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; 149edb03aefSBarry Smith PetscTruth ignorezeroentries = a->ignorezeroentries; 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 2384a2ae208SSatish Balay #undef __FUNCT__ 2394a2ae208SSatish Balay #define __FUNCT__ "MatGetValues_MPIAIJ" 240b1d57f15SBarry Smith PetscErrorCode MatGetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt idxm[],PetscInt n,const PetscInt idxn[],PetscScalar v[]) 241b49de8d1SLois Curfman McInnes { 242b49de8d1SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 243dfbe8321SBarry Smith PetscErrorCode ierr; 244899cda47SBarry Smith PetscInt i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend; 245899cda47SBarry Smith PetscInt cstart = mat->cmap.rstart,cend = mat->cmap.rend,row,col; 246b49de8d1SLois Curfman McInnes 2473a40ed3dSBarry Smith PetscFunctionBegin; 248b49de8d1SLois Curfman McInnes for (i=0; i<m; i++) { 24997e567efSBarry Smith if (idxm[i] < 0) continue; /* SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative row: %D",idxm[i]);*/ 250899cda47SBarry 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); 251b49de8d1SLois Curfman McInnes if (idxm[i] >= rstart && idxm[i] < rend) { 252b49de8d1SLois Curfman McInnes row = idxm[i] - rstart; 253b49de8d1SLois Curfman McInnes for (j=0; j<n; j++) { 25497e567efSBarry Smith if (idxn[j] < 0) continue; /* SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative column: %D",idxn[j]); */ 255899cda47SBarry 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); 256b49de8d1SLois Curfman McInnes if (idxn[j] >= cstart && idxn[j] < cend){ 257b49de8d1SLois Curfman McInnes col = idxn[j] - cstart; 258b49de8d1SLois Curfman McInnes ierr = MatGetValues(aij->A,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 259fa852ad4SSatish Balay } else { 260905e6a2fSBarry Smith if (!aij->colmap) { 261905e6a2fSBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 262905e6a2fSBarry Smith } 263aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 2640f5bd95cSBarry Smith ierr = PetscTableFind(aij->colmap,idxn[j]+1,&col);CHKERRQ(ierr); 265fa46199cSSatish Balay col --; 266b1fc9764SSatish Balay #else 267905e6a2fSBarry Smith col = aij->colmap[idxn[j]] - 1; 268b1fc9764SSatish Balay #endif 269e60e1c95SSatish Balay if ((col < 0) || (aij->garray[col] != idxn[j])) *(v+i*n+j) = 0.0; 270d9d09a02SSatish Balay else { 271b49de8d1SLois Curfman McInnes ierr = MatGetValues(aij->B,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 272b49de8d1SLois Curfman McInnes } 273b49de8d1SLois Curfman McInnes } 274b49de8d1SLois Curfman McInnes } 275a8c6a408SBarry Smith } else { 27629bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Only local values currently supported"); 277b49de8d1SLois Curfman McInnes } 278b49de8d1SLois Curfman McInnes } 2793a40ed3dSBarry Smith PetscFunctionReturn(0); 280b49de8d1SLois Curfman McInnes } 281bc5ccf88SSatish Balay 2824a2ae208SSatish Balay #undef __FUNCT__ 2834a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyBegin_MPIAIJ" 284dfbe8321SBarry Smith PetscErrorCode MatAssemblyBegin_MPIAIJ(Mat mat,MatAssemblyType mode) 285bc5ccf88SSatish Balay { 286bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 287dfbe8321SBarry Smith PetscErrorCode ierr; 288b1d57f15SBarry Smith PetscInt nstash,reallocs; 289bc5ccf88SSatish Balay InsertMode addv; 290bc5ccf88SSatish Balay 291bc5ccf88SSatish Balay PetscFunctionBegin; 292bc5ccf88SSatish Balay if (aij->donotstash) { 293bc5ccf88SSatish Balay PetscFunctionReturn(0); 294bc5ccf88SSatish Balay } 295bc5ccf88SSatish Balay 296bc5ccf88SSatish Balay /* make sure all processors are either in INSERTMODE or ADDMODE */ 2977adad957SLisandro Dalcin ierr = MPI_Allreduce(&mat->insertmode,&addv,1,MPI_INT,MPI_BOR,((PetscObject)mat)->comm);CHKERRQ(ierr); 298bc5ccf88SSatish Balay if (addv == (ADD_VALUES|INSERT_VALUES)) { 29929bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Some processors inserted others added"); 300bc5ccf88SSatish Balay } 301bc5ccf88SSatish Balay mat->insertmode = addv; /* in case this processor had no cache */ 302bc5ccf88SSatish Balay 3031e2582c4SBarry Smith ierr = MatStashScatterBegin_Private(mat,&mat->stash,mat->rmap.range);CHKERRQ(ierr); 3048798bf22SSatish Balay ierr = MatStashGetInfo_Private(&mat->stash,&nstash,&reallocs);CHKERRQ(ierr); 305ae15b995SBarry Smith ierr = PetscInfo2(aij->A,"Stash has %D entries, uses %D mallocs.\n",nstash,reallocs);CHKERRQ(ierr); 306bc5ccf88SSatish Balay PetscFunctionReturn(0); 307bc5ccf88SSatish Balay } 308bc5ccf88SSatish Balay 3094a2ae208SSatish Balay #undef __FUNCT__ 3104a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyEnd_MPIAIJ" 311dfbe8321SBarry Smith PetscErrorCode MatAssemblyEnd_MPIAIJ(Mat mat,MatAssemblyType mode) 312bc5ccf88SSatish Balay { 313bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 31491c97fd4SSatish Balay Mat_SeqAIJ *a=(Mat_SeqAIJ *)aij->A->data; 3156849ba73SBarry Smith PetscErrorCode ierr; 316b1d57f15SBarry Smith PetscMPIInt n; 317b1d57f15SBarry Smith PetscInt i,j,rstart,ncols,flg; 318b1d57f15SBarry Smith PetscInt *row,*col,other_disassembled; 31987828ca2SBarry Smith PetscScalar *val; 320bc5ccf88SSatish Balay InsertMode addv = mat->insertmode; 321bc5ccf88SSatish Balay 32291c97fd4SSatish Balay /* do not use 'b = (Mat_SeqAIJ *)aij->B->data' as B can be reset in disassembly */ 323bc5ccf88SSatish Balay PetscFunctionBegin; 324bc5ccf88SSatish Balay if (!aij->donotstash) { 325a2d1c673SSatish Balay while (1) { 3268798bf22SSatish Balay ierr = MatStashScatterGetMesg_Private(&mat->stash,&n,&row,&col,&val,&flg);CHKERRQ(ierr); 327a2d1c673SSatish Balay if (!flg) break; 328a2d1c673SSatish Balay 329bc5ccf88SSatish Balay for (i=0; i<n;) { 330bc5ccf88SSatish Balay /* Now identify the consecutive vals belonging to the same row */ 331bc5ccf88SSatish Balay for (j=i,rstart=row[j]; j<n; j++) { if (row[j] != rstart) break; } 332bc5ccf88SSatish Balay if (j < n) ncols = j-i; 333bc5ccf88SSatish Balay else ncols = n-i; 334bc5ccf88SSatish Balay /* Now assemble all these values with a single function call */ 335bc5ccf88SSatish Balay ierr = MatSetValues_MPIAIJ(mat,1,row+i,ncols,col+i,val+i,addv);CHKERRQ(ierr); 336bc5ccf88SSatish Balay i = j; 337bc5ccf88SSatish Balay } 338bc5ccf88SSatish Balay } 3398798bf22SSatish Balay ierr = MatStashScatterEnd_Private(&mat->stash);CHKERRQ(ierr); 340bc5ccf88SSatish Balay } 3412f53aa61SHong Zhang a->compressedrow.use = PETSC_FALSE; 342bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->A,mode);CHKERRQ(ierr); 343bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->A,mode);CHKERRQ(ierr); 344bc5ccf88SSatish Balay 345bc5ccf88SSatish Balay /* determine if any processor has disassembled, if so we must 346bc5ccf88SSatish Balay also disassemble ourselfs, in order that we may reassemble. */ 347bc5ccf88SSatish Balay /* 348bc5ccf88SSatish Balay if nonzero structure of submatrix B cannot change then we know that 349bc5ccf88SSatish Balay no processor disassembled thus we can skip this stuff 350bc5ccf88SSatish Balay */ 351bc5ccf88SSatish Balay if (!((Mat_SeqAIJ*)aij->B->data)->nonew) { 3527adad957SLisandro Dalcin ierr = MPI_Allreduce(&mat->was_assembled,&other_disassembled,1,MPI_INT,MPI_PROD,((PetscObject)mat)->comm);CHKERRQ(ierr); 353bc5ccf88SSatish Balay if (mat->was_assembled && !other_disassembled) { 354bc5ccf88SSatish Balay ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 355ad59fb31SSatish Balay } 356ad59fb31SSatish Balay } 357bc5ccf88SSatish Balay if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) { 358bc5ccf88SSatish Balay ierr = MatSetUpMultiply_MPIAIJ(mat);CHKERRQ(ierr); 359bc5ccf88SSatish Balay } 3604e0d8c25SBarry Smith ierr = MatSetOption(aij->B,MAT_USE_INODES,PETSC_FALSE);CHKERRQ(ierr); 36191c97fd4SSatish Balay ((Mat_SeqAIJ *)aij->B->data)->compressedrow.use = PETSC_TRUE; /* b->compressedrow.use */ 362bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->B,mode);CHKERRQ(ierr); 363bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->B,mode);CHKERRQ(ierr); 364bc5ccf88SSatish Balay 365606d414cSSatish Balay ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr); 366606d414cSSatish Balay aij->rowvalues = 0; 367a30b2313SHong Zhang 368a30b2313SHong Zhang /* used by MatAXPY() */ 36991c97fd4SSatish Balay a->xtoy = 0; ((Mat_SeqAIJ *)aij->B->data)->xtoy = 0; /* b->xtoy = 0 */ 37091c97fd4SSatish Balay a->XtoY = 0; ((Mat_SeqAIJ *)aij->B->data)->XtoY = 0; /* b->XtoY = 0 */ 371a30b2313SHong Zhang 372bc5ccf88SSatish Balay PetscFunctionReturn(0); 373bc5ccf88SSatish Balay } 374bc5ccf88SSatish Balay 3754a2ae208SSatish Balay #undef __FUNCT__ 3764a2ae208SSatish Balay #define __FUNCT__ "MatZeroEntries_MPIAIJ" 377dfbe8321SBarry Smith PetscErrorCode MatZeroEntries_MPIAIJ(Mat A) 3781eb62cbbSBarry Smith { 37944a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 380dfbe8321SBarry Smith PetscErrorCode ierr; 3813a40ed3dSBarry Smith 3823a40ed3dSBarry Smith PetscFunctionBegin; 38378b31e54SBarry Smith ierr = MatZeroEntries(l->A);CHKERRQ(ierr); 38478b31e54SBarry Smith ierr = MatZeroEntries(l->B);CHKERRQ(ierr); 3853a40ed3dSBarry Smith PetscFunctionReturn(0); 3861eb62cbbSBarry Smith } 3871eb62cbbSBarry Smith 3884a2ae208SSatish Balay #undef __FUNCT__ 3894a2ae208SSatish Balay #define __FUNCT__ "MatZeroRows_MPIAIJ" 390f4df32b1SMatthew Knepley PetscErrorCode MatZeroRows_MPIAIJ(Mat A,PetscInt N,const PetscInt rows[],PetscScalar diag) 3911eb62cbbSBarry Smith { 39244a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 3936849ba73SBarry Smith PetscErrorCode ierr; 3947adad957SLisandro Dalcin PetscMPIInt size = l->size,imdex,n,rank = l->rank,tag = ((PetscObject)A)->tag,lastidx = -1; 395899cda47SBarry Smith PetscInt i,*owners = A->rmap.range; 396b1d57f15SBarry Smith PetscInt *nprocs,j,idx,nsends,row; 397b1d57f15SBarry Smith PetscInt nmax,*svalues,*starts,*owner,nrecvs; 398b1d57f15SBarry Smith PetscInt *rvalues,count,base,slen,*source; 399899cda47SBarry Smith PetscInt *lens,*lrows,*values,rstart=A->rmap.rstart; 4007adad957SLisandro Dalcin MPI_Comm comm = ((PetscObject)A)->comm; 4011eb62cbbSBarry Smith MPI_Request *send_waits,*recv_waits; 4021eb62cbbSBarry Smith MPI_Status recv_status,*send_status; 4036543fbbaSBarry Smith #if defined(PETSC_DEBUG) 4046543fbbaSBarry Smith PetscTruth found = PETSC_FALSE; 4056543fbbaSBarry Smith #endif 4061eb62cbbSBarry Smith 4073a40ed3dSBarry Smith PetscFunctionBegin; 4081eb62cbbSBarry Smith /* first count number of contributors to each processor */ 409b1d57f15SBarry Smith ierr = PetscMalloc(2*size*sizeof(PetscInt),&nprocs);CHKERRQ(ierr); 410b1d57f15SBarry Smith ierr = PetscMemzero(nprocs,2*size*sizeof(PetscInt));CHKERRQ(ierr); 411b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&owner);CHKERRQ(ierr); /* see note*/ 4126543fbbaSBarry Smith j = 0; 4131eb62cbbSBarry Smith for (i=0; i<N; i++) { 4146543fbbaSBarry Smith if (lastidx > (idx = rows[i])) j = 0; 4156543fbbaSBarry Smith lastidx = idx; 4166543fbbaSBarry Smith for (; j<size; j++) { 4171eb62cbbSBarry Smith if (idx >= owners[j] && idx < owners[j+1]) { 4186543fbbaSBarry Smith nprocs[2*j]++; 4196543fbbaSBarry Smith nprocs[2*j+1] = 1; 4206543fbbaSBarry Smith owner[i] = j; 4216543fbbaSBarry Smith #if defined(PETSC_DEBUG) 4226543fbbaSBarry Smith found = PETSC_TRUE; 4236543fbbaSBarry Smith #endif 4246543fbbaSBarry Smith break; 4251eb62cbbSBarry Smith } 4261eb62cbbSBarry Smith } 4276543fbbaSBarry Smith #if defined(PETSC_DEBUG) 42829bbc08cSBarry Smith if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Index out of range"); 4296543fbbaSBarry Smith found = PETSC_FALSE; 4306543fbbaSBarry Smith #endif 4311eb62cbbSBarry Smith } 432c1dc657dSBarry Smith nsends = 0; for (i=0; i<size; i++) { nsends += nprocs[2*i+1];} 4331eb62cbbSBarry Smith 4341eb62cbbSBarry Smith /* inform other processors of number of messages and max length*/ 435c1dc657dSBarry Smith ierr = PetscMaxSum(comm,nprocs,&nmax,&nrecvs);CHKERRQ(ierr); 4361eb62cbbSBarry Smith 4371eb62cbbSBarry Smith /* post receives: */ 438b1d57f15SBarry Smith ierr = PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(PetscInt),&rvalues);CHKERRQ(ierr); 439b0a32e0cSBarry Smith ierr = PetscMalloc((nrecvs+1)*sizeof(MPI_Request),&recv_waits);CHKERRQ(ierr); 4401eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 441b1d57f15SBarry Smith ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPIU_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr); 4421eb62cbbSBarry Smith } 4431eb62cbbSBarry Smith 4441eb62cbbSBarry Smith /* do sends: 4451eb62cbbSBarry Smith 1) starts[i] gives the starting index in svalues for stuff going to 4461eb62cbbSBarry Smith the ith processor 4471eb62cbbSBarry Smith */ 448b1d57f15SBarry Smith ierr = PetscMalloc((N+1)*sizeof(PetscInt),&svalues);CHKERRQ(ierr); 449b0a32e0cSBarry Smith ierr = PetscMalloc((nsends+1)*sizeof(MPI_Request),&send_waits);CHKERRQ(ierr); 450b1d57f15SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&starts);CHKERRQ(ierr); 4511eb62cbbSBarry Smith starts[0] = 0; 452c1dc657dSBarry Smith for (i=1; i<size; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4531eb62cbbSBarry Smith for (i=0; i<N; i++) { 4541eb62cbbSBarry Smith svalues[starts[owner[i]]++] = rows[i]; 4551eb62cbbSBarry Smith } 4561eb62cbbSBarry Smith 4571eb62cbbSBarry Smith starts[0] = 0; 458c1dc657dSBarry Smith for (i=1; i<size+1; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4591eb62cbbSBarry Smith count = 0; 46017699dbbSLois Curfman McInnes for (i=0; i<size; i++) { 461c1dc657dSBarry Smith if (nprocs[2*i+1]) { 462b1d57f15SBarry Smith ierr = MPI_Isend(svalues+starts[i],nprocs[2*i],MPIU_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr); 4631eb62cbbSBarry Smith } 4641eb62cbbSBarry Smith } 465606d414cSSatish Balay ierr = PetscFree(starts);CHKERRQ(ierr); 4661eb62cbbSBarry Smith 46717699dbbSLois Curfman McInnes base = owners[rank]; 4681eb62cbbSBarry Smith 4691eb62cbbSBarry Smith /* wait on receives */ 470b1d57f15SBarry Smith ierr = PetscMalloc(2*(nrecvs+1)*sizeof(PetscInt),&lens);CHKERRQ(ierr); 4711eb62cbbSBarry Smith source = lens + nrecvs; 4721eb62cbbSBarry Smith count = nrecvs; slen = 0; 4731eb62cbbSBarry Smith while (count) { 474ca161407SBarry Smith ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr); 4751eb62cbbSBarry Smith /* unpack receives into our local space */ 476b1d57f15SBarry Smith ierr = MPI_Get_count(&recv_status,MPIU_INT,&n);CHKERRQ(ierr); 477d6dfbf8fSBarry Smith source[imdex] = recv_status.MPI_SOURCE; 478d6dfbf8fSBarry Smith lens[imdex] = n; 4791eb62cbbSBarry Smith slen += n; 4801eb62cbbSBarry Smith count--; 4811eb62cbbSBarry Smith } 482606d414cSSatish Balay ierr = PetscFree(recv_waits);CHKERRQ(ierr); 4831eb62cbbSBarry Smith 4841eb62cbbSBarry Smith /* move the data into the send scatter */ 485b1d57f15SBarry Smith ierr = PetscMalloc((slen+1)*sizeof(PetscInt),&lrows);CHKERRQ(ierr); 4861eb62cbbSBarry Smith count = 0; 4871eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 4881eb62cbbSBarry Smith values = rvalues + i*nmax; 4891eb62cbbSBarry Smith for (j=0; j<lens[i]; j++) { 4901eb62cbbSBarry Smith lrows[count++] = values[j] - base; 4911eb62cbbSBarry Smith } 4921eb62cbbSBarry Smith } 493606d414cSSatish Balay ierr = PetscFree(rvalues);CHKERRQ(ierr); 494606d414cSSatish Balay ierr = PetscFree(lens);CHKERRQ(ierr); 495606d414cSSatish Balay ierr = PetscFree(owner);CHKERRQ(ierr); 496606d414cSSatish Balay ierr = PetscFree(nprocs);CHKERRQ(ierr); 4971eb62cbbSBarry Smith 4981eb62cbbSBarry Smith /* actually zap the local rows */ 4996eb55b6aSBarry Smith /* 5006eb55b6aSBarry Smith Zero the required rows. If the "diagonal block" of the matrix 501a8c7a070SBarry Smith is square and the user wishes to set the diagonal we use separate 5026eb55b6aSBarry Smith code so that MatSetValues() is not called for each diagonal allocating 5036eb55b6aSBarry Smith new memory, thus calling lots of mallocs and slowing things down. 5046eb55b6aSBarry Smith 505f4df32b1SMatthew Knepley Contributed by: Matthew Knepley 5066eb55b6aSBarry Smith */ 507e2d53e46SBarry Smith /* must zero l->B before l->A because the (diag) case below may put values into l->B*/ 508f4df32b1SMatthew Knepley ierr = MatZeroRows(l->B,slen,lrows,0.0);CHKERRQ(ierr); 509899cda47SBarry Smith if ((diag != 0.0) && (l->A->rmap.N == l->A->cmap.N)) { 510f4df32b1SMatthew Knepley ierr = MatZeroRows(l->A,slen,lrows,diag);CHKERRQ(ierr); 511f4df32b1SMatthew Knepley } else if (diag != 0.0) { 512f4df32b1SMatthew Knepley ierr = MatZeroRows(l->A,slen,lrows,0.0);CHKERRQ(ierr); 513fa46199cSSatish Balay if (((Mat_SeqAIJ*)l->A->data)->nonew) { 51429bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MatZeroRows() on rectangular matrices cannot be used with the Mat options\n\ 515512a5fc5SBarry Smith MAT_NEW_NONZERO_LOCATIONS,MAT_NEW_NONZERO_LOCATION_ERR,MAT_NEW_NONZERO_ALLOCATION_ERR"); 5166525c446SSatish Balay } 517e2d53e46SBarry Smith for (i = 0; i < slen; i++) { 518e2d53e46SBarry Smith row = lrows[i] + rstart; 519f4df32b1SMatthew Knepley ierr = MatSetValues(A,1,&row,1,&row,&diag,INSERT_VALUES);CHKERRQ(ierr); 520e2d53e46SBarry Smith } 521e2d53e46SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 522e2d53e46SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 5236eb55b6aSBarry Smith } else { 524f4df32b1SMatthew Knepley ierr = MatZeroRows(l->A,slen,lrows,0.0);CHKERRQ(ierr); 5256eb55b6aSBarry Smith } 526606d414cSSatish Balay ierr = PetscFree(lrows);CHKERRQ(ierr); 52772dacd9aSBarry Smith 5281eb62cbbSBarry Smith /* wait on sends */ 5291eb62cbbSBarry Smith if (nsends) { 530b0a32e0cSBarry Smith ierr = PetscMalloc(nsends*sizeof(MPI_Status),&send_status);CHKERRQ(ierr); 531ca161407SBarry Smith ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr); 532606d414cSSatish Balay ierr = PetscFree(send_status);CHKERRQ(ierr); 5331eb62cbbSBarry Smith } 534606d414cSSatish Balay ierr = PetscFree(send_waits);CHKERRQ(ierr); 535606d414cSSatish Balay ierr = PetscFree(svalues);CHKERRQ(ierr); 5361eb62cbbSBarry Smith 5373a40ed3dSBarry Smith PetscFunctionReturn(0); 5381eb62cbbSBarry Smith } 5391eb62cbbSBarry Smith 5404a2ae208SSatish Balay #undef __FUNCT__ 5414a2ae208SSatish Balay #define __FUNCT__ "MatMult_MPIAIJ" 542dfbe8321SBarry Smith PetscErrorCode MatMult_MPIAIJ(Mat A,Vec xx,Vec yy) 5431eb62cbbSBarry Smith { 544416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 545dfbe8321SBarry Smith PetscErrorCode ierr; 546b1d57f15SBarry Smith PetscInt nt; 547416022c9SBarry Smith 5483a40ed3dSBarry Smith PetscFunctionBegin; 549a2ce50c7SBarry Smith ierr = VecGetLocalSize(xx,&nt);CHKERRQ(ierr); 550899cda47SBarry Smith if (nt != A->cmap.n) { 551899cda47SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Incompatible partition of A (%D) and xx (%D)",A->cmap.n,nt); 552fbd6ef76SBarry Smith } 553ca9f406cSSatish Balay ierr = VecScatterBegin(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 554f830108cSBarry Smith ierr = (*a->A->ops->mult)(a->A,xx,yy);CHKERRQ(ierr); 555ca9f406cSSatish Balay ierr = VecScatterEnd(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 556f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,yy,yy);CHKERRQ(ierr); 5573a40ed3dSBarry Smith PetscFunctionReturn(0); 5581eb62cbbSBarry Smith } 5591eb62cbbSBarry Smith 5604a2ae208SSatish Balay #undef __FUNCT__ 5614a2ae208SSatish Balay #define __FUNCT__ "MatMultAdd_MPIAIJ" 562dfbe8321SBarry Smith PetscErrorCode MatMultAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 563da3a660dSBarry Smith { 564416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 565dfbe8321SBarry Smith PetscErrorCode ierr; 5663a40ed3dSBarry Smith 5673a40ed3dSBarry Smith PetscFunctionBegin; 568ca9f406cSSatish Balay ierr = VecScatterBegin(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 569f830108cSBarry Smith ierr = (*a->A->ops->multadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 570ca9f406cSSatish Balay ierr = VecScatterEnd(a->Mvctx,xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 571f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,zz,zz);CHKERRQ(ierr); 5723a40ed3dSBarry Smith PetscFunctionReturn(0); 573da3a660dSBarry Smith } 574da3a660dSBarry Smith 5754a2ae208SSatish Balay #undef __FUNCT__ 5764a2ae208SSatish Balay #define __FUNCT__ "MatMultTranspose_MPIAIJ" 577dfbe8321SBarry Smith PetscErrorCode MatMultTranspose_MPIAIJ(Mat A,Vec xx,Vec yy) 578da3a660dSBarry Smith { 579416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 580dfbe8321SBarry Smith PetscErrorCode ierr; 581a5ff213dSBarry Smith PetscTruth merged; 582da3a660dSBarry Smith 5833a40ed3dSBarry Smith PetscFunctionBegin; 584a5ff213dSBarry Smith ierr = VecScatterGetMerged(a->Mvctx,&merged);CHKERRQ(ierr); 585da3a660dSBarry Smith /* do nondiagonal part */ 5867c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 587a5ff213dSBarry Smith if (!merged) { 588da3a660dSBarry Smith /* send it on its way */ 589ca9f406cSSatish Balay ierr = VecScatterBegin(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 590da3a660dSBarry Smith /* do local part */ 5917c922b88SBarry Smith ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 592da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 593a5ff213dSBarry Smith /* added in yy until the next line, */ 594ca9f406cSSatish Balay ierr = VecScatterEnd(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 595a5ff213dSBarry Smith } else { 596a5ff213dSBarry Smith /* do local part */ 597a5ff213dSBarry Smith ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 598a5ff213dSBarry Smith /* send it on its way */ 599ca9f406cSSatish Balay ierr = VecScatterBegin(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 600a5ff213dSBarry Smith /* values actually were received in the Begin() but we need to call this nop */ 601ca9f406cSSatish Balay ierr = VecScatterEnd(a->Mvctx,a->lvec,yy,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 602a5ff213dSBarry Smith } 6033a40ed3dSBarry Smith PetscFunctionReturn(0); 604da3a660dSBarry Smith } 605da3a660dSBarry Smith 606cd0d46ebSvictorle EXTERN_C_BEGIN 607cd0d46ebSvictorle #undef __FUNCT__ 6085fbd3699SBarry Smith #define __FUNCT__ "MatIsTranspose_MPIAIJ" 60913c77408SMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatIsTranspose_MPIAIJ(Mat Amat,Mat Bmat,PetscReal tol,PetscTruth *f) 610cd0d46ebSvictorle { 6114f423910Svictorle MPI_Comm comm; 612cd0d46ebSvictorle Mat_MPIAIJ *Aij = (Mat_MPIAIJ *) Amat->data, *Bij; 61366501d38Svictorle Mat Adia = Aij->A, Bdia, Aoff,Boff,*Aoffs,*Boffs; 614cd0d46ebSvictorle IS Me,Notme; 6156849ba73SBarry Smith PetscErrorCode ierr; 616b1d57f15SBarry Smith PetscInt M,N,first,last,*notme,i; 617b1d57f15SBarry Smith PetscMPIInt size; 618cd0d46ebSvictorle 619cd0d46ebSvictorle PetscFunctionBegin; 62042e5f5b4Svictorle 62142e5f5b4Svictorle /* Easy test: symmetric diagonal block */ 62266501d38Svictorle Bij = (Mat_MPIAIJ *) Bmat->data; Bdia = Bij->A; 6235485867bSBarry Smith ierr = MatIsTranspose(Adia,Bdia,tol,f);CHKERRQ(ierr); 624cd0d46ebSvictorle if (!