distributed::petsc; 1698103bf8bdSMatthew Knepley using namespace std; 1699103bf8bdSMatthew Knepley typedef double value_type; 1700103bf8bdSMatthew Knepley typedef boost::graph::distributed::ilu_elimination_state elimination_state; 1701103bf8bdSMatthew Knepley typedef boost::adjacency_list<boost::listS, 1702103bf8bdSMatthew Knepley boost::distributedS<process_group_type, boost::vecS>, 1703103bf8bdSMatthew Knepley boost::bidirectionalS, 1704103bf8bdSMatthew Knepley // Vertex properties 1705103bf8bdSMatthew Knepley boost::no_property, 1706103bf8bdSMatthew Knepley // Edge properties 1707103bf8bdSMatthew Knepley boost::property<boost::edge_weight_t, value_type, 1708103bf8bdSMatthew Knepley boost::property<boost::edge_finished_t, elimination_state> > > graph_type; 1709103bf8bdSMatthew Knepley 1710103bf8bdSMatthew Knepley typedef boost::graph_traits<graph_type>::vertex_descriptor vertex_type; 1711103bf8bdSMatthew Knepley typedef boost::graph_traits<graph_type>::edge_descriptor edge_type; 1712103bf8bdSMatthew Knepley typedef boost::property_map<graph_type, boost::edge_weight_t>::type weight_map_type; 1713103bf8bdSMatthew Knepley 1714103bf8bdSMatthew Knepley #undef __FUNCT__ 1715103bf8bdSMatthew Knepley #define __FUNCT__ "MatILUFactorSymbolic_MPIAIJ" 1716103bf8bdSMatthew Knepley /* 1717103bf8bdSMatthew Knepley This uses the parallel ILU factorization of Peter Gottschling <pgottsch@osl.iu.edu> 1718103bf8bdSMatthew Knepley */ 1719103bf8bdSMatthew Knepley PetscErrorCode MatILUFactorSymbolic_MPIAIJ(Mat A, IS isrow, IS iscol, MatFactorInfo *info, Mat *fact) 1720103bf8bdSMatthew Knepley { 1721103bf8bdSMatthew Knepley PetscTruth row_identity, col_identity; 1722103bf8bdSMatthew Knepley PetscObjectContainer c; 1723103bf8bdSMatthew Knepley PetscInt m, n, M, N; 1724103bf8bdSMatthew Knepley PetscErrorCode ierr; 1725103bf8bdSMatthew Knepley 1726103bf8bdSMatthew Knepley PetscFunctionBegin; 1727103bf8bdSMatthew Knepley if (info->levels != 0) SETERRQ(PETSC_ERR_SUP,"Only levels = 0 supported for parallel ilu"); 1728103bf8bdSMatthew Knepley ierr = ISIdentity(isrow, &row_identity);CHKERRQ(ierr); 1729103bf8bdSMatthew Knepley ierr = ISIdentity(iscol, &col_identity);CHKERRQ(ierr); 1730103bf8bdSMatthew Knepley if (!row_identity || !col_identity) { 1731103bf8bdSMatthew Knepley SETERRQ(PETSC_ERR_ARG_WRONG,"Row and column permutations must be identity for parallel ILU"); 1732103bf8bdSMatthew Knepley } 1733103bf8bdSMatthew Knepley 1734103bf8bdSMatthew Knepley process_group_type pg; 1735103bf8bdSMatthew Knepley graph_type* graph_p = new graph_type(petsc::num_global_vertices(A), pg, petsc::matrix_distribution(A, pg)); 1736103bf8bdSMatthew Knepley graph_type& graph = *graph_p; 1737103bf8bdSMatthew Knepley petsc::read_matrix(A, graph, get(boost::edge_weight, graph)); 1738103bf8bdSMatthew Knepley 1739103bf8bdSMatthew Knepley //write_graphviz("petsc_matrix_as_graph.dot", graph, default_writer(), matrix_graph_writer<graph_type>(graph)); 1740103bf8bdSMatthew Knepley boost::property_map<graph_type, boost::edge_finished_t>::type finished = get(boost::edge_finished, graph); 1741103bf8bdSMatthew Knepley BGL_FORALL_EDGES(e, graph, graph_type) 1742103bf8bdSMatthew Knepley put(finished, e, boost::graph::distributed::unseen); 1743103bf8bdSMatthew Knepley 1744103bf8bdSMatthew Knepley ilu_0(graph, get(boost::edge_weight, graph), get(boost::edge_finished, graph)); 1745103bf8bdSMatthew Knepley 1746103bf8bdSMatthew Knepley /* put together the new matrix */ 1747103bf8bdSMatthew Knepley ierr = MatCreate(A->comm, fact);CHKERRQ(ierr); 1748103bf8bdSMatthew Knepley ierr = MatGetLocalSize(A, &m, &n);CHKERRQ(ierr); 1749103bf8bdSMatthew Knepley ierr = MatGetSize(A, &M, &N);CHKERRQ(ierr); 1750103bf8bdSMatthew Knepley ierr = MatSetSizes(*fact, m, n, M, N);CHKERRQ(ierr); 1751103bf8bdSMatthew Knepley ierr = MatSetType(*fact, A->type_name);CHKERRQ(ierr); 175210bd6422SMatthew Knepley ierr = MatAssemblyBegin(*fact, MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 175310bd6422SMatthew Knepley ierr = MatAssemblyEnd(*fact, MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1754103bf8bdSMatthew Knepley (*fact)->factor = FACTOR_LU; 1755103bf8bdSMatthew Knepley 1756103bf8bdSMatthew Knepley ierr = PetscObjectContainerCreate(A->comm, &c); 1757103bf8bdSMatthew Knepley ierr = PetscObjectContainerSetPointer(c, graph_p); 1758103bf8bdSMatthew Knepley ierr = PetscObjectCompose((PetscObject) (*fact), "graph", (PetscObject) c); 1759103bf8bdSMatthew Knepley PetscFunctionReturn(0); 1760103bf8bdSMatthew Knepley } 1761103bf8bdSMatthew Knepley 1762103bf8bdSMatthew Knepley #undef __FUNCT__ 1763103bf8bdSMatthew Knepley #define __FUNCT__ "MatLUFactorNumeric_MPIAIJ" 1764103bf8bdSMatthew Knepley PetscErrorCode MatLUFactorNumeric_MPIAIJ(Mat A, MatFactorInfo *info, Mat *B) 1765103bf8bdSMatthew Knepley { 1766103bf8bdSMatthew Knepley PetscFunctionBegin; 1767103bf8bdSMatthew Knepley PetscFunctionReturn(0); 1768103bf8bdSMatthew Knepley } 1769103bf8bdSMatthew Knepley 1770103bf8bdSMatthew Knepley #undef __FUNCT__ 1771103bf8bdSMatthew Knepley #define __FUNCT__ "MatSolve_MPIAIJ" 1772103bf8bdSMatthew Knepley /* 1773103bf8bdSMatthew Knepley This uses the parallel ILU factorization of Peter Gottschling <pgottsch@osl.iu.edu> 1774103bf8bdSMatthew Knepley */ 1775103bf8bdSMatthew Knepley PetscErrorCode MatSolve_MPIAIJ(Mat A, Vec b, Vec x) 1776103bf8bdSMatthew Knepley { 1777103bf8bdSMatthew Knepley graph_type* graph_p; 1778103bf8bdSMatthew Knepley PetscObjectContainer c; 1779103bf8bdSMatthew Knepley PetscErrorCode ierr; 1780103bf8bdSMatthew Knepley 1781103bf8bdSMatthew Knepley PetscFunctionBegin; 1782103bf8bdSMatthew Knepley ierr = PetscObjectQuery((PetscObject) A, "graph", (PetscObject *) &c);CHKERRQ(ierr); 1783103bf8bdSMatthew Knepley ierr = PetscObjectContainerGetPointer(c, (void **) &graph_p);CHKERRQ(ierr); 1784103bf8bdSMatthew Knepley ierr = VecCopy(b, x); CHKERRQ(ierr); 1785103bf8bdSMatthew Knepley PetscFunctionReturn(0); 1786103bf8bdSMatthew Knepley } 1787103bf8bdSMatthew Knepley #endif 1788103bf8bdSMatthew Knepley 17898a729477SBarry Smith /* -------------------------------------------------------------------*/ 1790cda55fadSBarry Smith static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ, 1791cda55fadSBarry Smith MatGetRow_MPIAIJ, 1792cda55fadSBarry Smith MatRestoreRow_MPIAIJ, 1793cda55fadSBarry Smith MatMult_MPIAIJ, 179497304618SKris Buschelman /* 4*/ MatMultAdd_MPIAIJ, 17957c922b88SBarry Smith MatMultTranspose_MPIAIJ, 17967c922b88SBarry Smith MatMultTransposeAdd_MPIAIJ, 1797103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 1798103bf8bdSMatthew Knepley MatSolve_MPIAIJ, 1799103bf8bdSMatthew Knepley #else 1800cda55fadSBarry Smith 0, 1801103bf8bdSMatthew Knepley #endif 1802cda55fadSBarry Smith 0, 1803cda55fadSBarry Smith 0, 180497304618SKris Buschelman /*10*/ 0, 1805cda55fadSBarry Smith 0, 1806cda55fadSBarry Smith 0, 180744a69424SLois Curfman McInnes MatRelax_MPIAIJ, 1808b7c46309SBarry Smith MatTranspose_MPIAIJ, 180997304618SKris Buschelman /*15*/ MatGetInfo_MPIAIJ, 1810cda55fadSBarry Smith MatEqual_MPIAIJ, 1811cda55fadSBarry Smith MatGetDiagonal_MPIAIJ, 1812cda55fadSBarry Smith MatDiagonalScale_MPIAIJ, 1813cda55fadSBarry Smith MatNorm_MPIAIJ, 181497304618SKris Buschelman /*20*/ MatAssemblyBegin_MPIAIJ, 1815cda55fadSBarry Smith MatAssemblyEnd_MPIAIJ, 18161eb62cbbSBarry Smith 0, 1817cda55fadSBarry Smith MatSetOption_MPIAIJ, 1818cda55fadSBarry Smith MatZeroEntries_MPIAIJ, 181997304618SKris Buschelman /*25*/ MatZeroRows_MPIAIJ, 1820cda55fadSBarry Smith 0, 1821103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 1822103bf8bdSMatthew Knepley MatLUFactorNumeric_MPIAIJ, 1823103bf8bdSMatthew Knepley #else 1824cda55fadSBarry Smith 0, 1825103bf8bdSMatthew Knepley #endif 1826cda55fadSBarry Smith 0, 1827cda55fadSBarry Smith 0, 182897304618SKris Buschelman /*30*/ MatSetUpPreallocation_MPIAIJ, 1829103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 1830103bf8bdSMatthew Knepley MatILUFactorSymbolic_MPIAIJ, 1831103bf8bdSMatthew Knepley #else 1832cda55fadSBarry Smith 0, 1833103bf8bdSMatthew Knepley #endif 1834cda55fadSBarry Smith 0, 1835cda55fadSBarry Smith 0, 1836cda55fadSBarry Smith 0, 183797304618SKris Buschelman /*35*/ MatDuplicate_MPIAIJ, 1838cda55fadSBarry Smith 0, 1839cda55fadSBarry Smith 0, 1840cda55fadSBarry Smith 0, 1841cda55fadSBarry Smith 0, 184297304618SKris Buschelman /*40*/ MatAXPY_MPIAIJ, 1843cda55fadSBarry Smith MatGetSubMatrices_MPIAIJ, 1844cda55fadSBarry Smith MatIncreaseOverlap_MPIAIJ, 1845cda55fadSBarry Smith MatGetValues_MPIAIJ, 1846cb5b572fSBarry Smith MatCopy_MPIAIJ, 18478c07d4e3SBarry Smith /*45*/ 0, 1848cda55fadSBarry Smith MatScale_MPIAIJ, 1849cda55fadSBarry Smith 0, 1850cda55fadSBarry Smith 0, 1851cda55fadSBarry Smith 0, 1852521d7252SBarry Smith /*50*/ MatSetBlockSize_MPIAIJ, 1853cda55fadSBarry Smith 0, 1854cda55fadSBarry Smith 0, 1855cda55fadSBarry Smith 0, 1856cda55fadSBarry Smith 0, 185797304618SKris Buschelman /*55*/ MatFDColoringCreate_MPIAIJ, 1858cda55fadSBarry Smith 0, 1859cda55fadSBarry Smith MatSetUnfactored_MPIAIJ, 186042e855d1Svictor MatPermute_MPIAIJ, 1861cda55fadSBarry Smith 0, 186297304618SKris Buschelman /*60*/ MatGetSubMatrix_MPIAIJ, 1863e03a110bSBarry Smith MatDestroy_MPIAIJ, 1864e03a110bSBarry Smith MatView_MPIAIJ, 1865357abbc8SBarry Smith 0, 1866a2243be0SBarry Smith 0, 186797304618SKris Buschelman /*65*/ 0, 1868a2243be0SBarry Smith 0, 1869a2243be0SBarry Smith 0, 1870a2243be0SBarry Smith 0, 1871a2243be0SBarry Smith 0, 187297304618SKris Buschelman /*70*/ 0, 1873a2243be0SBarry Smith 0, 1874a2243be0SBarry Smith MatSetColoring_MPIAIJ, 1875dcf5cc72SBarry Smith #if defined(PETSC_HAVE_ADIC) 1876779c1a83SBarry Smith MatSetValuesAdic_MPIAIJ, 1877dcf5cc72SBarry Smith #else 1878dcf5cc72SBarry Smith 0, 1879dcf5cc72SBarry Smith #endif 188097304618SKris Buschelman MatSetValuesAdifor_MPIAIJ, 188197304618SKris Buschelman /*75*/ 0, 188297304618SKris Buschelman 0, 188397304618SKris Buschelman 0, 188497304618SKris Buschelman 0, 188597304618SKris Buschelman 0, 188697304618SKris Buschelman /*80*/ 0, 188797304618SKris Buschelman 0, 188897304618SKris Buschelman 0, 188997304618SKris Buschelman 0, 189041acf15aSKris Buschelman /*84*/ MatLoad_MPIAIJ, 18916284ec50SHong Zhang 0, 18926284ec50SHong Zhang 0, 18936284ec50SHong Zhang 0, 18946284ec50SHong Zhang 0, 1895865e5f61SKris Buschelman 0, 1896865e5f61SKris Buschelman /*90*/ MatMatMult_MPIAIJ_MPIAIJ, 189726be0446SHong Zhang MatMatMultSymbolic_MPIAIJ_MPIAIJ, 189826be0446SHong Zhang MatMatMultNumeric_MPIAIJ_MPIAIJ, 18997a7894deSKris Buschelman MatPtAP_Basic, 19007a7894deSKris Buschelman MatPtAPSymbolic_MPIAIJ, 19017a7894deSKris Buschelman /*95*/ MatPtAPNumeric_MPIAIJ, 19027a7894deSKris Buschelman 0, 19037a7894deSKris Buschelman 0, 19047a7894deSKris Buschelman 0, 19057a7894deSKris Buschelman 0, 19067a7894deSKris Buschelman /*100*/0, 1907865e5f61SKris Buschelman MatPtAPSymbolic_MPIAIJ_MPIAIJ, 19087a7894deSKris Buschelman MatPtAPNumeric_MPIAIJ_MPIAIJ, 19092fd7e33dSBarry Smith MatConjugate_MPIAIJ, 19102fd7e33dSBarry Smith 0, 191199cafbc1SBarry Smith /*105*/MatSetValuesRow_MPIAIJ, 191299cafbc1SBarry Smith MatRealPart_MPIAIJ, 191399cafbc1SBarry Smith MatImaginaryPart_MPIAIJ}; 191436ce4990SBarry Smith 19152e8a6d31SBarry Smith /* ----------------------------------------------------------------------------------------*/ 19162e8a6d31SBarry Smith 1917fb2e594dSBarry Smith EXTERN_C_BEGIN 19184a2ae208SSatish Balay #undef __FUNCT__ 19194a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_MPIAIJ" 1920be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatStoreValues_MPIAIJ(Mat mat) 19212e8a6d31SBarry Smith { 19222e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1923dfbe8321SBarry Smith PetscErrorCode ierr; 19242e8a6d31SBarry Smith 19252e8a6d31SBarry Smith PetscFunctionBegin; 19262e8a6d31SBarry Smith ierr = MatStoreValues(aij->A);CHKERRQ(ierr); 19272e8a6d31SBarry Smith ierr = MatStoreValues(aij->B);CHKERRQ(ierr); 19282e8a6d31SBarry Smith PetscFunctionReturn(0); 19292e8a6d31SBarry Smith } 1930fb2e594dSBarry Smith EXTERN_C_END 19312e8a6d31SBarry Smith 1932fb2e594dSBarry Smith EXTERN_C_BEGIN 19334a2ae208SSatish Balay #undef __FUNCT__ 19344a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_MPIAIJ" 1935be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatRetrieveValues_MPIAIJ(Mat mat) 19362e8a6d31SBarry Smith { 19372e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1938dfbe8321SBarry Smith PetscErrorCode ierr; 19392e8a6d31SBarry Smith 19402e8a6d31SBarry Smith PetscFunctionBegin; 19412e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr); 19422e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr); 19432e8a6d31SBarry Smith PetscFunctionReturn(0); 19442e8a6d31SBarry Smith } 1945fb2e594dSBarry Smith EXTERN_C_END 19468a729477SBarry Smith 1947e090d566SSatish Balay #include "petscpc.h" 194827508adbSBarry Smith EXTERN_C_BEGIN 19494a2ae208SSatish Balay #undef __FUNCT__ 1950a23d5eceSKris Buschelman #define __FUNCT__ "MatMPIAIJSetPreallocation_MPIAIJ" 1951be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocation_MPIAIJ(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 1952a23d5eceSKris Buschelman { 1953a23d5eceSKris Buschelman Mat_MPIAIJ *b; 1954dfbe8321SBarry Smith PetscErrorCode ierr; 1955b1d57f15SBarry Smith PetscInt i; 1956a23d5eceSKris Buschelman 1957a23d5eceSKris Buschelman PetscFunctionBegin; 1958a23d5eceSKris Buschelman B->preallocated = PETSC_TRUE; 1959a23d5eceSKris Buschelman if (d_nz == PETSC_DEFAULT || d_nz == PETSC_DECIDE) d_nz = 5; 1960a23d5eceSKris Buschelman if (o_nz == PETSC_DEFAULT || o_nz == PETSC_DECIDE) o_nz = 2; 196177431f27SBarry Smith if (d_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"d_nz cannot be less than 0: value %D",d_nz); 196277431f27SBarry Smith if (o_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"o_nz cannot be less than 0: value %D",o_nz); 1963899cda47SBarry Smith 1964899cda47SBarry Smith B->rmap.bs = B->cmap.bs = 1; 1965899cda47SBarry Smith ierr = PetscMapInitialize(B->comm,&B->rmap);CHKERRQ(ierr); 1966899cda47SBarry Smith ierr = PetscMapInitialize(B->comm,&B->cmap);CHKERRQ(ierr); 1967a23d5eceSKris Buschelman if (d_nnz) { 1968899cda47SBarry Smith for (i=0; i<B->rmap.n; i++) { 196977431f27SBarry 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]); 1970a23d5eceSKris Buschelman } 1971a23d5eceSKris Buschelman } 1972a23d5eceSKris Buschelman if (o_nnz) { 1973899cda47SBarry Smith for (i=0; i<B->rmap.n; i++) { 197477431f27SBarry 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]); 1975a23d5eceSKris Buschelman } 1976a23d5eceSKris Buschelman } 1977a23d5eceSKris Buschelman b = (Mat_MPIAIJ*)B->data; 1978899cda47SBarry Smith 1979899cda47SBarry Smith /* Explicitly create 2 MATSEQAIJ matrices. */ 1980899cda47SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,&b->A);CHKERRQ(ierr); 1981899cda47SBarry Smith ierr = MatSetSizes(b->A,B->rmap.n,B->cmap.n,B->rmap.n,B->cmap.n);CHKERRQ(ierr); 1982899cda47SBarry Smith ierr = MatSetType(b->A,MATSEQAIJ);CHKERRQ(ierr); 1983899cda47SBarry Smith ierr = PetscLogObjectParent(B,b->A);CHKERRQ(ierr); 1984899cda47SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,&b->B);CHKERRQ(ierr); 1985899cda47SBarry Smith ierr = MatSetSizes(b->B,B->rmap.n,B->cmap.N,B->rmap.n,B->cmap.N);CHKERRQ(ierr); 1986899cda47SBarry Smith ierr = MatSetType(b->B,MATSEQAIJ);CHKERRQ(ierr); 1987899cda47SBarry Smith ierr = PetscLogObjectParent(B,b->B);CHKERRQ(ierr); 1988899cda47SBarry Smith 1989c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->A,d_nz,d_nnz);CHKERRQ(ierr); 1990c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->B,o_nz,o_nnz);CHKERRQ(ierr); 1991a23d5eceSKris Buschelman 1992a23d5eceSKris Buschelman PetscFunctionReturn(0); 1993a23d5eceSKris Buschelman } 1994a23d5eceSKris Buschelman EXTERN_C_END 1995a23d5eceSKris Buschelman 19964a2ae208SSatish Balay #undef __FUNCT__ 19974a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_MPIAIJ" 1998dfbe8321SBarry Smith PetscErrorCode MatDuplicate_MPIAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat) 1999d6dfbf8fSBarry Smith { 2000d6dfbf8fSBarry Smith Mat mat; 2001416022c9SBarry Smith Mat_MPIAIJ *a,*oldmat = (Mat_MPIAIJ*)matin->data; 2002dfbe8321SBarry Smith PetscErrorCode ierr; 2003d6dfbf8fSBarry Smith 20043a40ed3dSBarry Smith PetscFunctionBegin; 2005416022c9SBarry Smith *newmat = 0; 2006f69a0ea3SMatthew Knepley ierr = MatCreate(matin->comm,&mat);CHKERRQ(ierr); 2007899cda47SBarry Smith ierr = MatSetSizes(mat,matin->rmap.n,matin->cmap.n,matin->rmap.N,matin->cmap.N);CHKERRQ(ierr); 2008be5d1d56SKris Buschelman ierr = MatSetType(mat,matin->type_name);CHKERRQ(ierr); 20091d5dac46SHong Zhang ierr = PetscMemcpy(mat->ops,matin->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 2010273d9f13SBarry Smith a = (Mat_MPIAIJ*)mat->data; 2011e1b6402fSHong Zhang 2012d6dfbf8fSBarry Smith mat->factor = matin->factor; 2013899cda47SBarry Smith mat->rmap.bs = matin->rmap.bs; 2014c456f294SBarry Smith mat->assembled = PETSC_TRUE; 2015e7641de0SSatish Balay mat->insertmode = NOT_SET_VALUES; 2016273d9f13SBarry Smith mat->preallocated = PETSC_TRUE; 2017d6dfbf8fSBarry Smith 201817699dbbSLois Curfman McInnes a->size = oldmat->size; 201917699dbbSLois Curfman McInnes a->rank = oldmat->rank; 2020e7641de0SSatish Balay a->donotstash = oldmat->donotstash; 2021e7641de0SSatish Balay a->roworiented = oldmat->roworiented; 2022e7641de0SSatish Balay a->rowindices = 0; 2023bcd2baecSBarry Smith a->rowvalues = 0; 2024bcd2baecSBarry Smith a->getrowactive = PETSC_FALSE; 2025d6dfbf8fSBarry Smith 2026899cda47SBarry Smith ierr = PetscMapCopy(mat->comm,&matin->rmap,&mat->rmap);CHKERRQ(ierr); 2027899cda47SBarry Smith ierr = PetscMapCopy(mat->comm,&matin->cmap,&mat->cmap);CHKERRQ(ierr); 2028899cda47SBarry Smith 20298798bf22SSatish Balay ierr = MatStashCreate_Private(matin->comm,1,&mat->stash);CHKERRQ(ierr); 20302ee70a88SLois Curfman McInnes if (oldmat->colmap) { 2031aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 20320f5bd95cSBarry Smith ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr); 2033b1fc9764SSatish Balay #else 2034899cda47SBarry Smith ierr = PetscMalloc((mat->cmap.N)*sizeof(PetscInt),&a->colmap);CHKERRQ(ierr); 2035899cda47SBarry Smith ierr = PetscLogObjectMemory(mat,(mat->cmap.N)*sizeof(PetscInt));CHKERRQ(ierr); 2036899cda47SBarry Smith ierr = PetscMemcpy(a->colmap,oldmat->colmap,(mat->cmap.N)*sizeof(PetscInt));CHKERRQ(ierr); 2037b1fc9764SSatish