*f) PetscFunctionReturn(0); 6254f423910Svictorle ierr = PetscObjectGetComm((PetscObject)Amat,&comm);CHKERRQ(ierr); 626b1d57f15SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 627b1d57f15SBarry Smith if (size == 1) PetscFunctionReturn(0); 62842e5f5b4Svictorle 62942e5f5b4Svictorle /* Hard test: off-diagonal block. This takes a MatGetSubMatrix. */ 630cd0d46ebSvictorle ierr = MatGetSize(Amat,&M,&N);CHKERRQ(ierr); 631cd0d46ebSvictorle ierr = MatGetOwnershipRange(Amat,&first,&last);CHKERRQ(ierr); 632b1d57f15SBarry Smith ierr = PetscMalloc((N-last+first)*sizeof(PetscInt),¬me);CHKERRQ(ierr); 633cd0d46ebSvictorle for (i=0; i<first; i++) notme[i] = i; 634cd0d46ebSvictorle for (i=last; i<M; i++) notme[i-last+first] = i; 635268466fbSBarry Smith ierr = ISCreateGeneral(MPI_COMM_SELF,N-last+first,notme,&Notme);CHKERRQ(ierr); 636268466fbSBarry Smith ierr = ISCreateStride(MPI_COMM_SELF,last-first,first,1,&Me);CHKERRQ(ierr); 637268466fbSBarry Smith ierr = MatGetSubMatrices(Amat,1,&Me,&Notme,MAT_INITIAL_MATRIX,&Aoffs);CHKERRQ(ierr); 63866501d38Svictorle Aoff = Aoffs[0]; 639268466fbSBarry Smith ierr = MatGetSubMatrices(Bmat,1,&Notme,&Me,MAT_INITIAL_MATRIX,&Boffs);CHKERRQ(ierr); 64066501d38Svictorle Boff = Boffs[0]; 6415485867bSBarry Smith ierr = MatIsTranspose(Aoff,Boff,tol,f);CHKERRQ(ierr); 64266501d38Svictorle ierr = MatDestroyMatrices(1,&Aoffs);CHKERRQ(ierr); 64366501d38Svictorle ierr = MatDestroyMatrices(1,&Boffs);CHKERRQ(ierr); 64442e5f5b4Svictorle ierr = ISDestroy(Me);CHKERRQ(ierr); 64542e5f5b4Svictorle ierr = ISDestroy(Notme);CHKERRQ(ierr); 64642e5f5b4Svictorle 647cd0d46ebSvictorle PetscFunctionReturn(0); 648cd0d46ebSvictorle } 649cd0d46ebSvictorle EXTERN_C_END 650cd0d46ebSvictorle 6514a2ae208SSatish Balay #undef __FUNCT__ 6524a2ae208SSatish Balay #define __FUNCT__ "MatMultTransposeAdd_MPIAIJ" 653dfbe8321SBarry Smith PetscErrorCode MatMultTransposeAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 654da3a660dSBarry Smith { 655416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 656dfbe8321SBarry Smith PetscErrorCode ierr; 657da3a660dSBarry Smith 6583a40ed3dSBarry Smith PetscFunctionBegin; 659da3a660dSBarry Smith /* do nondiagonal part */ 6607c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 661da3a660dSBarry Smith /* send it on its way */ 662ca9f406cSSatish Balay ierr = VecScatterBegin(a->Mvctx,a->lvec,zz,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 663da3a660dSBarry Smith /* do local part */ 6647c922b88SBarry Smith ierr = (*a->A->ops->multtransposeadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 665a5ff213dSBarry Smith /* receive remote parts */ 666ca9f406cSSatish Balay ierr = VecScatterEnd(a->Mvctx,a->lvec,zz,ADD_VALUES,SCATTER_REVERSE);CHKERRQ(ierr); 6673a40ed3dSBarry Smith PetscFunctionReturn(0); 668da3a660dSBarry Smith } 669da3a660dSBarry Smith 6701eb62cbbSBarry Smith /* 6711eb62cbbSBarry Smith This only works correctly for square matrices where the subblock A->A is the 6721eb62cbbSBarry Smith diagonal block 6731eb62cbbSBarry Smith */ 6744a2ae208SSatish Balay #undef __FUNCT__ 6754a2ae208SSatish Balay #define __FUNCT__ "MatGetDiagonal_MPIAIJ" 676dfbe8321SBarry Smith PetscErrorCode MatGetDiagonal_MPIAIJ(Mat A,Vec v) 6771eb62cbbSBarry Smith { 678dfbe8321SBarry Smith PetscErrorCode ierr; 679416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 6803a40ed3dSBarry Smith 6813a40ed3dSBarry Smith PetscFunctionBegin; 682899cda47SBarry Smith if (A->rmap.N != A->cmap.N) SETERRQ(PETSC_ERR_SUP,"Supports only square matrix where A->A is diag block"); 683899cda47SBarry Smith if (A->rmap.rstart != A->cmap.rstart || A->rmap.rend != A->cmap.rend) { 68429bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"row partition must equal col partition"); 6853a40ed3dSBarry Smith } 6863a40ed3dSBarry Smith ierr = MatGetDiagonal(a->A,v);CHKERRQ(ierr); 6873a40ed3dSBarry Smith PetscFunctionReturn(0); 6881eb62cbbSBarry Smith } 6891eb62cbbSBarry Smith 6904a2ae208SSatish Balay #undef __FUNCT__ 6914a2ae208SSatish Balay #define __FUNCT__ "MatScale_MPIAIJ" 692f4df32b1SMatthew Knepley PetscErrorCode MatScale_MPIAIJ(Mat A,PetscScalar aa) 693052efed2SBarry Smith { 694052efed2SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 695dfbe8321SBarry Smith PetscErrorCode ierr; 6963a40ed3dSBarry Smith 6973a40ed3dSBarry Smith PetscFunctionBegin; 698f4df32b1SMatthew Knepley ierr = MatScale(a->A,aa);CHKERRQ(ierr); 699f4df32b1SMatthew Knepley ierr = MatScale(a->B,aa);CHKERRQ(ierr); 7003a40ed3dSBarry Smith PetscFunctionReturn(0); 701052efed2SBarry Smith } 702052efed2SBarry Smith 7034a2ae208SSatish Balay #undef __FUNCT__ 7044a2ae208SSatish Balay #define __FUNCT__ "MatDestroy_MPIAIJ" 705dfbe8321SBarry Smith PetscErrorCode MatDestroy_MPIAIJ(Mat mat) 7061eb62cbbSBarry Smith { 70744a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 708dfbe8321SBarry Smith PetscErrorCode ierr; 70983e2fdc7SBarry Smith 7103a40ed3dSBarry Smith PetscFunctionBegin; 711aa482453SBarry Smith #if defined(PETSC_USE_LOG) 712899cda47SBarry Smith PetscLogObjectState((PetscObject)mat,"Rows=%D, Cols=%D",mat->rmap.N,mat->cmap.N); 713a5a9c739SBarry Smith #endif 7148798bf22SSatish Balay ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr); 71578b31e54SBarry Smith ierr = MatDestroy(aij->A);CHKERRQ(ierr); 71678b31e54SBarry Smith ierr = MatDestroy(aij->B);CHKERRQ(ierr); 717aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 7189c666560SBarry Smith if (aij->colmap) {ierr = PetscTableDestroy(aij->colmap);CHKERRQ(ierr);} 719b1fc9764SSatish Balay #else 72005b42c5fSBarry Smith ierr = PetscFree(aij->colmap);CHKERRQ(ierr); 721b1fc9764SSatish Balay #endif 72205b42c5fSBarry Smith ierr = PetscFree(aij->garray);CHKERRQ(ierr); 7237c922b88SBarry Smith if (aij->lvec) {ierr = VecDestroy(aij->lvec);CHKERRQ(ierr);} 7247c922b88SBarry Smith if (aij->Mvctx) {ierr = VecScatterDestroy(aij->Mvctx);CHKERRQ(ierr);} 72505b42c5fSBarry Smith ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr); 7268aa348c1SBarry Smith ierr = PetscFree(aij->ld);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; 7557adad957SLisandro Dalcin ierr = MPI_Comm_rank(((PetscObject)mat)->comm,&rank);CHKERRQ(ierr); 7567adad957SLisandro Dalcin ierr = MPI_Comm_size(((PetscObject)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; 7627adad957SLisandro Dalcin ierr = MPI_Reduce(&nz,&header[3],1,MPIU_INT,MPI_SUM,0,((PetscObject)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 { 7727adad957SLisandro Dalcin ierr = MPI_Reduce(&nz,0,1,MPIU_INT,MPI_SUM,0,((PetscObject)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]; 7887adad957SLisandro Dalcin ierr = MPI_Recv(row_lengths,rlen,MPIU_INT,i,tag,((PetscObject)mat)->comm,&status);CHKERRQ(ierr); 7896f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,row_lengths,rlen,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 7908e2fed03SBarry Smith } 7918e2fed03SBarry Smith } else { 7927adad957SLisandro Dalcin ierr = MPI_Send(row_lengths,mat->rmap.n,MPIU_INT,0,tag,((PetscObject)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 */ 7987adad957SLisandro Dalcin ierr = MPI_Reduce(&nz,&nzmax,1,MPIU_INT,MPI_MAX,0,((PetscObject)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++) { 8207adad957SLisandro Dalcin ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,((PetscObject)mat)->comm,&status);CHKERRQ(ierr); 82177431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 8227adad957SLisandro Dalcin ierr = MPI_Recv(column_indices,rnz,MPIU_INT,i,tag,((PetscObject)mat)->comm,&status);CHKERRQ(ierr); 8236f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_indices,rnz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr); 8248e2fed03SBarry Smith } 8258e2fed03SBarry Smith } else { 8267adad957SLisandro Dalcin ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,((PetscObject)mat)->comm);CHKERRQ(ierr); 8277adad957SLisandro Dalcin ierr = MPI_Send(column_indices,nz,MPIU_INT,0,tag,((PetscObject)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++) { 8537adad957SLisandro Dalcin ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,((PetscObject)mat)->comm,&status);CHKERRQ(ierr); 85477431f27SBarry Smith if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax); 8557adad957SLisandro Dalcin ierr = MPI_Recv(column_values,rnz,MPIU_SCALAR,i,tag,((PetscObject)mat)->comm,&status);CHKERRQ(ierr); 8566f69ff64SBarry Smith ierr = PetscBinaryWrite(fd,column_values,rnz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr); 8578e2fed03SBarry Smith } 8588e2fed03SBarry Smith } else { 8597adad957SLisandro Dalcin ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,((PetscObject)mat)->comm);CHKERRQ(ierr); 8607adad957SLisandro Dalcin ierr = MPI_Send(column_values,nz,MPIU_SCALAR,0,tag,((PetscObject)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 8877adad957SLisandro Dalcin ierr = MPI_Comm_rank(((PetscObject)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); 90207d81ca4SBarry Smith ierr = PetscViewerASCIIPrintf(viewer,"Information on VecScatter used in matrix-vector product: \n");CHKERRQ(ierr); 903a40aa06bSLois Curfman McInnes ierr = VecScatterView(aij->Mvctx,viewer);CHKERRQ(ierr); 9043a40ed3dSBarry Smith PetscFunctionReturn(0); 905fb9695e5SSatish Balay } else if (format == PETSC_VIEWER_ASCII_INFO) { 906923f20ffSKris Buschelman PetscInt inodecount,inodelimit,*inodes; 907923f20ffSKris Buschelman ierr = MatInodeGetInodeSizes(aij->A,&inodecount,&inodes,&inodelimit);CHKERRQ(ierr); 908923f20ffSKris Buschelman if (inodes) { 909923f20ffSKris Buschelman ierr = PetscViewerASCIIPrintf(viewer,"using I-node (on process 0) routines: found %D nodes, limit used is %D\n",inodecount,inodelimit);CHKERRQ(ierr); 910d38fa0fbSBarry Smith } else { 911d38fa0fbSBarry Smith ierr = PetscViewerASCIIPrintf(viewer,"not using I-node (on process 0) routines\n");CHKERRQ(ierr); 912d38fa0fbSBarry Smith } 9133a40ed3dSBarry Smith PetscFunctionReturn(0); 9144aedb280SBarry Smith } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) { 9154aedb280SBarry Smith PetscFunctionReturn(0); 91608480c60SBarry Smith } 9178e2fed03SBarry Smith } else if (isbinary) { 9188e2fed03SBarry Smith if (size == 1) { 9197adad957SLisandro Dalcin ierr = PetscObjectSetName((PetscObject)aij->A,((PetscObject)mat)->name);CHKERRQ(ierr); 9208e2fed03SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9218e2fed03SBarry Smith } else { 9228e2fed03SBarry Smith ierr = MatView_MPIAIJ_Binary(mat,viewer);CHKERRQ(ierr); 9238e2fed03SBarry Smith } 9248e2fed03SBarry Smith PetscFunctionReturn(0); 9250f5bd95cSBarry Smith } else if (isdraw) { 926b0a32e0cSBarry Smith PetscDraw draw; 92719bcc07fSBarry Smith PetscTruth isnull; 928b0a32e0cSBarry Smith ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr); 929b0a32e0cSBarry Smith ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); if (isnull) PetscFunctionReturn(0); 93019bcc07fSBarry Smith } 93119bcc07fSBarry Smith 93217699dbbSLois Curfman McInnes if (size == 1) { 9337adad957SLisandro Dalcin ierr = PetscObjectSetName((PetscObject)aij->A,((PetscObject)mat)->name);CHKERRQ(ierr); 93478b31e54SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 9353a40ed3dSBarry Smith } else { 93695373324SBarry Smith /* assemble the entire matrix onto first processor. */ 93795373324SBarry Smith Mat A; 938ec8511deSBarry Smith Mat_SeqAIJ *Aloc; 939899cda47SBarry Smith PetscInt M = mat->rmap.N,N = mat->cmap.N,m,*ai,*aj,row,*cols,i,*ct; 94087828ca2SBarry Smith PetscScalar *a; 9412ee70a88SLois Curfman McInnes 942*0805154bSBarry Smith if (mat->rmap.N > 1024) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"ASCII matrix output not allowed for matrices with more than 512 rows, use binary format instead"); 943*0805154bSBarry Smith 9447adad957SLisandro Dalcin ierr = MatCreate(((PetscObject)mat)->comm,&A);CHKERRQ(ierr); 94517699dbbSLois Curfman McInnes if (!rank) { 946f69a0ea3SMatthew Knepley ierr = MatSetSizes(A,M,N,M,N);CHKERRQ(ierr); 9473a40ed3dSBarry Smith } else { 948f69a0ea3SMatthew Knepley ierr = MatSetSizes(A,0,0,M,N);CHKERRQ(ierr); 94995373324SBarry Smith } 950f204ca49SKris Buschelman /* This is just a temporary matrix, so explicitly using MATMPIAIJ is probably best */ 951f204ca49SKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 952f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 95352e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,A);CHKERRQ(ierr); 954416022c9SBarry Smith 95595373324SBarry Smith /* copy over the A part */ 956ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->A->data; 957899cda47SBarry Smith m = aij->A->rmap.n; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 958899cda47SBarry Smith row = mat->rmap.rstart; 959899cda47SBarry Smith for (i=0; i<ai[m]; i++) {aj[i] += mat->cmap.rstart ;} 96095373324SBarry Smith for (i=0; i<m; i++) { 961416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],aj,a,INSERT_VALUES);CHKERRQ(ierr); 96295373324SBarry Smith row++; a += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 96395373324SBarry Smith } 9642ee70a88SLois Curfman McInnes aj = Aloc->j; 965899cda47SBarry Smith for (i=0; i<ai[m]; i++) {aj[i] -= mat->cmap.rstart;} 96695373324SBarry Smith 96795373324SBarry Smith /* copy over the B part */ 968ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->B->data; 969899cda47SBarry Smith m = aij->B->rmap.n; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 970899cda47SBarry Smith row = mat->rmap.rstart; 971b1d57f15SBarry Smith ierr = PetscMalloc((ai[m]+1)*sizeof(PetscInt),&cols);CHKERRQ(ierr); 972b0a32e0cSBarry Smith ct = cols; 973bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = aij->garray[aj[i]];} 97495373324SBarry Smith for (i=0; i<m; i++) { 975416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],cols,a,INSERT_VALUES);CHKERRQ(ierr); 97695373324SBarry Smith row++; a += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 97795373324SBarry Smith } 978606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 9796d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 9806d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 98155843e3eSBarry Smith /* 98255843e3eSBarry Smith Everyone has to call to draw the matrix since the graphics waits are 983b0a32e0cSBarry Smith synchronized across all processors that share the PetscDraw object 98455843e3eSBarry Smith */ 985b0a32e0cSBarry Smith ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr); 986e03a110bSBarry Smith if (!rank) { 9877adad957SLisandro Dalcin ierr = PetscObjectSetName((PetscObject)((Mat_MPIAIJ*)(A->data))->A,((PetscObject)mat)->name);CHKERRQ(ierr); 9886831982aSBarry Smith ierr = MatView(((Mat_MPIAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr); 98995373324SBarry Smith } 990b0a32e0cSBarry Smith ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr); 99178b31e54SBarry Smith ierr = MatDestroy(A);CHKERRQ(ierr); 99295373324SBarry Smith } 9933a40ed3dSBarry Smith PetscFunctionReturn(0); 9941eb62cbbSBarry Smith } 9951eb62cbbSBarry Smith 9964a2ae208SSatish Balay #undef __FUNCT__ 9974a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ" 998dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ(Mat mat,PetscViewer viewer) 999416022c9SBarry Smith { 1000dfbe8321SBarry Smith PetscErrorCode ierr; 100132077d6dSBarry Smith PetscTruth iascii,isdraw,issocket,isbinary; 1002416022c9SBarry Smith 10033a40ed3dSBarry Smith PetscFunctionBegin; 100432077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 1005fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 1006fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 1007b0a32e0cSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr); 100832077d6dSBarry Smith if (iascii || isdraw || isbinary || issocket) { 10097b2a1423SBarry Smith ierr = MatView_MPIAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr); 10105cd90555SBarry Smith } else { 101179a5c55eSBarry Smith SETERRQ1(PETSC_ERR_SUP,"Viewer type %s not supported by MPIAIJ matrices",((PetscObject)viewer)->type_name); 1012416022c9SBarry Smith } 10133a40ed3dSBarry Smith PetscFunctionReturn(0); 1014416022c9SBarry Smith } 1015416022c9SBarry Smith 10164a2ae208SSatish Balay #undef __FUNCT__ 10174a2ae208SSatish Balay #define __FUNCT__ "MatRelax_MPIAIJ" 1018b1d57f15SBarry Smith PetscErrorCode MatRelax_MPIAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx) 10198a729477SBarry Smith { 102044a69424SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1021dfbe8321SBarry Smith PetscErrorCode ierr; 1022c14dc6b6SHong Zhang Vec bb1; 10238a729477SBarry Smith 10243a40ed3dSBarry Smith PetscFunctionBegin; 1025c14dc6b6SHong Zhang ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr); 10262798e883SHong Zhang 1027c16cb8f2SBarry Smith if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP){ 1028da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1029bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,lits,xx);CHKERRQ(ierr); 10302798e883SHong Zhang its--; 1031da3a660dSBarry Smith } 10322798e883SHong Zhang 10332798e883SHong Zhang while (its--) { 1034ca9f406cSSatish Balay ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1035ca9f406cSSatish Balay ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 10362798e883SHong Zhang 1037c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1038efb30889SBarry Smith ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 1039c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10402798e883SHong Zhang 1041c14dc6b6SHong Zhang /* local sweep */ 104271f1c65dSBarry Smith ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,lits,xx);CHKERRQ(ierr); 10432798e883SHong Zhang } 10443a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_FORWARD_SWEEP){ 1045da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1046c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10472798e883SHong Zhang its--; 1048da3a660dSBarry Smith } 10492798e883SHong Zhang while (its--) { 1050ca9f406cSSatish Balay ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1051ca9f406cSSatish Balay ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 10522798e883SHong Zhang 1053c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1054efb30889SBarry Smith ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 1055c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 1056c14dc6b6SHong Zhang 1057c14dc6b6SHong Zhang /* local sweep */ 105871f1c65dSBarry Smith ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10592798e883SHong Zhang } 10603a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_BACKWARD_SWEEP){ 1061da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1062c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10632798e883SHong Zhang its--; 1064da3a660dSBarry Smith } 10652798e883SHong Zhang while (its--) { 1066ca9f406cSSatish Balay ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1067ca9f406cSSatish Balay ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 10682798e883SHong Zhang 1069c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1070efb30889SBarry Smith ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 1071c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10722798e883SHong Zhang 1073c14dc6b6SHong Zhang /* local sweep */ 107471f1c65dSBarry Smith ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10752798e883SHong Zhang } 10763a40ed3dSBarry Smith } else { 107729bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Parallel SOR not supported"); 1078c16cb8f2SBarry Smith } 1079c14dc6b6SHong Zhang 1080c14dc6b6SHong Zhang ierr = VecDestroy(bb1);CHKERRQ(ierr); 10813a40ed3dSBarry Smith PetscFunctionReturn(0); 10828a729477SBarry Smith } 1083a66be287SLois Curfman McInnes 10844a2ae208SSatish Balay #undef __FUNCT__ 108542e855d1Svictor #define __FUNCT__ "MatPermute_MPIAIJ" 108642e855d1Svictor PetscErrorCode MatPermute_MPIAIJ(Mat A,IS rowp,IS colp,Mat *B) 108742e855d1Svictor { 108842e855d1Svictor MPI_Comm comm,pcomm; 108942e855d1Svictor PetscInt first,local_size,nrows,*rows; 109042e855d1Svictor int ntids; 109142e855d1Svictor IS crowp,growp,irowp,lrowp,lcolp,icolp; 109242e855d1Svictor PetscErrorCode ierr; 109342e855d1Svictor 109442e855d1Svictor PetscFunctionBegin; 109542e855d1Svictor ierr = PetscObjectGetComm((PetscObject)A,&comm); CHKERRQ(ierr); 109642e855d1Svictor /* make a collective version of 'rowp' */ 109742e855d1Svictor ierr = PetscObjectGetComm((PetscObject)rowp,&pcomm); CHKERRQ(ierr); 109842e855d1Svictor if (pcomm==comm) { 109942e855d1Svictor crowp = rowp; 110042e855d1Svictor } else { 110142e855d1Svictor ierr = ISGetSize(rowp,&nrows); CHKERRQ(ierr); 110242e855d1Svictor ierr = ISGetIndices(rowp,&rows); CHKERRQ(ierr); 110342e855d1Svictor ierr = ISCreateGeneral(comm,nrows,rows,&crowp); CHKERRQ(ierr); 110442e855d1Svictor ierr = ISRestoreIndices(rowp,&rows); CHKERRQ(ierr); 110542e855d1Svictor } 110642e855d1Svictor /* collect the global row permutation and invert it */ 110742e855d1Svictor ierr = ISAllGather(crowp,&growp); CHKERRQ(ierr); 110842e855d1Svictor ierr = ISSetPermutation(growp); CHKERRQ(ierr); 110942e855d1Svictor if (pcomm!=comm) { 111042e855d1Svictor ierr = ISDestroy(crowp); CHKERRQ(ierr); 111142e855d1Svictor } 111242e855d1Svictor ierr = ISInvertPermutation(growp,PETSC_DECIDE,&irowp);CHKERRQ(ierr); 111342e855d1Svictor /* get the local target indices */ 111442e855d1Svictor ierr = MatGetOwnershipRange(A,&first,PETSC_NULL); CHKERRQ(ierr); 111542e855d1Svictor ierr = MatGetLocalSize(A,&local_size,PETSC_NULL); CHKERRQ(ierr); 111642e855d1Svictor ierr = ISGetIndices(irowp,&rows); CHKERRQ(ierr); 111742e855d1Svictor ierr = ISCreateGeneral(MPI_COMM_SELF,local_size,rows+first,&lrowp); CHKERRQ(ierr); 111842e855d1Svictor ierr = ISRestoreIndices(irowp,&rows); CHKERRQ(ierr); 111942e855d1Svictor ierr = ISDestroy(irowp); CHKERRQ(ierr); 112042e855d1Svictor /* the column permutation is so much easier; 112142e855d1Svictor make a local version of 'colp' and invert it */ 112242e855d1Svictor ierr = PetscObjectGetComm((PetscObject)colp,&pcomm); CHKERRQ(ierr); 112342e855d1Svictor ierr = MPI_Comm_size(pcomm,&ntids); CHKERRQ(ierr); 112442e855d1Svictor if (ntids==1) { 112542e855d1Svictor lcolp = colp; 112642e855d1Svictor } else { 112742e855d1Svictor ierr = ISGetSize(colp,&nrows); CHKERRQ(ierr); 112842e855d1Svictor ierr = ISGetIndices(colp,&rows); CHKERRQ(ierr); 112942e855d1Svictor ierr = ISCreateGeneral(MPI_COMM_SELF,nrows,rows,&lcolp); CHKERRQ(ierr); 113042e855d1Svictor } 113142e855d1Svictor ierr = ISInvertPermutation(lcolp,PETSC_DECIDE,&icolp); CHKERRQ(ierr); 113242e855d1Svictor ierr = ISSetPermutation(lcolp); CHKERRQ(ierr); 113342e855d1Svictor if (ntids>1) { 113442e855d1Svictor ierr = ISRestoreIndices(colp,&rows); CHKERRQ(ierr); 113542e855d1Svictor ierr = ISDestroy(lcolp); CHKERRQ(ierr); 113642e855d1Svictor } 113742e855d1Svictor /* now we just get the submatrix */ 113842e855d1Svictor ierr = MatGetSubMatrix(A,lrowp,icolp,local_size,MAT_INITIAL_MATRIX,B); CHKERRQ(ierr); 113942e855d1Svictor /* clean up */ 114042e855d1Svictor ierr = ISDestroy(lrowp); CHKERRQ(ierr); 114142e855d1Svictor ierr = ISDestroy(icolp); CHKERRQ(ierr); 114242e855d1Svictor PetscFunctionReturn(0); 114342e855d1Svictor } 114442e855d1Svictor 114542e855d1Svictor #undef __FUNCT__ 11464a2ae208SSatish Balay #define __FUNCT__ "MatGetInfo_MPIAIJ" 1147dfbe8321SBarry Smith PetscErrorCode MatGetInfo_MPIAIJ(Mat matin,MatInfoType flag,MatInfo *info) 1148a66be287SLois Curfman McInnes { 1149a66be287SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1150a66be287SLois Curfman McInnes Mat A = mat->A,B = mat->B; 1151dfbe8321SBarry Smith PetscErrorCode ierr; 1152329f5518SBarry Smith PetscReal isend[5],irecv[5]; 1153a66be287SLois Curfman McInnes 11543a40ed3dSBarry Smith PetscFunctionBegin; 11554e220ebcSLois Curfman McInnes info->block_size = 1.0; 11564e220ebcSLois Curfman McInnes ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr); 11574e220ebcSLois Curfman McInnes isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 11584e220ebcSLois Curfman McInnes isend[3] = info->memory; isend[4] = info->mallocs; 11594e220ebcSLois Curfman McInnes ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr); 11604e220ebcSLois Curfman McInnes isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded; 11614e220ebcSLois Curfman McInnes isend[3] += info->memory; isend[4] += info->mallocs; 1162a66be287SLois Curfman McInnes if (flag == MAT_LOCAL) { 11634e220ebcSLois Curfman McInnes info->nz_used = isend[0]; 11644e220ebcSLois Curfman McInnes info->nz_allocated = isend[1]; 11654e220ebcSLois Curfman McInnes info->nz_unneeded = isend[2]; 11664e220ebcSLois Curfman McInnes info->memory = isend[3]; 11674e220ebcSLois Curfman McInnes info->mallocs = isend[4]; 1168a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_MAX) { 11697adad957SLisandro Dalcin ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,((PetscObject)matin)->comm);CHKERRQ(ierr); 11704e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11714e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11724e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11734e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11744e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1175a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_SUM) { 11767adad957SLisandro Dalcin ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,((PetscObject)matin)->comm);CHKERRQ(ierr); 11774e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11784e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11794e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11804e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11814e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1182a66be287SLois Curfman McInnes } 11834e220ebcSLois Curfman McInnes info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 11844e220ebcSLois Curfman McInnes info->fill_ratio_needed = 0; 11854e220ebcSLois Curfman McInnes info->factor_mallocs = 0; 1186899cda47SBarry Smith info->rows_global = (double)matin->rmap.N; 1187899cda47SBarry Smith info->columns_global = (double)matin->cmap.N; 1188899cda47SBarry Smith info->rows_local = (double)matin->rmap.n; 1189899cda47SBarry Smith info->columns_local = (double)matin->cmap.N; 11904e220ebcSLois Curfman McInnes 11913a40ed3dSBarry Smith PetscFunctionReturn(0); 1192a66be287SLois Curfman McInnes } 1193a66be287SLois Curfman McInnes 11944a2ae208SSatish Balay #undef __FUNCT__ 11954a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_MPIAIJ" 11964e0d8c25SBarry Smith PetscErrorCode MatSetOption_MPIAIJ(Mat A,MatOption op,PetscTruth flg) 1197c74985f6SBarry Smith { 1198c0bbcb79SLois Curfman McInnes Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1199dfbe8321SBarry Smith PetscErrorCode ierr; 1200c74985f6SBarry Smith 12013a40ed3dSBarry Smith PetscFunctionBegin; 120212c028f9SKris Buschelman switch (op) { 1203512a5fc5SBarry Smith case MAT_NEW_NONZERO_LOCATIONS: 120412c028f9SKris Buschelman case MAT_NEW_NONZERO_ALLOCATION_ERR: 120512c028f9SKris Buschelman case MAT_KEEP_ZEROED_ROWS: 120612c028f9SKris Buschelman case MAT_NEW_NONZERO_LOCATION_ERR: 120712c028f9SKris Buschelman case MAT_USE_INODES: 120812c028f9SKris Buschelman case MAT_IGNORE_ZERO_ENTRIES: 12094e0d8c25SBarry Smith ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 12104e0d8c25SBarry Smith ierr = MatSetOption(a->B,op,flg);CHKERRQ(ierr); 121112c028f9SKris Buschelman break; 121212c028f9SKris Buschelman case MAT_ROW_ORIENTED: 12134e0d8c25SBarry Smith a->roworiented = flg; 12144e0d8c25SBarry Smith ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 12154e0d8c25SBarry Smith ierr = MatSetOption(a->B,op,flg);CHKERRQ(ierr); 121612c028f9SKris Buschelman break; 12174e0d8c25SBarry Smith case MAT_NEW_DIAGONALS: 1218290bbb0aSBarry Smith ierr = PetscInfo1(A,"Option %s ignored\n",MatOptions[op]);CHKERRQ(ierr); 121912c028f9SKris Buschelman break; 122012c028f9SKris Buschelman case MAT_IGNORE_OFF_PROC_ENTRIES: 12217c922b88SBarry Smith a->donotstash = PETSC_TRUE; 122212c028f9SKris Buschelman break; 122377e54ba9SKris Buschelman case MAT_SYMMETRIC: 12244e0d8c25SBarry Smith ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 122525f421beSHong Zhang break; 122677e54ba9SKris Buschelman case MAT_STRUCTURALLY_SYMMETRIC: 1227bf108f30SBarry Smith case MAT_HERMITIAN: 1228bf108f30SBarry Smith case MAT_SYMMETRY_ETERNAL: 12294e0d8c25SBarry Smith ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 123077e54ba9SKris Buschelman break; 123112c028f9SKris Buschelman default: 1232ad86a440SBarry Smith SETERRQ1(PETSC_ERR_SUP,"unknown option %d",op); 12333a40ed3dSBarry Smith } 12343a40ed3dSBarry Smith PetscFunctionReturn(0); 1235c74985f6SBarry Smith } 1236c74985f6SBarry Smith 12374a2ae208SSatish Balay #undef __FUNCT__ 12384a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_MPIAIJ" 1239b1d57f15SBarry Smith PetscErrorCode MatGetRow_MPIAIJ(Mat matin,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 124039e00950SLois Curfman McInnes { 1241154123eaSLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 124287828ca2SBarry Smith PetscScalar *vworkA,*vworkB,**pvA,**pvB,*v_p; 12436849ba73SBarry Smith PetscErrorCode ierr; 1244899cda47SBarry Smith PetscInt i,*cworkA,*cworkB,**pcA,**pcB,cstart = matin->cmap.rstart; 1245899cda47SBarry Smith PetscInt nztot,nzA,nzB,lrow,rstart = matin->rmap.rstart,rend = matin->rmap.rend; 1246b1d57f15SBarry Smith PetscInt *cmap,*idx_p; 124739e00950SLois Curfman McInnes 12483a40ed3dSBarry Smith PetscFunctionBegin; 1249abc0a331SBarry Smith if (mat->getrowactive) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Already active"); 12507a0afa10SBarry Smith mat->getrowactive = PETSC_TRUE; 12517a0afa10SBarry Smith 125270f0671dSBarry Smith if (!mat->rowvalues && (idx || v)) { 12537a0afa10SBarry Smith /* 12547a0afa10SBarry Smith allocate enough space to hold information from the longest row. 12557a0afa10SBarry Smith */ 12567a0afa10SBarry Smith Mat_SeqAIJ *Aa = (Mat_SeqAIJ*)mat->A->data,*Ba = (Mat_SeqAIJ*)mat->B->data; 1257b1d57f15SBarry Smith PetscInt max = 1,tmp; 1258899cda47SBarry Smith for (i=0; i<matin->rmap.n; i++) { 12597a0afa10SBarry Smith tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i]; 12607a0afa10SBarry Smith if (max < tmp) { max = tmp; } 12617a0afa10SBarry Smith } 1262b1d57f15SBarry Smith ierr = PetscMalloc(max*(sizeof(PetscInt)+sizeof(PetscScalar)),&mat->rowvalues);CHKERRQ(ierr); 1263b1d57f15SBarry Smith mat->rowindices = (PetscInt*)(mat->rowvalues + max); 12647a0afa10SBarry Smith } 12657a0afa10SBarry Smith 126629bbc08cSBarry Smith if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Only local rows") 1267abc0e9e4SLois Curfman McInnes lrow = row - rstart; 126839e00950SLois Curfman McInnes 1269154123eaSLois Curfman McInnes pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB; 1270154123eaSLois Curfman McInnes if (!v) {pvA = 0; pvB = 0;} 1271154123eaSLois Curfman McInnes if (!idx) {pcA = 0; if (!v) pcB = 0;} 1272f830108cSBarry Smith ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1273f830108cSBarry Smith ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 1274154123eaSLois Curfman McInnes nztot = nzA + nzB; 1275154123eaSLois Curfman McInnes 127670f0671dSBarry Smith cmap = mat->garray; 1277154123eaSLois Curfman McInnes if (v || idx) { 1278154123eaSLois Curfman McInnes if (nztot) { 1279154123eaSLois Curfman McInnes /* Sort by increasing column numbers, assuming A and B already sorted */ 1280b1d57f15SBarry Smith PetscInt imark = -1; 1281154123eaSLois Curfman McInnes if (v) { 128270f0671dSBarry Smith *v = v_p = mat->rowvalues; 128339e00950SLois Curfman McInnes for (i=0; i<nzB; i++) { 128470f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) v_p[i] = vworkB[i]; 1285154123eaSLois Curfman McInnes else break; 1286154123eaSLois Curfman McInnes } 1287154123eaSLois Curfman McInnes imark = i; 128870f0671dSBarry Smith for (i=0; i<nzA; i++) v_p[imark+i] = vworkA[i]; 128970f0671dSBarry Smith for (i=imark; i<nzB; i++) v_p[nzA+i] = vworkB[i]; 1290154123eaSLois Curfman McInnes } 1291154123eaSLois Curfman McInnes if (idx) { 129270f0671dSBarry Smith *idx = idx_p = mat->rowindices; 129370f0671dSBarry Smith if (imark > -1) { 129470f0671dSBarry Smith for (i=0; i<imark; i++) { 129570f0671dSBarry Smith idx_p[i] = cmap[cworkB[i]]; 129670f0671dSBarry Smith } 129770f0671dSBarry Smith } else { 1298154123eaSLois Curfman McInnes for (i=0; i<nzB; i++) { 129970f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) idx_p[i] = cmap[cworkB[i]]; 1300154123eaSLois Curfman McInnes else break; 1301154123eaSLois Curfman McInnes } 1302154123eaSLois Curfman McInnes imark = i; 130370f0671dSBarry Smith } 130470f0671dSBarry Smith for (i=0; i<nzA; i++) idx_p[imark+i] = cstart + cworkA[i]; 130570f0671dSBarry Smith for (i=imark; i<nzB; i++) idx_p[nzA+i] = cmap[cworkB[i]]; 130639e00950SLois Curfman McInnes } 13073f97c4b0SBarry Smith } else { 13081ca473b0SSatish Balay if (idx) *idx = 0; 13091ca473b0SSatish Balay if (v) *v = 0; 13101ca473b0SSatish Balay } 1311154123eaSLois Curfman McInnes } 131239e00950SLois Curfman McInnes *nz = nztot; 1313f830108cSBarry Smith ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1314f830108cSBarry Smith ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 13153a40ed3dSBarry Smith PetscFunctionReturn(0); 131639e00950SLois Curfman McInnes } 131739e00950SLois Curfman McInnes 13184a2ae208SSatish Balay #undef __FUNCT__ 13194a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_MPIAIJ" 1320b1d57f15SBarry Smith PetscErrorCode MatRestoreRow_MPIAIJ(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 132139e00950SLois Curfman McInnes { 13227a0afa10SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 13233a40ed3dSBarry Smith 13243a40ed3dSBarry Smith PetscFunctionBegin; 1325abc0a331SBarry Smith if (!aij->getrowactive) { 1326abc0a331SBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"MatGetRow() must be called first"); 13277a0afa10SBarry Smith } 13287a0afa10SBarry Smith aij->getrowactive = PETSC_FALSE; 13293a40ed3dSBarry Smith PetscFunctionReturn(0); 133039e00950SLois Curfman McInnes } 133139e00950SLois Curfman McInnes 13324a2ae208SSatish Balay #undef __FUNCT__ 13334a2ae208SSatish Balay #define __FUNCT__ "MatNorm_MPIAIJ" 1334dfbe8321SBarry Smith PetscErrorCode MatNorm_MPIAIJ(Mat mat,NormType type,PetscReal *norm) 1335855ac2c5SLois Curfman McInnes { 1336855ac2c5SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 1337ec8511deSBarry Smith Mat_SeqAIJ *amat = (Mat_SeqAIJ*)aij->A->data,*bmat = (Mat_SeqAIJ*)aij->B->data; 1338dfbe8321SBarry Smith PetscErrorCode ierr; 1339899cda47SBarry Smith PetscInt i,j,cstart = mat->cmap.rstart; 1340329f5518SBarry Smith PetscReal sum = 0.0; 134187828ca2SBarry Smith PetscScalar *v; 134204ca555eSLois Curfman McInnes 13433a40ed3dSBarry Smith PetscFunctionBegin; 134417699dbbSLois Curfman McInnes if (aij->size == 1) { 134514183eadSLois Curfman McInnes ierr = MatNorm(aij->A,type,norm);CHKERRQ(ierr); 134637fa93a5SLois Curfman McInnes } else { 134704ca555eSLois Curfman McInnes if (type == NORM_FROBENIUS) { 134804ca555eSLois Curfman McInnes v = amat->a; 134904ca555eSLois Curfman McInnes for (i=0; i<amat->nz; i++) { 1350aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1351329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 135204ca555eSLois Curfman McInnes #else 135304ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 135404ca555eSLois Curfman McInnes #endif 135504ca555eSLois Curfman McInnes } 135604ca555eSLois Curfman McInnes v = bmat->a; 135704ca555eSLois Curfman McInnes for (i=0; i<bmat->nz; i++) { 1358aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1359329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 136004ca555eSLois Curfman McInnes #else 136104ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 136204ca555eSLois Curfman McInnes #endif 136304ca555eSLois Curfman McInnes } 13647adad957SLisandro Dalcin ierr = MPI_Allreduce(&sum,norm,1,MPIU_REAL,MPI_SUM,((PetscObject)mat)->comm);CHKERRQ(ierr); 136504ca555eSLois Curfman McInnes *norm = sqrt(*norm); 13663a40ed3dSBarry Smith } else if (type == NORM_1) { /* max column norm */ 1367329f5518SBarry Smith PetscReal *tmp,*tmp2; 1368b1d57f15SBarry Smith PetscInt *jj,*garray = aij->garray; 1369899cda47SBarry Smith ierr = PetscMalloc((mat->cmap.N+1)*sizeof(PetscReal),&tmp);CHKERRQ(ierr); 1370899cda47SBarry Smith ierr = PetscMalloc((mat->cmap.N+1)*sizeof(PetscReal),&tmp2);CHKERRQ(ierr); 1371899cda47SBarry Smith ierr = PetscMemzero(tmp,mat->cmap.N*sizeof(PetscReal));CHKERRQ(ierr); 137204ca555eSLois Curfman McInnes *norm = 0.0; 137304ca555eSLois Curfman McInnes v = amat->a; jj = amat->j; 137404ca555eSLois Curfman McInnes for (j=0; j<amat->nz; j++) { 1375bfec09a0SHong Zhang tmp[cstart + *jj++ ] += PetscAbsScalar(*v); v++; 137604ca555eSLois Curfman McInnes } 137704ca555eSLois Curfman McInnes v = bmat->a; jj = bmat->j; 137804ca555eSLois Curfman McInnes for (j=0; j<bmat->nz; j++) { 1379bfec09a0SHong Zhang tmp[garray[*jj++]] += PetscAbsScalar(*v); v++; 138004ca555eSLois Curfman McInnes } 13817adad957SLisandro Dalcin ierr = MPI_Allreduce(tmp,tmp2,mat->cmap.N,MPIU_REAL,MPI_SUM,((PetscObject)mat)->comm);CHKERRQ(ierr); 1382899cda47SBarry Smith for (j=0; j<mat->cmap.N; j++) { 138304ca555eSLois Curfman McInnes if (tmp2[j] > *norm) *norm = tmp2[j]; 138404ca555eSLois Curfman McInnes } 1385606d414cSSatish Balay ierr = PetscFree(tmp);CHKERRQ(ierr); 1386606d414cSSatish Balay ierr = PetscFree(tmp2);CHKERRQ(ierr); 13873a40ed3dSBarry Smith } else if (type == NORM_INFINITY) { /* max row norm */ 1388329f5518SBarry Smith PetscReal ntemp = 0.0; 1389899cda47SBarry Smith for (j=0; j<aij->A->rmap.n; j++) { 1390bfec09a0SHong Zhang v = amat->a + amat->i[j]; 139104ca555eSLois Curfman McInnes sum = 0.0; 139204ca555eSLois Curfman McInnes for (i=0; i<amat->i[j+1]-amat->i[j]; i++) { 1393cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 139404ca555eSLois Curfman McInnes } 1395bfec09a0SHong Zhang v = bmat->a + bmat->i[j]; 139604ca555eSLois Curfman McInnes for (i=0; i<bmat->i[j+1]-bmat->i[j]; i++) { 1397cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 139804ca555eSLois Curfman McInnes } 1399515d9167SLois Curfman McInnes if (sum > ntemp) ntemp = sum; 140004ca555eSLois Curfman McInnes } 14017adad957SLisandro Dalcin ierr = MPI_Allreduce(&ntemp,norm,1,MPIU_REAL,MPI_MAX,((PetscObject)mat)->comm);CHKERRQ(ierr); 1402ca161407SBarry Smith } else { 140329bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"No support for two norm"); 140404ca555eSLois Curfman McInnes } 140537fa93a5SLois Curfman McInnes } 14063a40ed3dSBarry Smith PetscFunctionReturn(0); 1407855ac2c5SLois Curfman McInnes } 1408855ac2c5SLois Curfman McInnes 14094a2ae208SSatish Balay #undef __FUNCT__ 14104a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_MPIAIJ" 1411dfbe8321SBarry Smith PetscErrorCode MatTranspose_MPIAIJ(Mat A,Mat *matout) 1412b7c46309SBarry Smith { 1413b7c46309SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1414da668accSHong Zhang Mat_SeqAIJ *Aloc=(Mat_SeqAIJ*)a->A->data,*Bloc=(Mat_SeqAIJ*)a->B->data; 1415dfbe8321SBarry Smith PetscErrorCode ierr; 1416da668accSHong Zhang PetscInt M = A->rmap.N,N = A->cmap.N,ma,na,mb,*ai,*aj,*bi,*bj,row,*cols,i,*d_nnz; 1417da668accSHong Zhang PetscInt cstart=A->cmap.rstart,ncol; 14183a40ed3dSBarry Smith Mat B; 141987828ca2SBarry Smith PetscScalar *array; 1420b7c46309SBarry Smith 14213a40ed3dSBarry Smith PetscFunctionBegin; 1422da668accSHong Zhang if (!matout && M != N) SETERRQ(PETSC_ERR_ARG_SIZ,"Square matrix only for in-place"); 1423da668accSHong Zhang 1424da668accSHong Zhang /* compute d_nnz for preallocation; o_nnz is approximated by d_nnz to avoid communication */ 1425da668accSHong Zhang ma = A->rmap.n; na = A->cmap.n; mb = a->B->rmap.n; 1426da668accSHong Zhang ai = Aloc->i; aj = Aloc->j; 1427da668accSHong Zhang bi = Bloc->i; bj = Bloc->j; 1428da668accSHong Zhang ierr = PetscMalloc((1+na+bi[mb])*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr); 1429da668accSHong Zhang cols = d_nnz + na + 1; /* work space to be used by B part */ 1430da668accSHong Zhang ierr = PetscMemzero(d_nnz,(1+na)*sizeof(PetscInt));CHKERRQ(ierr); 1431da668accSHong Zhang for (i=0; i<ai[ma]; i++){ 1432da668accSHong Zhang d_nnz[aj[i]] ++; 1433da668accSHong Zhang aj[i] += cstart; /* global col index to be used by MatSetValues() */ 1434d4bb536fSBarry Smith } 1435d4bb536fSBarry Smith 14367adad957SLisandro Dalcin ierr = MatCreate(((PetscObject)A)->comm,&B);CHKERRQ(ierr); 1437899cda47SBarry Smith ierr = MatSetSizes(B,A->cmap.n,A->rmap.n,N,M);CHKERRQ(ierr); 14387adad957SLisandro Dalcin ierr = MatSetType(B,((PetscObject)A)->type_name);CHKERRQ(ierr); 1439da668accSHong Zhang ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,d_nnz);CHKERRQ(ierr); 1440b7c46309SBarry Smith 1441b7c46309SBarry Smith /* copy over the A part */ 1442da668accSHong Zhang array = Aloc->a; 1443899cda47SBarry Smith row = A->rmap.rstart; 1444da668accSHong Zhang for (i=0; i<ma; i++) { 1445da668accSHong Zhang ncol = ai[i+1]-ai[i]; 1446da668accSHong Zhang ierr = MatSetValues(B,ncol,aj,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1447da668accSHong Zhang row++; array += ncol; aj += ncol; 1448b7c46309SBarry Smith } 1449b7c46309SBarry Smith aj = Aloc->j; 1450da668accSHong Zhang for (i=0; i<ai[ma]; i++) aj[i] -= cstart; /* resume local col index */ 1451b7c46309SBarry Smith 1452b7c46309SBarry Smith /* copy over the B part */ 1453da668accSHong Zhang array = Bloc->a; 1454899cda47SBarry Smith row = A->rmap.rstart; 1455da668accSHong Zhang for (i=0; i<bi[mb]; i++) {cols[i] = a->garray[bj[i]];} 1456da668accSHong Zhang for (i=0; i<mb; i++) { 1457da668accSHong Zhang ncol = bi[i+1]-bi[i]; 1458da668accSHong Zhang ierr = MatSetValues(B,ncol,cols,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1459da668accSHong Zhang row++; array += ncol; cols += ncol; 1460b7c46309SBarry Smith } 1461da668accSHong Zhang ierr = PetscFree(d_nnz);CHKERRQ(ierr); 14626d4a8577SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14636d4a8577SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14647c922b88SBarry Smith if (matout) { 14650de55854SLois Curfman McInnes *matout = B; 14660de55854SLois Curfman McInnes } else { 1467273d9f13SBarry Smith ierr = MatHeaderCopy(A,B);CHKERRQ(ierr); 14680de55854SLois Curfman McInnes } 14693a40ed3dSBarry Smith PetscFunctionReturn(0); 1470b7c46309SBarry Smith } 1471b7c46309SBarry Smith 14724a2ae208SSatish Balay #undef __FUNCT__ 14734a2ae208SSatish Balay #define __FUNCT__ "MatDiagonalScale_MPIAIJ" 1474dfbe8321SBarry Smith PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat,Vec ll,Vec rr) 1475a008b906SSatish Balay { 14764b967eb1SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 14774b967eb1SSatish Balay Mat a = aij->A,b = aij->B; 1478dfbe8321SBarry Smith PetscErrorCode ierr; 1479b1d57f15SBarry Smith PetscInt s1,s2,s3; 1480a008b906SSatish Balay 14813a40ed3dSBarry Smith PetscFunctionBegin; 14824b967eb1SSatish Balay ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr); 14834b967eb1SSatish Balay if (rr) { 1484e1311b90SBarry Smith ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr); 148529bbc08cSBarry Smith if (s1!=s3) SETERRQ(PETSC_ERR_ARG_SIZ,"right vector non-conforming local size"); 14864b967eb1SSatish Balay /* Overlap communication with computation. */ 1487ca9f406cSSatish Balay ierr = VecScatterBegin(aij->Mvctx,rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1488a008b906SSatish Balay } 14894b967eb1SSatish Balay if (ll) { 1490e1311b90SBarry Smith ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr); 149129bbc08cSBarry Smith if (s1!=s2) SETERRQ(PETSC_ERR_ARG_SIZ,"left vector non-conforming local size"); 1492f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,ll,0);CHKERRQ(ierr); 14934b967eb1SSatish Balay } 14944b967eb1SSatish Balay /* scale the diagonal block */ 1495f830108cSBarry Smith ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr); 14964b967eb1SSatish Balay 14974b967eb1SSatish Balay if (rr) { 14984b967eb1SSatish Balay /* Do a scatter end and then right scale the off-diagonal block */ 1499ca9f406cSSatish Balay ierr = VecScatterEnd(aij->Mvctx,rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1500f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,0,aij->lvec);CHKERRQ(ierr); 15014b967eb1SSatish Balay } 15024b967eb1SSatish Balay 15033a40ed3dSBarry Smith PetscFunctionReturn(0); 1504a008b906SSatish Balay } 1505a008b906SSatish Balay 15064a2ae208SSatish Balay #undef __FUNCT__ 1507521d7252SBarry Smith #define __FUNCT__ "MatSetBlockSize_MPIAIJ" 1508521d7252SBarry Smith PetscErrorCode MatSetBlockSize_MPIAIJ(Mat A,PetscInt bs) 15095a838052SSatish Balay { 1510521d7252SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1511521d7252SBarry Smith PetscErrorCode ierr; 1512521d7252SBarry Smith 15133a40ed3dSBarry Smith PetscFunctionBegin; 1514521d7252SBarry Smith ierr = MatSetBlockSize(a->A,bs);CHKERRQ(ierr); 1515521d7252SBarry Smith ierr = MatSetBlockSize(a->B,bs);CHKERRQ(ierr); 15163a40ed3dSBarry Smith PetscFunctionReturn(0); 15175a838052SSatish Balay } 15184a2ae208SSatish Balay #undef __FUNCT__ 15194a2ae208SSatish Balay #define __FUNCT__ "MatSetUnfactored_MPIAIJ" 1520dfbe8321SBarry Smith PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A) 1521bb5a7306SBarry Smith { 1522bb5a7306SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1523dfbe8321SBarry Smith PetscErrorCode ierr; 15243a40ed3dSBarry Smith 15253a40ed3dSBarry Smith PetscFunctionBegin; 1526bb5a7306SBarry Smith ierr = MatSetUnfactored(a->A);CHKERRQ(ierr); 15273a40ed3dSBarry Smith PetscFunctionReturn(0); 1528bb5a7306SBarry Smith } 1529bb5a7306SBarry Smith 15304a2ae208SSatish Balay #undef __FUNCT__ 15314a2ae208SSatish Balay #define __FUNCT__ "MatEqual_MPIAIJ" 1532dfbe8321SBarry Smith PetscErrorCode MatEqual_MPIAIJ(Mat A,Mat B,PetscTruth *flag) 1533d4bb536fSBarry Smith { 1534d4bb536fSBarry Smith Mat_MPIAIJ *matB = (Mat_MPIAIJ*)B->data,*matA = (Mat_MPIAIJ*)A->data; 1535d4bb536fSBarry Smith Mat a,b,c,d; 1536d4bb536fSBarry Smith PetscTruth flg; 1537dfbe8321SBarry Smith PetscErrorCode ierr; 1538d4bb536fSBarry Smith 15393a40ed3dSBarry Smith PetscFunctionBegin; 1540d4bb536fSBarry Smith a = matA->A; b = matA->B; 1541d4bb536fSBarry Smith c = matB->A; d = matB->B; 1542d4bb536fSBarry Smith 1543d4bb536fSBarry Smith ierr = MatEqual(a,c,&flg);CHKERRQ(ierr); 1544abc0a331SBarry Smith if (flg) { 1545d4bb536fSBarry Smith ierr = MatEqual(b,d,&flg);CHKERRQ(ierr); 1546d4bb536fSBarry Smith } 15477adad957SLisandro Dalcin ierr = MPI_Allreduce(&flg,flag,1,MPI_INT,MPI_LAND,((PetscObject)A)->comm);CHKERRQ(ierr); 15483a40ed3dSBarry Smith PetscFunctionReturn(0); 1549d4bb536fSBarry Smith } 1550d4bb536fSBarry Smith 15514a2ae208SSatish Balay #undef __FUNCT__ 15524a2ae208SSatish Balay #define __FUNCT__ "MatCopy_MPIAIJ" 1553dfbe8321SBarry Smith PetscErrorCode MatCopy_MPIAIJ(Mat A,Mat B,MatStructure str) 1554cb5b572fSBarry Smith { 1555dfbe8321SBarry Smith PetscErrorCode ierr; 1556cb5b572fSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1557cb5b572fSBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 1558cb5b572fSBarry Smith 1559cb5b572fSBarry Smith PetscFunctionBegin; 156033f4a19fSKris Buschelman /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */ 156133f4a19fSKris Buschelman if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) { 1562cb5b572fSBarry Smith /* because of the column compression in the off-processor part of the matrix a->B, 1563cb5b572fSBarry Smith the number of columns in a->B and b->B may be different, hence we cannot call 1564cb5b572fSBarry Smith the MatCopy() directly on the two parts. If need be, we can provide a more 1565cb5b572fSBarry Smith efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices 1566cb5b572fSBarry Smith then copying the submatrices */ 1567cb5b572fSBarry Smith ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr); 1568cb5b572fSBarry Smith } else { 1569cb5b572fSBarry Smith ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 1570cb5b572fSBarry Smith ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr); 1571cb5b572fSBarry Smith } 1572cb5b572fSBarry Smith PetscFunctionReturn(0); 1573cb5b572fSBarry Smith } 1574cb5b572fSBarry Smith 15754a2ae208SSatish Balay #undef __FUNCT__ 15764a2ae208SSatish Balay #define __FUNCT__ "MatSetUpPreallocation_MPIAIJ" 1577dfbe8321SBarry Smith PetscErrorCode MatSetUpPreallocation_MPIAIJ(Mat A) 1578273d9f13SBarry Smith { 1579dfbe8321SBarry Smith PetscErrorCode ierr; 1580273d9f13SBarry Smith 1581273d9f13SBarry Smith PetscFunctionBegin; 1582273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(A,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr); 1583273d9f13SBarry Smith PetscFunctionReturn(0); 1584273d9f13SBarry Smith } 1585273d9f13SBarry Smith 1586ac90fabeSBarry Smith #include "petscblaslapack.h" 1587ac90fabeSBarry Smith #undef __FUNCT__ 1588ac90fabeSBarry Smith #define __FUNCT__ "MatAXPY_MPIAIJ" 1589f4df32b1SMatthew Knepley PetscErrorCode MatAXPY_MPIAIJ(Mat Y,PetscScalar a,Mat X,MatStructure str) 1590ac90fabeSBarry Smith { 1591dfbe8321SBarry Smith PetscErrorCode ierr; 1592b1d57f15SBarry Smith PetscInt i; 1593ac90fabeSBarry Smith Mat_MPIAIJ *xx = (Mat_MPIAIJ *)X->data,*yy = (Mat_MPIAIJ *)Y->data; 15944ce68768SBarry Smith PetscBLASInt bnz,one=1; 1595ac90fabeSBarry Smith Mat_SeqAIJ *x,*y; 1596ac90fabeSBarry Smith 1597ac90fabeSBarry Smith PetscFunctionBegin; 1598ac90fabeSBarry Smith if (str == SAME_NONZERO_PATTERN) { 1599f4df32b1SMatthew Knepley PetscScalar alpha = a; 1600ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->A->data; 1601ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->A->data; 1602*0805154bSBarry Smith bnz = PetscBLASIntCast(x->nz); 1603f4df32b1SMatthew Knepley BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one); 1604ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->B->data; 1605ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->B->data; 1606*0805154bSBarry Smith bnz = PetscBLASIntCast(x->nz); 1607f4df32b1SMatthew Knepley BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one); 1608a30b2313SHong Zhang } else if (str == SUBSET_NONZERO_PATTERN) { 1609f4df32b1SMatthew Knepley ierr = MatAXPY_SeqAIJ(yy->A,a,xx->A,str);CHKERRQ(ierr); 1610c537a176SHong Zhang 1611c537a176SHong Zhang x = (Mat_SeqAIJ *)xx->B->data; 1612a30b2313SHong Zhang y = (Mat_SeqAIJ *)yy->B->data; 1613a30b2313SHong Zhang if (y->xtoy && y->XtoY != xx->B) { 1614a30b2313SHong Zhang ierr = PetscFree(y->xtoy);CHKERRQ(ierr); 1615a30b2313SHong Zhang ierr = MatDestroy(y->XtoY);CHKERRQ(ierr); 1616c537a176SHong Zhang } 1617a30b2313SHong Zhang if (!y->xtoy) { /* get xtoy */ 1618899cda47SBarry Smith ierr = MatAXPYGetxtoy_Private(xx->B->rmap.n,x->i,x->j,xx->garray,y->i,y->j,yy->garray,&y->xtoy);CHKERRQ(ierr); 1619a30b2313SHong Zhang y->XtoY = xx->B; 1620407f6b05SHong Zhang ierr = PetscObjectReference((PetscObject)xx->B);CHKERRQ(ierr); 1621c537a176SHong Zhang } 1622f4df32b1SMatthew Knepley for (i=0; i<x->nz; i++) y->a[y->xtoy[i]] += a*(x->a[i]); 1623ac90fabeSBarry Smith } else { 1624f4df32b1SMatthew Knepley ierr = MatAXPY_Basic(Y,a,X,str);CHKERRQ(ierr); 1625ac90fabeSBarry Smith } 1626ac90fabeSBarry Smith PetscFunctionReturn(0); 1627ac90fabeSBarry Smith } 1628ac90fabeSBarry Smith 1629354c94deSBarry Smith EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatConjugate_SeqAIJ(Mat); 1630354c94deSBarry Smith 1631354c94deSBarry Smith #undef __FUNCT__ 1632354c94deSBarry Smith #define __FUNCT__ "MatConjugate_MPIAIJ" 1633354c94deSBarry Smith PetscErrorCode PETSCMAT_DLLEXPORT MatConjugate_MPIAIJ(Mat mat) 1634354c94deSBarry Smith { 1635354c94deSBarry Smith #if defined(PETSC_USE_COMPLEX) 1636354c94deSBarry Smith PetscErrorCode ierr; 1637354c94deSBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1638354c94deSBarry Smith 1639354c94deSBarry Smith PetscFunctionBegin; 1640354c94deSBarry Smith ierr = MatConjugate_SeqAIJ(aij->A);CHKERRQ(ierr); 1641354c94deSBarry Smith ierr = MatConjugate_SeqAIJ(aij->B);CHKERRQ(ierr); 1642354c94deSBarry Smith #else 1643354c94deSBarry Smith PetscFunctionBegin; 1644354c94deSBarry Smith #endif 1645354c94deSBarry Smith PetscFunctionReturn(0); 1646354c94deSBarry Smith } 1647354c94deSBarry Smith 164899cafbc1SBarry Smith #undef __FUNCT__ 164999cafbc1SBarry Smith #define __FUNCT__ "MatRealPart_MPIAIJ" 165099cafbc1SBarry Smith PetscErrorCode MatRealPart_MPIAIJ(Mat A) 165199cafbc1SBarry Smith { 165299cafbc1SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 165399cafbc1SBarry Smith PetscErrorCode ierr; 165499cafbc1SBarry Smith 165599cafbc1SBarry Smith PetscFunctionBegin; 165699cafbc1SBarry Smith ierr = MatRealPart(a->A);CHKERRQ(ierr); 165799cafbc1SBarry Smith ierr = MatRealPart(a->B);CHKERRQ(ierr); 165899cafbc1SBarry Smith PetscFunctionReturn(0); 165999cafbc1SBarry Smith } 166099cafbc1SBarry Smith 166199cafbc1SBarry Smith #undef __FUNCT__ 166299cafbc1SBarry Smith #define __FUNCT__ "MatImaginaryPart_MPIAIJ" 166399cafbc1SBarry Smith PetscErrorCode MatImaginaryPart_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 = MatImaginaryPart(a->A);CHKERRQ(ierr); 167099cafbc1SBarry Smith ierr = MatImaginaryPart(a->B);CHKERRQ(ierr); 167199cafbc1SBarry Smith PetscFunctionReturn(0); 167299cafbc1SBarry Smith } 167399cafbc1SBarry Smith 1674103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 1675103bf8bdSMatthew Knepley 1676103bf8bdSMatthew Knepley #include <boost/parallel/mpi/bsp_process_group.hpp> 1677a2c909beSMatthew Knepley #include <boost/graph/distributed/ilu_default_graph.hpp> 1678a2c909beSMatthew Knepley #include <boost/graph/distributed/ilu_0_block.hpp> 1679a2c909beSMatthew Knepley #include <boost/graph/distributed/ilu_preconditioner.hpp> 1680103bf8bdSMatthew Knepley #include <boost/graph/distributed/petsc/interface.hpp> 1681a2c909beSMatthew Knepley #include <boost/multi_array.hpp> 1682a2c909beSMatthew Knepley #include <boost/parallel/distributed_property_map.hpp> 1683103bf8bdSMatthew Knepley 1684103bf8bdSMatthew Knepley #undef __FUNCT__ 1685103bf8bdSMatthew Knepley #define __FUNCT__ "MatILUFactorSymbolic_MPIAIJ" 1686103bf8bdSMatthew Knepley /* 1687103bf8bdSMatthew Knepley This uses the parallel ILU factorization of Peter Gottschling <pgottsch@osl.iu.edu> 1688103bf8bdSMatthew Knepley */ 1689103bf8bdSMatthew Knepley PetscErrorCode MatILUFactorSymbolic_MPIAIJ(Mat A, IS isrow, IS iscol, MatFactorInfo *info, Mat *fact) 1690103bf8bdSMatthew Knepley { 1691a2c909beSMatthew Knepley namespace petsc = boost::distributed::petsc; 1692a2c909beSMatthew Knepley 1693a2c909beSMatthew Knepley namespace graph_dist = boost::graph::distributed; 1694a2c909beSMatthew Knepley using boost::graph::distributed::ilu_default::process_group_type; 1695a2c909beSMatthew Knepley using boost::graph::ilu_permuted; 1696a2c909beSMatthew Knepley 1697103bf8bdSMatthew Knepley PetscTruth row_identity, col_identity; 1698776b82aeSLisandro Dalcin PetscContainer c; 1699103bf8bdSMatthew Knepley PetscInt m, n, M, N; 1700103bf8bdSMatthew Knepley PetscErrorCode ierr; 1701103bf8bdSMatthew Knepley 1702103bf8bdSMatthew Knepley PetscFunctionBegin; 1703103bf8bdSMatthew Knepley if (info->levels != 0) SETERRQ(PETSC_ERR_SUP,"Only levels = 0 supported for parallel ilu"); 1704103bf8bdSMatthew Knepley ierr = ISIdentity(isrow, &row_identity);CHKERRQ(ierr); 1705103bf8bdSMatthew Knepley ierr = ISIdentity(iscol, &col_identity);CHKERRQ(ierr); 1706103bf8bdSMatthew Knepley if (!row_identity || !col_identity) { 1707103bf8bdSMatthew Knepley SETERRQ(PETSC_ERR_ARG_WRONG,"Row and column permutations must be identity for parallel ILU"); 1708103bf8bdSMatthew Knepley } 1709103bf8bdSMatthew Knepley 1710103bf8bdSMatthew Knepley process_group_type pg; 1711a2c909beSMatthew Knepley typedef graph_dist::ilu_default::ilu_level_graph_type lgraph_type; 1712a2c909beSMatthew Knepley lgraph_type* lgraph_p = new lgraph_type(petsc::num_global_vertices(A), pg, petsc::matrix_distribution(A, pg)); 1713a2c909beSMatthew Knepley lgraph_type& level_graph = *lgraph_p; 1714a2c909beSMatthew Knepley graph_dist::ilu_default::graph_type& graph(level_graph.graph); 1715a2c909beSMatthew Knepley 1716103bf8bdSMatthew Knepley petsc::read_matrix(A, graph, get(boost::edge_weight, graph)); 1717a2c909beSMatthew Knepley ilu_permuted(level_graph); 1718103bf8bdSMatthew Knepley 1719103bf8bdSMatthew Knepley /* put together the new matrix */ 17207adad957SLisandro Dalcin ierr = MatCreate(((PetscObject)A)->comm, fact);CHKERRQ(ierr); 1721103bf8bdSMatthew Knepley ierr = MatGetLocalSize(A, &m, &n);CHKERRQ(ierr); 1722103bf8bdSMatthew Knepley ierr = MatGetSize(A, &M, &N);CHKERRQ(ierr); 1723103bf8bdSMatthew Knepley ierr = MatSetSizes(*fact, m, n, M, N);CHKERRQ(ierr); 17247adad957SLisandro Dalcin ierr = MatSetType(*fact, ((PetscObject)A)->type_name);CHKERRQ(ierr); 172510bd6422SMatthew Knepley ierr = MatAssemblyBegin(*fact, MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 172610bd6422SMatthew Knepley ierr = MatAssemblyEnd(*fact, MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1727103bf8bdSMatthew Knepley (*fact)->factor = FACTOR_LU; 1728103bf8bdSMatthew Knepley 17297adad957SLisandro Dalcin ierr = PetscContainerCreate(((PetscObject)A)->comm, &c); 1730776b82aeSLisandro Dalcin ierr = PetscContainerSetPointer(c, lgraph_p); 1731103bf8bdSMatthew Knepley ierr = PetscObjectCompose((PetscObject) (*fact), "graph", (PetscObject) c); 1732103bf8bdSMatthew Knepley PetscFunctionReturn(0); 1733103bf8bdSMatthew Knepley } 1734103bf8bdSMatthew Knepley 1735103bf8bdSMatthew Knepley #undef __FUNCT__ 1736103bf8bdSMatthew Knepley #define __FUNCT__ "MatLUFactorNumeric_MPIAIJ" 1737103bf8bdSMatthew Knepley PetscErrorCode MatLUFactorNumeric_MPIAIJ(Mat A, MatFactorInfo *info, Mat *B) 1738103bf8bdSMatthew Knepley { 1739103bf8bdSMatthew Knepley PetscFunctionBegin; 1740103bf8bdSMatthew Knepley PetscFunctionReturn(0); 1741103bf8bdSMatthew Knepley } 1742103bf8bdSMatthew Knepley 1743103bf8bdSMatthew Knepley #undef __FUNCT__ 1744103bf8bdSMatthew Knepley #define __FUNCT__ "MatSolve_MPIAIJ" 1745103bf8bdSMatthew Knepley /* 1746103bf8bdSMatthew Knepley This uses the parallel ILU factorization of Peter Gottschling <pgottsch@osl.iu.edu> 1747103bf8bdSMatthew Knepley */ 1748103bf8bdSMatthew Knepley PetscErrorCode MatSolve_MPIAIJ(Mat A, Vec b, Vec x) 1749103bf8bdSMatthew Knepley { 1750a2c909beSMatthew Knepley namespace graph_dist = boost::graph::distributed; 1751a2c909beSMatthew Knepley 1752a2c909beSMatthew Knepley typedef graph_dist::ilu_default::ilu_level_graph_type lgraph_type; 1753a2c909beSMatthew Knepley lgraph_type* lgraph_p; 1754776b82aeSLisandro Dalcin PetscContainer c; 1755103bf8bdSMatthew Knepley PetscErrorCode ierr; 1756103bf8bdSMatthew Knepley 1757103bf8bdSMatthew Knepley PetscFunctionBegin; 1758103bf8bdSMatthew Knepley ierr = PetscObjectQuery((PetscObject) A, "graph", (PetscObject *) &c);CHKERRQ(ierr); 1759776b82aeSLisandro Dalcin ierr = PetscContainerGetPointer(c, (void **) &lgraph_p);CHKERRQ(ierr); 1760103bf8bdSMatthew Knepley ierr = VecCopy(b, x); CHKERRQ(ierr); 1761a2c909beSMatthew Knepley 1762a2c909beSMatthew Knepley PetscScalar* array_x; 1763a2c909beSMatthew Knepley ierr = VecGetArray(x, &array_x);CHKERRQ(ierr); 1764a2c909beSMatthew Knepley PetscInt sx; 1765a2c909beSMatthew Knepley ierr = VecGetSize(x, &sx);CHKERRQ(ierr); 1766a2c909beSMatthew Knepley 1767a2c909beSMatthew Knepley PetscScalar* array_b; 1768a2c909beSMatthew Knepley ierr = VecGetArray(b, &array_b);CHKERRQ(ierr); 1769a2c909beSMatthew Knepley PetscInt sb; 1770a2c909beSMatthew Knepley ierr = VecGetSize(b, &sb);CHKERRQ(ierr); 1771a2c909beSMatthew Knepley 1772a2c909beSMatthew Knepley lgraph_type& level_graph = *lgraph_p; 1773a2c909beSMatthew Knepley graph_dist::ilu_default::graph_type& graph(level_graph.graph); 1774a2c909beSMatthew Knepley 1775a2c909beSMatthew Knepley typedef boost::multi_array_ref<PetscScalar, 1> array_ref_type; 1776a2c909beSMatthew Knepley array_ref_type ref_b(array_b, boost::extents[num_vertices(graph)]), 1777a2c909beSMatthew Knepley ref_x(array_x, boost::extents[num_vertices(graph)]); 1778a2c909beSMatthew Knepley 1779a2c909beSMatthew Knepley typedef boost::iterator_property_map<array_ref_type::iterator, 1780a2c909beSMatthew Knepley boost::property_map<graph_dist::ilu_default::graph_type, boost::vertex_index_t>::type> gvector_type; 1781a2c909beSMatthew Knepley gvector_type vector_b(ref_b.begin(), get(boost::vertex_index, graph)), 1782a2c909beSMatthew Knepley vector_x(ref_x.begin(), get(boost::vertex_index, graph)); 1783a2c909beSMatthew Knepley 1784a2c909beSMatthew Knepley ilu_set_solve(*lgraph_p, vector_b, vector_x); 1785a2c909beSMatthew Knepley 1786103bf8bdSMatthew Knepley PetscFunctionReturn(0); 1787103bf8bdSMatthew Knepley } 1788103bf8bdSMatthew Knepley #endif 1789103bf8bdSMatthew Knepley 179069db28dcSHong Zhang typedef struct { /* used by MatGetRedundantMatrix() for reusing matredundant */ 179169db28dcSHong Zhang PetscInt nzlocal,nsends,nrecvs; 1792aa5bb8c0SSatish Balay PetscMPIInt *send_rank; 1793aa5bb8c0SSatish Balay PetscInt *sbuf_nz,*sbuf_j,**rbuf_j; 179469db28dcSHong Zhang PetscScalar *sbuf_a,**rbuf_a; 179569db28dcSHong Zhang PetscErrorCode (*MatDestroy)(Mat); 179669db28dcSHong Zhang } Mat_Redundant; 179769db28dcSHong Zhang 179869db28dcSHong Zhang #undef __FUNCT__ 179969db28dcSHong Zhang #define __FUNCT__ "PetscContainerDestroy_MatRedundant" 180069db28dcSHong Zhang PetscErrorCode PetscContainerDestroy_MatRedundant(void *ptr) 180169db28dcSHong Zhang { 180269db28dcSHong Zhang PetscErrorCode ierr; 180369db28dcSHong Zhang Mat_Redundant *redund=(Mat_Redundant*)ptr; 180469db28dcSHong Zhang PetscInt i; 180569db28dcSHong Zhang 180669db28dcSHong Zhang PetscFunctionBegin; 180769db28dcSHong Zhang ierr = PetscFree(redund->send_rank);CHKERRQ(ierr); 180869db28dcSHong Zhang ierr = PetscFree(redund->sbuf_j);CHKERRQ(ierr); 180969db28dcSHong Zhang ierr = PetscFree(redund->sbuf_a);CHKERRQ(ierr); 181069db28dcSHong Zhang for (i=0; i<redund->nrecvs; i++){ 181169db28dcSHong Zhang ierr = PetscFree(redund->rbuf_j[i]);CHKERRQ(ierr); 181269db28dcSHong Zhang ierr = PetscFree(redund->rbuf_a[i]);CHKERRQ(ierr); 181369db28dcSHong Zhang } 181469db28dcSHong Zhang ierr = PetscFree3(redund->sbuf_nz,redund->rbuf_j,redund->rbuf_a);CHKERRQ(ierr); 181569db28dcSHong Zhang ierr = PetscFree(redund);CHKERRQ(ierr); 181669db28dcSHong Zhang PetscFunctionReturn(0); 181769db28dcSHong Zhang } 181869db28dcSHong Zhang 181969db28dcSHong Zhang #undef __FUNCT__ 182069db28dcSHong Zhang #define __FUNCT__ "MatDestroy_MatRedundant" 182169db28dcSHong Zhang PetscErrorCode MatDestroy_MatRedundant(Mat A) 182269db28dcSHong Zhang { 182369db28dcSHong Zhang PetscErrorCode ierr; 182469db28dcSHong Zhang PetscContainer container; 182569db28dcSHong Zhang Mat_Redundant *redund=PETSC_NULL; 182669db28dcSHong Zhang 182769db28dcSHong Zhang PetscFunctionBegin; 182869db28dcSHong Zhang ierr = PetscObjectQuery((PetscObject)A,"Mat_Redundant",(PetscObject *)&container);CHKERRQ(ierr); 182969db28dcSHong Zhang if (container) { 183069db28dcSHong Zhang ierr = PetscContainerGetPointer(container,(void **)&redund);CHKERRQ(ierr); 183169db28dcSHong Zhang } else { 183269db28dcSHong Zhang SETERRQ(PETSC_ERR_PLIB,"Container does not exit"); 183369db28dcSHong Zhang } 183469db28dcSHong Zhang A->ops->destroy = redund->MatDestroy; 183569db28dcSHong Zhang ierr = PetscObjectCompose((PetscObject)A,"Mat_Redundant",0);CHKERRQ(ierr); 183669db28dcSHong Zhang ierr = (*A->ops->destroy)(A);CHKERRQ(ierr); 183769db28dcSHong Zhang ierr = PetscContainerDestroy(container);CHKERRQ(ierr); 183869db28dcSHong Zhang PetscFunctionReturn(0); 183969db28dcSHong Zhang } 184069db28dcSHong Zhang 184169db28dcSHong Zhang #undef __FUNCT__ 184269db28dcSHong Zhang #define __FUNCT__ "MatGetRedundantMatrix_MPIAIJ" 184369db28dcSHong Zhang PetscErrorCode MatGetRedundantMatrix_MPIAIJ(Mat mat,PetscInt nsubcomm,MPI_Comm subcomm,PetscInt mlocal_sub,MatReuse reuse,Mat *matredundant) 184469db28dcSHong Zhang { 184569db28dcSHong Zhang PetscMPIInt rank,size; 18467adad957SLisandro Dalcin MPI_Comm comm=((PetscObject)mat)->comm; 184769db28dcSHong Zhang PetscErrorCode ierr; 184869db28dcSHong Zhang PetscInt nsends=0,nrecvs=0,i,rownz_max=0; 184969db28dcSHong Zhang PetscMPIInt *send_rank=PETSC_NULL,*recv_rank=PETSC_NULL; 185069db28dcSHong Zhang PetscInt *rowrange=mat->rmap.range; 185169db28dcSHong Zhang Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 185269db28dcSHong Zhang Mat A=aij->A,B=aij->B,C=*matredundant; 185369db28dcSHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)A->data,*b=(Mat_SeqAIJ*)B->data; 185469db28dcSHong Zhang PetscScalar *sbuf_a; 185569db28dcSHong Zhang PetscInt nzlocal=a->nz+b->nz; 185669db28dcSHong Zhang PetscInt j,cstart=mat->cmap.rstart,cend=mat->cmap.rend,row,nzA,nzB,ncols,*cworkA,*cworkB; 185769db28dcSHong Zhang PetscInt rstart=mat->rmap.rstart,rend=mat->rmap.rend,*bmap=aij->garray,M,N; 185869db28dcSHong Zhang PetscInt *cols,ctmp,lwrite,*rptr,l,*sbuf_j; 185969db28dcSHong Zhang PetscScalar *vals,*aworkA,*aworkB; 186069db28dcSHong Zhang PetscMPIInt tag1,tag2,tag3,imdex; 186169db28dcSHong Zhang MPI_Request *s_waits1=PETSC_NULL,*s_waits2=PETSC_NULL,*s_waits3=PETSC_NULL, 186269db28dcSHong Zhang *r_waits1=PETSC_NULL,*r_waits2=PETSC_NULL,*r_waits3=PETSC_NULL; 186369db28dcSHong Zhang MPI_Status recv_status,*send_status; 186469db28dcSHong Zhang PetscInt *sbuf_nz=PETSC_NULL,*rbuf_nz=PETSC_NULL,count; 186569db28dcSHong Zhang PetscInt **rbuf_j=PETSC_NULL; 186669db28dcSHong Zhang PetscScalar **rbuf_a=PETSC_NULL; 186769db28dcSHong Zhang Mat_Redundant *redund=PETSC_NULL; 186869db28dcSHong Zhang PetscContainer container; 186969db28dcSHong Zhang 187069db28dcSHong Zhang PetscFunctionBegin; 187169db28dcSHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 187269db28dcSHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 187369db28dcSHong Zhang 187469db28dcSHong Zhang if (reuse == MAT_REUSE_MATRIX) { 187569db28dcSHong Zhang ierr = MatGetSize(C,&M,&N);CHKERRQ(ierr); 187669db28dcSHong Zhang if (M != N || M != mat->rmap.N) SETERRQ(PETSC_ERR_ARG_SIZ,"Cannot reuse matrix. Wrong global size"); 187769db28dcSHong Zhang ierr = MatGetLocalSize(C,&M,&N);CHKERRQ(ierr); 187869db28dcSHong Zhang if (M != N || M != mlocal_sub) SETERRQ(PETSC_ERR_ARG_SIZ,"Cannot reuse matrix. Wrong local size"); 187969db28dcSHong Zhang ierr = PetscObjectQuery((PetscObject)C,"Mat_Redundant",(PetscObject *)&container);CHKERRQ(ierr); 188069db28dcSHong Zhang if (container) { 188169db28dcSHong Zhang ierr = PetscContainerGetPointer(container,(void **)&redund);CHKERRQ(ierr); 188269db28dcSHong Zhang } else { 188369db28dcSHong Zhang SETERRQ(PETSC_ERR_PLIB,"Container does not exit"); 188469db28dcSHong Zhang } 188569db28dcSHong Zhang if (nzlocal != redund->nzlocal) SETERRQ(PETSC_ERR_ARG_SIZ,"Cannot reuse matrix. Wrong nzlocal"); 188669db28dcSHong Zhang 188769db28dcSHong Zhang nsends = redund->nsends; 188869db28dcSHong Zhang nrecvs = redund->nrecvs; 188969db28dcSHong Zhang send_rank = redund->send_rank; recv_rank = send_rank + size; 189069db28dcSHong Zhang sbuf_nz = redund->sbuf_nz; rbuf_nz = sbuf_nz + nsends; 189169db28dcSHong Zhang sbuf_j = redund->sbuf_j; 189269db28dcSHong Zhang sbuf_a = redund->sbuf_a; 189369db28dcSHong Zhang rbuf_j = redund->rbuf_j; 189469db28dcSHong Zhang rbuf_a = redund->rbuf_a; 189569db28dcSHong Zhang } 189669db28dcSHong Zhang 189769db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 189869db28dcSHong Zhang PetscMPIInt subrank,subsize; 189969db28dcSHong Zhang PetscInt nleftover,np_subcomm; 190069db28dcSHong Zhang /* get the destination processors' id send_rank, nsends and nrecvs */ 190169db28dcSHong Zhang ierr = MPI_Comm_rank(subcomm,&subrank);CHKERRQ(ierr); 190269db28dcSHong Zhang ierr = MPI_Comm_size(subcomm,&subsize);CHKERRQ(ierr); 190369db28dcSHong Zhang ierr = PetscMalloc((2*size+1)*sizeof(PetscMPIInt),&send_rank); 190469db28dcSHong Zhang recv_rank = send_rank + size; 190569db28dcSHong Zhang np_subcomm = size/nsubcomm; 190669db28dcSHong Zhang nleftover = size - nsubcomm*np_subcomm; 190769db28dcSHong Zhang nsends = 0; nrecvs = 0; 190869db28dcSHong Zhang for (i=0; i<size; i++){ /* i=rank*/ 190969db28dcSHong Zhang if (subrank == i/nsubcomm && rank != i){ /* my_subrank == other's subrank */ 191069db28dcSHong Zhang send_rank[nsends] = i; nsends++; 191169db28dcSHong Zhang recv_rank[nrecvs++] = i; 191269db28dcSHong Zhang } 191369db28dcSHong Zhang } 191469db28dcSHong Zhang if (rank >= size - nleftover){/* this proc is a leftover processor */ 191569db28dcSHong Zhang i = size-nleftover-1; 191669db28dcSHong Zhang j = 0; 191769db28dcSHong Zhang while (j < nsubcomm - nleftover){ 191869db28dcSHong Zhang send_rank[nsends++] = i; 191969db28dcSHong Zhang i--; j++; 192069db28dcSHong Zhang } 192169db28dcSHong Zhang } 192269db28dcSHong Zhang 192369db28dcSHong Zhang if (nleftover && subsize == size/nsubcomm && subrank==subsize-1){ /* this proc recvs from leftover processors */ 192469db28dcSHong Zhang for (i=0; i<nleftover; i++){ 192569db28dcSHong Zhang recv_rank[nrecvs++] = size-nleftover+i; 192669db28dcSHong Zhang } 192769db28dcSHong Zhang } 192869db28dcSHong Zhang 192969db28dcSHong Zhang /* allocate sbuf_j, sbuf_a */ 193069db28dcSHong Zhang i = nzlocal + rowrange[rank+1] - rowrange[rank] + 2; 193169db28dcSHong Zhang ierr = PetscMalloc(i*sizeof(PetscInt),&sbuf_j);CHKERRQ(ierr); 193269db28dcSHong Zhang ierr = PetscMalloc((nzlocal+1)*sizeof(PetscScalar),&sbuf_a);CHKERRQ(ierr); 193369db28dcSHong Zhang } /* endof if (reuse == MAT_INITIAL_MATRIX) */ 193469db28dcSHong Zhang 193569db28dcSHong Zhang /* copy mat's local entries into the buffers */ 193669db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 193769db28dcSHong Zhang rownz_max = 0; 193869db28dcSHong Zhang rptr = sbuf_j; 193969db28dcSHong Zhang cols = sbuf_j + rend-rstart + 1; 194069db28dcSHong Zhang vals = sbuf_a; 194169db28dcSHong Zhang rptr[0] = 0; 194269db28dcSHong Zhang for (i=0; i<rend-rstart; i++){ 194369db28dcSHong Zhang row = i + rstart; 194469db28dcSHong Zhang nzA = a->i[i+1] - a->i[i]; nzB = b->i[i+1] - b->i[i]; 194569db28dcSHong Zhang ncols = nzA + nzB; 194669db28dcSHong Zhang cworkA = a->j + a->i[i]; cworkB = b->j + b->i[i]; 194769db28dcSHong Zhang aworkA = a->a + a->i[i]; aworkB = b->a + b->i[i]; 194869db28dcSHong Zhang /* load the column indices for this row into cols */ 194969db28dcSHong Zhang lwrite = 0; 195069db28dcSHong Zhang for (l=0; l<nzB; l++) { 195169db28dcSHong Zhang if ((ctmp = bmap[cworkB[l]]) < cstart){ 195269db28dcSHong Zhang vals[lwrite] = aworkB[l]; 195369db28dcSHong Zhang cols[lwrite++] = ctmp; 195469db28dcSHong Zhang } 195569db28dcSHong Zhang } 195669db28dcSHong Zhang for (l=0; l<nzA; l++){ 195769db28dcSHong Zhang vals[lwrite] = aworkA[l]; 195869db28dcSHong Zhang cols[lwrite++] = cstart + cworkA[l]; 195969db28dcSHong Zhang } 196069db28dcSHong Zhang for (l=0; l<nzB; l++) { 196169db28dcSHong Zhang if ((ctmp = bmap[cworkB[l]]) >= cend){ 196269db28dcSHong Zhang vals[lwrite] = aworkB[l]; 196369db28dcSHong Zhang cols[lwrite++] = ctmp; 196469db28dcSHong Zhang } 196569db28dcSHong Zhang } 196669db28dcSHong Zhang vals += ncols; 196769db28dcSHong Zhang cols += ncols; 196869db28dcSHong Zhang rptr[i+1] = rptr[i] + ncols; 196969db28dcSHong Zhang if (rownz_max < ncols) rownz_max = ncols; 197069db28dcSHong Zhang } 197169db28dcSHong Zhang if (rptr[rend-rstart] != a->nz + b->nz) SETERRQ4(1, "rptr[%d] %d != %d + %d",rend-rstart,rptr[rend-rstart+1],a->nz,b->nz); 197269db28dcSHong Zhang } else { /* only copy matrix values into sbuf_a */ 197369db28dcSHong Zhang rptr = sbuf_j; 197469db28dcSHong Zhang vals = sbuf_a; 197569db28dcSHong Zhang rptr[0] = 0; 197669db28dcSHong Zhang for (i=0; i<rend-rstart; i++){ 197769db28dcSHong Zhang row = i + rstart; 197869db28dcSHong Zhang nzA = a->i[i+1] - a->i[i]; nzB = b->i[i+1] - b->i[i]; 197969db28dcSHong Zhang ncols = nzA + nzB; 198069db28dcSHong Zhang cworkA = a->j + a->i[i]; cworkB = b->j + b->i[i]; 198169db28dcSHong Zhang aworkA = a->a + a->i[i]; aworkB = b->a + b->i[i]; 198269db28dcSHong Zhang lwrite = 0; 198369db28dcSHong Zhang for (l=0; l<nzB; l++) { 198469db28dcSHong Zhang if ((ctmp = bmap[cworkB[l]]) < cstart) vals[lwrite++] = aworkB[l]; 198569db28dcSHong Zhang } 198669db28dcSHong Zhang for (l=0; l<nzA; l++) vals[lwrite++] = aworkA[l]; 198769db28dcSHong Zhang for (l=0; l<nzB; l++) { 198869db28dcSHong Zhang if ((ctmp = bmap[cworkB[l]]) >= cend) vals[lwrite++] = aworkB[l]; 198969db28dcSHong Zhang } 199069db28dcSHong Zhang vals += ncols; 199169db28dcSHong Zhang rptr[i+1] = rptr[i] + ncols; 199269db28dcSHong Zhang } 199369db28dcSHong Zhang } /* endof if (reuse == MAT_INITIAL_MATRIX) */ 199469db28dcSHong Zhang 199569db28dcSHong Zhang /* send nzlocal to others, and recv other's nzlocal */ 199669db28dcSHong Zhang /*--------------------------------------------------*/ 199769db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 199869db28dcSHong Zhang ierr = PetscMalloc2(3*(nsends + nrecvs)+1,MPI_Request,&s_waits3,nsends+1,MPI_Status,&send_status);CHKERRQ(ierr); 199969db28dcSHong Zhang s_waits2 = s_waits3 + nsends; 200069db28dcSHong Zhang s_waits1 = s_waits2 + nsends; 200169db28dcSHong Zhang r_waits1 = s_waits1 + nsends; 200269db28dcSHong Zhang r_waits2 = r_waits1 + nrecvs; 200369db28dcSHong Zhang r_waits3 = r_waits2 + nrecvs; 200469db28dcSHong Zhang } else { 200569db28dcSHong Zhang ierr = PetscMalloc2(nsends + nrecvs +1,MPI_Request,&s_waits3,nsends+1,MPI_Status,&send_status);CHKERRQ(ierr); 200669db28dcSHong Zhang r_waits3 = s_waits3 + nsends; 200769db28dcSHong Zhang } 200869db28dcSHong Zhang 200969db28dcSHong Zhang ierr = PetscObjectGetNewTag((PetscObject)mat,&tag3);CHKERRQ(ierr); 201069db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 201169db28dcSHong Zhang /* get new tags to keep the communication clean */ 201269db28dcSHong Zhang ierr = PetscObjectGetNewTag((PetscObject)mat,&tag1);CHKERRQ(ierr); 201369db28dcSHong Zhang ierr = PetscObjectGetNewTag((PetscObject)mat,&tag2);CHKERRQ(ierr); 201469db28dcSHong Zhang ierr = PetscMalloc3(nsends+nrecvs+1,PetscInt,&sbuf_nz,nrecvs,PetscInt*,&rbuf_j,nrecvs,PetscScalar*,&rbuf_a);CHKERRQ(ierr); 201569db28dcSHong Zhang rbuf_nz = sbuf_nz + nsends; 201669db28dcSHong Zhang 201769db28dcSHong Zhang /* post receives of other's nzlocal */ 201869db28dcSHong Zhang for (i=0; i<nrecvs; i++){ 201969db28dcSHong Zhang ierr = MPI_Irecv(rbuf_nz+i,1,MPIU_INT,MPI_ANY_SOURCE,tag1,comm,r_waits1+i);CHKERRQ(ierr); 202069db28dcSHong Zhang } 202169db28dcSHong Zhang /* send nzlocal to others */ 202269db28dcSHong Zhang for (i=0; i<nsends; i++){ 202369db28dcSHong Zhang sbuf_nz[i] = nzlocal; 202469db28dcSHong Zhang ierr = MPI_Isend(sbuf_nz+i,1,MPIU_INT,send_rank[i],tag1,comm,s_waits1+i);CHKERRQ(ierr); 202569db28dcSHong Zhang } 202669db28dcSHong Zhang /* wait on receives of nzlocal; allocate space for rbuf_j, rbuf_a */ 202769db28dcSHong Zhang count = nrecvs; 202869db28dcSHong Zhang while (count) { 202969db28dcSHong Zhang ierr = MPI_Waitany(nrecvs,r_waits1,&imdex,&recv_status);CHKERRQ(ierr); 203069db28dcSHong Zhang recv_rank[imdex] = recv_status.MPI_SOURCE; 203169db28dcSHong Zhang /* allocate rbuf_a and rbuf_j; then post receives of rbuf_j */ 203269db28dcSHong Zhang ierr = PetscMalloc((rbuf_nz[imdex]+1)*sizeof(PetscScalar),&rbuf_a[imdex]);CHKERRQ(ierr); 203369db28dcSHong Zhang 203469db28dcSHong Zhang i = rowrange[recv_status.MPI_SOURCE+1] - rowrange[recv_status.MPI_SOURCE]; /* number of expected mat->i */ 203569db28dcSHong Zhang rbuf_nz[imdex] += i + 2; 203669db28dcSHong Zhang ierr = PetscMalloc(rbuf_nz[imdex]*sizeof(PetscInt),&rbuf_j[imdex]);CHKERRQ(ierr); 203769db28dcSHong Zhang ierr = MPI_Irecv(rbuf_j[imdex],rbuf_nz[imdex],MPIU_INT,recv_status.MPI_SOURCE,tag2,comm,r_waits2+imdex);CHKERRQ(ierr); 203869db28dcSHong Zhang count--; 203969db28dcSHong Zhang } 204069db28dcSHong Zhang /* wait on sends of nzlocal */ 204169db28dcSHong Zhang if (nsends) {ierr = MPI_Waitall(nsends,s_waits1,send_status);CHKERRQ(ierr);} 204269db28dcSHong Zhang /* send mat->i,j to others, and recv from other's */ 204369db28dcSHong Zhang /*------------------------------------------------*/ 204469db28dcSHong Zhang for (i=0; i<nsends; i++){ 204569db28dcSHong Zhang j = nzlocal + rowrange[rank+1] - rowrange[rank] + 1; 204669db28dcSHong Zhang ierr = MPI_Isend(sbuf_j,j,MPIU_INT,send_rank[i],tag2,comm,s_waits2+i);CHKERRQ(ierr); 204769db28dcSHong Zhang } 204869db28dcSHong Zhang /* wait on receives of mat->i,j */ 204969db28dcSHong Zhang /*------------------------------*/ 205069db28dcSHong Zhang count = nrecvs; 205169db28dcSHong Zhang while (count) { 205269db28dcSHong Zhang ierr = MPI_Waitany(nrecvs,r_waits2,&imdex,&recv_status);CHKERRQ(ierr); 205369db28dcSHong Zhang if (recv_rank[imdex] != recv_status.MPI_SOURCE) SETERRQ2(1, "recv_rank %d != MPI_SOURCE %d",recv_rank[imdex],recv_status.MPI_SOURCE); 205469db28dcSHong Zhang count--; 205569db28dcSHong Zhang } 205669db28dcSHong Zhang /* wait on sends of mat->i,j */ 205769db28dcSHong Zhang /*---------------------------*/ 205869db28dcSHong Zhang if (nsends) { 205969db28dcSHong Zhang ierr = MPI_Waitall(nsends,s_waits2,send_status);CHKERRQ(ierr); 206069db28dcSHong Zhang } 206169db28dcSHong Zhang } /* endof if (reuse == MAT_INITIAL_MATRIX) */ 206269db28dcSHong Zhang 206369db28dcSHong Zhang /* post receives, send and receive mat->a */ 206469db28dcSHong Zhang /*----------------------------------------*/ 206569db28dcSHong Zhang for (imdex=0; imdex<nrecvs; imdex++) { 206669db28dcSHong Zhang ierr = MPI_Irecv(rbuf_a[imdex],rbuf_nz[imdex],MPIU_SCALAR,recv_rank[imdex],tag3,comm,r_waits3+imdex);CHKERRQ(ierr); 206769db28dcSHong Zhang } 206869db28dcSHong Zhang for (i=0; i<nsends; i++){ 206969db28dcSHong Zhang ierr = MPI_Isend(sbuf_a,nzlocal,MPIU_SCALAR,send_rank[i],tag3,comm,s_waits3+i);CHKERRQ(ierr); 207069db28dcSHong Zhang } 207169db28dcSHong Zhang count = nrecvs; 207269db28dcSHong Zhang while (count) { 