Balay #endif 2038416022c9SBarry Smith } else a->colmap = 0; 20393f41c07dSBarry Smith if (oldmat->garray) { 2040b1d57f15SBarry Smith PetscInt len; 2041899cda47SBarry Smith len = oldmat->B->cmap.n; 2042b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&a->garray);CHKERRQ(ierr); 204352e6d16bSBarry Smith ierr = PetscLogObjectMemory(mat,len*sizeof(PetscInt));CHKERRQ(ierr); 2044b1d57f15SBarry Smith if (len) { ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(PetscInt));CHKERRQ(ierr); } 2045416022c9SBarry Smith } else a->garray = 0; 2046d6dfbf8fSBarry Smith 2047416022c9SBarry Smith ierr = VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr); 204852e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->lvec);CHKERRQ(ierr); 2049a56f8943SBarry Smith ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr); 205052e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->Mvctx);CHKERRQ(ierr); 20512e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr); 205252e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->A);CHKERRQ(ierr); 20532e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr); 205452e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->B);CHKERRQ(ierr); 2055b0a32e0cSBarry Smith ierr = PetscFListDuplicate(matin->qlist,&mat->qlist);CHKERRQ(ierr); 20568a729477SBarry Smith *newmat = mat; 20573a40ed3dSBarry Smith PetscFunctionReturn(0); 20588a729477SBarry Smith } 2059416022c9SBarry Smith 2060e090d566SSatish Balay #include "petscsys.h" 2061416022c9SBarry Smith 20624a2ae208SSatish Balay #undef __FUNCT__ 20634a2ae208SSatish Balay #define __FUNCT__ "MatLoad_MPIAIJ" 2064f69a0ea3SMatthew Knepley PetscErrorCode MatLoad_MPIAIJ(PetscViewer viewer, MatType type,Mat *newmat) 2065416022c9SBarry Smith { 2066d65a2f8fSBarry Smith Mat A; 206787828ca2SBarry Smith PetscScalar *vals,*svals; 206819bcc07fSBarry Smith MPI_Comm comm = ((PetscObject)viewer)->comm; 2069416022c9SBarry Smith MPI_Status status; 20706849ba73SBarry Smith PetscErrorCode ierr; 2071dc231df0SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag,maxnz; 2072167e7480SBarry Smith PetscInt i,nz,j,rstart,rend,mmax; 2073b1d57f15SBarry Smith PetscInt header[4],*rowlengths = 0,M,N,m,*cols; 2074910ba992SMatthew Knepley PetscInt *ourlens = PETSC_NULL,*procsnz = PETSC_NULL,*offlens = PETSC_NULL,jj,*mycols,*smycols; 2075dc231df0SBarry Smith PetscInt cend,cstart,n,*rowners; 2076b1d57f15SBarry Smith int fd; 2077416022c9SBarry Smith 20783a40ed3dSBarry Smith PetscFunctionBegin; 20791dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 20801dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 208117699dbbSLois Curfman McInnes if (!rank) { 2082b0a32e0cSBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 20830752156aSBarry Smith ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr); 2084552e946dSBarry Smith if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object"); 20856c5fab8fSBarry Smith } 20866c5fab8fSBarry Smith 2087b1d57f15SBarry Smith ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr); 2088416022c9SBarry Smith M = header[1]; N = header[2]; 2089416022c9SBarry Smith /* determine ownership of all rows */ 209029cdbbc8SSatish Balay m = M/size + ((M % size) > rank); 2091dc231df0SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&rowners);CHKERRQ(ierr); 2092dc231df0SBarry Smith ierr = MPI_Allgather(&m,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr); 2093167e7480SBarry Smith 2094167e7480SBarry Smith /* First process needs enough room for process with most rows */ 2095167e7480SBarry Smith if (!rank) { 2096167e7480SBarry Smith mmax = rowners[1]; 2097167e7480SBarry Smith for (i=2; i<size; i++) { 2098167e7480SBarry Smith mmax = PetscMax(mmax,rowners[i]); 2099167e7480SBarry Smith } 2100167e7480SBarry Smith } else mmax = m; 2101167e7480SBarry Smith 2102416022c9SBarry Smith rowners[0] = 0; 210317699dbbSLois Curfman McInnes for (i=2; i<=size; i++) { 2104167e7480SBarry Smith mmax = PetscMax(mmax,rowners[i]); 2105416022c9SBarry Smith rowners[i] += rowners[i-1]; 2106416022c9SBarry Smith } 210717699dbbSLois Curfman McInnes rstart = rowners[rank]; 210817699dbbSLois Curfman McInnes rend = rowners[rank+1]; 2109416022c9SBarry Smith 2110416022c9SBarry Smith /* distribute row lengths to all processors */ 2111167e7480SBarry Smith ierr = PetscMalloc2(mmax,PetscInt,&ourlens,mmax,PetscInt,&offlens);CHKERRQ(ierr); 211217699dbbSLois Curfman McInnes if (!rank) { 2113dc231df0SBarry Smith ierr = PetscBinaryRead(fd,ourlens,m,PETSC_INT);CHKERRQ(ierr); 2114dc231df0SBarry Smith ierr = PetscMalloc(m*sizeof(PetscInt),&rowlengths);CHKERRQ(ierr); 2115b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscInt),&procsnz);CHKERRQ(ierr); 2116b1d57f15SBarry Smith ierr = PetscMemzero(procsnz,size*sizeof(PetscInt));CHKERRQ(ierr); 2117dc231df0SBarry Smith for (j=0; j<m; j++) { 2118dc231df0SBarry Smith procsnz[0] += ourlens[j]; 2119dc231df0SBarry Smith } 2120dc231df0SBarry Smith for (i=1; i<size; i++) { 2121dc231df0SBarry Smith ierr = PetscBinaryRead(fd,rowlengths,rowners[i+1]-rowners[i],PETSC_INT);CHKERRQ(ierr); 2122dc231df0SBarry Smith /* calculate the number of nonzeros on each processor */ 2123dc231df0SBarry Smith for (j=0; j<rowners[i+1]-rowners[i]; j++) { 2124416022c9SBarry Smith procsnz[i] += rowlengths[j]; 2125416022c9SBarry Smith } 2126dc231df0SBarry Smith ierr = MPI_Send(rowlengths,rowners[i+1]-rowners[i],MPIU_INT,i,tag,comm);CHKERRQ(ierr); 2127416022c9SBarry Smith } 2128606d414cSSatish Balay ierr = PetscFree(rowlengths);CHKERRQ(ierr); 2129dc231df0SBarry Smith } else { 2130dc231df0SBarry Smith ierr = MPI_Recv(ourlens,m,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 2131dc231df0SBarry Smith } 2132416022c9SBarry Smith 2133dc231df0SBarry Smith if (!rank) { 2134416022c9SBarry Smith /* determine max buffer needed and allocate it */ 2135416022c9SBarry Smith maxnz = 0; 21368a8e0b3aSBarry Smith for (i=0; i<size; i++) { 21370452661fSBarry Smith maxnz = PetscMax(maxnz,procsnz[i]); 2138416022c9SBarry Smith } 2139b1d57f15SBarry Smith ierr = PetscMalloc(maxnz*sizeof(PetscInt),&cols);CHKERRQ(ierr); 2140416022c9SBarry Smith 2141416022c9SBarry Smith /* read in my part of the matrix column indices */ 2142416022c9SBarry Smith nz = procsnz[0]; 2143b1d57f15SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 21440752156aSBarry Smith ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr); 2145d65a2f8fSBarry Smith 2146d65a2f8fSBarry Smith /* read in every one elses and ship off */ 214717699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 2148d65a2f8fSBarry Smith nz = procsnz[i]; 21490752156aSBarry Smith ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 2150b1d57f15SBarry Smith ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr); 2151d65a2f8fSBarry Smith } 2152606d414cSSatish Balay ierr = PetscFree(cols);CHKERRQ(ierr); 21533a40ed3dSBarry Smith } else { 2154416022c9SBarry Smith /* determine buffer space needed for message */ 2155416022c9SBarry Smith nz = 0; 2156416022c9SBarry Smith for (i=0; i<m; i++) { 2157416022c9SBarry Smith nz += ourlens[i]; 2158416022c9SBarry Smith } 2159dc231df0SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 2160416022c9SBarry Smith 2161416022c9SBarry Smith /* receive message of column indices*/ 2162b1d57f15SBarry Smith ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 2163b1d57f15SBarry Smith ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr); 216429bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 2165416022c9SBarry Smith } 2166416022c9SBarry Smith 2167b362ba68SBarry Smith /* determine column ownership if matrix is not square */ 2168b362ba68SBarry Smith if (N != M) { 2169b362ba68SBarry Smith n = N/size + ((N % size) > rank); 2170b1d57f15SBarry Smith ierr = MPI_Scan(&n,&cend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 2171b362ba68SBarry Smith cstart = cend - n; 2172b362ba68SBarry Smith } else { 2173b362ba68SBarry Smith cstart = rstart; 2174b362ba68SBarry Smith cend = rend; 2175fb2e594dSBarry Smith n = cend - cstart; 2176b362ba68SBarry Smith } 2177b362ba68SBarry Smith 2178416022c9SBarry Smith /* loop over local rows, determining number of off diagonal entries */ 2179b1d57f15SBarry Smith ierr = PetscMemzero(offlens,m*sizeof(PetscInt));CHKERRQ(ierr); 2180416022c9SBarry Smith jj = 0; 2181416022c9SBarry Smith for (i=0; i<m; i++) { 2182416022c9SBarry Smith for (j=0; j<ourlens[i]; j++) { 2183b362ba68SBarry Smith if (mycols[jj] < cstart || mycols[jj] >= cend) offlens[i]++; 2184416022c9SBarry Smith jj++; 2185416022c9SBarry Smith } 2186416022c9SBarry Smith } 2187d65a2f8fSBarry Smith 2188d65a2f8fSBarry Smith /* create our matrix */ 2189416022c9SBarry Smith for (i=0; i<m; i++) { 2190416022c9SBarry Smith ourlens[i] -= offlens[i]; 2191416022c9SBarry Smith } 2192f69a0ea3SMatthew Knepley ierr = MatCreate(comm,&A);CHKERRQ(ierr); 2193f69a0ea3SMatthew Knepley ierr = MatSetSizes(A,m,n,M,N);CHKERRQ(ierr); 2194d10c748bSKris Buschelman ierr = MatSetType(A,type);CHKERRQ(ierr); 2195d10c748bSKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,ourlens,0,offlens);CHKERRQ(ierr); 2196d10c748bSKris Buschelman 2197fb2e594dSBarry Smith ierr = MatSetOption(A,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 2198d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2199d65a2f8fSBarry Smith ourlens[i] += offlens[i]; 2200d65a2f8fSBarry Smith } 2201416022c9SBarry Smith 220217699dbbSLois Curfman McInnes if (!rank) { 2203906b51c7SHong Zhang ierr = PetscMalloc((maxnz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2204416022c9SBarry Smith 2205416022c9SBarry Smith /* read in my part of the matrix numerical values */ 2206416022c9SBarry Smith nz = procsnz[0]; 22070752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2208d65a2f8fSBarry Smith 2209d65a2f8fSBarry Smith /* insert into matrix */ 2210d65a2f8fSBarry Smith jj = rstart; 2211d65a2f8fSBarry Smith smycols = mycols; 2212d65a2f8fSBarry Smith svals = vals; 2213d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2214dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2215d65a2f8fSBarry Smith smycols += ourlens[i]; 2216d65a2f8fSBarry Smith svals += ourlens[i]; 2217d65a2f8fSBarry Smith jj++; 2218416022c9SBarry Smith } 2219416022c9SBarry Smith 2220d65a2f8fSBarry Smith /* read in other processors and ship out */ 222117699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 2222416022c9SBarry Smith nz = procsnz[i]; 22230752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2224ca161407SBarry Smith ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,A->tag,comm);CHKERRQ(ierr); 2225416022c9SBarry Smith } 2226606d414cSSatish Balay ierr = PetscFree(procsnz);CHKERRQ(ierr); 22273a40ed3dSBarry Smith } else { 2228d65a2f8fSBarry Smith /* receive numeric values */ 222987828ca2SBarry Smith ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2230416022c9SBarry Smith 2231d65a2f8fSBarry Smith /* receive message of values*/ 2232ca161407SBarry Smith ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,A->tag,comm,&status);CHKERRQ(ierr); 2233ca161407SBarry Smith ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr); 223429bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 2235d65a2f8fSBarry Smith 2236d65a2f8fSBarry Smith /* insert into matrix */ 2237d65a2f8fSBarry Smith jj = rstart; 2238d65a2f8fSBarry Smith smycols = mycols; 2239d65a2f8fSBarry Smith svals = vals; 2240d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2241dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2242d65a2f8fSBarry Smith smycols += ourlens[i]; 2243d65a2f8fSBarry Smith svals += ourlens[i]; 2244d65a2f8fSBarry Smith jj++; 2245d65a2f8fSBarry Smith } 2246d65a2f8fSBarry Smith } 2247dc231df0SBarry Smith ierr = PetscFree2(ourlens,offlens);CHKERRQ(ierr); 2248606d414cSSatish Balay ierr = PetscFree(vals);CHKERRQ(ierr); 2249606d414cSSatish Balay ierr = PetscFree(mycols);CHKERRQ(ierr); 2250606d414cSSatish Balay ierr = PetscFree(rowners);CHKERRQ(ierr); 2251d65a2f8fSBarry Smith 22526d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 22536d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2254d10c748bSKris Buschelman *newmat = A; 22553a40ed3dSBarry Smith PetscFunctionReturn(0); 2256416022c9SBarry Smith } 2257a0ff6018SBarry Smith 22584a2ae208SSatish Balay #undef __FUNCT__ 22594a2ae208SSatish Balay #define __FUNCT__ "MatGetSubMatrix_MPIAIJ" 2260a0ff6018SBarry Smith /* 226129da9460SBarry Smith Not great since it makes two copies of the submatrix, first an SeqAIJ 226229da9460SBarry Smith in local and then by concatenating the local matrices the end result. 226329da9460SBarry Smith Writing it directly would be much like MatGetSubMatrices_MPIAIJ() 2264a0ff6018SBarry Smith */ 2265b1d57f15SBarry Smith PetscErrorCode MatGetSubMatrix_MPIAIJ(Mat mat,IS isrow,IS iscol,PetscInt csize,MatReuse call,Mat *newmat) 2266a0ff6018SBarry Smith { 2267dfbe8321SBarry Smith PetscErrorCode ierr; 226832dcc486SBarry Smith PetscMPIInt rank,size; 2269b1d57f15SBarry Smith PetscInt i,m,n,rstart,row,rend,nz,*cwork,j; 2270b1d57f15SBarry Smith PetscInt *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal; 2271fee21e36SBarry Smith Mat *local,M,Mreuse; 227287828ca2SBarry Smith PetscScalar *vwork,*aa; 227300e6dbe6SBarry Smith MPI_Comm comm = mat->comm; 227400e6dbe6SBarry Smith Mat_SeqAIJ *aij; 22757e2c5f70SBarry Smith 2276a0ff6018SBarry Smith 2277a0ff6018SBarry Smith PetscFunctionBegin; 22781dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 22791dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 228000e6dbe6SBarry Smith 2281fee21e36SBarry Smith if (call == MAT_REUSE_MATRIX) { 2282fee21e36SBarry Smith ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject *)&Mreuse);CHKERRQ(ierr); 2283e005ede5SBarry Smith if (!Mreuse) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse"); 2284fee21e36SBarry Smith local = &Mreuse; 2285fee21e36SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_REUSE_MATRIX,&local);CHKERRQ(ierr); 2286fee21e36SBarry Smith } else { 2287a0ff6018SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&local);CHKERRQ(ierr); 2288fee21e36SBarry Smith Mreuse = *local; 2289606d414cSSatish Balay ierr = PetscFree(local);CHKERRQ(ierr); 2290fee21e36SBarry Smith } 2291a0ff6018SBarry Smith 2292a0ff6018SBarry Smith /* 2293a0ff6018SBarry Smith m - number of local rows 2294a0ff6018SBarry Smith n - number of columns (same on all processors) 2295a0ff6018SBarry Smith rstart - first row in new global matrix generated 2296a0ff6018SBarry Smith */ 2297fee21e36SBarry Smith ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr); 2298a0ff6018SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2299fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 230000e6dbe6SBarry Smith ii = aij->i; 230100e6dbe6SBarry Smith jj = aij->j; 230200e6dbe6SBarry Smith 2303a0ff6018SBarry Smith /* 230400e6dbe6SBarry Smith Determine the number of non-zeros in the diagonal and off-diagonal 230500e6dbe6SBarry Smith portions of the matrix in order to do correct preallocation 2306a0ff6018SBarry Smith */ 230700e6dbe6SBarry Smith 230800e6dbe6SBarry Smith /* first get start and end of "diagonal" columns */ 23096a6a5d1dSBarry Smith if (csize == PETSC_DECIDE) { 2310ab50ec6bSBarry Smith ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr); 2311ab50ec6bSBarry Smith if (mglobal == n) { /* square matrix */ 2312e2c4fddaSBarry Smith nlocal = m; 23136a6a5d1dSBarry Smith } else { 2314ab50ec6bSBarry Smith nlocal = n/size + ((n % size) > rank); 2315ab50ec6bSBarry Smith } 2316ab50ec6bSBarry Smith } else { 23176a6a5d1dSBarry Smith nlocal = csize; 23186a6a5d1dSBarry Smith } 2319b1d57f15SBarry Smith ierr = MPI_Scan(&nlocal,&rend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 232000e6dbe6SBarry Smith rstart = rend - nlocal; 23216a6a5d1dSBarry Smith if (rank == size - 1 && rend != n) { 232277431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Local column sizes %D do not add up to total number of columns %D",rend,n); 23236a6a5d1dSBarry Smith } 232400e6dbe6SBarry Smith 232500e6dbe6SBarry Smith /* next, compute all the lengths */ 2326b1d57f15SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&dlens);CHKERRQ(ierr); 232700e6dbe6SBarry Smith olens = dlens + m; 232800e6dbe6SBarry Smith for (i=0; i<m; i++) { 232900e6dbe6SBarry Smith jend = ii[i+1] - ii[i]; 233000e6dbe6SBarry Smith olen = 0; 233100e6dbe6SBarry Smith dlen = 0; 233200e6dbe6SBarry Smith for (j=0; j<jend; j++) { 233300e6dbe6SBarry Smith if (*jj < rstart || *jj >= rend) olen++; 233400e6dbe6SBarry Smith else dlen++; 233500e6dbe6SBarry Smith jj++; 233600e6dbe6SBarry Smith } 233700e6dbe6SBarry Smith olens[i] = olen; 233800e6dbe6SBarry Smith dlens[i] = dlen; 233900e6dbe6SBarry Smith } 2340f69a0ea3SMatthew Knepley ierr = MatCreate(comm,&M);CHKERRQ(ierr); 2341f69a0ea3SMatthew Knepley ierr = MatSetSizes(M,m,nlocal,PETSC_DECIDE,n);CHKERRQ(ierr); 2342e2d9671bSKris Buschelman ierr = MatSetType(M,mat->type_name);CHKERRQ(ierr); 2343e2d9671bSKris Buschelman ierr = MatMPIAIJSetPreallocation(M,0,dlens,0,olens);CHKERRQ(ierr); 2344606d414cSSatish Balay ierr = PetscFree(dlens);CHKERRQ(ierr); 2345a0ff6018SBarry Smith } else { 2346b1d57f15SBarry Smith PetscInt ml,nl; 2347a0ff6018SBarry Smith 2348a0ff6018SBarry Smith M = *newmat; 2349a0ff6018SBarry Smith ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr); 235029bbc08cSBarry Smith if (ml != m) SETERRQ(PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request"); 2351a0ff6018SBarry Smith ierr = MatZeroEntries(M);CHKERRQ(ierr); 2352c48de900SBarry Smith /* 2353c48de900SBarry Smith The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 2354c48de900SBarry Smith rather than the slower MatSetValues(). 