207369db28dcSHong Zhang ierr = MPI_Waitany(nrecvs,r_waits3,&imdex,&recv_status);CHKERRQ(ierr); 207469db28dcSHong Zhang if (recv_rank[imdex] != recv_status.MPI_SOURCE) SETERRQ2(1, "recv_rank %d != MPI_SOURCE %d",recv_rank[imdex],recv_status.MPI_SOURCE); 207569db28dcSHong Zhang count--; 207669db28dcSHong Zhang } 207769db28dcSHong Zhang if (nsends) { 207869db28dcSHong Zhang ierr = MPI_Waitall(nsends,s_waits3,send_status);CHKERRQ(ierr); 207969db28dcSHong Zhang } 208069db28dcSHong Zhang 208169db28dcSHong Zhang ierr = PetscFree2(s_waits3,send_status);CHKERRQ(ierr); 208269db28dcSHong Zhang 208369db28dcSHong Zhang /* create redundant matrix */ 208469db28dcSHong Zhang /*-------------------------*/ 208569db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 208669db28dcSHong Zhang /* compute rownz_max for preallocation */ 208769db28dcSHong Zhang for (imdex=0; imdex<nrecvs; imdex++){ 208869db28dcSHong Zhang j = rowrange[recv_rank[imdex]+1] - rowrange[recv_rank[imdex]]; 208969db28dcSHong Zhang rptr = rbuf_j[imdex]; 209069db28dcSHong Zhang for (i=0; i<j; i++){ 209169db28dcSHong Zhang ncols = rptr[i+1] - rptr[i]; 209269db28dcSHong Zhang if (rownz_max < ncols) rownz_max = ncols; 209369db28dcSHong Zhang } 209469db28dcSHong Zhang } 209569db28dcSHong Zhang 209669db28dcSHong Zhang ierr = MatCreate(subcomm,&C);CHKERRQ(ierr); 209769db28dcSHong Zhang ierr = MatSetSizes(C,mlocal_sub,mlocal_sub,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); 209869db28dcSHong Zhang ierr = MatSetFromOptions(C);CHKERRQ(ierr); 209969db28dcSHong Zhang ierr = MatSeqAIJSetPreallocation(C,rownz_max,PETSC_NULL);CHKERRQ(ierr); 210069db28dcSHong Zhang ierr = MatMPIAIJSetPreallocation(C,rownz_max,PETSC_NULL,rownz_max,PETSC_NULL);CHKERRQ(ierr); 210169db28dcSHong Zhang } else { 210269db28dcSHong Zhang C = *matredundant; 210369db28dcSHong Zhang } 210469db28dcSHong Zhang 210569db28dcSHong Zhang /* insert local matrix entries */ 210669db28dcSHong Zhang rptr = sbuf_j; 210769db28dcSHong Zhang cols = sbuf_j + rend-rstart + 1; 210869db28dcSHong Zhang vals = sbuf_a; 210969db28dcSHong Zhang for (i=0; i<rend-rstart; i++){ 211069db28dcSHong Zhang row = i + rstart; 211169db28dcSHong Zhang ncols = rptr[i+1] - rptr[i]; 211269db28dcSHong Zhang ierr = MatSetValues(C,1,&row,ncols,cols,vals,INSERT_VALUES);CHKERRQ(ierr); 211369db28dcSHong Zhang vals += ncols; 211469db28dcSHong Zhang cols += ncols; 211569db28dcSHong Zhang } 211669db28dcSHong Zhang /* insert received matrix entries */ 211769db28dcSHong Zhang for (imdex=0; imdex<nrecvs; imdex++){ 211869db28dcSHong Zhang rstart = rowrange[recv_rank[imdex]]; 211969db28dcSHong Zhang rend = rowrange[recv_rank[imdex]+1]; 212069db28dcSHong Zhang rptr = rbuf_j[imdex]; 212169db28dcSHong Zhang cols = rbuf_j[imdex] + rend-rstart + 1; 212269db28dcSHong Zhang vals = rbuf_a[imdex]; 212369db28dcSHong Zhang for (i=0; i<rend-rstart; i++){ 212469db28dcSHong Zhang row = i + rstart; 212569db28dcSHong Zhang ncols = rptr[i+1] - rptr[i]; 212669db28dcSHong Zhang ierr = MatSetValues(C,1,&row,ncols,cols,vals,INSERT_VALUES);CHKERRQ(ierr); 212769db28dcSHong Zhang vals += ncols; 212869db28dcSHong Zhang cols += ncols; 212969db28dcSHong Zhang } 213069db28dcSHong Zhang } 213169db28dcSHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 213269db28dcSHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 213369db28dcSHong Zhang ierr = MatGetSize(C,&M,&N);CHKERRQ(ierr); 213469db28dcSHong Zhang if (M != mat->rmap.N || N != mat->cmap.N) SETERRQ2(PETSC_ERR_ARG_INCOMP,"redundant mat size %d != input mat size %d",M,mat->rmap.N); 213569db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 213669db28dcSHong Zhang PetscContainer container; 213769db28dcSHong Zhang *matredundant = C; 213869db28dcSHong Zhang /* create a supporting struct and attach it to C for reuse */ 213938f2d2fdSLisandro Dalcin ierr = PetscNewLog(C,Mat_Redundant,&redund);CHKERRQ(ierr); 214069db28dcSHong Zhang ierr = PetscContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr); 214169db28dcSHong Zhang ierr = PetscContainerSetPointer(container,redund);CHKERRQ(ierr); 214269db28dcSHong Zhang ierr = PetscObjectCompose((PetscObject)C,"Mat_Redundant",(PetscObject)container);CHKERRQ(ierr); 214369db28dcSHong Zhang ierr = PetscContainerSetUserDestroy(container,PetscContainerDestroy_MatRedundant);CHKERRQ(ierr); 214469db28dcSHong Zhang 214569db28dcSHong Zhang redund->nzlocal = nzlocal; 214669db28dcSHong Zhang redund->nsends = nsends; 214769db28dcSHong Zhang redund->nrecvs = nrecvs; 214869db28dcSHong Zhang redund->send_rank = send_rank; 214969db28dcSHong Zhang redund->sbuf_nz = sbuf_nz; 215069db28dcSHong Zhang redund->sbuf_j = sbuf_j; 215169db28dcSHong Zhang redund->sbuf_a = sbuf_a; 215269db28dcSHong Zhang redund->rbuf_j = rbuf_j; 215369db28dcSHong Zhang redund->rbuf_a = rbuf_a; 215469db28dcSHong Zhang 215569db28dcSHong Zhang redund->MatDestroy = C->ops->destroy; 215669db28dcSHong Zhang C->ops->destroy = MatDestroy_MatRedundant; 215769db28dcSHong Zhang } 215869db28dcSHong Zhang PetscFunctionReturn(0); 215969db28dcSHong Zhang } 216069db28dcSHong Zhang 216103bc72f1SMatthew Knepley #undef __FUNCT__ 216203bc72f1SMatthew Knepley #define __FUNCT__ "MatGetRowMin_MPIAIJ" 216303bc72f1SMatthew Knepley PetscErrorCode MatGetRowMin_MPIAIJ(Mat A, Vec v, PetscInt idx[]) 216403bc72f1SMatthew Knepley { 216503bc72f1SMatthew Knepley Mat_MPIAIJ *mat = (Mat_MPIAIJ *) A->data; 216603bc72f1SMatthew Knepley PetscInt n = A->rmap.n; 216703bc72f1SMatthew Knepley PetscInt cstart = A->cmap.rstart; 216803bc72f1SMatthew Knepley PetscInt *cmap = mat->garray; 216903bc72f1SMatthew Knepley PetscInt *diagIdx, *offdiagIdx; 217003bc72f1SMatthew Knepley Vec diagV, offdiagV; 217103bc72f1SMatthew Knepley PetscScalar *a, *diagA, *offdiagA; 217203bc72f1SMatthew Knepley PetscInt r; 217303bc72f1SMatthew Knepley PetscErrorCode ierr; 217403bc72f1SMatthew Knepley 217503bc72f1SMatthew Knepley PetscFunctionBegin; 217603bc72f1SMatthew Knepley ierr = PetscMalloc2(n,PetscInt,&diagIdx,n,PetscInt,&offdiagIdx);CHKERRQ(ierr); 2177e64afeacSLisandro Dalcin ierr = VecCreateSeq(((PetscObject)A)->comm, n, &diagV);CHKERRQ(ierr); 2178e64afeacSLisandro Dalcin ierr = VecCreateSeq(((PetscObject)A)->comm, n, &offdiagV);CHKERRQ(ierr); 217903bc72f1SMatthew Knepley ierr = MatGetRowMin(mat->A, diagV, diagIdx);CHKERRQ(ierr); 218003bc72f1SMatthew Knepley ierr = MatGetRowMin(mat->B, offdiagV, offdiagIdx);CHKERRQ(ierr); 218103bc72f1SMatthew Knepley ierr = VecGetArray(v, &a);CHKERRQ(ierr); 218203bc72f1SMatthew Knepley ierr = VecGetArray(diagV, &diagA);CHKERRQ(ierr); 218303bc72f1SMatthew Knepley ierr = VecGetArray(offdiagV, &offdiagA);CHKERRQ(ierr); 218403bc72f1SMatthew Knepley for(r = 0; r < n; ++r) { 2185028cd4eaSSatish Balay if (PetscAbsScalar(diagA[r]) <= PetscAbsScalar(offdiagA[r])) { 218603bc72f1SMatthew Knepley a[r] = diagA[r]; 218703bc72f1SMatthew Knepley idx[r] = cstart + diagIdx[r]; 218803bc72f1SMatthew Knepley } else { 218903bc72f1SMatthew Knepley a[r] = offdiagA[r]; 219003bc72f1SMatthew Knepley idx[r] = cmap[offdiagIdx[r]]; 219103bc72f1SMatthew Knepley } 219203bc72f1SMatthew Knepley } 219303bc72f1SMatthew Knepley ierr = VecRestoreArray(v, &a);CHKERRQ(ierr); 219403bc72f1SMatthew Knepley ierr = VecRestoreArray(diagV, &diagA);CHKERRQ(ierr); 219503bc72f1SMatthew Knepley ierr = VecRestoreArray(offdiagV, &offdiagA);CHKERRQ(ierr); 219603bc72f1SMatthew Knepley ierr = VecDestroy(diagV);CHKERRQ(ierr); 219703bc72f1SMatthew Knepley ierr = VecDestroy(offdiagV);CHKERRQ(ierr); 219803bc72f1SMatthew Knepley ierr = PetscFree2(diagIdx, offdiagIdx);CHKERRQ(ierr); 219903bc72f1SMatthew Knepley PetscFunctionReturn(0); 220003bc72f1SMatthew Knepley } 220103bc72f1SMatthew Knepley 22025494a064SHong Zhang #undef __FUNCT__ 2203829201f2SHong Zhang #define __FUNCT__ "MatGetSeqNonzerostructure_MPIAIJ" 2204829201f2SHong Zhang PetscErrorCode MatGetSeqNonzerostructure_MPIAIJ(Mat mat,Mat *newmat[]) 22055494a064SHong Zhang { 22065494a064SHong Zhang PetscErrorCode ierr; 22075494a064SHong Zhang 22085494a064SHong Zhang PetscFunctionBegin; 22095494a064SHong Zhang ierr = MatGetSubMatrix_MPIAIJ_All(mat,MAT_DO_NOT_GET_VALUES,MAT_INITIAL_MATRIX,newmat);CHKERRQ(ierr); 22105494a064SHong Zhang PetscFunctionReturn(0); 22115494a064SHong Zhang } 22125494a064SHong Zhang 22138a729477SBarry Smith /* -------------------------------------------------------------------*/ 2214cda55fadSBarry Smith static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ, 2215cda55fadSBarry Smith MatGetRow_MPIAIJ, 2216cda55fadSBarry Smith MatRestoreRow_MPIAIJ, 2217cda55fadSBarry Smith MatMult_MPIAIJ, 221897304618SKris Buschelman /* 4*/ MatMultAdd_MPIAIJ, 22197c922b88SBarry Smith MatMultTranspose_MPIAIJ, 22207c922b88SBarry Smith MatMultTransposeAdd_MPIAIJ, 2221103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 2222103bf8bdSMatthew Knepley MatSolve_MPIAIJ, 2223103bf8bdSMatthew Knepley #else 2224cda55fadSBarry Smith 0, 2225103bf8bdSMatthew Knepley #endif 2226cda55fadSBarry Smith 0, 2227cda55fadSBarry Smith 0, 222897304618SKris Buschelman /*10*/ 0, 2229cda55fadSBarry Smith 0, 2230cda55fadSBarry Smith 0, 223144a69424SLois Curfman McInnes MatRelax_MPIAIJ, 2232b7c46309SBarry Smith MatTranspose_MPIAIJ, 223397304618SKris Buschelman /*15*/ MatGetInfo_MPIAIJ, 2234cda55fadSBarry Smith MatEqual_MPIAIJ, 2235cda55fadSBarry Smith MatGetDiagonal_MPIAIJ, 2236cda55fadSBarry Smith MatDiagonalScale_MPIAIJ, 2237cda55fadSBarry Smith MatNorm_MPIAIJ, 223897304618SKris Buschelman /*20*/ MatAssemblyBegin_MPIAIJ, 2239cda55fadSBarry Smith MatAssemblyEnd_MPIAIJ, 22401eb62cbbSBarry Smith 0, 2241cda55fadSBarry Smith MatSetOption_MPIAIJ, 2242cda55fadSBarry Smith MatZeroEntries_MPIAIJ, 224397304618SKris Buschelman /*25*/ MatZeroRows_MPIAIJ, 2244cda55fadSBarry Smith 0, 2245103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 2246103bf8bdSMatthew Knepley MatLUFactorNumeric_MPIAIJ, 2247103bf8bdSMatthew Knepley #else 2248cda55fadSBarry Smith 0, 2249103bf8bdSMatthew Knepley #endif 2250cda55fadSBarry Smith 0, 2251cda55fadSBarry Smith 0, 225297304618SKris Buschelman /*30*/ MatSetUpPreallocation_MPIAIJ, 2253103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 2254103bf8bdSMatthew Knepley MatILUFactorSymbolic_MPIAIJ, 2255103bf8bdSMatthew Knepley #else 2256cda55fadSBarry Smith 0, 2257103bf8bdSMatthew Knepley #endif 2258cda55fadSBarry Smith 0, 2259cda55fadSBarry Smith 0, 2260cda55fadSBarry Smith 0, 226197304618SKris Buschelman /*35*/ MatDuplicate_MPIAIJ, 2262cda55fadSBarry Smith 0, 2263cda55fadSBarry Smith 0, 2264cda55fadSBarry Smith 0, 2265cda55fadSBarry Smith 0, 226697304618SKris Buschelman /*40*/ MatAXPY_MPIAIJ, 2267cda55fadSBarry Smith MatGetSubMatrices_MPIAIJ, 2268cda55fadSBarry Smith MatIncreaseOverlap_MPIAIJ, 2269cda55fadSBarry Smith MatGetValues_MPIAIJ, 2270cb5b572fSBarry Smith MatCopy_MPIAIJ, 22718c07d4e3SBarry Smith /*45*/ 0, 2272cda55fadSBarry Smith MatScale_MPIAIJ, 2273cda55fadSBarry Smith 0, 2274cda55fadSBarry Smith 0, 2275cda55fadSBarry Smith 0, 2276521d7252SBarry Smith /*50*/ MatSetBlockSize_MPIAIJ, 2277cda55fadSBarry Smith 0, 2278cda55fadSBarry Smith 0, 2279cda55fadSBarry Smith 0, 2280cda55fadSBarry Smith 0, 228197304618SKris Buschelman /*55*/ MatFDColoringCreate_MPIAIJ, 2282cda55fadSBarry Smith 0, 2283cda55fadSBarry Smith MatSetUnfactored_MPIAIJ, 228442e855d1Svictor MatPermute_MPIAIJ, 2285cda55fadSBarry Smith 0, 228697304618SKris Buschelman /*60*/ MatGetSubMatrix_MPIAIJ, 2287e03a110bSBarry Smith MatDestroy_MPIAIJ, 2288e03a110bSBarry Smith MatView_MPIAIJ, 2289357abbc8SBarry Smith 0, 2290a2243be0SBarry Smith 0, 229197304618SKris Buschelman /*65*/ 0, 2292a2243be0SBarry Smith 0, 2293a2243be0SBarry Smith 0, 2294a2243be0SBarry Smith 0, 2295a2243be0SBarry Smith 0, 229697304618SKris Buschelman /*70*/ 0, 2297a2243be0SBarry Smith 0, 2298a2243be0SBarry Smith MatSetColoring_MPIAIJ, 2299dcf5cc72SBarry Smith #if defined(PETSC_HAVE_ADIC) 2300779c1a83SBarry Smith MatSetValuesAdic_MPIAIJ, 2301dcf5cc72SBarry Smith #else 2302dcf5cc72SBarry Smith 0, 2303dcf5cc72SBarry Smith #endif 230497304618SKris Buschelman MatSetValuesAdifor_MPIAIJ, 230597304618SKris Buschelman /*75*/ 0, 230697304618SKris Buschelman 0, 230797304618SKris Buschelman 0, 230897304618SKris Buschelman 0, 230997304618SKris Buschelman 0, 231097304618SKris Buschelman /*80*/ 0, 231197304618SKris Buschelman 0, 231297304618SKris Buschelman 0, 231397304618SKris Buschelman 0, 231441acf15aSKris Buschelman /*84*/ MatLoad_MPIAIJ, 23156284ec50SHong Zhang 0, 23166284ec50SHong Zhang 0, 23176284ec50SHong Zhang 0, 23186284ec50SHong Zhang 0, 2319865e5f61SKris Buschelman 0, 2320865e5f61SKris Buschelman /*90*/ MatMatMult_MPIAIJ_MPIAIJ, 232126be0446SHong Zhang MatMatMultSymbolic_MPIAIJ_MPIAIJ, 232226be0446SHong Zhang MatMatMultNumeric_MPIAIJ_MPIAIJ, 23237a7894deSKris Buschelman MatPtAP_Basic, 23247a7894deSKris Buschelman MatPtAPSymbolic_MPIAIJ, 23257a7894deSKris Buschelman /*95*/ MatPtAPNumeric_MPIAIJ, 23267a7894deSKris Buschelman 0, 23277a7894deSKris Buschelman 0, 23287a7894deSKris Buschelman 0, 23297a7894deSKris Buschelman 0, 23307a7894deSKris Buschelman /*100*/0, 2331865e5f61SKris Buschelman MatPtAPSymbolic_MPIAIJ_MPIAIJ, 23327a7894deSKris Buschelman MatPtAPNumeric_MPIAIJ_MPIAIJ, 23332fd7e33dSBarry Smith MatConjugate_MPIAIJ, 23342fd7e33dSBarry Smith 0, 233599cafbc1SBarry Smith /*105*/MatSetValuesRow_MPIAIJ, 233699cafbc1SBarry Smith MatRealPart_MPIAIJ, 233769db28dcSHong Zhang MatImaginaryPart_MPIAIJ, 233869db28dcSHong Zhang 0, 233969db28dcSHong Zhang 0, 234069db28dcSHong Zhang /*110*/0, 234103bc72f1SMatthew Knepley MatGetRedundantMatrix_MPIAIJ, 23425494a064SHong Zhang MatGetRowMin_MPIAIJ, 23435494a064SHong Zhang 0, 23445494a064SHong Zhang 0, 2345829201f2SHong Zhang /*115*/MatGetSeqNonzerostructure_MPIAIJ}; 234636ce4990SBarry Smith 23472e8a6d31SBarry Smith /* ----------------------------------------------------------------------------------------*/ 23482e8a6d31SBarry Smith 2349fb2e594dSBarry Smith EXTERN_C_BEGIN 23504a2ae208SSatish Balay #undef __FUNCT__ 23514a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_MPIAIJ" 2352be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatStoreValues_MPIAIJ(Mat mat) 23532e8a6d31SBarry Smith { 23542e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 2355dfbe8321SBarry Smith PetscErrorCode ierr; 23562e8a6d31SBarry Smith 23572e8a6d31SBarry Smith PetscFunctionBegin; 23582e8a6d31SBarry Smith ierr = MatStoreValues(aij->A);CHKERRQ(ierr); 23592e8a6d31SBarry Smith ierr = MatStoreValues(aij->B);CHKERRQ(ierr); 23602e8a6d31SBarry Smith PetscFunctionReturn(0); 23612e8a6d31SBarry Smith } 2362fb2e594dSBarry Smith EXTERN_C_END 23632e8a6d31SBarry Smith 2364fb2e594dSBarry Smith EXTERN_C_BEGIN 23654a2ae208SSatish Balay #undef __FUNCT__ 23664a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_MPIAIJ" 2367be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatRetrieveValues_MPIAIJ(Mat mat) 23682e8a6d31SBarry Smith { 23692e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 2370dfbe8321SBarry Smith PetscErrorCode ierr; 23712e8a6d31SBarry Smith 23722e8a6d31SBarry Smith PetscFunctionBegin; 23732e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr); 23742e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr); 23752e8a6d31SBarry Smith PetscFunctionReturn(0); 23762e8a6d31SBarry Smith } 2377fb2e594dSBarry Smith EXTERN_C_END 23788a729477SBarry Smith 2379e090d566SSatish Balay #include "petscpc.h" 238027508adbSBarry Smith EXTERN_C_BEGIN 23814a2ae208SSatish Balay #undef __FUNCT__ 2382a23d5eceSKris Buschelman #define __FUNCT__ "MatMPIAIJSetPreallocation_MPIAIJ" 2383be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocation_MPIAIJ(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 2384a23d5eceSKris Buschelman { 2385a23d5eceSKris Buschelman Mat_MPIAIJ *b; 2386dfbe8321SBarry Smith PetscErrorCode ierr; 2387b1d57f15SBarry Smith PetscInt i; 2388a23d5eceSKris Buschelman 2389a23d5eceSKris Buschelman PetscFunctionBegin; 2390a23d5eceSKris Buschelman B->preallocated = PETSC_TRUE; 2391a23d5eceSKris Buschelman if (d_nz == PETSC_DEFAULT || d_nz == PETSC_DECIDE) d_nz = 5; 2392a23d5eceSKris Buschelman if (o_nz == PETSC_DEFAULT || o_nz == PETSC_DECIDE) o_nz = 2; 239377431f27SBarry Smith if (d_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"d_nz cannot be less than 0: value %D",d_nz); 239477431f27SBarry Smith if (o_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"o_nz cannot be less than 0: value %D",o_nz); 2395899cda47SBarry Smith 2396899cda47SBarry Smith B->rmap.bs = B->cmap.bs = 1; 23976148ca0dSBarry Smith ierr = PetscMapSetUp(&B->rmap);CHKERRQ(ierr); 23986148ca0dSBarry Smith ierr = PetscMapSetUp(&B->cmap);CHKERRQ(ierr); 2399a23d5eceSKris Buschelman if (d_nnz) { 2400899cda47SBarry Smith for (i=0; i<B->rmap.n; i++) { 240177431f27SBarry 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]); 2402a23d5eceSKris Buschelman } 2403a23d5eceSKris Buschelman } 2404a23d5eceSKris Buschelman if (o_nnz) { 2405899cda47SBarry Smith for (i=0; i<B->rmap.n; i++) { 240677431f27SBarry 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]); 2407a23d5eceSKris Buschelman } 2408a23d5eceSKris Buschelman } 2409a23d5eceSKris Buschelman b = (Mat_MPIAIJ*)B->data; 2410899cda47SBarry Smith 2411899cda47SBarry Smith /* Explicitly create 2 MATSEQAIJ matrices. */ 2412899cda47SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,&b->A);CHKERRQ(ierr); 2413899cda47SBarry Smith ierr = MatSetSizes(b->A,B->rmap.n,B->cmap.n,B->rmap.n,B->cmap.n);CHKERRQ(ierr); 2414899cda47SBarry Smith ierr = MatSetType(b->A,MATSEQAIJ);CHKERRQ(ierr); 2415899cda47SBarry Smith ierr = PetscLogObjectParent(B,b->A);CHKERRQ(ierr); 2416899cda47SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,&b->B);CHKERRQ(ierr); 2417899cda47SBarry Smith ierr = MatSetSizes(b->B,B->rmap.n,B->cmap.N,B->rmap.n,B->cmap.N);CHKERRQ(ierr); 2418899cda47SBarry Smith ierr = MatSetType(b->B,MATSEQAIJ);CHKERRQ(ierr); 2419899cda47SBarry Smith ierr = PetscLogObjectParent(B,b->B);CHKERRQ(ierr); 2420899cda47SBarry Smith 2421c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->A,d_nz,d_nnz);CHKERRQ(ierr); 2422c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->B,o_nz,o_nnz);CHKERRQ(ierr); 2423a23d5eceSKris Buschelman 2424a23d5eceSKris Buschelman PetscFunctionReturn(0); 2425a23d5eceSKris Buschelman } 2426a23d5eceSKris Buschelman EXTERN_C_END 2427a23d5eceSKris Buschelman 24284a2ae208SSatish Balay #undef __FUNCT__ 24294a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_MPIAIJ" 2430dfbe8321SBarry Smith PetscErrorCode MatDuplicate_MPIAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat) 2431d6dfbf8fSBarry Smith { 2432d6dfbf8fSBarry Smith Mat mat; 2433416022c9SBarry Smith Mat_MPIAIJ *a,*oldmat = (Mat_MPIAIJ*)matin->data; 2434dfbe8321SBarry Smith PetscErrorCode ierr; 2435d6dfbf8fSBarry Smith 24363a40ed3dSBarry Smith PetscFunctionBegin; 2437416022c9SBarry Smith *newmat = 0; 24387adad957SLisandro Dalcin ierr = MatCreate(((PetscObject)matin)->comm,&mat);CHKERRQ(ierr); 2439899cda47SBarry Smith ierr = MatSetSizes(mat,matin->rmap.n,matin->cmap.n,matin->rmap.N,matin->cmap.N);CHKERRQ(ierr); 24407adad957SLisandro Dalcin ierr = MatSetType(mat,((PetscObject)matin)->type_name);CHKERRQ(ierr); 24411d5dac46SHong Zhang ierr = PetscMemcpy(mat->ops,matin->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 2442273d9f13SBarry Smith a = (Mat_MPIAIJ*)mat->data; 2443e1b6402fSHong Zhang 2444d6dfbf8fSBarry Smith mat->factor = matin->factor; 2445899cda47SBarry Smith mat->rmap.bs = matin->rmap.bs; 2446c456f294SBarry Smith mat->assembled = PETSC_TRUE; 2447e7641de0SSatish Balay mat->insertmode = NOT_SET_VALUES; 2448273d9f13SBarry Smith mat->preallocated = PETSC_TRUE; 2449d6dfbf8fSBarry Smith 245017699dbbSLois Curfman McInnes a->size = oldmat->size; 245117699dbbSLois Curfman McInnes a->rank = oldmat->rank; 2452e7641de0SSatish Balay a->donotstash = oldmat->donotstash; 2453e7641de0SSatish Balay a->roworiented = oldmat->roworiented; 2454e7641de0SSatish Balay a->rowindices = 0; 2455bcd2baecSBarry Smith a->rowvalues = 0; 2456bcd2baecSBarry Smith a->getrowactive = PETSC_FALSE; 2457d6dfbf8fSBarry Smith 24587adad957SLisandro Dalcin ierr = PetscMapCopy(((PetscObject)mat)->comm,&matin->rmap,&mat->rmap);CHKERRQ(ierr); 24597adad957SLisandro Dalcin ierr = PetscMapCopy(((PetscObject)mat)->comm,&matin->cmap,&mat->cmap);CHKERRQ(ierr); 2460899cda47SBarry Smith 24617adad957SLisandro Dalcin ierr = MatStashCreate_Private(((PetscObject)matin)->comm,1,&mat->stash);CHKERRQ(ierr); 24622ee70a88SLois Curfman McInnes if (oldmat->colmap) { 2463aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 24640f5bd95cSBarry Smith ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr); 2465b1fc9764SSatish Balay #else 2466899cda47SBarry Smith ierr = PetscMalloc((mat->cmap.N)*sizeof(PetscInt),&a->colmap);CHKERRQ(ierr); 2467899cda47SBarry Smith ierr = PetscLogObjectMemory(mat,(mat->cmap.N)*sizeof(PetscInt));CHKERRQ(ierr); 2468899cda47SBarry Smith ierr = PetscMemcpy(a->colmap,oldmat->colmap,(mat->cmap.N)*sizeof(PetscInt));CHKERRQ(ierr); 2469b1fc9764SSatish Balay #endif 2470416022c9SBarry Smith } else a->colmap = 0; 24713f41c07dSBarry Smith if (oldmat->garray) { 2472b1d57f15SBarry Smith PetscInt len; 2473899cda47SBarry Smith len = oldmat->B->cmap.n; 2474b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&a->garray);CHKERRQ(ierr); 247552e6d16bSBarry Smith ierr = PetscLogObjectMemory(mat,len*sizeof(PetscInt));CHKERRQ(ierr); 2476b1d57f15SBarry Smith if (len) { ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(PetscInt));CHKERRQ(ierr); } 2477416022c9SBarry Smith } else a->garray = 0; 2478d6dfbf8fSBarry Smith 2479416022c9SBarry Smith ierr = VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr); 248052e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->lvec);CHKERRQ(ierr); 2481a56f8943SBarry Smith ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr); 248252e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->Mvctx);CHKERRQ(ierr); 24832e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr); 248452e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->A);CHKERRQ(ierr); 24852e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr); 248652e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->B);CHKERRQ(ierr); 24877adad957SLisandro Dalcin ierr = PetscFListDuplicate(((PetscObject)matin)->qlist,&((PetscObject)mat)->qlist);CHKERRQ(ierr); 24888a729477SBarry Smith *newmat = mat; 24893a40ed3dSBarry Smith PetscFunctionReturn(0); 24908a729477SBarry Smith } 2491416022c9SBarry Smith 2492e090d566SSatish Balay #include "petscsys.h" 2493416022c9SBarry Smith 24944a2ae208SSatish Balay #undef __FUNCT__ 24954a2ae208SSatish Balay #define __FUNCT__ "MatLoad_MPIAIJ" 2496f69a0ea3SMatthew Knepley PetscErrorCode MatLoad_MPIAIJ(PetscViewer viewer, MatType type,Mat *newmat) 2497416022c9SBarry Smith { 2498d65a2f8fSBarry Smith Mat A; 249987828ca2SBarry Smith PetscScalar *vals,*svals; 250019bcc07fSBarry Smith MPI_Comm comm = ((PetscObject)viewer)->comm; 2501416022c9SBarry Smith MPI_Status status; 25026849ba73SBarry Smith PetscErrorCode ierr; 2503dc231df0SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag,maxnz; 2504167e7480SBarry Smith PetscInt i,nz,j,rstart,rend,mmax; 2505b1d57f15SBarry Smith PetscInt header[4],*rowlengths = 0,M,N,m,*cols; 2506910ba992SMatthew Knepley PetscInt *ourlens = PETSC_NULL,*procsnz = PETSC_NULL,*offlens = PETSC_NULL,jj,*mycols,*smycols; 2507dc231df0SBarry Smith PetscInt cend,cstart,n,*rowners; 2508b1d57f15SBarry Smith int fd; 2509416022c9SBarry Smith 25103a40ed3dSBarry Smith PetscFunctionBegin; 25111dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 25121dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 251317699dbbSLois Curfman McInnes if (!rank) { 2514b0a32e0cSBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 25150752156aSBarry Smith ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr); 2516552e946dSBarry Smith if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object"); 25176c5fab8fSBarry Smith } 25186c5fab8fSBarry Smith 2519b1d57f15SBarry Smith ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr); 2520416022c9SBarry Smith M = header[1]; N = header[2]; 2521416022c9SBarry Smith /* determine ownership of all rows */ 252229cdbbc8SSatish Balay m = M/size + ((M % size) > rank); 2523dc231df0SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&rowners);CHKERRQ(ierr); 2524dc231df0SBarry Smith ierr = MPI_Allgather(&m,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr); 2525167e7480SBarry Smith 2526167e7480SBarry Smith /* First process needs enough room for process with most rows */ 2527167e7480SBarry Smith if (!rank) { 2528167e7480SBarry Smith mmax = rowners[1]; 2529167e7480SBarry Smith for (i=2; i<size; i++) { 2530167e7480SBarry Smith mmax = PetscMax(mmax,rowners[i]); 2531167e7480SBarry Smith } 2532167e7480SBarry Smith } else mmax = m; 2533167e7480SBarry Smith 2534416022c9SBarry Smith rowners[0] = 0; 253517699dbbSLois Curfman McInnes for (i=2; i<=size; i++) { 2536416022c9SBarry Smith rowners[i] += rowners[i-1]; 2537416022c9SBarry Smith } 253817699dbbSLois Curfman McInnes rstart = rowners[rank]; 253917699dbbSLois Curfman McInnes rend = rowners[rank+1]; 2540416022c9SBarry Smith 2541416022c9SBarry Smith /* distribute row lengths to all processors */ 2542167e7480SBarry Smith ierr = PetscMalloc2(mmax,PetscInt,&ourlens,mmax,PetscInt,&offlens);CHKERRQ(ierr); 254317699dbbSLois Curfman McInnes if (!rank) { 2544dc231df0SBarry Smith ierr = PetscBinaryRead(fd,ourlens,m,PETSC_INT);CHKERRQ(ierr); 2545dc231df0SBarry Smith ierr = PetscMalloc(m*sizeof(PetscInt),&rowlengths);CHKERRQ(ierr); 2546b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscInt),&procsnz);CHKERRQ(ierr); 2547b1d57f15SBarry Smith ierr = PetscMemzero(procsnz,size*sizeof(PetscInt));CHKERRQ(ierr); 2548dc231df0SBarry Smith for (j=0; j<m; j++) { 2549dc231df0SBarry Smith procsnz[0] += ourlens[j]; 2550dc231df0SBarry Smith } 2551dc231df0SBarry Smith for (i=1; i<size; i++) { 2552dc231df0SBarry Smith ierr = PetscBinaryRead(fd,rowlengths,rowners[i+1]-rowners[i],PETSC_INT);CHKERRQ(ierr); 2553dc231df0SBarry Smith /* calculate the number of nonzeros on each processor */ 2554dc231df0SBarry Smith for (j=0; j<rowners[i+1]-rowners[i]; j++) { 2555416022c9SBarry Smith procsnz[i] += rowlengths[j]; 2556416022c9SBarry Smith } 2557dc231df0SBarry Smith ierr = MPI_Send(rowlengths,rowners[i+1]-rowners[i],MPIU_INT,i,tag,comm);CHKERRQ(ierr); 2558416022c9SBarry Smith } 2559606d414cSSatish Balay ierr = PetscFree(rowlengths);CHKERRQ(ierr); 2560dc231df0SBarry Smith } else { 2561dc231df0SBarry Smith ierr = MPI_Recv(ourlens,m,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 2562dc231df0SBarry Smith } 2563416022c9SBarry Smith 2564dc231df0SBarry Smith if (!rank) { 2565416022c9SBarry Smith /* determine max buffer needed and allocate it */ 2566416022c9SBarry Smith maxnz = 0; 25678a8e0b3aSBarry Smith for (i=0; i<size; i++) { 25680452661fSBarry Smith maxnz = PetscMax(maxnz,procsnz[i]); 2569416022c9SBarry Smith } 2570b1d57f15SBarry Smith ierr = PetscMalloc(maxnz*sizeof(PetscInt),&cols);CHKERRQ(ierr); 2571416022c9SBarry Smith 2572416022c9SBarry Smith /* read in my part of the matrix column indices */ 2573416022c9SBarry Smith nz = procsnz[0]; 2574b1d57f15SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 25750752156aSBarry Smith ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr); 2576d65a2f8fSBarry Smith 2577d65a2f8fSBarry Smith /* read in every one elses and ship off */ 257817699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 2579d65a2f8fSBarry Smith nz = procsnz[i]; 25800752156aSBarry Smith ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 2581b1d57f15SBarry Smith ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr); 2582d65a2f8fSBarry Smith } 2583606d414cSSatish Balay ierr = PetscFree(cols);CHKERRQ(ierr); 25843a40ed3dSBarry Smith } else { 2585416022c9SBarry Smith /* determine buffer space needed for message */ 2586416022c9SBarry Smith nz = 0; 2587416022c9SBarry Smith for (i=0; i<m; i++) { 2588416022c9SBarry Smith nz += ourlens[i]; 2589416022c9SBarry Smith } 2590dc231df0SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 2591416022c9SBarry Smith 2592416022c9SBarry Smith /* receive message of column indices*/ 2593b1d57f15SBarry Smith ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 2594b1d57f15SBarry Smith ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr); 259529bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 2596416022c9SBarry Smith } 2597416022c9SBarry Smith 2598b362ba68SBarry Smith /* determine column ownership if matrix is not square */ 2599b362ba68SBarry Smith if (N != M) { 2600b362ba68SBarry Smith n = N/size + ((N % size) > rank); 2601b1d57f15SBarry Smith ierr = MPI_Scan(&n,&cend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 2602b362ba68SBarry Smith cstart = cend - n; 2603b362ba68SBarry Smith } else { 2604b362ba68SBarry Smith cstart = rstart; 2605b362ba68SBarry Smith cend = rend; 2606fb2e594dSBarry Smith n = cend - cstart; 2607b362ba68SBarry Smith } 2608b362ba68SBarry Smith 2609416022c9SBarry Smith /* loop over local rows, determining number of off diagonal entries */ 2610b1d57f15SBarry Smith ierr = PetscMemzero(offlens,m*sizeof(PetscInt));CHKERRQ(ierr); 2611416022c9SBarry Smith jj = 0; 2612416022c9SBarry Smith for (i=0; i<m; i++) { 2613416022c9SBarry Smith for (j=0; j<ourlens[i]; j++) { 2614b362ba68SBarry Smith if (mycols[jj] < cstart || mycols[jj] >= cend) offlens[i]++; 2615416022c9SBarry Smith jj++; 2616416022c9SBarry Smith } 2617416022c9SBarry Smith } 2618d65a2f8fSBarry Smith 2619d65a2f8fSBarry Smith /* create our matrix */ 2620416022c9SBarry Smith for (i=0; i<m; i++) { 2621416022c9SBarry Smith ourlens[i] -= offlens[i]; 2622416022c9SBarry Smith } 2623f69a0ea3SMatthew Knepley ierr = MatCreate(comm,&A);CHKERRQ(ierr); 2624f69a0ea3SMatthew Knepley ierr = MatSetSizes(A,m,n,M,N);CHKERRQ(ierr); 2625d10c748bSKris Buschelman ierr = MatSetType(A,type);CHKERRQ(ierr); 2626d10c748bSKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,ourlens,0,offlens);CHKERRQ(ierr); 2627d10c748bSKris Buschelman 2628d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2629d65a2f8fSBarry Smith ourlens[i] += offlens[i]; 2630d65a2f8fSBarry Smith } 2631416022c9SBarry Smith 263217699dbbSLois Curfman McInnes if (!rank) { 2633906b51c7SHong Zhang ierr = PetscMalloc((maxnz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2634416022c9SBarry Smith 2635416022c9SBarry Smith /* read in my part of the matrix numerical values */ 2636416022c9SBarry Smith nz = procsnz[0]; 26370752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2638d65a2f8fSBarry Smith 2639d65a2f8fSBarry Smith /* insert into matrix */ 2640d65a2f8fSBarry Smith jj = rstart; 2641d65a2f8fSBarry Smith smycols = mycols; 2642d65a2f8fSBarry Smith svals = vals; 2643d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2644dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2645d65a2f8fSBarry Smith smycols += ourlens[i]; 2646d65a2f8fSBarry Smith svals += ourlens[i]; 2647d65a2f8fSBarry Smith jj++; 2648416022c9SBarry Smith } 2649416022c9SBarry Smith 2650d65a2f8fSBarry Smith /* read in other processors and ship out */ 265117699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 2652416022c9SBarry Smith nz = procsnz[i]; 26530752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 26547adad957SLisandro Dalcin ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,((PetscObject)A)->tag,comm);CHKERRQ(ierr); 2655416022c9SBarry Smith } 2656606d414cSSatish Balay ierr = PetscFree(procsnz);CHKERRQ(ierr); 26573a40ed3dSBarry Smith } else { 2658d65a2f8fSBarry Smith /* receive numeric values */ 265987828ca2SBarry Smith ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2660416022c9SBarry Smith 2661d65a2f8fSBarry Smith /* receive message of values*/ 26627adad957SLisandro Dalcin ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,((PetscObject)A)->tag,comm,&status);CHKERRQ(ierr); 2663ca161407SBarry Smith ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr); 266429bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 2665d65a2f8fSBarry Smith 2666d65a2f8fSBarry Smith /* insert into matrix */ 2667d65a2f8fSBarry Smith jj = rstart; 2668d65a2f8fSBarry Smith smycols = mycols; 2669d65a2f8fSBarry Smith svals = vals; 2670d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2671dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2672d65a2f8fSBarry Smith smycols += ourlens[i]; 2673d65a2f8fSBarry Smith svals += ourlens[i]; 2674d65a2f8fSBarry Smith jj++; 2675d65a2f8fSBarry Smith } 2676d65a2f8fSBarry Smith } 2677dc231df0SBarry Smith ierr = PetscFree2(ourlens,offlens);CHKERRQ(ierr); 2678606d414cSSatish Balay ierr = PetscFree(vals);CHKERRQ(ierr); 2679606d414cSSatish Balay ierr = PetscFree(mycols);CHKERRQ(ierr); 2680606d414cSSatish Balay ierr = PetscFree(rowners);CHKERRQ(ierr); 2681d65a2f8fSBarry Smith 26826d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 26836d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2684d10c748bSKris Buschelman *newmat = A; 26853a40ed3dSBarry Smith PetscFunctionReturn(0); 2686416022c9SBarry Smith } 2687a0ff6018SBarry Smith 26884a2ae208SSatish Balay #undef __FUNCT__ 26894a2ae208SSatish Balay #define __FUNCT__ "MatGetSubMatrix_MPIAIJ" 2690a0ff6018SBarry Smith /* 269129da9460SBarry Smith Not great since it makes two copies of the submatrix, first an SeqAIJ 269229da9460SBarry Smith in local and then by concatenating the local matrices the end result. 269329da9460SBarry Smith Writing it directly would be much like MatGetSubMatrices_MPIAIJ() 2694a0ff6018SBarry Smith */ 2695b1d57f15SBarry Smith PetscErrorCode MatGetSubMatrix_MPIAIJ(Mat mat,IS isrow,IS iscol,PetscInt csize,MatReuse call,Mat *newmat) 2696a0ff6018SBarry Smith { 2697dfbe8321SBarry Smith PetscErrorCode ierr; 269832dcc486SBarry Smith PetscMPIInt rank,size; 2699b1d57f15SBarry Smith PetscInt i,m,n,rstart,row,rend,nz,*cwork,j; 2700b1d57f15SBarry Smith PetscInt *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal; 2701fee21e36SBarry Smith Mat *local,M,Mreuse; 270287828ca2SBarry Smith PetscScalar *vwork,*aa; 27037adad957SLisandro Dalcin MPI_Comm comm = ((PetscObject)mat)->comm; 270400e6dbe6SBarry Smith Mat_SeqAIJ *aij; 27057e2c5f70SBarry Smith 2706a0ff6018SBarry Smith 2707a0ff6018SBarry Smith PetscFunctionBegin; 27081dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 27091dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 271000e6dbe6SBarry Smith 2711fee21e36SBarry Smith if (call == MAT_REUSE_MATRIX) { 2712fee21e36SBarry Smith ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject *)&Mreuse);CHKERRQ(ierr); 2713e005ede5SBarry Smith if (!Mreuse) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse"); 2714fee21e36SBarry Smith local = &Mreuse; 2715fee21e36SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_REUSE_MATRIX,&local);CHKERRQ(ierr); 2716fee21e36SBarry Smith } else { 2717a0ff6018SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&local);CHKERRQ(ierr); 2718fee21e36SBarry Smith Mreuse = *local; 2719606d414cSSatish Balay ierr = PetscFree(local);CHKERRQ(ierr); 2720fee21e36SBarry Smith } 2721a0ff6018SBarry Smith 2722a0ff6018SBarry Smith /* 2723a0ff6018SBarry Smith m - number of local rows 2724a0ff6018SBarry Smith n - number of columns (same on all processors) 2725a0ff6018SBarry Smith rstart - first row in new global matrix generated 2726a0ff6018SBarry Smith */ 2727fee21e36SBarry Smith ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr); 2728a0ff6018SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2729fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 273000e6dbe6SBarry Smith ii = aij->i; 273100e6dbe6SBarry Smith jj = aij->j; 273200e6dbe6SBarry Smith 2733a0ff6018SBarry Smith /* 273400e6dbe6SBarry Smith Determine the number of non-zeros in the diagonal and off-diagonal 273500e6dbe6SBarry Smith portions of the matrix in order to do correct preallocation 2736a0ff6018SBarry Smith */ 273700e6dbe6SBarry Smith 273800e6dbe6SBarry Smith /* first get start and end of "diagonal" columns */ 27396a6a5d1dSBarry Smith if (csize == PETSC_DECIDE) { 2740ab50ec6bSBarry Smith ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr); 2741ab50ec6bSBarry Smith if (mglobal == n) { /* square matrix */ 2742e2c4fddaSBarry Smith nlocal = m; 27436a6a5d1dSBarry Smith } else { 2744ab50ec6bSBarry Smith nlocal = n/size + ((n % size) > rank); 2745ab50ec6bSBarry Smith } 2746ab50ec6bSBarry Smith } else { 27476a6a5d1dSBarry Smith nlocal = csize; 27486a6a5d1dSBarry Smith } 2749b1d57f15SBarry Smith ierr = MPI_Scan(&nlocal,&rend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 275000e6dbe6SBarry Smith rstart = rend - nlocal; 27516a6a5d1dSBarry Smith if (rank == size - 1 && rend != n) { 275277431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Local column sizes %D do not add up to total number of columns %D",rend,n); 27536a6a5d1dSBarry Smith } 275400e6dbe6SBarry Smith 275500e6dbe6SBarry Smith /* next, compute all the lengths */ 2756b1d57f15SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&dlens);CHKERRQ(ierr); 275700e6dbe6SBarry Smith olens = dlens + m; 275800e6dbe6SBarry Smith for (i=0; i<m; i++) { 275900e6dbe6SBarry Smith jend = ii[i+1] - ii[i]; 276000e6dbe6SBarry Smith olen = 0; 276100e6dbe6SBarry Smith dlen = 0; 276200e6dbe6SBarry Smith for (j=0; j<jend; j++) { 276300e6dbe6SBarry Smith if (*jj < rstart || *jj >= rend) olen++; 276400e6dbe6SBarry Smith else dlen++; 276500e6dbe6SBarry Smith jj++; 276600e6dbe6SBarry Smith } 276700e6dbe6SBarry Smith olens[i] = olen; 276800e6dbe6SBarry Smith dlens[i] = dlen; 276900e6dbe6SBarry Smith } 2770f69a0ea3SMatthew Knepley ierr = MatCreate(comm,&M);CHKERRQ(ierr); 2771f69a0ea3SMatthew Knepley ierr = MatSetSizes(M,m,nlocal,PETSC_DECIDE,n);CHKERRQ(ierr); 27727adad957SLisandro Dalcin ierr = MatSetType(M,((PetscObject)mat)->type_name);CHKERRQ(ierr); 2773e2d9671bSKris Buschelman ierr = MatMPIAIJSetPreallocation(M,0,dlens,0,olens);CHKERRQ(ierr); 2774606d414cSSatish Balay ierr = PetscFree(dlens);CHKERRQ(ierr); 2775a0ff6018SBarry Smith } else { 2776b1d57f15SBarry Smith PetscInt ml,nl; 2777a0ff6018SBarry Smith 2778a0ff6018SBarry Smith M = *newmat; 2779a0ff6018SBarry Smith ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr); 278029bbc08cSBarry Smith if (ml != m) SETERRQ(PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request"); 2781a0ff6018SBarry Smith ierr = MatZeroEntries(M);CHKERRQ(ierr); 2782c48de900SBarry Smith /* 2783c48de900SBarry Smith The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 2784c48de900SBarry Smith rather than the slower MatSetValues(). 2785c48de900SBarry Smith */ 2786c48de900SBarry Smith M->was_assembled = PETSC_TRUE; 2787c48de900SBarry Smith M->assembled = PETSC_FALSE; 2788a0ff6018SBarry Smith } 2789a0ff6018SBarry Smith ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr); 2790fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 279100e6dbe6SBarry Smith ii = aij->i; 279200e6dbe6SBarry Smith jj = aij->j; 279300e6dbe6SBarry Smith aa = aij->a; 2794a0ff6018SBarry Smith for (i=0; i<m; i++) { 2795a0ff6018SBarry Smith row = rstart + i; 279600e6dbe6SBarry Smith nz = ii[i+1] - ii[i]; 279700e6dbe6SBarry Smith cwork = jj; jj += nz; 279800e6dbe6SBarry Smith vwork = aa; aa += nz; 27998c638d02SBarry Smith ierr = MatSetValues_MPIAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr); 2800a0ff6018SBarry Smith } 2801a0ff6018SBarry Smith 2802a0ff6018SBarry Smith ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2803a0ff6018SBarry Smith ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2804a0ff6018SBarry Smith *newmat = M; 2805fee21e36SBarry Smith 2806fee21e36SBarry Smith /* save submatrix used in processor for next request */ 2807fee21e36SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2808fee21e36SBarry Smith ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr); 2809fee21e36SBarry Smith ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr); 2810fee21e36SBarry Smith } 2811fee21e36SBarry Smith 2812a0ff6018SBarry Smith PetscFunctionReturn(0); 2813a0ff6018SBarry Smith } 2814273d9f13SBarry Smith 2815e2e86b8fSSatish Balay EXTERN_C_BEGIN 28164a2ae208SSatish Balay #undef __FUNCT__ 2817ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR_MPIAIJ" 2818b7940d39SSatish Balay PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B,const PetscInt Ii[],const PetscInt J[],const PetscScalar v[]) 2819ccd8e176SBarry Smith { 2820899cda47SBarry Smith PetscInt m,cstart, cend,j,nnz,i,d; 2821899cda47SBarry Smith PetscInt *d_nnz,*o_nnz,nnz_max = 0,rstart,ii; 2822ccd8e176SBarry Smith const PetscInt *JJ; 2823ccd8e176SBarry Smith PetscScalar *values; 2824ccd8e176SBarry Smith PetscErrorCode ierr; 2825ccd8e176SBarry Smith 2826ccd8e176SBarry Smith PetscFunctionBegin; 2827b7940d39SSatish Balay if (Ii[0]) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Ii[0] must be 0 it is %D",Ii[0]); 2828899cda47SBarry Smith 2829899cda47SBarry Smith B->rmap.bs = B->cmap.bs = 1; 28306148ca0dSBarry Smith ierr = PetscMapSetUp(&B->rmap);CHKERRQ(ierr); 28316148ca0dSBarry Smith ierr = PetscMapSetUp(&B->cmap);CHKERRQ(ierr); 2832899cda47SBarry Smith m = B->rmap.n; 2833899cda47SBarry Smith cstart = B->cmap.rstart; 2834899cda47SBarry Smith cend = B->cmap.rend; 2835899cda47SBarry Smith rstart = B->rmap.rstart; 2836899cda47SBarry Smith 2837ccd8e176SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr); 2838ccd8e176SBarry Smith o_nnz = d_nnz + m; 2839ccd8e176SBarry Smith 2840ecc77c7aSBarry Smith #if defined(PETSC_USE_DEBUGGING) 2841ecc77c7aSBarry Smith for (i=0; i<m; i++) { 2842ecc77c7aSBarry Smith nnz = Ii[i+1]- Ii[i]; 2843ecc77c7aSBarry Smith JJ = J + Ii[i]; 2844ecc77c7aSBarry Smith if (nnz < 0) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Local row %D has a negative %D number of columns",i,nnz); 2845ecc77c7aSBarry Smith if (nnz && (JJ[0] < 0)) SETERRRQ1(PETSC_ERR_ARG_WRONGSTATE,"Row %D starts with negative column index",i,j); 2846ecc77c7aSBarry Smith if (nnz && (JJ[nnz-1] >= B->cmap.N) SETERRRQ3(PETSC_ERR_ARG_WRONGSTATE,"Row %D ends with too large a column index %D (max allowed %D)",i,JJ[nnz-1],B->cmap.N); 2847ecc77c7aSBarry Smith for (j=1; j<nnz; j++) { 2848ecc77c7aSBarry Smith if (JJ[i] <= JJ[i-1]) SETERRRQ(PETSC_ERR_ARG_WRONGSTATE,"Row %D has unsorted column index at %D location in column indices",i,j); 2849ecc77c7aSBarry Smith } 2850ecc77c7aSBarry Smith } 2851ecc77c7aSBarry Smith #endif 2852ecc77c7aSBarry Smith 2853ccd8e176SBarry Smith for (i=0; i<m; i++) { 2854b7940d39SSatish Balay nnz = Ii[i+1]- Ii[i]; 2855b7940d39SSatish Balay JJ = J + Ii[i]; 2856ccd8e176SBarry Smith nnz_max = PetscMax(nnz_max,nnz); 2857ccd8e176SBarry Smith for (j=0; j<nnz; j++) { 2858ccd8e176SBarry Smith if (*JJ >= cstart) break; 2859ccd8e176SBarry Smith JJ++; 2860ccd8e176SBarry Smith } 2861ccd8e176SBarry Smith d = 0; 2862ccd8e176SBarry Smith for (; j<nnz; j++) { 2863ccd8e176SBarry Smith if (*JJ++ >= cend) break; 2864ccd8e176SBarry Smith d++; 2865ccd8e176SBarry Smith } 2866ccd8e176SBarry Smith d_nnz[i] = d; 2867ccd8e176SBarry Smith o_nnz[i] = nnz - d; 2868ccd8e176SBarry Smith } 2869ccd8e176SBarry Smith ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,o_nnz);CHKERRQ(ierr); 2870ccd8e176SBarry Smith ierr = PetscFree(d_nnz);CHKERRQ(ierr); 2871ccd8e176SBarry Smith 2872ccd8e176SBarry Smith if (v) values = (PetscScalar*)v; 2873ccd8e176SBarry Smith else { 2874ccd8e176SBarry Smith ierr = PetscMalloc((nnz_max+1)*sizeof(PetscScalar),&values);CHKERRQ(ierr); 2875ccd8e176SBarry Smith ierr = PetscMemzero(values,nnz_max*sizeof(PetscScalar));CHKERRQ(ierr); 2876ccd8e176SBarry Smith } 2877ccd8e176SBarry Smith 2878ccd8e176SBarry Smith for (i=0; i<m; i++) { 2879ccd8e176SBarry Smith ii = i + rstart; 2880b7940d39SSatish Balay nnz = Ii[i+1]- Ii[i]; 2881b7940d39SSatish Balay ierr = MatSetValues_MPIAIJ(B,1,&ii,nnz,J+Ii[i],values+(v ? Ii[i] : 0),INSERT_VALUES);CHKERRQ(ierr); 2882ccd8e176SBarry Smith } 2883ccd8e176SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2884ccd8e176SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2885ccd8e176SBarry Smith 2886ccd8e176SBarry Smith if (!v) { 2887ccd8e176SBarry Smith ierr = PetscFree(values);CHKERRQ(ierr); 2888ccd8e176SBarry Smith } 2889ccd8e176SBarry Smith PetscFunctionReturn(0); 2890ccd8e176SBarry Smith } 2891e2e86b8fSSatish Balay EXTERN_C_END 2892ccd8e176SBarry Smith 2893ccd8e176SBarry Smith #undef __FUNCT__ 2894ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR" 28951eea217eSSatish Balay /*@ 2896ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in AIJ format 2897ccd8e176SBarry Smith (the default parallel PETSc format). 2898ccd8e176SBarry Smith 2899ccd8e176SBarry Smith Collective on MPI_Comm 2900ccd8e176SBarry Smith 2901ccd8e176SBarry Smith Input Parameters: 2902a1661176SMatthew Knepley + B - the matrix 2903ccd8e176SBarry Smith . i - the indices into j for the start of each local row (starts with zero) 2904ccd8e176SBarry Smith . j - the column indices for each local row (starts with zero) these must be sorted for each row 2905ccd8e176SBarry Smith - v - optional values in the matrix 2906ccd8e176SBarry Smith 2907ccd8e176SBarry Smith Level: developer 2908ccd8e176SBarry Smith 290912251496SSatish Balay Notes: 291012251496SSatish Balay The i, j, and a arrays ARE copied by this routine into the internal format used by PETSc; 291112251496SSatish Balay thus you CANNOT change the matrix entries by changing the values of a[] after you have 291212251496SSatish Balay called this routine. Use MatCreateMPIAIJWithSplitArrays() to avoid needing to copy the arrays. 291312251496SSatish Balay 291412251496SSatish Balay The i and j indices are 0 based, and i indices are indices corresponding to the local j array. 291512251496SSatish Balay 291612251496SSatish Balay The format which is used for the sparse matrix input, is equivalent to a 291712251496SSatish Balay row-major ordering.. i.e for the following matrix, the input data expected is 291812251496SSatish Balay as shown: 291912251496SSatish Balay 292012251496SSatish Balay 1 0 0 292112251496SSatish Balay 2 0 3 P0 292212251496SSatish Balay ------- 292312251496SSatish Balay 4 5 6 P1 292412251496SSatish Balay 292512251496SSatish Balay Process0 [P0]: rows_owned=[0,1] 292612251496SSatish Balay i = {0,1,3} [size = nrow+1 = 2+1] 292712251496SSatish Balay j = {0,0,2} [size = nz = 6] 292812251496SSatish Balay v = {1,2,3} [size = nz = 6] 292912251496SSatish Balay 293012251496SSatish Balay Process1 [P1]: rows_owned=[2] 293112251496SSatish Balay i = {0,3} [size = nrow+1 = 1+1] 293212251496SSatish Balay j = {0,1,2} [size = nz = 6] 293312251496SSatish Balay v = {4,5,6} [size = nz = 6] 293412251496SSatish Balay 2935ecc77c7aSBarry Smith The column indices for each row MUST be sorted. 29362fb0ec9aSBarry Smith 2937ccd8e176SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2938ccd8e176SBarry Smith 29392fb0ec9aSBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatCreateMPIAIJ(), MPIAIJ, 29408d7a6e47SBarry Smith MatCreateSeqAIJWithArrays(), MatCreateMPIAIJWithSplitArrays() 2941ccd8e176SBarry Smith @*/ 2942be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocationCSR(Mat B,const PetscInt i[],const PetscInt j[], const PetscScalar v[]) 2943ccd8e176SBarry Smith { 2944ccd8e176SBarry Smith PetscErrorCode ierr,(*f)(Mat,const PetscInt[],const PetscInt[],const PetscScalar[]); 2945ccd8e176SBarry Smith 2946ccd8e176SBarry Smith PetscFunctionBegin; 2947ccd8e176SBarry Smith ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",(void (**)(void))&f);CHKERRQ(ierr); 2948ccd8e176SBarry Smith if (f) { 2949ccd8e176SBarry Smith ierr = (*f)(B,i,j,v);CHKERRQ(ierr); 2950ccd8e176SBarry Smith } 2951ccd8e176SBarry Smith PetscFunctionReturn(0); 2952ccd8e176SBarry Smith } 2953ccd8e176SBarry Smith 2954ccd8e176SBarry Smith #undef __FUNCT__ 29554a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJSetPreallocation" 2956273d9f13SBarry Smith /*@C 2957ccd8e176SBarry Smith MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in AIJ format 2958273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2959273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2960273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2961273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2962273d9f13SBarry Smith 2963273d9f13SBarry Smith Collective on MPI_Comm 2964273d9f13SBarry Smith 2965273d9f13SBarry Smith Input Parameters: 2966273d9f13SBarry Smith + A - the matrix 2967273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2968273d9f13SBarry Smith (same value is used for all local rows) 2969273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2970273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2971273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2972273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2973273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2974273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2975273d9f13SBarry Smith submatrix (same value is used for all local rows). 2976273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2977273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2978273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2979273d9f13SBarry Smith structure. The size of this array is equal to the number 2980273d9f13SBarry Smith of local rows, i.e 'm'. 2981273d9f13SBarry Smith 298249a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 298349a6f317SBarry Smith 2984273d9f13SBarry Smith The AIJ format (also called the Yale sparse matrix format or 2985ccd8e176SBarry Smith compressed row storage (CSR)), is fully compatible with standard Fortran 77 2986ccd8e176SBarry Smith storage. The stored row and column indices begin with zero. See the users manual for details. 2987273d9f13SBarry Smith 2988273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2989273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2990273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2991273d9f13SBarry Smith 2992273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2993273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2994273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2995273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2996273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2997273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2998273d9f13SBarry Smith 2999273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 3000273d9f13SBarry Smith 3001aa95bbe8SBarry Smith You can call MatGetInfo() to get information on how effective the preallocation was; 3002aa95bbe8SBarry Smith for example the fields mallocs,nz_allocated,nz_used,nz_unneeded; 3003aa95bbe8SBarry Smith You can also run with the option -info and look for messages with the string 3004aa95bbe8SBarry Smith malloc in them to see if additional memory allocation was needed. 