2355c48de900SBarry Smith */ 2356c48de900SBarry Smith M->was_assembled = PETSC_TRUE; 2357c48de900SBarry Smith M->assembled = PETSC_FALSE; 2358a0ff6018SBarry Smith } 2359a0ff6018SBarry Smith ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr); 2360fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 236100e6dbe6SBarry Smith ii = aij->i; 236200e6dbe6SBarry Smith jj = aij->j; 236300e6dbe6SBarry Smith aa = aij->a; 2364a0ff6018SBarry Smith for (i=0; i<m; i++) { 2365a0ff6018SBarry Smith row = rstart + i; 236600e6dbe6SBarry Smith nz = ii[i+1] - ii[i]; 236700e6dbe6SBarry Smith cwork = jj; jj += nz; 236800e6dbe6SBarry Smith vwork = aa; aa += nz; 23698c638d02SBarry Smith ierr = MatSetValues_MPIAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr); 2370a0ff6018SBarry Smith } 2371a0ff6018SBarry Smith 2372a0ff6018SBarry Smith ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2373a0ff6018SBarry Smith ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2374a0ff6018SBarry Smith *newmat = M; 2375fee21e36SBarry Smith 2376fee21e36SBarry Smith /* save submatrix used in processor for next request */ 2377fee21e36SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2378fee21e36SBarry Smith ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr); 2379fee21e36SBarry Smith ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr); 2380fee21e36SBarry Smith } 2381fee21e36SBarry Smith 2382a0ff6018SBarry Smith PetscFunctionReturn(0); 2383a0ff6018SBarry Smith } 2384273d9f13SBarry Smith 2385e2e86b8fSSatish Balay EXTERN_C_BEGIN 23864a2ae208SSatish Balay #undef __FUNCT__ 2387ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR_MPIAIJ" 2388b7940d39SSatish Balay PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B,const PetscInt Ii[],const PetscInt J[],const PetscScalar v[]) 2389ccd8e176SBarry Smith { 2390899cda47SBarry Smith PetscInt m,cstart, cend,j,nnz,i,d; 2391899cda47SBarry Smith PetscInt *d_nnz,*o_nnz,nnz_max = 0,rstart,ii; 2392ccd8e176SBarry Smith const PetscInt *JJ; 2393ccd8e176SBarry Smith PetscScalar *values; 2394ccd8e176SBarry Smith PetscErrorCode ierr; 2395ccd8e176SBarry Smith 2396ccd8e176SBarry Smith PetscFunctionBegin; 2397b7940d39SSatish Balay if (Ii[0]) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Ii[0] must be 0 it is %D",Ii[0]); 2398899cda47SBarry Smith 2399899cda47SBarry Smith B->rmap.bs = B->cmap.bs = 1; 2400899cda47SBarry Smith ierr = PetscMapInitialize(B->comm,&B->rmap);CHKERRQ(ierr); 2401899cda47SBarry Smith ierr = PetscMapInitialize(B->comm,&B->cmap);CHKERRQ(ierr); 2402899cda47SBarry Smith m = B->rmap.n; 2403899cda47SBarry Smith cstart = B->cmap.rstart; 2404899cda47SBarry Smith cend = B->cmap.rend; 2405899cda47SBarry Smith rstart = B->rmap.rstart; 2406899cda47SBarry Smith 2407ccd8e176SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr); 2408ccd8e176SBarry Smith o_nnz = d_nnz + m; 2409ccd8e176SBarry Smith 2410ccd8e176SBarry Smith for (i=0; i<m; i++) { 2411b7940d39SSatish Balay nnz = Ii[i+1]- Ii[i]; 2412b7940d39SSatish Balay JJ = J + Ii[i]; 2413ccd8e176SBarry Smith nnz_max = PetscMax(nnz_max,nnz); 2414a1661176SMatthew Knepley if (nnz < 0) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Local row %D has a negative %D number of columns",i,nnz); 2415ccd8e176SBarry Smith for (j=0; j<nnz; j++) { 2416ccd8e176SBarry Smith if (*JJ >= cstart) break; 2417ccd8e176SBarry Smith JJ++; 2418ccd8e176SBarry Smith } 2419ccd8e176SBarry Smith d = 0; 2420ccd8e176SBarry Smith for (; j<nnz; j++) { 2421ccd8e176SBarry Smith if (*JJ++ >= cend) break; 2422ccd8e176SBarry Smith d++; 2423ccd8e176SBarry Smith } 2424ccd8e176SBarry Smith d_nnz[i] = d; 2425ccd8e176SBarry Smith o_nnz[i] = nnz - d; 2426ccd8e176SBarry Smith } 2427ccd8e176SBarry Smith ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,o_nnz);CHKERRQ(ierr); 2428ccd8e176SBarry Smith ierr = PetscFree(d_nnz);CHKERRQ(ierr); 2429ccd8e176SBarry Smith 2430ccd8e176SBarry Smith if (v) values = (PetscScalar*)v; 2431ccd8e176SBarry Smith else { 2432ccd8e176SBarry Smith ierr = PetscMalloc((nnz_max+1)*sizeof(PetscScalar),&values);CHKERRQ(ierr); 2433ccd8e176SBarry Smith ierr = PetscMemzero(values,nnz_max*sizeof(PetscScalar));CHKERRQ(ierr); 2434ccd8e176SBarry Smith } 2435ccd8e176SBarry Smith 2436ccd8e176SBarry Smith ierr = MatSetOption(B,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 2437ccd8e176SBarry Smith for (i=0; i<m; i++) { 2438ccd8e176SBarry Smith ii = i + rstart; 2439b7940d39SSatish Balay nnz = Ii[i+1]- Ii[i]; 2440b7940d39SSatish Balay ierr = MatSetValues_MPIAIJ(B,1,&ii,nnz,J+Ii[i],values+(v ? Ii[i] : 0),INSERT_VALUES);CHKERRQ(ierr); 2441ccd8e176SBarry Smith } 2442ccd8e176SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2443ccd8e176SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2444ccd8e176SBarry Smith ierr = MatSetOption(B,MAT_COLUMNS_UNSORTED);CHKERRQ(ierr); 2445ccd8e176SBarry Smith 2446ccd8e176SBarry Smith if (!v) { 2447ccd8e176SBarry Smith ierr = PetscFree(values);CHKERRQ(ierr); 2448ccd8e176SBarry Smith } 2449ccd8e176SBarry Smith PetscFunctionReturn(0); 2450ccd8e176SBarry Smith } 2451e2e86b8fSSatish Balay EXTERN_C_END 2452ccd8e176SBarry Smith 2453ccd8e176SBarry Smith #undef __FUNCT__ 2454ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR" 24551eea217eSSatish Balay /*@ 2456ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in AIJ format 2457ccd8e176SBarry Smith (the default parallel PETSc format). 2458ccd8e176SBarry Smith 2459ccd8e176SBarry Smith Collective on MPI_Comm 2460ccd8e176SBarry Smith 2461ccd8e176SBarry Smith Input Parameters: 2462a1661176SMatthew Knepley + B - the matrix 2463ccd8e176SBarry Smith . i - the indices into j for the start of each local row (starts with zero) 2464ccd8e176SBarry Smith . j - the column indices for each local row (starts with zero) these must be sorted for each row 2465ccd8e176SBarry Smith - v - optional values in the matrix 2466ccd8e176SBarry Smith 2467ccd8e176SBarry Smith Level: developer 2468ccd8e176SBarry Smith 24692fb0ec9aSBarry Smith Notes: this actually copies the values from i[], j[], and a[] to put them into PETSc's internal 24702fb0ec9aSBarry Smith storage format. Thus changing the values in a[] after this call will not effect the matrix values. 24712fb0ec9aSBarry Smith 2472ccd8e176SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2473ccd8e176SBarry Smith 24742fb0ec9aSBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatCreateMPIAIJ(), MPIAIJ, 2475*8d7a6e47SBarry Smith MatCreateSeqAIJWithArrays(), MatCreateMPIAIJWithSplitArrays() 2476ccd8e176SBarry Smith @*/ 2477be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocationCSR(Mat B,const PetscInt i[],const PetscInt j[], const PetscScalar v[]) 2478ccd8e176SBarry Smith { 2479ccd8e176SBarry Smith PetscErrorCode ierr,(*f)(Mat,const PetscInt[],const PetscInt[],const PetscScalar[]); 2480ccd8e176SBarry Smith 2481ccd8e176SBarry Smith PetscFunctionBegin; 2482ccd8e176SBarry Smith ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",(void (**)(void))&f);CHKERRQ(ierr); 2483ccd8e176SBarry Smith if (f) { 2484ccd8e176SBarry Smith ierr = (*f)(B,i,j,v);CHKERRQ(ierr); 2485ccd8e176SBarry Smith } 2486ccd8e176SBarry Smith PetscFunctionReturn(0); 2487ccd8e176SBarry Smith } 2488ccd8e176SBarry Smith 2489ccd8e176SBarry Smith #undef __FUNCT__ 24904a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJSetPreallocation" 2491273d9f13SBarry Smith /*@C 2492ccd8e176SBarry Smith MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in AIJ format 2493273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2494273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2495273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2496273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2497273d9f13SBarry Smith 2498273d9f13SBarry Smith Collective on MPI_Comm 2499273d9f13SBarry Smith 2500273d9f13SBarry Smith Input Parameters: 2501273d9f13SBarry Smith + A - the matrix 2502273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2503273d9f13SBarry Smith (same value is used for all local rows) 2504273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2505273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2506273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2507273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2508273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2509273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2510273d9f13SBarry Smith submatrix (same value is used for all local rows). 2511273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2512273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2513273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2514273d9f13SBarry Smith structure. The size of this array is equal to the number 2515273d9f13SBarry Smith of local rows, i.e 'm'. 2516273d9f13SBarry Smith 251749a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 251849a6f317SBarry Smith 2519273d9f13SBarry Smith The AIJ format (also called the Yale sparse matrix format or 2520ccd8e176SBarry Smith compressed row storage (CSR)), is fully compatible with standard Fortran 77 2521ccd8e176SBarry Smith storage. The stored row and column indices begin with zero. See the users manual for details. 2522273d9f13SBarry Smith 2523273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2524273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2525273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2526273d9f13SBarry Smith 2527273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2528273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2529273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2530273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2531273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2532273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2533273d9f13SBarry Smith 2534273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2535273d9f13SBarry Smith 2536273d9f13SBarry Smith Example usage: 2537273d9f13SBarry Smith 2538273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2539273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2540273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2541273d9f13SBarry Smith as follows: 2542273d9f13SBarry Smith 2543273d9f13SBarry Smith .vb 2544273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2545273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2546273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2547273d9f13SBarry Smith ------------------------------------- 2548273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2549273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2550273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2551273d9f13SBarry Smith ------------------------------------- 2552273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2553273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2554273d9f13SBarry Smith .ve 2555273d9f13SBarry Smith 2556273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2557273d9f13SBarry Smith 2558273d9f13SBarry Smith .vb 2559273d9f13SBarry Smith A B C 2560273d9f13SBarry Smith D E F 2561273d9f13SBarry Smith G H I 2562273d9f13SBarry Smith .ve 2563273d9f13SBarry Smith 2564273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2565273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2566273d9f13SBarry Smith 2567273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2568273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2569273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2570273d9f13SBarry Smith 2571273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2572273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2573273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2574273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2575273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2576273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2577273d9f13SBarry Smith 2578273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2579273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2580273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2581273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2582273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2583273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2584273d9f13SBarry Smith .vb 2585273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2586273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2587273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2588273d9f13SBarry Smith .ve 2589273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2590273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2591273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2592273d9f13SBarry Smith 34 values. 2593273d9f13SBarry Smith 2594273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2595273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2596273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2597273d9f13SBarry Smith .vb 2598273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2599273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2600273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2601273d9f13SBarry Smith .ve 2602273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2603273d9f13SBarry Smith hence pre-allocation is perfect. 2604273d9f13SBarry Smith 2605273d9f13SBarry Smith Level: intermediate 2606273d9f13SBarry Smith 2607273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2608273d9f13SBarry Smith 2609ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateMPIAIJ(), MatMPIAIJSetPreallocationCSR(), 2610ccd8e176SBarry Smith MPIAIJ 2611273d9f13SBarry Smith @*/ 2612be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 2613273d9f13SBarry Smith { 2614b1d57f15SBarry Smith PetscErrorCode ierr,(*f)(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]); 2615273d9f13SBarry Smith 2616273d9f13SBarry Smith PetscFunctionBegin; 2617a23d5eceSKris Buschelman ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocation_C",(void (**)(void))&f);CHKERRQ(ierr); 2618a23d5eceSKris Buschelman if (f) { 2619a23d5eceSKris Buschelman ierr = (*f)(B,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2620273d9f13SBarry Smith } 2621273d9f13SBarry Smith PetscFunctionReturn(0); 2622273d9f13SBarry Smith } 2623273d9f13SBarry Smith 26244a2ae208SSatish Balay #undef __FUNCT__ 26252fb0ec9aSBarry Smith #define __FUNCT__ "MatCreateMPIAIJWithArrays" 26262fb0ec9aSBarry Smith /*@C 26272fb0ec9aSBarry Smith MatCreateMPIAIJWithArrays - creates a MPI AIJ matrix using arrays that contain in standard 26282fb0ec9aSBarry Smith CSR format the local rows. 26292fb0ec9aSBarry Smith 26302fb0ec9aSBarry Smith Collective on MPI_Comm 26312fb0ec9aSBarry Smith 26322fb0ec9aSBarry Smith Input Parameters: 26332fb0ec9aSBarry Smith + comm - MPI communicator 26342fb0ec9aSBarry Smith . m - number of local rows (Cannot be PETSC_DECIDE) 26352fb0ec9aSBarry Smith . n - This value should be the same as the local size used in creating the 26362fb0ec9aSBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 26372fb0ec9aSBarry Smith calculated if N is given) For square matrices n is almost always m. 26382fb0ec9aSBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 26392fb0ec9aSBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 26402fb0ec9aSBarry Smith . i - row indices 26412fb0ec9aSBarry Smith . j - column indices 26422fb0ec9aSBarry Smith - a - matrix values 26432fb0ec9aSBarry Smith 26442fb0ec9aSBarry Smith Output Parameter: 26452fb0ec9aSBarry Smith . mat - the matrix 264603bfb495SBarry Smith 26472fb0ec9aSBarry Smith Level: intermediate 26482fb0ec9aSBarry Smith 26492fb0ec9aSBarry Smith Notes: 26502fb0ec9aSBarry Smith The i, j, and a arrays ARE copied by this routine into the internal format used by PETSc; 26512fb0ec9aSBarry Smith thus you CANNOT change the matrix entries by changing the values of a[] after you have 2652*8d7a6e47SBarry Smith called this routine. Use MatCreateMPIAIJWithSplitArrays() to avoid needing to copy the arrays. 26532fb0ec9aSBarry Smith 26542fb0ec9aSBarry Smith The i and j indices are 0 based 26552fb0ec9aSBarry Smith 26562fb0ec9aSBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 26572fb0ec9aSBarry Smith 26582fb0ec9aSBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 2659*8d7a6e47SBarry Smith MPIAIJ, MatCreateMPIAIJ(), MatCreateMPIAIJWithSplitArrays() 26602fb0ec9aSBarry Smith @*/ 26612fb0ec9aSBarry Smith PetscErrorCode PETSCMAT_DLLEXPORT MatCreateMPIIJWithArrays(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,const PetscInt i[],const PetscInt j[],const PetscScalar a[],Mat *mat) 26622fb0ec9aSBarry Smith { 26632fb0ec9aSBarry Smith PetscErrorCode ierr; 26642fb0ec9aSBarry Smith 26652fb0ec9aSBarry Smith PetscFunctionBegin; 26662fb0ec9aSBarry Smith if (i[0]) { 26672fb0ec9aSBarry Smith SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0"); 26682fb0ec9aSBarry Smith } 26692fb0ec9aSBarry Smith if (m < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"local number of rows (m) cannot be PETSC_DECIDE, or negative"); 26702fb0ec9aSBarry Smith ierr = MatCreate(comm,mat);CHKERRQ(ierr); 26712fb0ec9aSBarry Smith ierr = MatSetType(*mat,MATMPIAIJ);CHKERRQ(ierr); 26722fb0ec9aSBarry Smith ierr = MatMPIAIJSetPreallocationCSR(*mat,i,j,a);CHKERRQ(ierr); 26732fb0ec9aSBarry Smith PetscFunctionReturn(0); 26742fb0ec9aSBarry Smith } 26752fb0ec9aSBarry Smith 26762fb0ec9aSBarry Smith #undef __FUNCT__ 26774a2ae208SSatish Balay #define __FUNCT__ "MatCreateMPIAIJ" 2678273d9f13SBarry Smith /*@C 2679273d9f13SBarry Smith MatCreateMPIAIJ - Creates a sparse parallel matrix in AIJ format 2680273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2681273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2682273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2683273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2684273d9f13SBarry Smith 2685273d9f13SBarry Smith Collective on MPI_Comm 2686273d9f13SBarry Smith 2687273d9f13SBarry Smith Input Parameters: 2688273d9f13SBarry Smith + comm - MPI communicator 2689273d9f13SBarry Smith . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 2690273d9f13SBarry Smith This value should be the same as the local size used in creating the 2691273d9f13SBarry Smith y vector for the matrix-vector product y = Ax. 2692273d9f13SBarry Smith . n - This value should be the same as the local size used in creating the 2693273d9f13SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 2694273d9f13SBarry Smith calculated if N is given) For square matrices n is almost always m. 2695273d9f13SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 2696273d9f13SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 2697273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2698273d9f13SBarry Smith (same value is used for all local rows) 2699273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2700273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2701273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2702273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2703273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2704273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2705273d9f13SBarry Smith submatrix (same value is used for all local rows). 2706273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2707273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2708273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2709273d9f13SBarry Smith structure. The size of this array is equal to the number 2710273d9f13SBarry Smith of local rows, i.e 'm'. 2711273d9f13SBarry Smith 2712273d9f13SBarry Smith Output Parameter: 2713273d9f13SBarry Smith . A - the matrix 2714273d9f13SBarry Smith 2715273d9f13SBarry Smith Notes: 271649a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 271749a6f317SBarry Smith 2718273d9f13SBarry Smith m,n,M,N parameters specify the size of the matrix, and its partitioning across 2719273d9f13SBarry Smith processors, while d_nz,d_nnz,o_nz,o_nnz parameters specify the approximate 2720273d9f13SBarry Smith storage requirements for this matrix. 2721273d9f13SBarry Smith 2722273d9f13SBarry Smith If PETSC_DECIDE or PETSC_DETERMINE is used for a particular argument on one 2723273d9f13SBarry Smith processor than it must be used on all processors that share the object for 2724273d9f13SBarry Smith that argument. 2725273d9f13SBarry Smith 2726273d9f13SBarry Smith The user MUST specify either the local or global matrix dimensions 2727273d9f13SBarry Smith (possibly both). 2728273d9f13SBarry Smith 2729273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2730273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2731273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2732273d9f13SBarry Smith 2733273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2734273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2735273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2736273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2737273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2738273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2739273d9f13SBarry Smith 2740273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2741273d9f13SBarry Smith 274297d05335SKris Buschelman When calling this routine with a single process communicator, a matrix of 274397d05335SKris Buschelman type SEQAIJ is returned. If a matrix of type MPIAIJ is desired for this 274497d05335SKris Buschelman type of communicator, use the construction mechanism: 274597d05335SKris Buschelman MatCreate(...,&A); MatSetType(A,MPIAIJ); MatMPIAIJSetPreallocation(A,...); 274697d05335SKris Buschelman 2747273d9f13SBarry Smith By default, this format uses inodes (identical nodes) when possible. 2748273d9f13SBarry Smith We search for consecutive rows with the same nonzero structure, thereby 2749273d9f13SBarry Smith reusing matrix information to achieve increased efficiency. 2750273d9f13SBarry Smith 2751273d9f13SBarry Smith Options Database Keys: 2752923f20ffSKris Buschelman + -mat_no_inode - Do not use inodes 2753923f20ffSKris Buschelman . -mat_inode_limit <limit> - Sets inode limit (max limit=5) 2754273d9f13SBarry Smith - -mat_aij_oneindex - Internally use indexing starting at 1 2755273d9f13SBarry Smith rather than 0. Note that when calling MatSetValues(), 2756273d9f13SBarry Smith the user still MUST index entries starting at 0! 2757273d9f13SBarry Smith 2758273d9f13SBarry Smith 2759273d9f13SBarry Smith Example usage: 2760273d9f13SBarry Smith 2761273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2762273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2763273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2764273d9f13SBarry Smith as follows: 2765273d9f13SBarry Smith 2766273d9f13SBarry Smith .vb 2767273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2768273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2769273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2770273d9f13SBarry Smith ------------------------------------- 2771273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2772273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2773273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2774273d9f13SBarry Smith ------------------------------------- 2775273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2776273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2777273d9f13SBarry Smith .ve 2778273d9f13SBarry Smith 2779273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2780273d9f13SBarry Smith 2781273d9f13SBarry Smith .vb 2782273d9f13SBarry Smith A B C 2783273d9f13SBarry Smith D E F 2784273d9f13SBarry Smith G H I 2785273d9f13SBarry Smith .ve 2786273d9f13SBarry Smith 2787273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2788273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2789273d9f13SBarry Smith 2790273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2791273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2792273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2793273d9f13SBarry Smith 2794273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2795273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2796273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2797273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2798273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2799273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2800273d9f13SBarry Smith 2801273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2802273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2803273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2804273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2805273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2806273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2807273d9f13SBarry Smith .vb 2808273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2809273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2810273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2811273d9f13SBarry Smith .ve 2812273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2813273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2814273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2815273d9f13SBarry Smith 34 values. 2816273d9f13SBarry Smith 2817273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2818273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2819273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2820273d9f13SBarry Smith .vb 2821273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2822273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2823273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2824273d9f13SBarry Smith .ve 2825273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2826273d9f13SBarry Smith hence pre-allocation is perfect. 2827273d9f13SBarry Smith 2828273d9f13SBarry Smith Level: intermediate 2829273d9f13SBarry Smith 2830273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2831273d9f13SBarry Smith 2832ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 28332fb0ec9aSBarry Smith MPIAIJ, MatCreateMPIAIJWithArrays() 2834273d9f13SBarry Smith @*/ 2835be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT 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) 2836273d9f13SBarry Smith { 28376849ba73SBarry Smith PetscErrorCode ierr; 2838b1d57f15SBarry Smith PetscMPIInt size; 2839273d9f13SBarry Smith 2840273d9f13SBarry Smith PetscFunctionBegin; 2841f69a0ea3SMatthew Knepley ierr = MatCreate(comm,A);CHKERRQ(ierr); 2842f69a0ea3SMatthew Knepley ierr = MatSetSizes(*A,m,n,M,N);CHKERRQ(ierr); 2843273d9f13SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 2844273d9f13SBarry Smith if (size > 1) { 2845273d9f13SBarry Smith ierr = MatSetType(*A,MATMPIAIJ);CHKERRQ(ierr); 2846273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(*A,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2847273d9f13SBarry Smith } else { 2848273d9f13SBarry Smith ierr = MatSetType(*A,MATSEQAIJ);CHKERRQ(ierr); 2849273d9f13SBarry Smith ierr = MatSeqAIJSetPreallocation(*A,d_nz,d_nnz);CHKERRQ(ierr); 2850273d9f13SBarry Smith } 2851273d9f13SBarry Smith PetscFunctionReturn(0); 2852273d9f13SBarry Smith } 2853195d93cdSBarry Smith 28544a2ae208SSatish Balay #undef __FUNCT__ 28554a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJGetSeqAIJ" 2856be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJGetSeqAIJ(Mat A,Mat *Ad,Mat *Ao,PetscInt *colmap[]) 2857195d93cdSBarry Smith { 2858195d93cdSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2859b1d57f15SBarry Smith 2860195d93cdSBarry Smith PetscFunctionBegin; 2861195d93cdSBarry Smith *Ad = a->A; 2862195d93cdSBarry Smith *Ao = a->B; 2863195d93cdSBarry Smith *colmap = a->garray; 2864195d93cdSBarry Smith PetscFunctionReturn(0); 2865195d93cdSBarry Smith } 2866a2243be0SBarry Smith 2867a2243be0SBarry Smith #undef __FUNCT__ 2868a2243be0SBarry Smith #define __FUNCT__ "MatSetColoring_MPIAIJ" 2869dfbe8321SBarry Smith PetscErrorCode MatSetColoring_MPIAIJ(Mat A,ISColoring coloring) 2870a2243be0SBarry Smith { 2871dfbe8321SBarry Smith PetscErrorCode ierr; 2872b1d57f15SBarry Smith PetscInt i; 2873a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2874a2243be0SBarry Smith 2875a2243be0SBarry Smith PetscFunctionBegin; 2876a2243be0SBarry Smith if (coloring->ctype == IS_COLORING_LOCAL) { 287708b6dcc0SBarry Smith ISColoringValue *allcolors,*colors; 2878a2243be0SBarry Smith ISColoring ocoloring; 2879a2243be0SBarry Smith 2880a2243be0SBarry Smith /* set coloring for diagonal portion */ 2881a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,coloring);CHKERRQ(ierr); 2882a2243be0SBarry Smith 2883a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 288408b6dcc0SBarry Smith ierr = ISAllGatherColors(A->comm,coloring->n,coloring->colors,PETSC_NULL,&allcolors);CHKERRQ(ierr); 2885899cda47SBarry Smith ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2886899cda47SBarry Smith for (i=0; i<a->B->cmap.n; i++) { 2887a2243be0SBarry Smith colors[i] = allcolors[a->garray[i]]; 2888a2243be0SBarry Smith } 2889a2243be0SBarry Smith ierr = PetscFree(allcolors);CHKERRQ(ierr); 289095a80f87SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,coloring->n,a->B->cmap.n,colors,&ocoloring);CHKERRQ(ierr); 2891a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2892a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2893a2243be0SBarry Smith } else if (coloring->ctype == IS_COLORING_GHOSTED) { 289408b6dcc0SBarry Smith ISColoringValue *colors; 2895b1d57f15SBarry Smith PetscInt *larray; 2896a2243be0SBarry Smith ISColoring ocoloring; 2897a2243be0SBarry Smith 2898a2243be0SBarry Smith /* set coloring for diagonal portion */ 2899899cda47SBarry Smith ierr = PetscMalloc((a->A->cmap.n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 2900899cda47SBarry Smith for (i=0; i<a->A->cmap.n; i++) { 2901899cda47SBarry Smith larray[i] = i + A->cmap.rstart; 2902a2243be0SBarry Smith } 2903899cda47SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->A->cmap.n,larray,PETSC_NULL,larray);CHKERRQ(ierr); 2904899cda47SBarry Smith ierr = PetscMalloc((a->A->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2905899cda47SBarry Smith for (i=0; i<a->A->cmap.n; i++) { 2906a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2907a2243be0SBarry Smith } 2908a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 290995a80f87SBarry Smith ierr = ISColoringCreate(PETSC_COMM_SELF,coloring->n,a->A->cmap.n,colors,&ocoloring);CHKERRQ(ierr); 2910a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,ocoloring);CHKERRQ(ierr); 2911a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2912a2243be0SBarry Smith 2913a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 2914899cda47SBarry Smith ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 2915899cda47SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->B->cmap.n,a->garray,PETSC_NULL,larray);CHKERRQ(ierr); 2916899cda47SBarry Smith ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 2917899cda47SBarry Smith for (i=0; i<a->B->cmap.n; i++) { 2918a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2919a2243be0SBarry Smith } 2920a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 292195a80f87SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,coloring->n,a->B->cmap.n,colors,&ocoloring);CHKERRQ(ierr); 2922a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2923a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2924a2243be0SBarry Smith } else { 292577431f27SBarry Smith SETERRQ1(PETSC_ERR_SUP,"No support ISColoringType %d",(int)coloring->ctype); 2926a2243be0SBarry Smith } 2927a2243be0SBarry Smith 2928a2243be0SBarry Smith PetscFunctionReturn(0); 2929a2243be0SBarry Smith } 2930a2243be0SBarry Smith 2931dcf5cc72SBarry Smith #if defined(PETSC_HAVE_ADIC) 2932a2243be0SBarry Smith #undef __FUNCT__ 2933779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdic_MPIAIJ" 2934dfbe8321SBarry Smith PetscErrorCode MatSetValuesAdic_MPIAIJ(Mat A,void *advalues) 2935a2243be0SBarry Smith { 2936a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2937dfbe8321SBarry Smith PetscErrorCode ierr; 2938a2243be0SBarry Smith 2939a2243be0SBarry Smith PetscFunctionBegin; 2940779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->A,advalues);CHKERRQ(ierr); 2941779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->B,advalues);CHKERRQ(ierr); 2942779c1a83SBarry Smith PetscFunctionReturn(0); 2943779c1a83SBarry Smith } 2944dcf5cc72SBarry Smith #endif 2945779c1a83SBarry Smith 2946779c1a83SBarry Smith #undef __FUNCT__ 2947779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdifor_MPIAIJ" 2948b1d57f15SBarry Smith PetscErrorCode MatSetValuesAdifor_MPIAIJ(Mat A,PetscInt nl,void *advalues) 2949779c1a83SBarry Smith { 2950779c1a83SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2951dfbe8321SBarry Smith PetscErrorCode ierr; 2952779c1a83SBarry Smith 2953779c1a83SBarry Smith PetscFunctionBegin; 2954779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->A,nl,advalues);CHKERRQ(ierr); 2955779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->B,nl,advalues);CHKERRQ(ierr); 2956a2243be0SBarry Smith PetscFunctionReturn(0); 2957a2243be0SBarry Smith } 2958c5d6d63eSBarry Smith 2959c5d6d63eSBarry Smith #undef __FUNCT__ 296051dd7536SBarry Smith #define __FUNCT__ "MatMerge" 2961c5d6d63eSBarry Smith /*@C 296251dd7536SBarry Smith MatMerge - Creates a single large PETSc matrix by concatinating sequential 296351dd7536SBarry Smith matrices from each processor 2964c5d6d63eSBarry Smith 2965c5d6d63eSBarry Smith Collective on MPI_Comm 2966c5d6d63eSBarry Smith 2967c5d6d63eSBarry Smith Input Parameters: 296851dd7536SBarry Smith + comm - the communicators the parallel matrix will live on 2969d6bb3c2dSHong Zhang . inmat - the input sequential matrices 29700e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 2971d6bb3c2dSHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 297251dd7536SBarry Smith 297351dd7536SBarry Smith Output Parameter: 297451dd7536SBarry Smith . outmat - the parallel matrix generated 2975c5d6d63eSBarry Smith 29767e25d530SSatish Balay Level: advanced 29777e25d530SSatish Balay 2978f08fae4eSHong Zhang Notes: The number of columns of the matrix in EACH processor MUST be the same. 2979c5d6d63eSBarry Smith 2980c5d6d63eSBarry Smith @*/ 2981be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat) 2982c5d6d63eSBarry Smith { 2983dfbe8321SBarry Smith PetscErrorCode ierr; 2984b7940d39SSatish Balay PetscInt m,N,i,rstart,nnz,Ii,*dnz,*onz; 2985ba8c8a56SBarry Smith PetscInt *indx; 2986ba8c8a56SBarry Smith PetscScalar *values; 2987c5d6d63eSBarry Smith 2988c5d6d63eSBarry Smith PetscFunctionBegin; 29890e36024fSHong Zhang ierr = MatGetSize(inmat,&m,&N);CHKERRQ(ierr); 2990d6bb3c2dSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 2991d6bb3c2dSHong Zhang /* count nonzeros in each row, for diagonal and off diagonal portion of matrix */ 29920e36024fSHong Zhang if (n == PETSC_DECIDE){ 2993357abbc8SBarry Smith ierr = PetscSplitOwnership(comm,&n,&N);CHKERRQ(ierr); 29940e36024fSHong Zhang } 2995357abbc8SBarry Smith ierr = MPI_Scan(&m, &rstart,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 2996357abbc8SBarry Smith rstart -= m; 2997d6bb3c2dSHong Zhang 2998d6bb3c2dSHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 2999d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 3000ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 3001d6bb3c2dSHong Zhang ierr = MatPreallocateSet(i+rstart,nnz,indx,dnz,onz);CHKERRQ(ierr); 3002ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 3003d6bb3c2dSHong Zhang } 3004d6bb3c2dSHong Zhang /* This routine will ONLY return MPIAIJ type matrix */ 3005f69a0ea3SMatthew Knepley ierr = MatCreate(comm,outmat);CHKERRQ(ierr); 3006f69a0ea3SMatthew Knepley ierr = MatSetSizes(*outmat,m,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 3007d6bb3c2dSHong Zhang ierr = MatSetType(*outmat,MATMPIAIJ);CHKERRQ(ierr); 3008d6bb3c2dSHong Zhang ierr = MatMPIAIJSetPreallocation(*outmat,0,dnz,0,onz);CHKERRQ(ierr); 3009d6bb3c2dSHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 3010d6bb3c2dSHong Zhang 3011d6bb3c2dSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 3012d6bb3c2dSHong Zhang ierr = MatGetOwnershipRange(*outmat,&rstart,PETSC_NULL);CHKERRQ(ierr); 3013d6bb3c2dSHong Zhang } else { 301477431f27SBarry Smith SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 3015d6bb3c2dSHong Zhang } 3016d6bb3c2dSHong Zhang 3017d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 3018ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 3019b7940d39SSatish Balay Ii = i + rstart; 3020b7940d39SSatish Balay ierr = MatSetValues(*outmat,1,&Ii,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 3021ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 3022d6bb3c2dSHong Zhang } 3023d6bb3c2dSHong Zhang ierr = MatDestroy(inmat);CHKERRQ(ierr); 3024d6bb3c2dSHong Zhang ierr = MatAssemblyBegin(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3025d6bb3c2dSHong Zhang ierr = MatAssemblyEnd(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 302651dd7536SBarry Smith 3027c5d6d63eSBarry Smith PetscFunctionReturn(0); 3028c5d6d63eSBarry Smith } 3029c5d6d63eSBarry Smith 3030c5d6d63eSBarry Smith #undef __FUNCT__ 3031c5d6d63eSBarry Smith #define __FUNCT__ "MatFileSplit" 3032dfbe8321SBarry Smith PetscErrorCode MatFileSplit(Mat A,char *outfile) 3033c5d6d63eSBarry Smith { 3034dfbe8321SBarry Smith PetscErrorCode ierr; 303532dcc486SBarry Smith PetscMPIInt rank; 3036b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz; 3037de4209c5SBarry Smith size_t len; 3038b1d57f15SBarry Smith const PetscInt *indx; 3039c5d6d63eSBarry Smith PetscViewer out; 3040c5d6d63eSBarry Smith char *name; 3041c5d6d63eSBarry Smith Mat B; 3042b3cc6726SBarry Smith const PetscScalar *values; 3043c5d6d63eSBarry Smith 3044c5d6d63eSBarry Smith PetscFunctionBegin; 3045c5d6d63eSBarry Smith ierr = MatGetLocalSize(A,&m,0);CHKERRQ(ierr); 3046c5d6d63eSBarry Smith ierr = MatGetSize(A,0,&N);CHKERRQ(ierr); 3047f204ca49SKris Buschelman /* Should this be the type of the diagonal block of A? */ 3048f69a0ea3SMatthew Knepley ierr = MatCreate(PETSC_COMM_SELF,&B);CHKERRQ(ierr); 3049f69a0ea3SMatthew Knepley ierr = MatSetSizes(B,m,N,m,N);CHKERRQ(ierr); 3050f204ca49SKris Buschelman ierr = MatSetType(B,MATSEQAIJ);CHKERRQ(ierr); 3051f204ca49SKris Buschelman ierr = MatSeqAIJSetPreallocation(B,0,PETSC_NULL);CHKERRQ(ierr); 3052c5d6d63eSBarry Smith ierr = MatGetOwnershipRange(A,&rstart,0);CHKERRQ(ierr); 3053c5d6d63eSBarry Smith for (i=0;i<m;i++) { 3054c5d6d63eSBarry Smith ierr = MatGetRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 3055c5d6d63eSBarry Smith ierr = MatSetValues(B,1,&i,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 3056c5d6d63eSBarry Smith ierr = MatRestoreRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 3057c5d6d63eSBarry Smith } 3058c5d6d63eSBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3059c5d6d63eSBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3060c5d6d63eSBarry Smith 3061c5d6d63eSBarry Smith ierr = MPI_Comm_rank(A->comm,&rank);CHKERRQ(ierr); 3062c5d6d63eSBarry Smith ierr = PetscStrlen(outfile,&len);CHKERRQ(ierr); 3063c5d6d63eSBarry Smith ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr); 3064c5d6d63eSBarry Smith sprintf(name,"%s.