3005aa95bbe8SBarry Smith 3006273d9f13SBarry Smith Example usage: 3007273d9f13SBarry Smith 3008273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 3009273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 3010273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 3011273d9f13SBarry Smith as follows: 3012273d9f13SBarry Smith 3013273d9f13SBarry Smith .vb 3014273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 3015273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 3016273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 3017273d9f13SBarry Smith ------------------------------------- 3018273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 3019273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 3020273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 3021273d9f13SBarry Smith ------------------------------------- 3022273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 3023273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 3024273d9f13SBarry Smith .ve 3025273d9f13SBarry Smith 3026273d9f13SBarry Smith This can be represented as a collection of submatrices as: 3027273d9f13SBarry Smith 3028273d9f13SBarry Smith .vb 3029273d9f13SBarry Smith A B C 3030273d9f13SBarry Smith D E F 3031273d9f13SBarry Smith G H I 3032273d9f13SBarry Smith .ve 3033273d9f13SBarry Smith 3034273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 3035273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 3036273d9f13SBarry Smith 3037273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 3038273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 3039273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 3040273d9f13SBarry Smith 3041273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 3042273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 3043273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 3044273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 3045273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 3046273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 3047273d9f13SBarry Smith 3048273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 3049273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 3050273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 3051273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 3052273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 3053273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 3054273d9f13SBarry Smith .vb 3055273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 3056273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 3057273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 3058273d9f13SBarry Smith .ve 3059273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 3060273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 3061273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 3062273d9f13SBarry Smith 34 values. 3063273d9f13SBarry Smith 3064273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 3065273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 3066273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 3067273d9f13SBarry Smith .vb 3068273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 3069273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 3070273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 3071273d9f13SBarry Smith .ve 3072273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 3073273d9f13SBarry Smith hence pre-allocation is perfect. 3074273d9f13SBarry Smith 3075273d9f13SBarry Smith Level: intermediate 3076273d9f13SBarry Smith 3077273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 3078273d9f13SBarry Smith 3079ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateMPIAIJ(), MatMPIAIJSetPreallocationCSR(), 3080aa95bbe8SBarry Smith MPIAIJ, MatGetInfo() 3081273d9f13SBarry Smith @*/ 3082be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 3083273d9f13SBarry Smith { 3084b1d57f15SBarry Smith PetscErrorCode ierr,(*f)(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]); 3085273d9f13SBarry Smith 3086273d9f13SBarry Smith PetscFunctionBegin; 3087a23d5eceSKris Buschelman ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocation_C",(void (**)(void))&f);CHKERRQ(ierr); 3088a23d5eceSKris Buschelman if (f) { 3089a23d5eceSKris Buschelman ierr = (*f)(B,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 3090273d9f13SBarry Smith } 3091273d9f13SBarry Smith PetscFunctionReturn(0); 3092273d9f13SBarry Smith } 3093273d9f13SBarry Smith 30944a2ae208SSatish Balay #undef __FUNCT__ 30952fb0ec9aSBarry Smith #define __FUNCT__ "MatCreateMPIAIJWithArrays" 309658d36128SBarry Smith /*@ 30972fb0ec9aSBarry Smith MatCreateMPIAIJWithArrays - creates a MPI AIJ matrix using arrays that contain in standard 30982fb0ec9aSBarry Smith CSR format the local rows. 30992fb0ec9aSBarry Smith 31002fb0ec9aSBarry Smith Collective on MPI_Comm 31012fb0ec9aSBarry Smith 31022fb0ec9aSBarry Smith Input Parameters: 31032fb0ec9aSBarry Smith + comm - MPI communicator 31042fb0ec9aSBarry Smith . m - number of local rows (Cannot be PETSC_DECIDE) 31052fb0ec9aSBarry Smith . n - This value should be the same as the local size used in creating the 31062fb0ec9aSBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 31072fb0ec9aSBarry Smith calculated if N is given) For square matrices n is almost always m. 31082fb0ec9aSBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 31092fb0ec9aSBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 31102fb0ec9aSBarry Smith . i - row indices 31112fb0ec9aSBarry Smith . j - column indices 31122fb0ec9aSBarry Smith - a - matrix values 31132fb0ec9aSBarry Smith 31142fb0ec9aSBarry Smith Output Parameter: 31152fb0ec9aSBarry Smith . mat - the matrix 311603bfb495SBarry Smith 31172fb0ec9aSBarry Smith Level: intermediate 31182fb0ec9aSBarry Smith 31192fb0ec9aSBarry Smith Notes: 31202fb0ec9aSBarry Smith The i, j, and a arrays ARE copied by this routine into the internal format used by PETSc; 31212fb0ec9aSBarry Smith thus you CANNOT change the matrix entries by changing the values of a[] after you have 31228d7a6e47SBarry Smith called this routine. Use MatCreateMPIAIJWithSplitArrays() to avoid needing to copy the arrays. 31232fb0ec9aSBarry Smith 312412251496SSatish Balay The i and j indices are 0 based, and i indices are indices corresponding to the local j array. 312512251496SSatish Balay 312612251496SSatish Balay The format which is used for the sparse matrix input, is equivalent to a 312712251496SSatish Balay row-major ordering.. i.e for the following matrix, the input data expected is 312812251496SSatish Balay as shown: 312912251496SSatish Balay 313012251496SSatish Balay 1 0 0 313112251496SSatish Balay 2 0 3 P0 313212251496SSatish Balay ------- 313312251496SSatish Balay 4 5 6 P1 313412251496SSatish Balay 313512251496SSatish Balay Process0 [P0]: rows_owned=[0,1] 313612251496SSatish Balay i = {0,1,3} [size = nrow+1 = 2+1] 313712251496SSatish Balay j = {0,0,2} [size = nz = 6] 313812251496SSatish Balay v = {1,2,3} [size = nz = 6] 313912251496SSatish Balay 314012251496SSatish Balay Process1 [P1]: rows_owned=[2] 314112251496SSatish Balay i = {0,3} [size = nrow+1 = 1+1] 314212251496SSatish Balay j = {0,1,2} [size = nz = 6] 314312251496SSatish Balay v = {4,5,6} [size = nz = 6] 31442fb0ec9aSBarry Smith 31452fb0ec9aSBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 31462fb0ec9aSBarry Smith 31472fb0ec9aSBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 31488d7a6e47SBarry Smith MPIAIJ, MatCreateMPIAIJ(), MatCreateMPIAIJWithSplitArrays() 31492fb0ec9aSBarry Smith @*/ 315082b90586SSatish Balay PetscErrorCode PETSCMAT_DLLEXPORT MatCreateMPIAIJWithArrays(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,const PetscInt i[],const PetscInt j[],const PetscScalar a[],Mat *mat) 31512fb0ec9aSBarry Smith { 31522fb0ec9aSBarry Smith PetscErrorCode ierr; 31532fb0ec9aSBarry Smith 31542fb0ec9aSBarry Smith PetscFunctionBegin; 31552fb0ec9aSBarry Smith if (i[0]) { 31562fb0ec9aSBarry Smith SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0"); 31572fb0ec9aSBarry Smith } 31582fb0ec9aSBarry Smith if (m < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"local number of rows (m) cannot be PETSC_DECIDE, or negative"); 31592fb0ec9aSBarry Smith ierr = MatCreate(comm,mat);CHKERRQ(ierr); 3160d4146a68SBarry Smith ierr = MatSetSizes(*mat,m,n,M,N);CHKERRQ(ierr); 31612fb0ec9aSBarry Smith ierr = MatSetType(*mat,MATMPIAIJ);CHKERRQ(ierr); 31622fb0ec9aSBarry Smith ierr = MatMPIAIJSetPreallocationCSR(*mat,i,j,a);CHKERRQ(ierr); 31632fb0ec9aSBarry Smith PetscFunctionReturn(0); 31642fb0ec9aSBarry Smith } 31652fb0ec9aSBarry Smith 31662fb0ec9aSBarry Smith #undef __FUNCT__ 31674a2ae208SSatish Balay #define __FUNCT__ "MatCreateMPIAIJ" 3168273d9f13SBarry Smith /*@C 3169273d9f13SBarry Smith MatCreateMPIAIJ - Creates a sparse parallel matrix in AIJ format 3170273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 3171273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 3172273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 3173273d9f13SBarry Smith performance can be increased by more than a factor of 50. 3174273d9f13SBarry Smith 3175273d9f13SBarry Smith Collective on MPI_Comm 3176273d9f13SBarry Smith 3177273d9f13SBarry Smith Input Parameters: 3178273d9f13SBarry Smith + comm - MPI communicator 3179273d9f13SBarry Smith . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 3180273d9f13SBarry Smith This value should be the same as the local size used in creating the 3181273d9f13SBarry Smith y vector for the matrix-vector product y = Ax. 3182273d9f13SBarry Smith . n - This value should be the same as the local size used in creating the 3183273d9f13SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 3184273d9f13SBarry Smith calculated if N is given) For square matrices n is almost always m. 3185273d9f13SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 3186273d9f13SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 3187273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 3188273d9f13SBarry Smith (same value is used for all local rows) 3189273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 3190273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 3191273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 3192273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 3193273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 3194273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 3195273d9f13SBarry Smith submatrix (same value is used for all local rows). 3196273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 3197273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 3198273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 3199273d9f13SBarry Smith structure. The size of this array is equal to the number 3200273d9f13SBarry Smith of local rows, i.e 'm'. 3201273d9f13SBarry Smith 3202273d9f13SBarry Smith Output Parameter: 3203273d9f13SBarry Smith . A - the matrix 3204273d9f13SBarry Smith 3205175b88e8SBarry Smith It is recommended that one use the MatCreate(), MatSetType() and/or MatSetFromOptions(), 3206175b88e8SBarry Smith MatXXXXSetPreallocation() paradgm instead of this routine directly. This is definitely 3207175b88e8SBarry Smith true if you plan to use the external direct solvers such as SuperLU, MUMPS or Spooles. 3208175b88e8SBarry Smith [MatXXXXSetPreallocation() is, for example, MatSeqAIJSetPreallocation] 3209175b88e8SBarry Smith 3210273d9f13SBarry Smith Notes: 321149a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 321249a6f317SBarry Smith 3213273d9f13SBarry Smith m,n,M,N parameters specify the size of the matrix, and its partitioning across 3214273d9f13SBarry Smith processors, while d_nz,d_nnz,o_nz,o_nnz parameters specify the approximate 3215273d9f13SBarry Smith storage requirements for this matrix. 3216273d9f13SBarry Smith 3217273d9f13SBarry Smith If PETSC_DECIDE or PETSC_DETERMINE is used for a particular argument on one 3218273d9f13SBarry Smith processor than it must be used on all processors that share the object for 3219273d9f13SBarry Smith that argument. 3220273d9f13SBarry Smith 3221273d9f13SBarry Smith The user MUST specify either the local or global matrix dimensions 3222273d9f13SBarry Smith (possibly both). 3223273d9f13SBarry Smith 322433a7c187SSatish Balay The parallel matrix is partitioned across processors such that the 322533a7c187SSatish Balay first m0 rows belong to process 0, the next m1 rows belong to 322633a7c187SSatish Balay process 1, the next m2 rows belong to process 2 etc.. where 322733a7c187SSatish Balay m0,m1,m2,.. are the input parameter 'm'. i.e each processor stores 322833a7c187SSatish Balay values corresponding to [m x N] submatrix. 3229273d9f13SBarry Smith 323033a7c187SSatish Balay The columns are logically partitioned with the n0 columns belonging 323133a7c187SSatish Balay to 0th partition, the next n1 columns belonging to the next 323233a7c187SSatish Balay partition etc.. where n0,n1,n2... are the the input parameter 'n'. 323333a7c187SSatish Balay 323433a7c187SSatish Balay The DIAGONAL portion of the local submatrix on any given processor 323533a7c187SSatish Balay is the submatrix corresponding to the rows and columns m,n 323633a7c187SSatish Balay corresponding to the given processor. i.e diagonal matrix on 323733a7c187SSatish Balay process 0 is [m0 x n0], diagonal matrix on process 1 is [m1 x n1] 323833a7c187SSatish Balay etc. The remaining portion of the local submatrix [m x (N-n)] 323933a7c187SSatish Balay constitute the OFF-DIAGONAL portion. The example below better 324033a7c187SSatish Balay illustrates this concept. 324133a7c187SSatish Balay 324233a7c187SSatish Balay For a square global matrix we define each processor's diagonal portion 324333a7c187SSatish Balay to be its local rows and the corresponding columns (a square submatrix); 324433a7c187SSatish Balay each processor's off-diagonal portion encompasses the remainder of the 324533a7c187SSatish Balay local matrix (a rectangular submatrix). 3246273d9f13SBarry Smith 3247273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 3248273d9f13SBarry Smith 324997d05335SKris Buschelman When calling this routine with a single process communicator, a matrix of 325097d05335SKris Buschelman type SEQAIJ is returned. If a matrix of type MPIAIJ is desired for this 325197d05335SKris Buschelman type of communicator, use the construction mechanism: 325297d05335SKris Buschelman MatCreate(...,&A); MatSetType(A,MPIAIJ); MatMPIAIJSetPreallocation(A,...); 325397d05335SKris Buschelman 3254273d9f13SBarry Smith By default, this format uses inodes (identical nodes) when possible. 3255273d9f13SBarry Smith We search for consecutive rows with the same nonzero structure, thereby 3256273d9f13SBarry Smith reusing matrix information to achieve increased efficiency. 3257273d9f13SBarry Smith 3258273d9f13SBarry Smith Options Database Keys: 3259923f20ffSKris Buschelman + -mat_no_inode - Do not use inodes 3260923f20ffSKris Buschelman . -mat_inode_limit <limit> - Sets inode limit (max limit=5) 3261273d9f13SBarry Smith - -mat_aij_oneindex - Internally use indexing starting at 1 3262273d9f13SBarry Smith rather than 0. Note that when calling MatSetValues(), 3263273d9f13SBarry Smith the user still MUST index entries starting at 0! 3264273d9f13SBarry Smith 3265273d9f13SBarry Smith 3266273d9f13SBarry Smith Example usage: 3267273d9f13SBarry Smith 3268273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 3269273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 3270273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 3271273d9f13SBarry Smith as follows: 3272273d9f13SBarry Smith 3273273d9f13SBarry Smith .vb 3274273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 3275273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 3276273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 3277273d9f13SBarry Smith ------------------------------------- 3278273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 3279273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 3280273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 3281273d9f13SBarry Smith ------------------------------------- 3282273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 3283273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 3284273d9f13SBarry Smith .ve 3285273d9f13SBarry Smith 3286273d9f13SBarry Smith This can be represented as a collection of submatrices as: 3287273d9f13SBarry Smith 3288273d9f13SBarry Smith .vb 3289273d9f13SBarry Smith A B C 3290273d9f13SBarry Smith D E F 3291273d9f13SBarry Smith G H I 3292273d9f13SBarry Smith .ve 3293273d9f13SBarry Smith 3294273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 3295273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 3296273d9f13SBarry Smith 3297273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 3298273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 3299273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 3300273d9f13SBarry Smith 3301273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 3302273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 3303273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 3304273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 3305273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 3306273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 3307273d9f13SBarry Smith 3308273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 3309273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 3310273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 3311273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 3312273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 3313273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 3314273d9f13SBarry Smith .vb 3315273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 3316273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 3317273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 3318273d9f13SBarry Smith .ve 3319273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 3320273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 3321273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 3322273d9f13SBarry Smith 34 values. 3323273d9f13SBarry Smith 3324273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 3325273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 3326273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 3327273d9f13SBarry Smith .vb 3328273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 3329273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 3330273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 3331273d9f13SBarry Smith .ve 3332273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 3333273d9f13SBarry Smith hence pre-allocation is perfect. 3334273d9f13SBarry Smith 3335273d9f13SBarry Smith Level: intermediate 3336273d9f13SBarry Smith 3337273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 3338273d9f13SBarry Smith 3339ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 33402fb0ec9aSBarry Smith MPIAIJ, MatCreateMPIAIJWithArrays() 3341273d9f13SBarry Smith @*/ 3342be1d678aSKris 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) 3343273d9f13SBarry Smith { 33446849ba73SBarry Smith PetscErrorCode ierr; 3345b1d57f15SBarry Smith PetscMPIInt size; 3346273d9f13SBarry Smith 3347273d9f13SBarry Smith PetscFunctionBegin; 3348f69a0ea3SMatthew Knepley ierr = MatCreate(comm,A);CHKERRQ(ierr); 3349f69a0ea3SMatthew Knepley ierr = MatSetSizes(*A,m,n,M,N);CHKERRQ(ierr); 3350273d9f13SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3351273d9f13SBarry Smith if (size > 1) { 3352273d9f13SBarry Smith ierr = MatSetType(*A,MATMPIAIJ);CHKERRQ(ierr); 3353273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(*A,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 3354273d9f13SBarry Smith } else { 3355273d9f13SBarry Smith ierr = MatSetType(*A,MATSEQAIJ);CHKERRQ(ierr); 3356273d9f13SBarry Smith ierr = MatSeqAIJSetPreallocation(*A,d_nz,d_nnz);CHKERRQ(ierr); 3357273d9f13SBarry Smith } 3358273d9f13SBarry Smith PetscFunctionReturn(0); 3359273d9f13SBarry Smith } 3360195d93cdSBarry Smith 33614a2ae208SSatish Balay #undef __FUNCT__ 33624a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJGetSeqAIJ" 3363be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJGetSeqAIJ(Mat A,Mat *Ad,Mat *Ao,PetscInt *colmap[]) 3364195d93cdSBarry Smith { 3365195d93cdSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 3366b1d57f15SBarry Smith 3367195d93cdSBarry Smith PetscFunctionBegin; 3368195d93cdSBarry Smith *Ad = a->A; 3369195d93cdSBarry Smith *Ao = a->B; 3370195d93cdSBarry Smith *colmap = a->garray; 3371195d93cdSBarry Smith PetscFunctionReturn(0); 3372195d93cdSBarry Smith } 3373a2243be0SBarry Smith 3374a2243be0SBarry Smith #undef __FUNCT__ 3375a2243be0SBarry Smith #define __FUNCT__ "MatSetColoring_MPIAIJ" 3376dfbe8321SBarry Smith PetscErrorCode MatSetColoring_MPIAIJ(Mat A,ISColoring coloring) 3377a2243be0SBarry Smith { 3378dfbe8321SBarry Smith PetscErrorCode ierr; 3379b1d57f15SBarry Smith PetscInt i; 3380a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 3381a2243be0SBarry Smith 3382a2243be0SBarry Smith PetscFunctionBegin; 33838ee2e534SBarry Smith if (coloring->ctype == IS_COLORING_GLOBAL) { 338408b6dcc0SBarry Smith ISColoringValue *allcolors,*colors; 3385a2243be0SBarry Smith ISColoring ocoloring; 3386a2243be0SBarry Smith 3387a2243be0SBarry Smith /* set coloring for diagonal portion */ 3388a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,coloring);CHKERRQ(ierr); 3389a2243be0SBarry Smith 3390a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 33917adad957SLisandro Dalcin ierr = ISAllGatherColors(((PetscObject)A)->comm,coloring->n,coloring->colors,PETSC_NULL,&allcolors);CHKERRQ(ierr); 3392899cda47SBarry Smith ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 3393899cda47SBarry Smith for (i=0; i<a->B->cmap.n; i++) { 3394a2243be0SBarry Smith colors[i] = allcolors[a->garray[i]]; 3395a2243be0SBarry Smith } 3396a2243be0SBarry Smith ierr = PetscFree(allcolors);CHKERRQ(ierr); 339795a80f87SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,coloring->n,a->B->cmap.n,colors,&ocoloring);CHKERRQ(ierr); 3398a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 3399a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 3400a2243be0SBarry Smith } else if (coloring->ctype == IS_COLORING_GHOSTED) { 340108b6dcc0SBarry Smith ISColoringValue *colors; 3402b1d57f15SBarry Smith PetscInt *larray; 3403a2243be0SBarry Smith ISColoring ocoloring; 3404a2243be0SBarry Smith 3405a2243be0SBarry Smith /* set coloring for diagonal portion */ 3406899cda47SBarry Smith ierr = PetscMalloc((a->A->cmap.n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 3407899cda47SBarry Smith for (i=0; i<a->A->cmap.n; i++) { 3408899cda47SBarry Smith larray[i] = i + A->cmap.rstart; 3409a2243be0SBarry Smith } 3410899cda47SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->A->cmap.n,larray,PETSC_NULL,larray);CHKERRQ(ierr); 3411899cda47SBarry Smith ierr = PetscMalloc((a->A->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 3412899cda47SBarry Smith for (i=0; i<a->A->cmap.n; i++) { 3413a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 3414a2243be0SBarry Smith } 3415a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 341695a80f87SBarry Smith ierr = ISColoringCreate(PETSC_COMM_SELF,coloring->n,a->A->cmap.n,colors,&ocoloring);CHKERRQ(ierr); 3417a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,ocoloring);CHKERRQ(ierr); 3418a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 3419a2243be0SBarry Smith 3420a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 3421899cda47SBarry Smith ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 3422899cda47SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->B->cmap.n,a->garray,PETSC_NULL,larray);CHKERRQ(ierr); 3423899cda47SBarry Smith ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 3424899cda47SBarry Smith for (i=0; i<a->B->cmap.n; i++) { 3425a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 3426a2243be0SBarry Smith } 3427a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 342895a80f87SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,coloring->n,a->B->cmap.n,colors,&ocoloring);CHKERRQ(ierr); 3429a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 3430a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 3431a2243be0SBarry Smith } else { 343277431f27SBarry Smith SETERRQ1(PETSC_ERR_SUP,"No support ISColoringType %d",(int)coloring->ctype); 3433a2243be0SBarry Smith } 3434a2243be0SBarry Smith 