%d",outfile,rank); 3065852598b0SBarry Smith ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,FILE_MODE_APPEND,&out);CHKERRQ(ierr); 3066c5d6d63eSBarry Smith ierr = PetscFree(name); 3067c5d6d63eSBarry Smith ierr = MatView(B,out);CHKERRQ(ierr); 3068c5d6d63eSBarry Smith ierr = PetscViewerDestroy(out);CHKERRQ(ierr); 3069c5d6d63eSBarry Smith ierr = MatDestroy(B);CHKERRQ(ierr); 3070c5d6d63eSBarry Smith PetscFunctionReturn(0); 3071c5d6d63eSBarry Smith } 3072e5f2cdd8SHong Zhang 307351a7d1a8SHong Zhang EXTERN PetscErrorCode MatDestroy_MPIAIJ(Mat); 307451a7d1a8SHong Zhang #undef __FUNCT__ 307551a7d1a8SHong Zhang #define __FUNCT__ "MatDestroy_MPIAIJ_SeqsToMPI" 3076be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatDestroy_MPIAIJ_SeqsToMPI(Mat A) 307751a7d1a8SHong Zhang { 307851a7d1a8SHong Zhang PetscErrorCode ierr; 3079671beff6SHong Zhang Mat_Merge_SeqsToMPI *merge; 3080671beff6SHong Zhang PetscObjectContainer container; 308151a7d1a8SHong Zhang 308251a7d1a8SHong Zhang PetscFunctionBegin; 3083671beff6SHong Zhang ierr = PetscObjectQuery((PetscObject)A,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 3084671beff6SHong Zhang if (container) { 30857f79fd58SMatthew Knepley ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 308651a7d1a8SHong Zhang ierr = PetscFree(merge->id_r);CHKERRQ(ierr); 30873e06a4e6SHong Zhang ierr = PetscFree(merge->len_s);CHKERRQ(ierr); 30883e06a4e6SHong Zhang ierr = PetscFree(merge->len_r);CHKERRQ(ierr); 308951a7d1a8SHong Zhang ierr = PetscFree(merge->bi);CHKERRQ(ierr); 309051a7d1a8SHong Zhang ierr = PetscFree(merge->bj);CHKERRQ(ierr); 309102c68681SHong Zhang ierr = PetscFree(merge->buf_ri);CHKERRQ(ierr); 309202c68681SHong Zhang ierr = PetscFree(merge->buf_rj);CHKERRQ(ierr); 309305b42c5fSBarry Smith ierr = PetscFree(merge->coi);CHKERRQ(ierr); 309405b42c5fSBarry Smith ierr = PetscFree(merge->coj);CHKERRQ(ierr); 309505b42c5fSBarry Smith ierr = PetscFree(merge->owners_co);CHKERRQ(ierr); 30962c72b5baSSatish Balay ierr = PetscFree(merge->rowmap.range);CHKERRQ(ierr); 3097671beff6SHong Zhang 3098671beff6SHong Zhang ierr = PetscObjectContainerDestroy(container);CHKERRQ(ierr); 3099671beff6SHong Zhang ierr = PetscObjectCompose((PetscObject)A,"MatMergeSeqsToMPI",0);CHKERRQ(ierr); 3100671beff6SHong Zhang } 310151a7d1a8SHong Zhang ierr = PetscFree(merge);CHKERRQ(ierr); 310251a7d1a8SHong Zhang 310351a7d1a8SHong Zhang ierr = MatDestroy_MPIAIJ(A);CHKERRQ(ierr); 310451a7d1a8SHong Zhang PetscFunctionReturn(0); 310551a7d1a8SHong Zhang } 310651a7d1a8SHong Zhang 310758cb9c82SHong Zhang #include "src/mat/utils/freespace.h" 3108be0fcf8dSHong Zhang #include "petscbt.h" 310938f152feSBarry Smith static PetscEvent logkey_seqstompinum = 0; 3110e5f2cdd8SHong Zhang #undef __FUNCT__ 311138f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPINumeric" 3112e5f2cdd8SHong Zhang /*@C 3113f08fae4eSHong Zhang MatMerge_SeqsToMPI - Creates a MPIAIJ matrix by adding sequential 3114e5f2cdd8SHong Zhang matrices from each processor 3115e5f2cdd8SHong Zhang 3116e5f2cdd8SHong Zhang Collective on MPI_Comm 3117e5f2cdd8SHong Zhang 3118e5f2cdd8SHong Zhang Input Parameters: 3119e5f2cdd8SHong Zhang + comm - the communicators the parallel matrix will live on 3120f08fae4eSHong Zhang . seqmat - the input sequential matrices 31210e36024fSHong Zhang . m - number of local rows (or PETSC_DECIDE) 31220e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 3123e5f2cdd8SHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 3124e5f2cdd8SHong Zhang 3125e5f2cdd8SHong Zhang Output Parameter: 3126f08fae4eSHong Zhang . mpimat - the parallel matrix generated 3127e5f2cdd8SHong Zhang 3128e5f2cdd8SHong Zhang Level: advanced 3129e5f2cdd8SHong Zhang 3130affca5deSHong Zhang Notes: 3131affca5deSHong Zhang The dimensions of the sequential matrix in each processor MUST be the same. 3132affca5deSHong Zhang The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be 3133affca5deSHong Zhang destroyed when mpimat is destroyed. Call PetscObjectQuery() to access seqmat. 3134e5f2cdd8SHong Zhang @*/ 3135be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPINumeric(Mat seqmat,Mat mpimat) 313655d1abb9SHong Zhang { 313755d1abb9SHong Zhang PetscErrorCode ierr; 313855d1abb9SHong Zhang MPI_Comm comm=mpimat->comm; 313955d1abb9SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 3140b1d57f15SBarry Smith PetscMPIInt size,rank,taga,*len_s; 3141899cda47SBarry Smith PetscInt N=mpimat->cmap.N,i,j,*owners,*ai=a->i,*aj=a->j; 3142b1d57f15SBarry Smith PetscInt proc,m; 3143b1d57f15SBarry Smith PetscInt **buf_ri,**buf_rj; 3144b1d57f15SBarry Smith PetscInt k,anzi,*bj_i,*bi,*bj,arow,bnzi,nextaj; 3145b1d57f15SBarry Smith PetscInt nrows,**buf_ri_k,**nextrow,**nextai; 314655d1abb9SHong Zhang MPI_Request *s_waits,*r_waits; 314755d1abb9SHong Zhang MPI_Status *status; 3148ce805ee4SHong Zhang MatScalar *aa=a->a,**abuf_r,*ba_i; 314955d1abb9SHong Zhang Mat_Merge_SeqsToMPI *merge; 315055d1abb9SHong Zhang PetscObjectContainer container; 315155d1abb9SHong Zhang 315255d1abb9SHong Zhang PetscFunctionBegin; 31533c2c1871SHong Zhang if (!logkey_seqstompinum) { 31543c2c1871SHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompinum,"MatMerge_SeqsToMPINumeric",MAT_COOKIE); 31553c2c1871SHong Zhang } 31563c2c1871SHong Zhang ierr = PetscLogEventBegin(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 31573c2c1871SHong Zhang 315855d1abb9SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 315955d1abb9SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 316055d1abb9SHong Zhang 316155d1abb9SHong Zhang ierr = PetscObjectQuery((PetscObject)mpimat,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 316255d1abb9SHong Zhang if (container) { 316355d1abb9SHong Zhang ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 316455d1abb9SHong Zhang } 316555d1abb9SHong Zhang bi = merge->bi; 316655d1abb9SHong Zhang bj = merge->bj; 316755d1abb9SHong Zhang buf_ri = merge->buf_ri; 316855d1abb9SHong Zhang buf_rj = merge->buf_rj; 316955d1abb9SHong Zhang 317055d1abb9SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 3171357abbc8SBarry Smith owners = merge->rowmap.range; 317255d1abb9SHong Zhang len_s = merge->len_s; 317355d1abb9SHong Zhang 317455d1abb9SHong Zhang /* send and recv matrix values */ 317555d1abb9SHong Zhang /*-----------------------------*/ 3176357abbc8SBarry Smith ierr = PetscObjectGetNewTag((PetscObject)mpimat,&taga);CHKERRQ(ierr); 317755d1abb9SHong Zhang ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr); 317855d1abb9SHong Zhang 317955d1abb9SHong Zhang ierr = PetscMalloc((merge->nsend+1)*sizeof(MPI_Request),&s_waits);CHKERRQ(ierr); 318055d1abb9SHong Zhang for (proc=0,k=0; proc<size; proc++){ 318155d1abb9SHong Zhang if (!len_s[proc]) continue; 318255d1abb9SHong Zhang i = owners[proc]; 318355d1abb9SHong Zhang ierr = MPI_Isend(aa+ai[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRQ(ierr); 318455d1abb9SHong Zhang k++; 318555d1abb9SHong Zhang } 318655d1abb9SHong Zhang 31870c468ba9SBarry Smith if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRQ(ierr);} 31880c468ba9SBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRQ(ierr);} 318955d1abb9SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 319055d1abb9SHong Zhang 319155d1abb9SHong Zhang ierr = PetscFree(s_waits);CHKERRQ(ierr); 319255d1abb9SHong Zhang ierr = PetscFree(r_waits);CHKERRQ(ierr); 319355d1abb9SHong Zhang 319455d1abb9SHong Zhang /* insert mat values of mpimat */ 319555d1abb9SHong Zhang /*----------------------------*/ 319655d1abb9SHong Zhang ierr = PetscMalloc(N*sizeof(MatScalar),&ba_i);CHKERRQ(ierr); 3197b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 319855d1abb9SHong Zhang nextrow = buf_ri_k + merge->nrecv; 319955d1abb9SHong Zhang nextai = nextrow + merge->nrecv; 320055d1abb9SHong Zhang 320155d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ 320255d1abb9SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 320355d1abb9SHong Zhang nrows = *(buf_ri_k[k]); 320455d1abb9SHong Zhang nextrow[k] = buf_ri_k[k]+1; /* next row number of k-th recved i-structure */ 320555d1abb9SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 320655d1abb9SHong Zhang } 320755d1abb9SHong Zhang 320855d1abb9SHong Zhang /* set values of ba */ 3209357abbc8SBarry Smith m = merge->rowmap.n; 321055d1abb9SHong Zhang for (i=0; i<m; i++) { 321155d1abb9SHong Zhang arow = owners[rank] + i; 321255d1abb9SHong Zhang bj_i = bj+bi[i]; /* col indices of the i-th row of mpimat */ 321355d1abb9SHong Zhang bnzi = bi[i+1] - bi[i]; 321455d1abb9SHong Zhang ierr = PetscMemzero(ba_i,bnzi*sizeof(MatScalar));CHKERRQ(ierr); 321555d1abb9SHong Zhang 321655d1abb9SHong Zhang /* add local non-zero vals of this proc's seqmat into ba */ 321755d1abb9SHong Zhang anzi = ai[arow+1] - ai[arow]; 321855d1abb9SHong Zhang aj = a->j + ai[arow]; 321955d1abb9SHong Zhang aa = a->a + ai[arow]; 322055d1abb9SHong Zhang nextaj = 0; 322155d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 322255d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 322355d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 322455d1abb9SHong Zhang } 322555d1abb9SHong Zhang } 322655d1abb9SHong Zhang 322755d1abb9SHong Zhang /* add received vals into ba */ 322855d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 322955d1abb9SHong Zhang /* i-th row */ 323055d1abb9SHong Zhang if (i == *nextrow[k]) { 323155d1abb9SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 323255d1abb9SHong Zhang aj = buf_rj[k] + *(nextai[k]); 323355d1abb9SHong Zhang aa = abuf_r[k] + *(nextai[k]); 323455d1abb9SHong Zhang nextaj = 0; 323555d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 323655d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 323755d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 323855d1abb9SHong Zhang } 323955d1abb9SHong Zhang } 324055d1abb9SHong Zhang nextrow[k]++; nextai[k]++; 324155d1abb9SHong Zhang } 324255d1abb9SHong Zhang } 324355d1abb9SHong Zhang ierr = MatSetValues(mpimat,1,&arow,bnzi,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr); 324455d1abb9SHong Zhang } 324555d1abb9SHong Zhang ierr = MatAssemblyBegin(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 324655d1abb9SHong Zhang ierr = MatAssemblyEnd(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 324755d1abb9SHong Zhang 324855d1abb9SHong Zhang ierr = PetscFree(abuf_r);CHKERRQ(ierr); 324955d1abb9SHong Zhang ierr = PetscFree(ba_i);CHKERRQ(ierr); 325055d1abb9SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 32513c2c1871SHong Zhang ierr = PetscLogEventEnd(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 325255d1abb9SHong Zhang PetscFunctionReturn(0); 325355d1abb9SHong Zhang } 325438f152feSBarry Smith 32553c2c1871SHong Zhang static PetscEvent logkey_seqstompisym = 0; 325638f152feSBarry Smith #undef __FUNCT__ 325738f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPISymbolic" 3258be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPISymbolic(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,Mat *mpimat) 3259e5f2cdd8SHong Zhang { 3260f08fae4eSHong Zhang PetscErrorCode ierr; 326155a3bba9SHong Zhang Mat B_mpi; 3262c2234fe3SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 3263b1d57f15SBarry Smith PetscMPIInt size,rank,tagi,tagj,*len_s,*len_si,*len_ri; 3264b1d57f15SBarry Smith PetscInt **buf_rj,**buf_ri,**buf_ri_k; 3265899cda47SBarry Smith PetscInt M=seqmat->rmap.n,N=seqmat->cmap.n,i,*owners,*ai=a->i,*aj=a->j; 3266b1d57f15SBarry Smith PetscInt len,proc,*dnz,*onz; 3267b1d57f15SBarry Smith PetscInt k,anzi,*bi,*bj,*lnk,nlnk,arow,bnzi,nspacedouble=0; 3268b1d57f15SBarry Smith PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextai; 326955d1abb9SHong Zhang MPI_Request *si_waits,*sj_waits,*ri_waits,*rj_waits; 327058cb9c82SHong Zhang MPI_Status *status; 3271a1a86e44SBarry Smith PetscFreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 3272be0fcf8dSHong Zhang PetscBT lnkbt; 327351a7d1a8SHong Zhang Mat_Merge_SeqsToMPI *merge; 3274671beff6SHong Zhang PetscObjectContainer container; 327502c68681SHong Zhang 3276e5f2cdd8SHong Zhang PetscFunctionBegin; 32773c2c1871SHong Zhang if (!logkey_seqstompisym) { 32783c2c1871SHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompisym,"MatMerge_SeqsToMPISymbolic",MAT_COOKIE); 32793c2c1871SHong Zhang } 32803c2c1871SHong Zhang ierr = PetscLogEventBegin(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 32813c2c1871SHong Zhang 328238f152feSBarry Smith /* make sure it is a PETSc comm */ 328338f152feSBarry Smith ierr = PetscCommDuplicate(comm,&comm,PETSC_NULL);CHKERRQ(ierr); 3284e5f2cdd8SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3285e5f2cdd8SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 328655d1abb9SHong Zhang 328751a7d1a8SHong Zhang ierr = PetscNew(Mat_Merge_SeqsToMPI,&merge);CHKERRQ(ierr); 3288c2234fe3SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 3289e5f2cdd8SHong Zhang 32906abd8857SHong Zhang /* determine row ownership */ 3291f08fae4eSHong Zhang /*---------------------------------------------------------*/ 3292899cda47SBarry Smith merge->rowmap.n = m; 3293899cda47SBarry Smith merge->rowmap.N = M; 3294fc42d0c8SSatish Balay merge->rowmap.bs = 1; 3295899cda47SBarry Smith ierr = PetscMapInitialize(comm,&merge->rowmap);CHKERRQ(ierr); 3296b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&len_si);CHKERRQ(ierr); 3297b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&merge->len_s);CHKERRQ(ierr); 329855d1abb9SHong Zhang 3299357abbc8SBarry Smith m = merge->rowmap.n; 3300357abbc8SBarry Smith M = merge->rowmap.N; 3301357abbc8SBarry Smith owners = merge->rowmap.range; 33026abd8857SHong Zhang 33036abd8857SHong Zhang /* determine the number of messages to send, their lengths */ 33046abd8857SHong Zhang /*---------------------------------------------------------*/ 33053e06a4e6SHong Zhang len_s = merge->len_s; 330651a7d1a8SHong Zhang 33072257cef7SHong Zhang len = 0; /* length of buf_si[] */ 3308c2234fe3SHong Zhang merge->nsend = 0; 3309409913e3SHong Zhang for (proc=0; proc<size; proc++){ 33102257cef7SHong Zhang len_si[proc] = 0; 33113e06a4e6SHong Zhang if (proc == rank){ 33126abd8857SHong Zhang len_s[proc] = 0; 33133e06a4e6SHong Zhang } else { 331402c68681SHong Zhang len_si[proc] = owners[proc+1] - owners[proc] + 1; 33153e06a4e6SHong Zhang len_s[proc] = ai[owners[proc+1]] - ai[owners[proc]]; /* num of rows to be sent to [proc] */ 33163e06a4e6SHong Zhang } 33173e06a4e6SHong Zhang if (len_s[proc]) { 3318c2234fe3SHong Zhang merge->nsend++; 33192257cef7SHong Zhang nrows = 0; 33202257cef7SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 33212257cef7SHong Zhang if (ai[i+1] > ai[i]) nrows++; 33222257cef7SHong Zhang } 33232257cef7SHong Zhang len_si[proc] = 2*(nrows+1); 33242257cef7SHong Zhang len += len_si[proc]; 3325409913e3SHong Zhang } 332658cb9c82SHong Zhang } 3327409913e3SHong Zhang 33282257cef7SHong Zhang /* determine the number and length of messages to receive for ij-structure */ 33292257cef7SHong Zhang /*-------------------------------------------------------------------------*/ 333051a7d1a8SHong Zhang ierr = PetscGatherNumberOfMessages(comm,PETSC_NULL,len_s,&merge->nrecv);CHKERRQ(ierr); 333155d1abb9SHong Zhang ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr); 3332671beff6SHong Zhang 33333e06a4e6SHong Zhang /* post the Irecv of j-structure */ 33343e06a4e6SHong Zhang /*-------------------------------*/ 33352c72b5baSSatish Balay ierr = PetscCommGetNewTag(comm,&tagj);CHKERRQ(ierr); 33363e06a4e6SHong Zhang ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rj_waits);CHKERRQ(ierr); 333702c68681SHong Zhang 33383e06a4e6SHong Zhang /* post the Isend of j-structure */ 3339affca5deSHong Zhang /*--------------------------------*/ 33402257cef7SHong Zhang ierr = PetscMalloc((2*merge->nsend+1)*sizeof(MPI_Request),&si_waits);CHKERRQ(ierr); 334102c68681SHong Zhang sj_waits = si_waits + merge->nsend; 33423e06a4e6SHong Zhang 33432257cef7SHong Zhang for (proc=0, k=0; proc<size; proc++){ 3344409913e3SHong Zhang if (!len_s[proc]) continue; 334502c68681SHong Zhang i = owners[proc]; 3346b1d57f15SBarry Smith ierr = MPI_Isend(aj+ai[i],len_s[proc],MPIU_INT,proc,tagj,comm,sj_waits+k);CHKERRQ(ierr); 334751a7d1a8SHong Zhang k++; 334851a7d1a8SHong Zhang } 334951a7d1a8SHong Zhang 33503e06a4e6SHong Zhang /* receives and sends of j-structure are complete */ 33513e06a4e6SHong Zhang /*------------------------------------------------*/ 33520c468ba9SBarry Smith if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,rj_waits,status);CHKERRQ(ierr);} 33530c468ba9SBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,sj_waits,status);CHKERRQ(ierr);} 335402c68681SHong Zhang 335502c68681SHong Zhang /* send and recv i-structure */ 335602c68681SHong Zhang /*---------------------------*/ 33572c72b5baSSatish Balay ierr = PetscCommGetNewTag(comm,&tagi);CHKERRQ(ierr); 335802c68681SHong Zhang ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&ri_waits);CHKERRQ(ierr); 335902c68681SHong Zhang 3360b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&buf_s);CHKERRQ(ierr); 33613e06a4e6SHong Zhang buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 33622257cef7SHong Zhang for (proc=0,k=0; proc<size; proc++){ 336302c68681SHong Zhang if (!len_s[proc]) continue; 33643e06a4e6SHong Zhang /* form outgoing message for i-structure: 33653e06a4e6SHong Zhang buf_si[0]: nrows to be sent 33663e06a4e6SHong Zhang [1:nrows]: row index (global) 33673e06a4e6SHong Zhang [nrows+1:2*nrows+1]: i-structure index 33683e06a4e6SHong Zhang */ 33693e06a4e6SHong Zhang /*-------------------------------------------*/ 33702257cef7SHong Zhang nrows = len_si[proc]/2 - 1; 33713e06a4e6SHong Zhang buf_si_i = buf_si + nrows+1; 33723e06a4e6SHong Zhang buf_si[0] = nrows; 33733e06a4e6SHong Zhang buf_si_i[0] = 0; 33743e06a4e6SHong Zhang nrows = 0; 33753e06a4e6SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 33763e06a4e6SHong Zhang anzi = ai[i+1] - ai[i]; 33773e06a4e6SHong Zhang if (anzi) { 33783e06a4e6SHong Zhang buf_si_i[nrows+1] = buf_si_i[nrows] + anzi; /* i-structure */ 33793e06a4e6SHong Zhang buf_si[nrows+1] = i-owners[proc]; /* local row index */ 33803e06a4e6SHong Zhang nrows++; 33813e06a4e6SHong Zhang } 33823e06a4e6SHong Zhang } 3383b1d57f15SBarry Smith ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,si_waits+k);CHKERRQ(ierr); 338402c68681SHong Zhang k++; 33852257cef7SHong Zhang buf_si += len_si[proc]; 338602c68681SHong Zhang } 33872257cef7SHong Zhang 33880c468ba9SBarry Smith if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,ri_waits,status);CHKERRQ(ierr);} 33890c468ba9SBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,si_waits,status);CHKERRQ(ierr);} 339002c68681SHong Zhang 3391ae15b995SBarry Smith ierr = PetscInfo2(seqmat,"nsend: %D, nrecv: %D\n",merge->nsend,merge->nrecv);CHKERRQ(ierr); 33923e06a4e6SHong Zhang for (i=0; i<merge->nrecv; i++){ 3393ae15b995SBarry Smith ierr = PetscInfo3(seqmat,"recv len_ri=%D, len_rj=%D from [%D]\n",len_ri[i],merge->len_r[i],merge->id_r[i]);CHKERRQ(ierr); 33943e06a4e6SHong Zhang } 33953e06a4e6SHong Zhang 33963e06a4e6SHong Zhang ierr = PetscFree(len_si);CHKERRQ(ierr); 339702c68681SHong Zhang ierr = PetscFree(len_ri);CHKERRQ(ierr); 339802c68681SHong Zhang ierr = PetscFree(rj_waits);CHKERRQ(ierr); 33993e06a4e6SHong Zhang ierr = PetscFree(si_waits);CHKERRQ(ierr); 34002257cef7SHong Zhang ierr = PetscFree(ri_waits);CHKERRQ(ierr); 34013e06a4e6SHong Zhang ierr = PetscFree(buf_s);CHKERRQ(ierr); 3402bcc1bcd5SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 340358cb9c82SHong Zhang 3404bcc1bcd5SHong Zhang /* compute a local seq matrix in each processor */ 3405bcc1bcd5SHong Zhang /*----------------------------------------------*/ 340658cb9c82SHong Zhang /* allocate bi array and free space for accumulating nonzero column info */ 3407b1d57f15SBarry Smith ierr = PetscMalloc((m+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr); 340858cb9c82SHong Zhang bi[0] = 0; 340958cb9c82SHong Zhang 3410be0fcf8dSHong Zhang /* create and initialize a linked list */ 3411be0fcf8dSHong Zhang nlnk = N+1; 3412be0fcf8dSHong Zhang ierr = PetscLLCreate(N,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 341358cb9c82SHong Zhang 3414bcc1bcd5SHong Zhang /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */ 341558cb9c82SHong Zhang len = 0; 3416bcc1bcd5SHong Zhang len = ai[owners[rank+1]] - ai[owners[rank]]; 3417a1a86e44SBarry Smith ierr = PetscFreeSpaceGet((PetscInt)(2*len+1),&free_space);CHKERRQ(ierr); 341858cb9c82SHong Zhang current_space = free_space; 341958cb9c82SHong Zhang 3420bcc1bcd5SHong Zhang /* determine symbolic info for each local row */ 3421b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 34223e06a4e6SHong Zhang nextrow = buf_ri_k + merge->nrecv; 34233e06a4e6SHong Zhang nextai = nextrow + merge->nrecv; 34243e06a4e6SHong Zhang for (k=0; k<merge->nrecv; k++){ 34252257cef7SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 34263e06a4e6SHong Zhang nrows = *buf_ri_k[k]; 34273e06a4e6SHong Zhang nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 34282257cef7SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 34293e06a4e6SHong Zhang } 34302257cef7SHong Zhang 3431bcc1bcd5SHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 3432bcc1bcd5SHong Zhang len = 0; 343358cb9c82SHong Zhang for (i=0;i<m;i++) { 343458cb9c82SHong Zhang bnzi = 0; 343558cb9c82SHong Zhang /* add local non-zero cols of this proc's seqmat into lnk */ 343658cb9c82SHong Zhang arow = owners[rank] + i; 343758cb9c82SHong Zhang anzi = ai[arow+1] - ai[arow]; 343858cb9c82SHong Zhang aj = a->j + ai[arow]; 3439be0fcf8dSHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 344058cb9c82SHong Zhang bnzi += nlnk; 344158cb9c82SHong Zhang /* add received col data into lnk */ 344251a7d1a8SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 344355d1abb9SHong Zhang if (i == *nextrow[k]) { /* i-th row */ 34443e06a4e6SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 34453e06a4e6SHong Zhang aj = buf_rj[k] + *nextai[k]; 34463e06a4e6SHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 34473e06a4e6SHong Zhang bnzi += nlnk; 34483e06a4e6SHong Zhang nextrow[k]++; nextai[k]++; 34493e06a4e6SHong Zhang } 345058cb9c82SHong Zhang } 3451bcc1bcd5SHong Zhang if (len < bnzi) len = bnzi; /* =max(bnzi) */ 345258cb9c82SHong Zhang 345358cb9c82SHong Zhang /* if free space is not available, make more free space */ 345458cb9c82SHong Zhang if (current_space->local_remaining<bnzi) { 3455a1a86e44SBarry Smith ierr = PetscFreeSpaceGet(current_space->total_array_size,¤t_space);CHKERRQ(ierr); 345658cb9c82SHong Zhang nspacedouble++; 345758cb9c82SHong Zhang } 345858cb9c82SHong Zhang /* copy data into free space, then initialize lnk */ 3459be0fcf8dSHong Zhang ierr = PetscLLClean(N,N,bnzi,lnk,current_space->array,lnkbt);CHKERRQ(ierr); 3460bcc1bcd5SHong Zhang ierr = MatPreallocateSet(i+owners[rank],bnzi,current_space->array,dnz,onz);CHKERRQ(ierr); 3461bcc1bcd5SHong Zhang 346258cb9c82SHong Zhang current_space->array += bnzi; 346358cb9c82SHong Zhang current_space->local_used += bnzi; 346458cb9c82SHong Zhang current_space->local_remaining -= bnzi; 346558cb9c82SHong Zhang 346658cb9c82SHong Zhang bi[i+1] = bi[i] + bnzi; 346758cb9c82SHong Zhang } 3468bcc1bcd5SHong Zhang 3469bcc1bcd5SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 3470bcc1bcd5SHong Zhang 3471b1d57f15SBarry Smith ierr = PetscMalloc((bi[m]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr); 3472a1a86e44SBarry Smith ierr = PetscFreeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 3473be0fcf8dSHong Zhang ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 3474409913e3SHong Zhang 3475bcc1bcd5SHong Zhang /* create symbolic parallel matrix B_mpi */ 3476bcc1bcd5SHong Zhang /*---------------------------------------*/ 3477f69a0ea3SMatthew Knepley ierr = MatCreate(comm,&B_mpi);CHKERRQ(ierr); 347854b84b50SHong Zhang if (n==PETSC_DECIDE) { 3479f69a0ea3SMatthew Knepley ierr = MatSetSizes(B_mpi,m,n,PETSC_DETERMINE,N);CHKERRQ(ierr); 348054b84b50SHong Zhang } else { 3481f69a0ea3SMatthew Knepley ierr = MatSetSizes(B_mpi,m,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 348254b84b50SHong Zhang } 3483bcc1bcd5SHong Zhang ierr = MatSetType(B_mpi,MATMPIAIJ);CHKERRQ(ierr); 3484bcc1bcd5SHong Zhang ierr = MatMPIAIJSetPreallocation(B_mpi,0,dnz,0,onz);CHKERRQ(ierr); 3485bcc1bcd5SHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 348658cb9c82SHong Zhang 34876abd8857SHong Zhang /* B_mpi is not ready for use - assembly will be done by MatMerge_SeqsToMPINumeric() */ 34886abd8857SHong Zhang B_mpi->assembled = PETSC_FALSE; 3489affca5deSHong Zhang B_mpi->ops->destroy = MatDestroy_MPIAIJ_SeqsToMPI; 3490affca5deSHong Zhang merge->bi = bi; 3491affca5deSHong Zhang merge->bj = bj; 349202c68681SHong Zhang merge->buf_ri = buf_ri; 349302c68681SHong Zhang merge->buf_rj = buf_rj; 3494de0260b3SHong Zhang merge->coi = PETSC_NULL; 3495de0260b3SHong Zhang merge->coj = PETSC_NULL; 3496de0260b3SHong Zhang merge->owners_co = PETSC_NULL; 3497affca5deSHong Zhang 3498affca5deSHong Zhang /* attach the supporting struct to B_mpi for reuse */ 3499affca5deSHong Zhang ierr = PetscObjectContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr); 3500affca5deSHong Zhang ierr = PetscObjectContainerSetPointer(container,merge);CHKERRQ(ierr); 3501affca5deSHong Zhang ierr = PetscObjectCompose((PetscObject)B_mpi,"MatMergeSeqsToMPI",(PetscObject)container);CHKERRQ(ierr); 3502affca5deSHong Zhang *mpimat = B_mpi; 350338f152feSBarry Smith 350438f152feSBarry Smith ierr = PetscCommDestroy(&comm);CHKERRQ(ierr); 35053c2c1871SHong Zhang ierr = PetscLogEventEnd(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 3506e5f2cdd8SHong Zhang PetscFunctionReturn(0); 3507e5f2cdd8SHong Zhang } 350825616d81SHong Zhang 3509e462e02cSHong Zhang static PetscEvent logkey_seqstompi = 0; 351038f152feSBarry Smith #undef __FUNCT__ 351138f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPI" 3512be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPI(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,MatReuse scall,Mat *mpimat) 351355d1abb9SHong Zhang { 351455d1abb9SHong Zhang PetscErrorCode ierr; 351555d1abb9SHong Zhang 351655d1abb9SHong Zhang PetscFunctionBegin; 3517e462e02cSHong Zhang if (!logkey_seqstompi) { 3518e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_seqstompi,"MatMerge_SeqsToMPI",MAT_COOKIE); 3519e462e02cSHong Zhang } 3520e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 352155d1abb9SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 352255d1abb9SHong Zhang ierr = MatMerge_SeqsToMPISymbolic(comm,seqmat,m,n,mpimat);CHKERRQ(ierr); 352355d1abb9SHong Zhang } 352455d1abb9SHong Zhang ierr = MatMerge_SeqsToMPINumeric(seqmat,*mpimat);CHKERRQ(ierr); 3525e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 352655d1abb9SHong Zhang PetscFunctionReturn(0); 352755d1abb9SHong Zhang } 3528a61c8c0fSHong Zhang static PetscEvent logkey_getlocalmat = 0; 352925616d81SHong Zhang #undef __FUNCT__ 353025616d81SHong Zhang #define __FUNCT__ "MatGetLocalMat" 353125616d81SHong Zhang /*@C 353232fba14fSHong Zhang MatGetLocalMat - Creates a SeqAIJ matrix by taking all its local rows 353325616d81SHong Zhang 353432fba14fSHong Zhang Not Collective 353525616d81SHong Zhang 353625616d81SHong Zhang Input Parameters: 353725616d81SHong Zhang + A - the matrix 353825616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 353925616d81SHong Zhang 354025616d81SHong Zhang Output Parameter: 354125616d81SHong Zhang . A_loc - the local sequential matrix generated 354225616d81SHong Zhang 354325616d81SHong Zhang Level: developer 354425616d81SHong Zhang 354525616d81SHong Zhang @*/ 3546be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetLocalMat(Mat A,MatReuse scall,Mat *A_loc) 354725616d81SHong Zhang { 354825616d81SHong Zhang PetscErrorCode ierr; 354901b7ae99SHong Zhang Mat_MPIAIJ *mpimat=(Mat_MPIAIJ*)A->data; 355001b7ae99SHong Zhang Mat_SeqAIJ *mat,*a=(Mat_SeqAIJ*)(mpimat->A)->data,*b=(Mat_SeqAIJ*)(mpimat->B)->data; 355101b7ae99SHong Zhang PetscInt *ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j,*cmap=mpimat->garray; 3552dea91ad1SHong Zhang PetscScalar *aa=a->a,*ba=b->a,*ca; 3553899cda47SBarry Smith PetscInt am=A->rmap.n,i,j,k,cstart=A->cmap.rstart; 35545a7d977cSHong Zhang PetscInt *ci,*cj,col,ncols_d,ncols_o,jo; 355525616d81SHong Zhang 355625616d81SHong Zhang PetscFunctionBegin; 3557e462e02cSHong Zhang if (!logkey_getlocalmat) { 3558e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_getlocalmat,"MatGetLocalMat",MAT_COOKIE); 3559e462e02cSHong Zhang } 3560e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr); 356101b7ae99SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3562dea91ad1SHong Zhang ierr = PetscMalloc((1+am)*sizeof(PetscInt),&ci);CHKERRQ(ierr); 3563dea91ad1SHong Zhang ci[0] = 0; 356401b7ae99SHong Zhang for (i=0; i<am; i++){ 3565dea91ad1SHong Zhang ci[i+1] = ci[i] + (ai[i+1] - ai[i]) + (bi[i+1] - bi[i]); 356601b7ae99SHong Zhang } 3567dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscInt),&cj);CHKERRQ(ierr); 3568dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscScalar),&ca);CHKERRQ(ierr); 3569dea91ad1SHong Zhang k = 0; 357001b7ae99SHong Zhang for (i=0; i<am; i++) { 35715a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 35725a7d977cSHong Zhang ncols_d = ai[i+1] - ai[i]; 357301b7ae99SHong Zhang /* off-diagonal portion of A */ 35745a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 35755a7d977cSHong Zhang col = cmap[*bj]; 35765a7d977cSHong Zhang if (col >= cstart) break; 35775a7d977cSHong Zhang cj[k] = col; bj++; 35785a7d977cSHong Zhang ca[k++] = *ba++; 35795a7d977cSHong Zhang } 35805a7d977cSHong Zhang /* diagonal portion of A */ 35815a7d977cSHong Zhang for (j=0; j<ncols_d; j++) { 35825a7d977cSHong Zhang cj[k] = cstart + *aj++; 35835a7d977cSHong Zhang ca[k++] = *aa++; 35845a7d977cSHong Zhang } 35855a7d977cSHong Zhang /* off-diagonal portion of A */ 35865a7d977cSHong Zhang for (j=jo; j<ncols_o; j++) { 35875a7d977cSHong Zhang cj[k] = cmap[*bj++]; 35885a7d977cSHong Zhang ca[k++] = *ba++; 35895a7d977cSHong Zhang } 359025616d81SHong Zhang } 3591dea91ad1SHong Zhang /* put together the new matrix */ 3592899cda47SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,am,A->cmap.N,ci,cj,ca,A_loc);CHKERRQ(ierr); 3593dea91ad1SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 3594dea91ad1SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 3595dea91ad1SHong Zhang mat = (Mat_SeqAIJ*)(*A_loc)->data; 3596e6b907acSBarry Smith mat->free_a = PETSC_TRUE; 3597e6b907acSBarry Smith mat->free_ij = PETSC_TRUE; 3598dea91ad1SHong Zhang mat->nonew = 0; 35995a7d977cSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 36005a7d977cSHong Zhang mat=(Mat_SeqAIJ*)(*A_loc)->data; 36015a7d977cSHong Zhang ci = mat->i; cj = mat->j; ca = mat->a; 36025a7d977cSHong Zhang for (i=0; i<am; i++) { 36035a7d977cSHong Zhang /* off-diagonal portion of A */ 36045a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 36055a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 36065a7d977cSHong Zhang col = cmap[*bj]; 36075a7d977cSHong Zhang if (col >= cstart) break; 3608f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 36095a7d977cSHong Zhang } 36105a7d977cSHong Zhang /* diagonal portion of A */ 3611ecc9b87dSHong Zhang ncols_d = ai[i+1] - ai[i]; 3612ecc9b87dSHong Zhang for (j=0; j<ncols_d; j++) *ca++ = *aa++; 36135a7d977cSHong Zhang /* off-diagonal portion of A */ 3614f33d1a9aSHong Zhang for (j=jo; j<ncols_o; j++) { 3615f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 3616f33d1a9aSHong Zhang } 36175a7d977cSHong Zhang } 36185a7d977cSHong Zhang } else { 36195a7d977cSHong Zhang SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 362025616d81SHong Zhang } 362101b7ae99SHong Zhang 3622e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr); 362325616d81SHong Zhang PetscFunctionReturn(0); 362425616d81SHong Zhang } 362525616d81SHong Zhang 362632fba14fSHong Zhang static PetscEvent logkey_getlocalmatcondensed = 0; 362732fba14fSHong Zhang #undef __FUNCT__ 362832fba14fSHong Zhang #define __FUNCT__ "MatGetLocalMatCondensed" 362932fba14fSHong Zhang /*@C 363032fba14fSHong Zhang MatGetLocalMatCondensed - Creates a SeqAIJ matrix by taking all its local rows and NON-ZERO columns 363132fba14fSHong Zhang 363232fba14fSHong Zhang Not Collective 363332fba14fSHong Zhang 363432fba14fSHong Zhang Input Parameters: 363532fba14fSHong Zhang + A - the matrix 363632fba14fSHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 363732fba14fSHong Zhang - row, col - index sets of rows and columns to extract (or PETSC_NULL) 363832fba14fSHong Zhang 363932fba14fSHong Zhang Output Parameter: 364032fba14fSHong Zhang . A_loc - the local sequential matrix generated 364132fba14fSHong Zhang 364232fba14fSHong Zhang Level: developer 364332fba14fSHong Zhang 364432fba14fSHong Zhang @*/ 3645be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetLocalMatCondensed(Mat A,MatReuse scall,IS *row,IS *col,Mat *A_loc) 364632fba14fSHong Zhang { 364732fba14fSHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 364832fba14fSHong Zhang PetscErrorCode ierr; 364932fba14fSHong Zhang PetscInt i,start,end,ncols,nzA,nzB,*cmap,imark,*idx; 365032fba14fSHong Zhang IS isrowa,iscola; 365132fba14fSHong Zhang Mat *aloc; 365232fba14fSHong Zhang 365332fba14fSHong Zhang PetscFunctionBegin; 365432fba14fSHong Zhang if (!logkey_getlocalmatcondensed) { 365532fba14fSHong Zhang ierr = PetscLogEventRegister(&logkey_getlocalmatcondensed,"MatGetLocalMatCondensed",MAT_COOKIE); 365632fba14fSHong Zhang } 365732fba14fSHong Zhang ierr = PetscLogEventBegin(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 365832fba14fSHong Zhang if (!row){ 3659899cda47SBarry Smith start = A->rmap.rstart; end = A->rmap.rend; 366032fba14fSHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,end-start,start,1,&isrowa);CHKERRQ(ierr); 366132fba14fSHong Zhang } else { 366232fba14fSHong Zhang isrowa = *row; 366332fba14fSHong Zhang } 366432fba14fSHong Zhang if (!col){ 3665899cda47SBarry Smith start = A->cmap.rstart; 366632fba14fSHong Zhang cmap = a->garray; 3667899cda47SBarry Smith nzA = a->A->cmap.n; 3668899cda47SBarry Smith nzB = a->B->cmap.n; 366932fba14fSHong Zhang ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 367032fba14fSHong Zhang ncols = 0; 367132fba14fSHong Zhang for (i=0; i<nzB; i++) { 367232fba14fSHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 367332fba14fSHong Zhang else break; 367432fba14fSHong Zhang } 367532fba14fSHong Zhang imark = i; 367632fba14fSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; 367732fba14fSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; 367832fba14fSHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&iscola);CHKERRQ(ierr); 367932fba14fSHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 368032fba14fSHong Zhang } else { 368132fba14fSHong Zhang iscola = *col; 368232fba14fSHong Zhang } 368332fba14fSHong Zhang if (scall != MAT_INITIAL_MATRIX){ 368432fba14fSHong Zhang ierr = PetscMalloc(sizeof(Mat),&aloc);CHKERRQ(ierr); 368532fba14fSHong Zhang aloc[0] = *A_loc; 368632fba14fSHong Zhang } 368732fba14fSHong Zhang ierr = MatGetSubMatrices(A,1,&isrowa,&iscola,scall,&aloc);CHKERRQ(ierr); 368832fba14fSHong Zhang *A_loc = aloc[0]; 368932fba14fSHong Zhang ierr = PetscFree(aloc);CHKERRQ(ierr); 369032fba14fSHong Zhang if (!row){ 369132fba14fSHong Zhang ierr = ISDestroy(isrowa);CHKERRQ(ierr); 369232fba14fSHong Zhang } 369332fba14fSHong Zhang if (!col){ 369432fba14fSHong Zhang ierr = ISDestroy(iscola);CHKERRQ(ierr); 369532fba14fSHong Zhang } 369632fba14fSHong Zhang ierr = PetscLogEventEnd(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 369732fba14fSHong Zhang PetscFunctionReturn(0); 369832fba14fSHong Zhang } 369932fba14fSHong Zhang 3700a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAcols = 0; 370125616d81SHong Zhang #undef __FUNCT__ 370225616d81SHong Zhang #define __FUNCT__ "MatGetBrowsOfAcols" 370325616d81SHong Zhang /*@C 370432fba14fSHong Zhang MatGetBrowsOfAcols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A 370525616d81SHong Zhang 370625616d81SHong Zhang Collective on Mat 370725616d81SHong Zhang 370825616d81SHong Zhang Input Parameters: 3709e240928fSHong Zhang + A,B - the matrices in mpiaij format 371025616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 371125616d81SHong Zhang - rowb, colb - index sets of rows and columns of B to extract (or PETSC_NULL) 371225616d81SHong Zhang 371325616d81SHong Zhang Output Parameter: 371425616d81SHong Zhang + rowb, colb - index sets of rows and columns of B to extract 3715899cda47SBarry Smith . brstart - row index of B_seq from which next B->rmap.n rows are taken from B's local rows 371625616d81SHong Zhang - B_seq - the sequential matrix generated 371725616d81SHong Zhang 371825616d81SHong Zhang Level: developer 371925616d81SHong Zhang 372025616d81SHong Zhang @*/ 3721be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetBrowsOfAcols(Mat A,Mat B,MatReuse scall,IS *rowb,IS *colb,PetscInt *brstart,Mat *B_seq) 372225616d81SHong Zhang { 3723899cda47SBarry Smith Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 372425616d81SHong Zhang PetscErrorCode ierr; 3725b1d57f15SBarry Smith PetscInt *idx,i,start,ncols,nzA,nzB,*cmap,imark; 372625616d81SHong Zhang IS isrowb,iscolb; 372725616d81SHong Zhang Mat *bseq; 372825616d81SHong Zhang 372925616d81SHong Zhang PetscFunctionBegin; 3730899cda47SBarry Smith if (A->cmap.rstart != B->rmap.rstart || A->cmap.rend != B->rmap.rend){ 3731899cda47SBarry Smith SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",A->cmap.rstart,A->cmap.rend,B->rmap.rstart,B->rmap.rend); 373225616d81SHong Zhang } 3733e462e02cSHong Zhang if (!logkey_GetBrowsOfAcols) { 3734e462e02cSHong Zhang ierr = PetscLogEventRegister(&logkey_GetBrowsOfAcols,"MatGetBrowsOfAcols",MAT_COOKIE); 3735e462e02cSHong Zhang } 3736e462e02cSHong Zhang ierr = PetscLogEventBegin(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 373725616d81SHong Zhang 373825616d81SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3739899cda47SBarry Smith start = A->cmap.rstart; 374025616d81SHong Zhang cmap = a->garray; 3741899cda47SBarry Smith nzA = a->A->cmap.n; 3742899cda47SBarry Smith nzB = a->B->cmap.n; 3743b1d57f15SBarry Smith ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 374425616d81SHong Zhang ncols = 0; 37450390132cSHong Zhang for (i=0; i<nzB; i++) { /* row < local row index */ 374625616d81SHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 374725616d81SHong Zhang else break; 374825616d81SHong Zhang } 374925616d81SHong Zhang imark = i; 37500390132cSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; /* local rows */ 37510390132cSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */ 375225616d81SHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&isrowb);CHKERRQ(ierr); 375325616d81SHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 375425616d81SHong Zhang *brstart = imark; 3755899cda47SBarry Smith ierr = ISCreateStride(PETSC_COMM_SELF,B->cmap.N,0,1,&iscolb);CHKERRQ(ierr); 375625616d81SHong Zhang } else { 375725616d81SHong Zhang if (!rowb || !colb) SETERRQ(PETSC_ERR_SUP,"IS rowb and colb must be provided for MAT_REUSE_MATRIX"); 375825616d81SHong Zhang isrowb = *rowb; iscolb = *colb; 375925616d81SHong Zhang ierr = PetscMalloc(sizeof(Mat),&bseq);CHKERRQ(ierr); 376025616d81SHong Zhang bseq[0] = *B_seq; 376125616d81SHong Zhang } 376225616d81SHong Zhang ierr = MatGetSubMatrices(B,1,&isrowb,&iscolb,scall,&bseq);CHKERRQ(ierr); 376325616d81SHong Zhang *B_seq = bseq[0]; 376425616d81SHong Zhang ierr = PetscFree(bseq);CHKERRQ(ierr); 376525616d81SHong Zhang if (!rowb){ 376625616d81SHong Zhang ierr = ISDestroy(isrowb);CHKERRQ(ierr); 376725616d81SHong Zhang } else { 376825616d81SHong Zhang *rowb = isrowb; 376925616d81SHong Zhang } 377025616d81SHong Zhang if (!colb){ 377125616d81SHong Zhang ierr = ISDestroy(iscolb);CHKERRQ(ierr); 377225616d81SHong Zhang } else { 377325616d81SHong Zhang *colb = iscolb; 377425616d81SHong Zhang } 3775e462e02cSHong Zhang ierr = PetscLogEventEnd(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 377625616d81SHong Zhang PetscFunctionReturn(0); 377725616d81SHong Zhang } 3778429d309bSHong Zhang 3779a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAocols = 0; 3780a61c8c0fSHong Zhang #undef __FUNCT__ 3781a61c8c0fSHong Zhang #define __FUNCT__ "MatGetBrowsOfAoCols" 3782429d309bSHong Zhang /*@C 3783429d309bSHong Zhang MatGetBrowsOfAoCols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns 378401b7ae99SHong Zhang of the OFF-DIAGONAL portion of local A 3785429d309bSHong Zhang 3786429d309bSHong Zhang Collective on Mat 3787429d309bSHong Zhang 3788429d309bSHong Zhang Input Parameters: 3789429d309bSHong Zhang + A,B - the matrices in mpiaij format 379087025532SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 379187025532SHong Zhang . startsj - starting point in B's sending and receiving j-arrays, saved for MAT_REUSE (or PETSC_NULL) 379287025532SHong Zhang - bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or PETSC_NULL) 3793429d309bSHong Zhang 3794429d309bSHong Zhang Output Parameter: 379587025532SHong Zhang + B_oth - the sequential matrix generated 3796429d309bSHong Zhang 3797429d309bSHong Zhang Level: developer 3798429d309bSHong Zhang 3799429d309bSHong Zhang @*/ 3800be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetBrowsOfAoCols(Mat A,Mat B,MatReuse scall,PetscInt **startsj,PetscScalar **bufa_ptr,Mat *B_oth) 3801429d309bSHong Zhang { 3802a6b2eed2SHong Zhang VecScatter_MPI_General *gen_to,*gen_from; 3803429d309bSHong Zhang PetscErrorCode ierr; 3804899cda47SBarry Smith Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 380587025532SHong Zhang Mat_SeqAIJ *b_oth; 3806a6b2eed2SHong Zhang VecScatter ctx=a->Mvctx; 3807a6b2eed2SHong Zhang MPI_Comm comm=ctx->comm; 380887025532SHong Zhang PetscMPIInt *rprocs,*sprocs,tag=ctx->tag,rank; 3809899cda47SBarry Smith PetscInt *rowlen,*bufj,*bufJ,ncols,aBn=a->B->cmap.n,row,*b_othi,*b_othj; 381087025532SHong Zhang PetscScalar *rvalues,*svalues,*b_otha,*bufa,*bufA; 3811d679ab29SBarry Smith PetscInt i,k,l,nrecvs,nsends,nrows,*srow,*rstarts,*rstartsj = 0,*sstarts,*sstartsj,len; 3812910ba992SMatthew Knepley MPI_Request *rwaits = PETSC_NULL,*swaits = PETSC_NULL; 381387025532SHong Zhang MPI_Status *sstatus,rstatus; 3814ba8c8a56SBarry Smith PetscInt *cols; 3815ba8c8a56SBarry Smith PetscScalar *vals; 381613f74950SBarry Smith PetscMPIInt j; 3817429d309bSHong Zhang 3818429d309bSHong Zhang PetscFunctionBegin; 3819899cda47SBarry Smith if (A->cmap.rstart != B->rmap.rstart || A->cmap.rend != B->rmap.rend){ 3820899cda47SBarry Smith SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%d, %d) != (%d,%d)",A->cmap.rstart,A->cmap.rend,B->rmap.rstart,B->rmap.rend); 3821429d309bSHong Zhang } 3822429d309bSHong Zhang if (!logkey_GetBrowsOfAocols) { 38231677a5d7SHong Zhang ierr = PetscLogEventRegister(&logkey_GetBrowsOfAocols,"MatGetBrAoCol",MAT_COOKIE); 3824429d309bSHong Zhang } 3825429d309bSHong Zhang ierr = PetscLogEventBegin(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 3826a6b2eed2SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 3827a6b2eed2SHong Zhang 3828a6b2eed2SHong Zhang gen_to = (VecScatter_MPI_General*)ctx->todata; 3829a6b2eed2SHong Zhang gen_from = (VecScatter_MPI_General*)ctx->fromdata; 3830a6b2eed2SHong Zhang rvalues = gen_from->values; /* holds the length of sending row */ 3831a6b2eed2SHong Zhang svalues = gen_to->values; /* holds the length of receiving row */ 3832a6b2eed2SHong Zhang nrecvs = gen_from->n; 3833a6b2eed2SHong Zhang nsends = gen_to->n; 3834d7ee0231SBarry Smith 3835d7ee0231SBarry Smith ierr = PetscMalloc2(nrecvs,MPI_Request,&rwaits,nsends,MPI_Request,&swaits);CHKERRQ(ierr); 3836a6b2eed2SHong Zhang srow = gen_to->indices; /* local row index to be sent */ 3837a6b2eed2SHong Zhang rstarts = gen_from->starts; 3838a6b2eed2SHong Zhang sstarts = gen_to->starts; 3839a6b2eed2SHong Zhang rprocs = gen_from->procs; 3840a6b2eed2SHong Zhang sprocs = gen_to->procs; 3841a6b2eed2SHong Zhang sstatus = gen_to->sstatus; 3842429d309bSHong Zhang 3843dea91ad1SHong Zhang if (!startsj || !bufa_ptr) scall = MAT_INITIAL_MATRIX; 3844429d309bSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3845a6b2eed2SHong Zhang /* i-array */ 3846a6b2eed2SHong Zhang /*---------*/ 3847a6b2eed2SHong Zhang /* post receives */ 3848a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 3849a6b2eed2SHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]; 385087025532SHong Zhang nrows = rstarts[i+1]-rstarts[i]; 385187025532SHong Zhang ierr = MPI_Irecv(rowlen,nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 3852429d309bSHong Zhang } 3853a6b2eed2SHong Zhang 3854a6b2eed2SHong Zhang /* pack the outgoing message */ 385587025532SHong Zhang ierr = PetscMalloc((nsends+nrecvs+3)*sizeof(PetscInt),&sstartsj);CHKERRQ(ierr); 3856a6b2eed2SHong Zhang rstartsj = sstartsj + nsends +1; 3857a6b2eed2SHong Zhang sstartsj[0] = 0; rstartsj[0] = 0; 3858a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be sent */ 3859a6b2eed2SHong Zhang k = 0; 3860a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 3861a6b2eed2SHong Zhang rowlen = (PetscInt*)svalues + sstarts[i]; 386287025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of rows */ 386387025532SHong Zhang for (j=0; j<nrows; j++) { 3864899cda47SBarry Smith row = srow[k] + B->rmap.range[rank]; /* global row idx */ 3865ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&rowlen[j],PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); /* rowlength */ 3866a6b2eed2SHong Zhang len += rowlen[j]; 3867ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); 3868a6b2eed2SHong Zhang k++; 3869429d309bSHong Zhang } 387087025532SHong Zhang ierr = MPI_Isend(rowlen,nrows,MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 3871dea91ad1SHong Zhang sstartsj[i+1] = len; /* starting point of (i+1)-th outgoing msg in bufj and bufa */ 3872429d309bSHong Zhang } 387387025532SHong Zhang /* recvs and sends of i-array are completed */ 387487025532SHong Zhang i = nrecvs; 387587025532SHong Zhang while (i--) { 387687025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 387787025532SHong Zhang } 38780c468ba9SBarry Smith if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);} 3879a6b2eed2SHong Zhang /* allocate buffers for sending j and a arrays */ 3880a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscInt),&bufj);CHKERRQ(ierr); 3881a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscScalar),&bufa);CHKERRQ(ierr); 3882a6b2eed2SHong Zhang 388387025532SHong Zhang /* create i-array of B_oth */ 388487025532SHong Zhang ierr = PetscMalloc((aBn+2)*sizeof(PetscInt),&b_othi);CHKERRQ(ierr); 388587025532SHong Zhang b_othi[0] = 0; 3886a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be received */ 3887a6b2eed2SHong Zhang k = 0; 3888a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 3889a6b2eed2SHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]; 389087025532SHong Zhang nrows = rstarts[i+1]-rstarts[i]; 389187025532SHong Zhang for (j=0; j<nrows; j++) { 389287025532SHong Zhang b_othi[k+1] = b_othi[k] + rowlen[j]; 3893a6b2eed2SHong Zhang len += rowlen[j]; k++; 3894a6b2eed2SHong Zhang } 3895dea91ad1SHong Zhang rstartsj[i+1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */ 3896a6b2eed2SHong Zhang } 3897a6b2eed2SHong Zhang 389887025532SHong Zhang /* allocate space for j and a arrrays of B_oth */ 389987025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscInt),&b_othj);CHKERRQ(ierr); 390087025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscScalar),&b_otha);CHKERRQ(ierr); 3901a6b2eed2SHong Zhang 390287025532SHong Zhang /* j-array */ 390387025532SHong Zhang /*---------*/ 3904a6b2eed2SHong Zhang /* post receives of j-array */ 3905a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 390687025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 390787025532SHong Zhang ierr = MPI_Irecv(b_othj+rstartsj[i],nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 3908a6b2eed2SHong Zhang } 3909a6b2eed2SHong Zhang k = 0; 3910a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 391187025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of rows */ 3912a6b2eed2SHong Zhang bufJ = bufj+sstartsj[i]; 391387025532SHong Zhang for (j=0; j<nrows; j++) { 3914899cda47SBarry Smith row = srow[k++] + B->rmap.range[rank]; /* global row idx */ 3915ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 3916a6b2eed2SHong Zhang for (l=0; l<ncols; l++){ 3917a6b2eed2SHong Zhang *bufJ++ = cols[l]; 391887025532SHong Zhang } 3919ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 392087025532SHong Zhang } 392187025532SHong Zhang ierr = MPI_Isend(bufj+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 392287025532SHong Zhang } 392387025532SHong Zhang 392487025532SHong Zhang /* recvs and sends of j-array are completed */ 392587025532SHong Zhang i = nrecvs; 392687025532SHong Zhang while (i--) { 392787025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 392887025532SHong Zhang } 39290c468ba9SBarry Smith if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);} 393087025532SHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 393187025532SHong Zhang sstartsj = *startsj; 393287025532SHong Zhang rstartsj = sstartsj + nsends +1; 393387025532SHong Zhang bufa = *bufa_ptr; 393487025532SHong Zhang b_oth = (Mat_SeqAIJ*)(*B_oth)->data; 393587025532SHong Zhang b_otha = b_oth->a; 393687025532SHong Zhang } else { 393787025532SHong Zhang SETERRQ(PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not posses an object container"); 393887025532SHong Zhang } 393987025532SHong Zhang 394087025532SHong Zhang /* a-array */ 394187025532SHong Zhang /*---------*/ 394287025532SHong Zhang /* post receives of a-array */ 394387025532SHong Zhang for (i=0; i<nrecvs; i++){ 394487025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 394587025532SHong Zhang ierr = MPI_Irecv(b_otha+rstartsj[i],nrows,MPIU_SCALAR,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 394687025532SHong Zhang } 394787025532SHong Zhang k = 0; 394887025532SHong Zhang for (i=0; i<nsends; i++){ 394987025532SHong Zhang nrows = sstarts[i+1]-sstarts[i]; 395087025532SHong Zhang bufA = bufa+sstartsj[i]; 395187025532SHong Zhang for (j=0; j<nrows; j++) { 3952899cda47SBarry Smith row = srow[k++] + B->rmap.range[rank]; /* global row idx */ 3953ba8c8a56SBarry Smith ierr = MatGetRow_MPIAIJ(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 395487025532SHong Zhang for (l=0; l<ncols; l++){ 3955a6b2eed2SHong Zhang *bufA++ = vals[l]; 3956a6b2eed2SHong Zhang } 3957ba8c8a56SBarry Smith ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 395887025532SHong Zhang 3959a6b2eed2SHong Zhang } 396087025532SHong Zhang ierr = MPI_Isend(bufa+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_SCALAR,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 3961a6b2eed2SHong Zhang } 396287025532SHong Zhang /* recvs and sends of a-array are completed */ 396387025532SHong Zhang i = nrecvs; 396487025532SHong Zhang while (i--) { 396587025532SHong Zhang ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr); 396687025532SHong Zhang } 39670c468ba9SBarry Smith if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);} 3968d7ee0231SBarry Smith ierr = PetscFree2(rwaits,swaits);CHKERRQ(ierr); 3969a6b2eed2SHong Zhang 397087025532SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3971a6b2eed2SHong Zhang /* put together the new matrix */ 3972899cda47SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,aBn,B->cmap.N,b_othi,b_othj,b_otha,B_oth);CHKERRQ(ierr); 3973a6b2eed2SHong Zhang 3974a6b2eed2SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 3975a6b2eed2SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 397687025532SHong Zhang b_oth = (Mat_SeqAIJ *)(*B_oth)->data; 3977e6b907acSBarry Smith b_oth->free_a = PETSC_TRUE; 3978e6b907acSBarry Smith b_oth->free_ij = PETSC_TRUE; 397987025532SHong Zhang b_oth->nonew = 0; 3980a6b2eed2SHong Zhang 3981a6b2eed2SHong Zhang ierr = PetscFree(bufj);CHKERRQ(ierr); 3982dea91ad1SHong Zhang if (!startsj || !bufa_ptr){ 3983dea91ad1SHong Zhang ierr = PetscFree(sstartsj);CHKERRQ(ierr); 3984dea91ad1SHong Zhang ierr = PetscFree(bufa_ptr);CHKERRQ(ierr); 3985dea91ad1SHong Zhang } else { 398687025532SHong Zhang *startsj = sstartsj; 398787025532SHong Zhang *bufa_ptr = bufa; 398887025532SHong Zhang } 3989dea91ad1SHong Zhang } 3990429d309bSHong Zhang ierr = PetscLogEventEnd(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 3991a6b2eed2SHong Zhang 3992429d309bSHong Zhang PetscFunctionReturn(0); 3993429d309bSHong Zhang } 3994ccd8e176SBarry Smith 399543eb5e2fSMatthew Knepley #undef __FUNCT__ 399643eb5e2fSMatthew Knepley #define __FUNCT__ "MatGetCommunicationStructs" 399743eb5e2fSMatthew Knepley /*@C 399843eb5e2fSMatthew Knepley MatGetCommunicationStructs - Provides access to the communication structures used in matrix-vector multiplication. 399943eb5e2fSMatthew Knepley 400043eb5e2fSMatthew Knepley Not Collective 400143eb5e2fSMatthew Knepley 400243eb5e2fSMatthew Knepley Input Parameters: 400343eb5e2fSMatthew Knepley . A - The matrix in mpiaij format 400443eb5e2fSMatthew Knepley 400543eb5e2fSMatthew Knepley Output Parameter: 400643eb5e2fSMatthew Knepley + lvec - The local vector holding off-process values from the argument to a matrix-vector product 400743eb5e2fSMatthew Knepley . colmap - A map from global column index to local index into lvec 400843eb5e2fSMatthew Knepley - multScatter - A scatter from the argument of a matrix-vector product to lvec 400943eb5e2fSMatthew Knepley 401043eb5e2fSMatthew Knepley Level: developer 401143eb5e2fSMatthew Knepley 401243eb5e2fSMatthew Knepley @*/ 401343eb5e2fSMatthew Knepley #if defined (PETSC_USE_CTABLE) 401443eb5e2fSMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatGetCommunicationStructs(Mat A, Vec *lvec, PetscTable *colmap, VecScatter *multScatter) 401543eb5e2fSMatthew Knepley #else 401643eb5e2fSMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatGetCommunicationStructs(Mat A, Vec *lvec, PetscInt *colmap[], VecScatter *multScatter) 401743eb5e2fSMatthew Knepley #endif 401843eb5e2fSMatthew Knepley { 401943eb5e2fSMatthew Knepley Mat_MPIAIJ *a; 402043eb5e2fSMatthew Knepley 402143eb5e2fSMatthew Knepley PetscFunctionBegin; 402243eb5e2fSMatthew Knepley PetscValidHeaderSpecific(A, MAT_COOKIE, 1); 402343eb5e2fSMatthew Knepley PetscValidPointer(lvec, 2) 402443eb5e2fSMatthew Knepley PetscValidPointer(colmap, 3) 402543eb5e2fSMatthew Knepley PetscValidPointer(multScatter, 4) 402643eb5e2fSMatthew Knepley a = (Mat_MPIAIJ *) A->data; 402743eb5e2fSMatthew Knepley if (lvec) *lvec = a->lvec; 402843eb5e2fSMatthew Knepley if (colmap) *colmap = a->colmap; 402943eb5e2fSMatthew Knepley if (multScatter) *multScatter = a->Mvctx; 403043eb5e2fSMatthew Knepley PetscFunctionReturn(0); 403143eb5e2fSMatthew Knepley } 403243eb5e2fSMatthew Knepley 403317667f90SBarry Smith EXTERN_C_BEGIN 403417667f90SBarry Smith extern PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_MPIAIJ_MPICRL(Mat,MatType,MatReuse,Mat*); 403517667f90SBarry Smith extern PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_MPIAIJ_MPICSRPERM(Mat,MatType,MatReuse,Mat*); 403617667f90SBarry Smith EXTERN_C_END 403717667f90SBarry Smith 4038ccd8e176SBarry Smith /*MC 4039ccd8e176SBarry Smith MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices. 4040ccd8e176SBarry Smith 4041ccd8e176SBarry Smith Options Database Keys: 4042ccd8e176SBarry Smith . -mat_type mpiaij - sets the matrix type to "mpiaij" during a call to MatSetFromOptions() 4043ccd8e176SBarry Smith 4044ccd8e176SBarry Smith Level: beginner 4045ccd8e176SBarry Smith 4046ccd8e176SBarry Smith .seealso: MatCreateMPIAIJ 4047ccd8e176SBarry Smith M*/ 4048ccd8e176SBarry Smith 4049ccd8e176SBarry Smith EXTERN_C_BEGIN 4050ccd8e176SBarry Smith #undef __FUNCT__ 4051ccd8e176SBarry Smith #define __FUNCT__ "MatCreate_MPIAIJ" 4052be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatCreate_MPIAIJ(Mat B) 4053ccd8e176SBarry Smith { 4054ccd8e176SBarry Smith Mat_MPIAIJ *b; 4055ccd8e176SBarry Smith PetscErrorCode ierr; 4056ccd8e176SBarry Smith PetscMPIInt size; 4057ccd8e176SBarry Smith 4058ccd8e176SBarry Smith PetscFunctionBegin; 4059ccd8e176SBarry Smith ierr = MPI_Comm_size(B->comm,&size);CHKERRQ(ierr); 4060ccd8e176SBarry Smith 4061ccd8e176SBarry Smith ierr = PetscNew(Mat_MPIAIJ,&b);CHKERRQ(ierr); 4062ccd8e176SBarry Smith B->data = (void*)b; 4063ccd8e176SBarry Smith ierr = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 4064ccd8e176SBarry Smith B->factor = 0; 4065899cda47SBarry Smith B->rmap.bs = 1; 4066ccd8e176SBarry Smith B->assembled = PETSC_FALSE; 4067ccd8e176SBarry Smith B->mapping = 0; 4068ccd8e176SBarry Smith 4069ccd8e176SBarry Smith B->insertmode = NOT_SET_VALUES; 4070ccd8e176SBarry Smith b->size = size; 4071ccd8e176SBarry Smith ierr = MPI_Comm_rank(B->comm,&b->rank);CHKERRQ(ierr); 4072ccd8e176SBarry Smith 4073ccd8e176SBarry Smith /* build cache for off array entries formed */ 4074ccd8e176SBarry Smith ierr = MatStashCreate_Private(B->comm,1,&B->stash);CHKERRQ(ierr); 4075ccd8e176SBarry Smith b->donotstash = PETSC_FALSE; 4076ccd8e176SBarry Smith b->colmap = 0; 4077ccd8e176SBarry Smith b->garray = 0; 4078ccd8e176SBarry Smith b->roworiented = PETSC_TRUE; 4079ccd8e176SBarry Smith 4080ccd8e176SBarry Smith /* stuff used for matrix vector multiply */ 4081ccd8e176SBarry Smith b->lvec = PETSC_NULL; 4082ccd8e176SBarry Smith b->Mvctx = PETSC_NULL; 4083ccd8e176SBarry Smith 4084ccd8e176SBarry Smith /* stuff for MatGetRow() */ 4085ccd8e176SBarry Smith b->rowindices = 0; 4086ccd8e176SBarry Smith b->rowvalues = 0; 4087ccd8e176SBarry Smith b->getrowactive = PETSC_FALSE; 4088ccd8e176SBarry Smith 4089ccd8e176SBarry Smith 4090ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatStoreValues_C", 4091ccd8e176SBarry Smith "MatStoreValues_MPIAIJ", 4092ccd8e176SBarry Smith MatStoreValues_MPIAIJ);CHKERRQ(ierr); 4093ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatRetrieveValues_C", 4094ccd8e176SBarry Smith "MatRetrieveValues_MPIAIJ", 4095ccd8e176SBarry Smith MatRetrieveValues_MPIAIJ);CHKERRQ(ierr); 4096ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatGetDiagonalBlock_C", 4097ccd8e176SBarry Smith "MatGetDiagonalBlock_MPIAIJ", 4098ccd8e176SBarry Smith MatGetDiagonalBlock_MPIAIJ);CHKERRQ(ierr); 4099ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatIsTranspose_C", 4100ccd8e176SBarry Smith "MatIsTranspose_MPIAIJ", 4101ccd8e176SBarry Smith MatIsTranspose_MPIAIJ);CHKERRQ(ierr); 4102ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocation_C", 4103ccd8e176SBarry Smith "MatMPIAIJSetPreallocation_MPIAIJ", 4104ccd8e176SBarry Smith MatMPIAIJSetPreallocation_MPIAIJ);CHKERRQ(ierr); 4105ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C", 4106ccd8e176SBarry Smith "MatMPIAIJSetPreallocationCSR_MPIAIJ", 4107ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR_MPIAIJ);CHKERRQ(ierr); 4108ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatDiagonalScaleLocal_C", 4109ccd8e176SBarry Smith "MatDiagonalScaleLocal_MPIAIJ", 4110ccd8e176SBarry Smith MatDiagonalScaleLocal_MPIAIJ);CHKERRQ(ierr); 411117667f90SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatConvert_mpiaij_mpicsrperm_C", 411217667f90SBarry Smith "MatConvert_MPIAIJ_MPICSRPERM", 411317667f90SBarry Smith MatConvert_MPIAIJ_MPICSRPERM);CHKERRQ(ierr); 411417667f90SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatConvert_mpiaij_mpicrl_C", 411517667f90SBarry Smith "MatConvert_MPIAIJ_MPICRL", 411617667f90SBarry Smith MatConvert_MPIAIJ_MPICRL);CHKERRQ(ierr); 411717667f90SBarry Smith ierr = PetscObjectChangeTypeName((PetscObject)B,MATMPIAIJ);CHKERRQ(ierr); 4118ccd8e176SBarry Smith PetscFunctionReturn(0); 4119ccd8e176SBarry Smith } 4120ccd8e176SBarry Smith EXTERN_C_END 412181824310SBarry Smith 412203bfb495SBarry Smith #undef __FUNCT__ 412303bfb495SBarry Smith #define __FUNCT__ "MatCreateMPIAIJWithSplitArrays" 412403bfb495SBarry Smith /*@C 412503bfb495SBarry Smith MatCreateMPIAIJWithSplitArrays - creates a MPI AIJ matrix using arrays that contain the "diagonal" 412603bfb495SBarry Smith and "off-diagonal" part of the matrix in CSR format. 412703bfb495SBarry Smith 412803bfb495SBarry Smith Collective on MPI_Comm 412903bfb495SBarry Smith 413003bfb495SBarry Smith Input Parameters: 413103bfb495SBarry Smith + comm - MPI communicator 413203bfb495SBarry Smith . m - number of local rows (Cannot be PETSC_DECIDE) 413303bfb495SBarry Smith . n - This value should be the same as the local size used in creating the 413403bfb495SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 413503bfb495SBarry Smith calculated if N is given) For square matrices n is almost always m. 413603bfb495SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 413703bfb495SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 413803bfb495SBarry Smith . i - row indices for "diagonal" portion of matrix 413903bfb495SBarry Smith . j - column indices 414003bfb495SBarry Smith . a - matrix values 414103bfb495SBarry Smith . oi - row indices for "off-diagonal" portion of matrix 414203bfb495SBarry Smith . oj - column indices 414303bfb495SBarry Smith - oa - matrix values 414403bfb495SBarry Smith 414503bfb495SBarry Smith Output Parameter: 414603bfb495SBarry Smith . mat - the matrix 414703bfb495SBarry Smith 414803bfb495SBarry Smith Level: advanced 414903bfb495SBarry Smith 415003bfb495SBarry Smith Notes: 415103bfb495SBarry Smith The i, j, and a arrays ARE NOT copied by this routine into the internal format used by PETSc. 415203bfb495SBarry Smith 415303bfb495SBarry Smith The i and j indices are 0 based 415403bfb495SBarry Smith 415503bfb495SBarry Smith See MatCreateMPIAIJ() for the definition of "diagonal" and "off-diagonal" portion of the matrix 415603bfb495SBarry Smith 415703bfb495SBarry Smith 415803bfb495SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 415903bfb495SBarry Smith 416003bfb495SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 4161*8d7a6e47SBarry Smith MPIAIJ, MatCreateMPIAIJ(), MatCreateMPIAIJWithArrays() 416203bfb495SBarry Smith @*/ 4163*8d7a6e47SBarry Smith PetscErrorCode PETSCMAT_DLLEXPORT MatCreateMPIAIJWithSplitArrays(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,PetscInt i[],PetscInt j[],PetscScalar a[], 416403bfb495SBarry Smith PetscInt oi[], PetscInt oj[],PetscScalar oa[],Mat *mat) 416503bfb495SBarry Smith { 416603bfb495SBarry Smith PetscErrorCode ierr; 416703bfb495SBarry Smith Mat_MPIAIJ *maij; 416803bfb495SBarry Smith 416903bfb495SBarry Smith PetscFunctionBegin; 417003bfb495SBarry Smith if (m < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"local number of rows (m) cannot be PETSC_DECIDE, or negative"); 417103bfb495SBarry Smith if (i[0]) { 417203bfb495SBarry Smith SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0"); 417303bfb495SBarry Smith } 417403bfb495SBarry Smith if (oi[0]) { 417503bfb495SBarry Smith SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"oi (row indices) must start with 0"); 417603bfb495SBarry Smith } 417703bfb495SBarry Smith ierr = MatCreate(comm,mat);CHKERRQ(ierr); 417803bfb495SBarry Smith ierr = MatSetSizes(*mat,m,n,M,N);CHKERRQ(ierr); 417903bfb495SBarry Smith ierr = MatSetType(*mat,MATMPIAIJ);CHKERRQ(ierr); 418003bfb495SBarry Smith maij = (Mat_MPIAIJ*) (*mat)->data; 4181*8d7a6e47SBarry Smith maij->donotstash = PETSC_TRUE; 4182*8d7a6e47SBarry Smith (*mat)->preallocated = PETSC_TRUE; 418303bfb495SBarry Smith 418403bfb495SBarry Smith (*mat)->rmap.bs = (*mat)->cmap.bs = 1; 418503bfb495SBarry Smith ierr = PetscMapInitialize((*mat)->comm,&(*mat)->rmap);CHKERRQ(ierr); 418603bfb495SBarry Smith ierr = PetscMapInitialize((*mat)->comm,&(*mat)->cmap);CHKERRQ(ierr); 418703bfb495SBarry Smith 418803bfb495SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,m,n,i,j,a,&maij->A);CHKERRQ(ierr); 418903bfb495SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,m,(*mat)->cmap.N,oi,oj,oa,&maij->B);CHKERRQ(ierr); 419003bfb495SBarry Smith 4191*8d7a6e47SBarry Smith ierr = MatAssemblyBegin(maij->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 4192*8d7a6e47SBarry Smith ierr = MatAssemblyEnd(maij->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 4193*8d7a6e47SBarry Smith ierr = MatAssemblyBegin(maij->B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 4194*8d7a6e47SBarry Smith ierr = MatAssemblyEnd(maij->B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 4195*8d7a6e47SBarry Smith 419603bfb495SBarry Smith ierr = MatAssemblyBegin(*mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 419703bfb495SBarry Smith ierr = MatAssemblyEnd(*mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 419803bfb495SBarry Smith PetscFunctionReturn(0); 419903bfb495SBarry Smith } 420003bfb495SBarry Smith 420181824310SBarry Smith /* 420281824310SBarry Smith Special version for direct calls from Fortran 420381824310SBarry Smith */ 420481824310SBarry Smith #if defined(PETSC_HAVE_FORTRAN_CAPS) 420581824310SBarry Smith #define matsetvaluesmpiaij_ MATSETVALUESMPIAIJ 420681824310SBarry Smith #elif !defined(PETSC_HAVE_FORTRAN_UNDERSCORE) 420781824310SBarry Smith #define matsetvaluesmpiaij_ matsetvaluesmpiaij 420881824310SBarry Smith #endif 420981824310SBarry Smith 421081824310SBarry Smith /* Change these macros so can be used in void function */ 421181824310SBarry Smith #undef CHKERRQ 421281824310SBarry Smith #define CHKERRQ(ierr) CHKERRABORT(mat->comm,ierr) 421381824310SBarry Smith #undef SETERRQ2 421481824310SBarry Smith #define SETERRQ2(ierr,b,c,d) CHKERRABORT(mat->comm,ierr) 421581824310SBarry Smith #undef SETERRQ 421681824310SBarry Smith #define SETERRQ(ierr,b) CHKERRABORT(mat->comm,ierr) 421781824310SBarry Smith 421881824310SBarry Smith EXTERN_C_BEGIN 421981824310SBarry Smith #undef __FUNCT__ 422081824310SBarry Smith #define __FUNCT__ "matsetvaluesmpiaij_" 42211f6cc5b2SSatish Balay void PETSC_STDCALL matsetvaluesmpiaij_(Mat *mmat,PetscInt *mm,const PetscInt im[],PetscInt *mn,const PetscInt in[],const PetscScalar v[],InsertMode *maddv,PetscErrorCode *_ierr) 422281824310SBarry Smith { 422381824310SBarry Smith Mat mat = *mmat; 422481824310SBarry Smith PetscInt m = *mm, n = *mn; 422581824310SBarry Smith InsertMode addv = *maddv; 422681824310SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 422781824310SBarry Smith PetscScalar value; 422881824310SBarry Smith PetscErrorCode ierr; 4229899cda47SBarry Smith 423081824310SBarry Smith MatPreallocated(mat); 423181824310SBarry Smith if (mat->insertmode == NOT_SET_VALUES) { 423281824310SBarry Smith mat->insertmode = addv; 423381824310SBarry Smith } 423481824310SBarry Smith #if defined(PETSC_USE_DEBUG) 423581824310SBarry Smith else if (mat->insertmode != addv) { 423681824310SBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Cannot mix add values and insert values"); 423781824310SBarry Smith } 423881824310SBarry Smith #endif 423981824310SBarry Smith { 4240899cda47SBarry Smith PetscInt i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend; 4241899cda47SBarry Smith PetscInt cstart = mat->cmap.rstart,cend = mat->cmap.rend,row,col; 424281824310SBarry Smith PetscTruth roworiented = aij->roworiented; 424381824310SBarry Smith 424481824310SBarry Smith /* Some Variables required in the macro */ 424581824310SBarry Smith Mat A = aij->A; 424681824310SBarry Smith Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 424781824310SBarry Smith PetscInt *aimax = a->imax,*ai = a->i,*ailen = a->ilen,*aj = a->j; 424881824310SBarry Smith PetscScalar *aa = a->a; 424981824310SBarry Smith PetscTruth ignorezeroentries = (((a->ignorezeroentries)&&(addv==ADD_VALUES))?PETSC_TRUE:PETSC_FALSE); 425081824310SBarry Smith Mat B = aij->B; 425181824310SBarry Smith Mat_SeqAIJ *b = (Mat_SeqAIJ*)B->data; 4252899cda47SBarry Smith PetscInt *bimax = b->imax,*bi = b->i,*bilen = b->ilen,*bj = b->j,bm = aij->B->rmap.n,am = aij->A->rmap.n; 425381824310SBarry Smith PetscScalar *ba = b->a; 425481824310SBarry Smith 425581824310SBarry Smith PetscInt *rp1,*rp2,ii,nrow1,nrow2,_i,rmax1,rmax2,N,low1,high1,low2,high2,t,lastcol1,lastcol2; 425681824310SBarry Smith PetscInt nonew = a->nonew; 425781824310SBarry Smith PetscScalar *ap1,*ap2; 425881824310SBarry Smith 425981824310SBarry Smith PetscFunctionBegin; 426081824310SBarry Smith for (i=0; i<m; i++) { 426181824310SBarry Smith if (im[i] < 0) continue; 426281824310SBarry Smith #if defined(PETSC_USE_DEBUG) 4263899cda47SBarry Smith if (im[i] >= mat->rmap.N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",im[i],mat->rmap.N-1); 426481824310SBarry Smith #endif 426581824310SBarry Smith if (im[i] >= rstart && im[i] < rend) { 426681824310SBarry Smith row = im[i] - rstart; 426781824310SBarry Smith lastcol1 = -1; 426881824310SBarry Smith rp1 = aj + ai[row]; 426981824310SBarry Smith ap1 = aa + ai[row]; 427081824310SBarry Smith rmax1 = aimax[row]; 427181824310SBarry Smith nrow1 = ailen[row]; 427281824310SBarry Smith low1 = 0; 427381824310SBarry Smith high1 = nrow1; 427481824310SBarry Smith lastcol2 = -1; 427581824310SBarry Smith rp2 = bj + bi[row]; 427681824310SBarry Smith ap2 = ba + bi[row]; 427781824310SBarry Smith rmax2 = bimax[row]; 427881824310SBarry Smith nrow2 = bilen[row]; 427981824310SBarry Smith low2 = 0; 428081824310SBarry Smith high2 = nrow2; 428181824310SBarry Smith 428281824310SBarry Smith for (j=0; j<n; j++) { 428381824310SBarry Smith if (roworiented) value = v[i*n+j]; else value = v[i+j*m]; 428481824310SBarry Smith if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES)) continue; 428581824310SBarry Smith if (in[j] >= cstart && in[j] < cend){ 428681824310SBarry Smith col = in[j] - cstart; 428781824310SBarry Smith MatSetValues_SeqAIJ_A_Private(row,col,value,addv); 428881824310SBarry Smith } else if (in[j] < 0) continue; 428981824310SBarry Smith #if defined(PETSC_USE_DEBUG) 4290899cda47SBarry Smith else if (in[j] >= mat->cmap.N) {SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",in[j],mat->cmap.N-1);} 429181824310SBarry Smith #endif 429281824310SBarry Smith else { 429381824310SBarry Smith if (mat->was_assembled) { 429481824310SBarry Smith if (!aij->colmap) { 429581824310SBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 429681824310SBarry Smith } 429781824310SBarry Smith #if defined (PETSC_USE_CTABLE) 429881824310SBarry Smith ierr = PetscTableFind(aij->colmap,in[j]+1,&col);CHKERRQ(ierr); 429981824310SBarry Smith col--; 430081824310SBarry Smith #else 430181824310SBarry Smith col = aij->colmap[in[j]] - 1; 430281824310SBarry Smith #endif 430381824310SBarry Smith if (col < 0 && !((Mat_SeqAIJ*)(aij->A->data))->nonew) { 430481824310SBarry Smith ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 430581824310SBarry Smith col = in[j]; 430681824310SBarry Smith /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 430781824310SBarry Smith B = aij->B; 430881824310SBarry Smith b = (Mat_SeqAIJ*)B->data; 430981824310SBarry Smith bimax = b->imax; bi = b->i; bilen = b->ilen; bj = b->j; 431081824310SBarry Smith rp2 = bj + bi[row]; 431181824310SBarry Smith ap2 = ba + bi[row]; 431281824310SBarry Smith rmax2 = bimax[row]; 431381824310SBarry Smith nrow2 = bilen[row]; 431481824310SBarry Smith low2 = 0; 431581824310SBarry Smith high2 = nrow2; 4316899cda47SBarry Smith bm = aij->B->rmap.n; 431781824310SBarry Smith ba = b->a; 431881824310SBarry Smith } 431981824310SBarry Smith } else col = in[j]; 432081824310SBarry Smith MatSetValues_SeqAIJ_B_Private(row,col,value,addv); 432181824310SBarry Smith } 432281824310SBarry Smith } 432381824310SBarry Smith } else { 432481824310SBarry Smith if (!aij->donotstash) { 432581824310SBarry Smith if (roworiented) { 432681824310SBarry Smith if (ignorezeroentries && v[i*n] == 0.0) continue; 432781824310SBarry Smith ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n);CHKERRQ(ierr); 432881824310SBarry Smith } else { 432981824310SBarry Smith if (ignorezeroentries && v[i] == 0.0) continue; 433081824310SBarry Smith ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m);CHKERRQ(ierr); 433181824310SBarry Smith } 433281824310SBarry Smith } 433381824310SBarry Smith } 433481824310SBarry Smith }} 433581824310SBarry Smith PetscFunctionReturnVoid(); 433681824310SBarry Smith } 433781824310SBarry Smith EXTERN_C_END 433803bfb495SBarry Smith 4339