3435a2243be0SBarry Smith PetscFunctionReturn(0); 3436a2243be0SBarry Smith } 3437a2243be0SBarry Smith 3438dcf5cc72SBarry Smith #if defined(PETSC_HAVE_ADIC) 3439a2243be0SBarry Smith #undef __FUNCT__ 3440779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdic_MPIAIJ" 3441dfbe8321SBarry Smith PetscErrorCode MatSetValuesAdic_MPIAIJ(Mat A,void *advalues) 3442a2243be0SBarry Smith { 3443a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 3444dfbe8321SBarry Smith PetscErrorCode ierr; 3445a2243be0SBarry Smith 3446a2243be0SBarry Smith PetscFunctionBegin; 3447779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->A,advalues);CHKERRQ(ierr); 3448779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->B,advalues);CHKERRQ(ierr); 3449779c1a83SBarry Smith PetscFunctionReturn(0); 3450779c1a83SBarry Smith } 3451dcf5cc72SBarry Smith #endif 3452779c1a83SBarry Smith 3453779c1a83SBarry Smith #undef __FUNCT__ 3454779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdifor_MPIAIJ" 3455b1d57f15SBarry Smith PetscErrorCode MatSetValuesAdifor_MPIAIJ(Mat A,PetscInt nl,void *advalues) 3456779c1a83SBarry Smith { 3457779c1a83SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 3458dfbe8321SBarry Smith PetscErrorCode ierr; 3459779c1a83SBarry Smith 3460779c1a83SBarry Smith PetscFunctionBegin; 3461779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->A,nl,advalues);CHKERRQ(ierr); 3462779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->B,nl,advalues);CHKERRQ(ierr); 3463a2243be0SBarry Smith PetscFunctionReturn(0); 3464a2243be0SBarry Smith } 3465c5d6d63eSBarry Smith 3466c5d6d63eSBarry Smith #undef __FUNCT__ 346751dd7536SBarry Smith #define __FUNCT__ "MatMerge" 3468bc08b0f1SBarry Smith /*@ 346951dd7536SBarry Smith MatMerge - Creates a single large PETSc matrix by concatinating sequential 347051dd7536SBarry Smith matrices from each processor 3471c5d6d63eSBarry Smith 3472c5d6d63eSBarry Smith Collective on MPI_Comm 3473c5d6d63eSBarry Smith 3474c5d6d63eSBarry Smith Input Parameters: 347551dd7536SBarry Smith + comm - the communicators the parallel matrix will live on 3476d6bb3c2dSHong Zhang . inmat - the input sequential matrices 34770e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 3478d6bb3c2dSHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 347951dd7536SBarry Smith 348051dd7536SBarry Smith Output Parameter: 348151dd7536SBarry Smith . outmat - the parallel matrix generated 3482c5d6d63eSBarry Smith 34837e25d530SSatish Balay Level: advanced 34847e25d530SSatish Balay 3485f08fae4eSHong Zhang Notes: The number of columns of the matrix in EACH processor MUST be the same. 3486c5d6d63eSBarry Smith 3487c5d6d63eSBarry Smith @*/ 3488be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat) 3489c5d6d63eSBarry Smith { 3490dfbe8321SBarry Smith PetscErrorCode ierr; 3491b7940d39SSatish Balay PetscInt m,N,i,rstart,nnz,Ii,*dnz,*onz; 3492ba8c8a56SBarry Smith PetscInt *indx; 3493ba8c8a56SBarry Smith PetscScalar *values; 3494c5d6d63eSBarry Smith 3495c5d6d63eSBarry Smith PetscFunctionBegin; 34960e36024fSHong Zhang ierr = MatGetSize(inmat,&m,&N);CHKERRQ(ierr); 3497d6bb3c2dSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3498d6bb3c2dSHong Zhang /* count nonzeros in each row, for diagonal and off diagonal portion of matrix */ 34990e36024fSHong Zhang if (n == PETSC_DECIDE){ 3500357abbc8SBarry Smith ierr = PetscSplitOwnership(comm,&n,&N);CHKERRQ(ierr); 35010e36024fSHong Zhang } 3502357abbc8SBarry Smith ierr = MPI_Scan(&m, &rstart,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 3503357abbc8SBarry Smith rstart -= m; 3504d6bb3c2dSHong Zhang 3505d6bb3c2dSHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 3506d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 3507ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 3508d6bb3c2dSHong Zhang ierr = MatPreallocateSet(i+rstart,nnz,indx,dnz,onz);CHKERRQ(ierr); 3509ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 3510d6bb3c2dSHong Zhang } 3511d6bb3c2dSHong Zhang /* This routine will ONLY return MPIAIJ type matrix */ 3512f69a0ea3SMatthew Knepley ierr = MatCreate(comm,outmat);CHKERRQ(ierr); 3513f69a0ea3SMatthew Knepley ierr = MatSetSizes(*outmat,m,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 3514d6bb3c2dSHong Zhang ierr = MatSetType(*outmat,MATMPIAIJ);CHKERRQ(ierr); 3515d6bb3c2dSHong Zhang ierr = MatMPIAIJSetPreallocation(*outmat,0,dnz,0,onz);CHKERRQ(ierr); 3516d6bb3c2dSHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 3517d6bb3c2dSHong Zhang 3518d6bb3c2dSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 3519d6bb3c2dSHong Zhang ierr = MatGetOwnershipRange(*outmat,&rstart,PETSC_NULL);CHKERRQ(ierr); 3520d6bb3c2dSHong Zhang } else { 352177431f27SBarry Smith SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 3522d6bb3c2dSHong Zhang } 3523d6bb3c2dSHong Zhang 3524d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 3525ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 3526b7940d39SSatish Balay Ii = i + rstart; 3527b7940d39SSatish Balay ierr = MatSetValues(*outmat,1,&Ii,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 3528ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 3529d6bb3c2dSHong Zhang } 3530d6bb3c2dSHong Zhang ierr = MatDestroy(inmat);CHKERRQ(ierr); 3531d6bb3c2dSHong Zhang ierr = MatAssemblyBegin(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3532d6bb3c2dSHong Zhang ierr = MatAssemblyEnd(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 353351dd7536SBarry Smith 3534c5d6d63eSBarry Smith PetscFunctionReturn(0); 3535c5d6d63eSBarry Smith } 3536c5d6d63eSBarry Smith 3537c5d6d63eSBarry Smith #undef __FUNCT__ 3538c5d6d63eSBarry Smith #define __FUNCT__ "MatFileSplit" 3539dfbe8321SBarry Smith PetscErrorCode MatFileSplit(Mat A,char *outfile) 3540c5d6d63eSBarry Smith { 3541dfbe8321SBarry Smith PetscErrorCode ierr; 354232dcc486SBarry Smith PetscMPIInt rank; 3543b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz; 3544de4209c5SBarry Smith size_t len; 3545b1d57f15SBarry Smith const PetscInt *indx; 3546c5d6d63eSBarry Smith PetscViewer out; 3547c5d6d63eSBarry Smith char *name; 3548c5d6d63eSBarry Smith Mat B; 3549b3cc6726SBarry Smith const PetscScalar *values; 3550c5d6d63eSBarry Smith 3551c5d6d63eSBarry Smith PetscFunctionBegin; 3552c5d6d63eSBarry Smith ierr = MatGetLocalSize(A,&m,0);CHKERRQ(ierr); 3553c5d6d63eSBarry Smith ierr = MatGetSize(A,0,&N);CHKERRQ(ierr); 3554f204ca49SKris Buschelman /* Should this be the type of the diagonal block of A? */ 3555f69a0ea3SMatthew Knepley ierr = MatCreate(PETSC_COMM_SELF,&B);CHKERRQ(ierr); 3556f69a0ea3SMatthew Knepley ierr = MatSetSizes(B,m,N,m,N);CHKERRQ(ierr); 3557f204ca49SKris Buschelman ierr = MatSetType(B,MATSEQAIJ);CHKERRQ(ierr); 3558f204ca49SKris Buschelman ierr = MatSeqAIJSetPreallocation(B,0,PETSC_NULL);CHKERRQ(ierr); 3559c5d6d63eSBarry Smith ierr = MatGetOwnershipRange(A,&rstart,0);CHKERRQ(ierr); 3560c5d6d63eSBarry Smith for (i=0;i<m;i++) { 3561c5d6d63eSBarry Smith ierr = MatGetRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 3562c5d6d63eSBarry Smith ierr = MatSetValues(B,1,&i,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 3563c5d6d63eSBarry Smith ierr = MatRestoreRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 3564c5d6d63eSBarry Smith } 3565c5d6d63eSBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3566c5d6d63eSBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3567c5d6d63eSBarry Smith 35687adad957SLisandro Dalcin ierr = MPI_Comm_rank(((PetscObject)A)->comm,&rank);CHKERRQ(ierr); 3569c5d6d63eSBarry Smith ierr = PetscStrlen(outfile,&len);CHKERRQ(ierr); 3570c5d6d63eSBarry Smith ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr); 3571c5d6d63eSBarry Smith sprintf(name,"%s.%d",outfile,rank); 3572852598b0SBarry Smith ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,FILE_MODE_APPEND,&out);CHKERRQ(ierr); 3573c5d6d63eSBarry Smith ierr = PetscFree(name); 3574c5d6d63eSBarry Smith ierr = MatView(B,out);CHKERRQ(ierr); 3575c5d6d63eSBarry Smith ierr = PetscViewerDestroy(out);CHKERRQ(ierr); 3576c5d6d63eSBarry Smith ierr = MatDestroy(B);CHKERRQ(ierr); 3577c5d6d63eSBarry Smith PetscFunctionReturn(0); 3578c5d6d63eSBarry Smith } 3579e5f2cdd8SHong Zhang 358051a7d1a8SHong Zhang EXTERN PetscErrorCode MatDestroy_MPIAIJ(Mat); 358151a7d1a8SHong Zhang #undef __FUNCT__ 358251a7d1a8SHong Zhang #define __FUNCT__ "MatDestroy_MPIAIJ_SeqsToMPI" 3583be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatDestroy_MPIAIJ_SeqsToMPI(Mat A) 358451a7d1a8SHong Zhang { 358551a7d1a8SHong Zhang PetscErrorCode ierr; 3586671beff6SHong Zhang Mat_Merge_SeqsToMPI *merge; 3587776b82aeSLisandro Dalcin PetscContainer container; 358851a7d1a8SHong Zhang 358951a7d1a8SHong Zhang PetscFunctionBegin; 3590671beff6SHong Zhang ierr = PetscObjectQuery((PetscObject)A,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 3591671beff6SHong Zhang if (container) { 3592776b82aeSLisandro Dalcin ierr = PetscContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 359351a7d1a8SHong Zhang ierr = PetscFree(merge->id_r);CHKERRQ(ierr); 35943e06a4e6SHong Zhang ierr = PetscFree(merge->len_s);CHKERRQ(ierr); 35953e06a4e6SHong Zhang ierr = PetscFree(merge->len_r);CHKERRQ(ierr); 359651a7d1a8SHong Zhang ierr = PetscFree(merge->bi);CHKERRQ(ierr); 359751a7d1a8SHong Zhang ierr = PetscFree(merge->bj);CHKERRQ(ierr); 359802c68681SHong Zhang ierr = PetscFree(merge->buf_ri);CHKERRQ(ierr); 359902c68681SHong Zhang ierr = PetscFree(merge->buf_rj);CHKERRQ(ierr); 360005b42c5fSBarry Smith ierr = PetscFree(merge->coi);CHKERRQ(ierr); 360105b42c5fSBarry Smith ierr = PetscFree(merge->coj);CHKERRQ(ierr); 360205b42c5fSBarry Smith ierr = PetscFree(merge->owners_co);CHKERRQ(ierr); 36032c72b5baSSatish Balay ierr = PetscFree(merge->rowmap.range);CHKERRQ(ierr); 3604671beff6SHong Zhang 3605776b82aeSLisandro Dalcin ierr = PetscContainerDestroy(container);CHKERRQ(ierr); 3606671beff6SHong Zhang ierr = PetscObjectCompose((PetscObject)A,"MatMergeSeqsToMPI",0);CHKERRQ(ierr); 3607671beff6SHong Zhang } 360851a7d1a8SHong Zhang ierr = PetscFree(merge);CHKERRQ(ierr); 360951a7d1a8SHong Zhang 361051a7d1a8SHong Zhang ierr = MatDestroy_MPIAIJ(A);CHKERRQ(ierr); 361151a7d1a8SHong Zhang PetscFunctionReturn(0); 361251a7d1a8SHong Zhang } 361351a7d1a8SHong Zhang 361458cb9c82SHong Zhang #include "src/mat/utils/freespace.h" 3615be0fcf8dSHong Zhang #include "petscbt.h" 36164ebed01fSBarry Smith 3617e5f2cdd8SHong Zhang #undef __FUNCT__ 361838f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPINumeric" 3619e5f2cdd8SHong Zhang /*@C 3620f08fae4eSHong Zhang MatMerge_SeqsToMPI - Creates a MPIAIJ matrix by adding sequential 3621e5f2cdd8SHong Zhang matrices from each processor 3622e5f2cdd8SHong Zhang 3623e5f2cdd8SHong Zhang Collective on MPI_Comm 3624e5f2cdd8SHong Zhang 3625e5f2cdd8SHong Zhang Input Parameters: 3626e5f2cdd8SHong Zhang + comm - the communicators the parallel matrix will live on 3627f08fae4eSHong Zhang . seqmat - the input sequential matrices 36280e36024fSHong Zhang . m - number of local rows (or PETSC_DECIDE) 36290e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 3630e5f2cdd8SHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 3631e5f2cdd8SHong Zhang 3632e5f2cdd8SHong Zhang Output Parameter: 3633f08fae4eSHong Zhang . mpimat - the parallel matrix generated 3634e5f2cdd8SHong Zhang 3635e5f2cdd8SHong Zhang Level: advanced 3636e5f2cdd8SHong Zhang 3637affca5deSHong Zhang Notes: 3638affca5deSHong Zhang The dimensions of the sequential matrix in each processor MUST be the same. 3639affca5deSHong Zhang The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be 3640affca5deSHong Zhang destroyed when mpimat is destroyed. Call PetscObjectQuery() to access seqmat. 3641e5f2cdd8SHong Zhang @*/ 3642be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPINumeric(Mat seqmat,Mat mpimat) 364355d1abb9SHong Zhang { 364455d1abb9SHong Zhang PetscErrorCode ierr; 36457adad957SLisandro Dalcin MPI_Comm comm=((PetscObject)mpimat)->comm; 364655d1abb9SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 3647b1d57f15SBarry Smith PetscMPIInt size,rank,taga,*len_s; 3648899cda47SBarry Smith PetscInt N=mpimat->cmap.N,i,j,*owners,*ai=a->i,*aj=a->j; 3649b1d57f15SBarry Smith PetscInt proc,m; 3650b1d57f15SBarry Smith PetscInt **buf_ri,**buf_rj; 3651b1d57f15SBarry Smith PetscInt k,anzi,*bj_i,*bi,*bj,arow,bnzi,nextaj; 3652b1d57f15SBarry Smith PetscInt nrows,**buf_ri_k,**nextrow,**nextai; 365355d1abb9SHong Zhang MPI_Request *s_waits,*r_waits; 365455d1abb9SHong Zhang MPI_Status *status; 3655ce805ee4SHong Zhang MatScalar *aa=a->a,**abuf_r,*ba_i; 365655d1abb9SHong Zhang Mat_Merge_SeqsToMPI *merge; 3657776b82aeSLisandro Dalcin PetscContainer container; 365855d1abb9SHong Zhang 365955d1abb9SHong Zhang PetscFunctionBegin; 36604ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_Seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 36613c2c1871SHong Zhang 366255d1abb9SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 366355d1abb9SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 366455d1abb9SHong Zhang 366555d1abb9SHong Zhang ierr = PetscObjectQuery((PetscObject)mpimat,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 366655d1abb9SHong Zhang if (container) { 3667776b82aeSLisandro Dalcin ierr = PetscContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 366855d1abb9SHong Zhang } 366955d1abb9SHong Zhang bi = merge->bi; 367055d1abb9SHong Zhang bj = merge->bj; 367155d1abb9SHong Zhang buf_ri = merge->buf_ri; 367255d1abb9SHong Zhang buf_rj = merge->buf_rj; 367355d1abb9SHong Zhang 367455d1abb9SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 3675357abbc8SBarry Smith owners = merge->rowmap.range; 367655d1abb9SHong Zhang len_s = merge->len_s; 367755d1abb9SHong Zhang 367855d1abb9SHong Zhang /* send and recv matrix values */ 367955d1abb9SHong Zhang /*-----------------------------*/ 3680357abbc8SBarry Smith ierr = PetscObjectGetNewTag((PetscObject)mpimat,&taga);CHKERRQ(ierr); 368155d1abb9SHong Zhang ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr); 368255d1abb9SHong Zhang 368355d1abb9SHong Zhang ierr = PetscMalloc((merge->nsend+1)*sizeof(MPI_Request),&s_waits);CHKERRQ(ierr); 368455d1abb9SHong Zhang for (proc=0,k=0; proc<size; proc++){ 368555d1abb9SHong Zhang if (!len_s[proc]) continue; 368655d1abb9SHong Zhang i = owners[proc]; 368755d1abb9SHong Zhang ierr = MPI_Isend(aa+ai[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRQ(ierr); 368855d1abb9SHong Zhang k++; 368955d1abb9SHong Zhang } 369055d1abb9SHong Zhang 36910c468ba9SBarry Smith if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRQ(ierr);} 36920c468ba9SBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRQ(ierr);} 369355d1abb9SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 369455d1abb9SHong Zhang 369555d1abb9SHong Zhang ierr = PetscFree(s_waits);CHKERRQ(ierr); 369655d1abb9SHong Zhang ierr = PetscFree(r_waits);CHKERRQ(ierr); 369755d1abb9SHong Zhang 369855d1abb9SHong Zhang /* insert mat values of mpimat */ 369955d1abb9SHong Zhang /*----------------------------*/ 370055d1abb9SHong Zhang ierr = PetscMalloc(N*sizeof(MatScalar),&ba_i);CHKERRQ(ierr); 3701b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 370255d1abb9SHong Zhang nextrow = buf_ri_k + merge->nrecv; 370355d1abb9SHong Zhang nextai = nextrow + merge->nrecv; 370455d1abb9SHong Zhang 370555d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ 370655d1abb9SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 370755d1abb9SHong Zhang nrows = *(buf_ri_k[k]); 370855d1abb9SHong Zhang nextrow[k] = buf_ri_k[k]+1; /* next row number of k-th recved i-structure */ 370955d1abb9SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 371055d1abb9SHong Zhang } 371155d1abb9SHong Zhang 371255d1abb9SHong Zhang /* set values of ba */ 3713357abbc8SBarry Smith m = merge->rowmap.n; 371455d1abb9SHong Zhang for (i=0; i<m; i++) { 371555d1abb9SHong Zhang arow = owners[rank] + i; 371655d1abb9SHong Zhang bj_i = bj+bi[i]; /* col indices of the i-th row of mpimat */ 371755d1abb9SHong Zhang bnzi = bi[i+1] - bi[i]; 371855d1abb9SHong Zhang ierr = PetscMemzero(ba_i,bnzi*sizeof(MatScalar));CHKERRQ(ierr); 371955d1abb9SHong Zhang 372055d1abb9SHong Zhang /* add local non-zero vals of this proc's seqmat into ba */ 372155d1abb9SHong Zhang anzi = ai[arow+1] - ai[arow]; 372255d1abb9SHong Zhang aj = a->j + ai[arow]; 372355d1abb9SHong Zhang aa = a->a + ai[arow]; 372455d1abb9SHong Zhang nextaj = 0; 372555d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 372655d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 372755d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 372855d1abb9SHong Zhang } 372955d1abb9SHong Zhang } 373055d1abb9SHong Zhang 373155d1abb9SHong Zhang /* add received vals into ba */ 373255d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 373355d1abb9SHong Zhang /* i-th row */ 373455d1abb9SHong Zhang if (i == *nextrow[k]) { 373555d1abb9SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 373655d1abb9SHong Zhang aj = buf_rj[k] + *(nextai[k]); 373755d1abb9SHong Zhang aa = abuf_r[k] + *(nextai[k]); 373855d1abb9SHong Zhang nextaj = 0; 373955d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 374055d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 374155d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 374255d1abb9SHong Zhang } 374355d1abb9SHong Zhang } 374455d1abb9SHong Zhang nextrow[k]++; nextai[k]++; 374555d1abb9SHong Zhang } 374655d1abb9SHong Zhang } 374755d1abb9SHong Zhang ierr = MatSetValues(mpimat,1,&arow,bnzi,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr); 374855d1abb9SHong Zhang } 374955d1abb9SHong Zhang ierr = MatAssemblyBegin(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 375055d1abb9SHong Zhang ierr = MatAssemblyEnd(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 375155d1abb9SHong Zhang 375255d1abb9SHong Zhang ierr = PetscFree(abuf_r);CHKERRQ(ierr); 375355d1abb9SHong Zhang ierr = PetscFree(ba_i);CHKERRQ(ierr); 375455d1abb9SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 37554ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_Seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 375655d1abb9SHong Zhang PetscFunctionReturn(0); 375755d1abb9SHong Zhang } 375838f152feSBarry Smith 375938f152feSBarry Smith #undef __FUNCT__ 376038f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPISymbolic" 3761be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPISymbolic(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,Mat *mpimat) 3762e5f2cdd8SHong Zhang { 3763f08fae4eSHong Zhang PetscErrorCode ierr; 376455a3bba9SHong Zhang Mat B_mpi; 3765c2234fe3SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 3766b1d57f15SBarry Smith PetscMPIInt size,rank,tagi,tagj,*len_s,*len_si,*len_ri; 3767b1d57f15SBarry Smith PetscInt **buf_rj,**buf_ri,**buf_ri_k; 3768899cda47SBarry Smith PetscInt M=seqmat->rmap.n,N=seqmat->cmap.n,i,*owners,*ai=a->i,*aj=a->j; 3769b1d57f15SBarry Smith PetscInt len,proc,*dnz,*onz; 3770b1d57f15SBarry Smith PetscInt k,anzi,*bi,*bj,*lnk,nlnk,arow,bnzi,nspacedouble=0; 3771b1d57f15SBarry Smith PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextai; 377255d1abb9SHong Zhang MPI_Request *si_waits,*sj_waits,*ri_waits,*rj_waits; 377358cb9c82SHong Zhang MPI_Status *status; 3774a1a86e44SBarry Smith PetscFreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 3775be0fcf8dSHong Zhang PetscBT lnkbt; 377651a7d1a8SHong Zhang Mat_Merge_SeqsToMPI *merge; 3777776b82aeSLisandro Dalcin PetscContainer container; 377802c68681SHong Zhang 3779e5f2cdd8SHong Zhang PetscFunctionBegin; 37804ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_Seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 37813c2c1871SHong Zhang 378238f152feSBarry Smith /* make sure it is a PETSc comm */ 378338f152feSBarry Smith ierr = PetscCommDuplicate(comm,&comm,PETSC_NULL);CHKERRQ(ierr); 3784e5f2cdd8SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3785e5f2cdd8SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 378655d1abb9SHong Zhang 378751a7d1a8SHong Zhang ierr = PetscNew(Mat_Merge_SeqsToMPI,&merge);CHKERRQ(ierr); 3788c2234fe3SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 3789e5f2cdd8SHong Zhang 37906abd8857SHong Zhang /* determine row ownership */ 3791f08fae4eSHong Zhang /*---------------------------------------------------------*/ 3792b167c4dbSHong Zhang ierr = PetscMapInitialize(comm,&merge->rowmap);CHKERRQ(ierr); 3793899cda47SBarry Smith merge->rowmap.n = m; 3794899cda47SBarry Smith merge->rowmap.N = M; 3795fc42d0c8SSatish Balay merge->rowmap.bs = 1; 37966148ca0dSBarry Smith ierr = PetscMapSetUp(&merge->rowmap);CHKERRQ(ierr); 3797b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&len_si);CHKERRQ(ierr); 3798b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&merge->len_s);CHKERRQ(ierr); 379955d1abb9SHong Zhang 3800357abbc8SBarry Smith m = merge->rowmap.n; 3801357abbc8SBarry Smith M = merge->rowmap.N; 3802357abbc8SBarry Smith owners = merge->rowmap.range; 38036abd8857SHong Zhang 38046abd8857SHong Zhang /* determine the number of messages to send, their lengths */ 38056abd8857SHong Zhang /*---------------------------------------------------------*/ 38063e06a4e6SHong Zhang len_s = merge->len_s; 380751a7d1a8SHong Zhang 38082257cef7SHong Zhang len = 0; /* length of buf_si[] */ 3809c2234fe3SHong Zhang merge->nsend = 0; 3810409913e3SHong Zhang for (proc=0; proc<size; proc++){ 38112257cef7SHong Zhang len_si[proc] = 0; 38123e06a4e6SHong Zhang if (proc == rank){ 38136abd8857SHong Zhang len_s[proc] = 0; 38143e06a4e6SHong Zhang } else { 381502c68681SHong Zhang len_si[proc] = owners[proc+1] - owners[proc] + 1; 38163e06a4e6SHong Zhang len_s[proc] = ai[owners[proc+1]] - ai[owners[proc]]; /* num of rows to be sent to [proc] */ 38173e06a4e6SHong Zhang } 38183e06a4e6SHong Zhang if (len_s[proc]) { 3819c2234fe3SHong Zhang merge->nsend++; 38202257cef7SHong Zhang nrows = 0; 38212257cef7SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 38222257cef7SHong Zhang if (ai[i+1] > ai[i]) nrows++; 38232257cef7SHong Zhang } 38242257cef7SHong Zhang len_si[proc] = 2*(nrows+1); 38252257cef7SHong Zhang len += len_si[proc]; 3826409913e3SHong Zhang } 382758cb9c82SHong Zhang } 3828409913e3SHong Zhang 38292257cef7SHong Zhang /* determine the number and length of messages to receive for ij-structure */ 38302257cef7SHong Zhang /*-------------------------------------------------------------------------*/ 383151a7d1a8SHong Zhang ierr = PetscGatherNumberOfMessages(comm,PETSC_NULL,len_s,&merge->nrecv);CHKERRQ(ierr); 383255d1abb9SHong Zhang ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr); 3833671beff6SHong Zhang 38343e06a4e6SHong Zhang /* post the Irecv of j-structure */ 38353e06a4e6SHong Zhang /*-------------------------------*/ 38362c72b5baSSatish Balay ierr = PetscCommGetNewTag(comm,&tagj);CHKERRQ(ierr); 38373e06a4e6SHong Zhang ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rj_waits);CHKERRQ(ierr); 383802c68681SHong Zhang 38393e06a4e6SHong Zhang /* post the Isend of j-structure */ 3840affca5deSHong Zhang /*--------------------------------*/ 38412257cef7SHong Zhang ierr = PetscMalloc((2*merge->nsend+1)*sizeof(MPI_Request),&si_waits);CHKERRQ(ierr); 384202c68681SHong Zhang sj_waits = si_waits + merge->nsend; 38433e06a4e6SHong Zhang 38442257cef7SHong Zhang for (proc=0, k=0; proc<size; proc++){ 3845409913e3SHong Zhang if (!len_s[proc]) continue; 384602c68681SHong Zhang i = owners[proc]; 3847b1d57f15SBarry Smith ierr = MPI_Isend(aj+ai[i],len_s[proc],MPIU_INT,proc,tagj,comm,sj_waits+k);CHKERRQ(ierr); 384851a7d1a8SHong Zhang k++; 384951a7d1a8SHong Zhang } 385051a7d1a8SHong Zhang 38513e06a4e6SHong Zhang /* receives and sends of j-structure are complete */ 38523e06a4e6SHong Zhang /*------------------------------------------------*/ 38530c468ba9SBarry Smith if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,rj_waits,status);CHKERRQ(ierr);} 38540c468ba9SBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,sj_waits,status);CHKERRQ(ierr);} 385502c68681SHong Zhang 385602c68681SHong Zhang /* send and recv i-structure */ 385702c68681SHong Zhang /*---------------------------*/ 38582c72b5baSSatish Balay ierr = PetscCommGetNewTag(comm,&tagi);CHKERRQ(ierr); 385902c68681SHong Zhang ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&ri_waits);CHKERRQ(ierr); 386002c68681SHong Zhang 3861b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&buf_s);CHKERRQ(ierr); 38623e06a4e6SHong Zhang buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 38632257cef7SHong Zhang for (proc=0,k=0; proc<size; proc++){ 386402c68681SHong Zhang if (!len_s[proc]) continue; 38653e06a4e6SHong Zhang /* form outgoing message for i-structure: 38663e06a4e6SHong Zhang buf_si[0]: nrows to be sent 38673e06a4e6SHong Zhang [1:nrows]: row index (global) 38683e06a4e6SHong Zhang [nrows+1:2*nrows+1]: i-structure index 38693e06a4e6SHong Zhang */ 38703e06a4e6SHong Zhang /*-------------------------------------------*/ 38712257cef7SHong Zhang nrows = len_si[proc]/2 - 1; 38723e06a4e6SHong Zhang buf_si_i = buf_si + nrows+1; 38733e06a4e6SHong Zhang buf_si[0] = nrows; 38743e06a4e6SHong Zhang buf_si_i[0] = 0; 38753e06a4e6SHong Zhang nrows = 0; 38763e06a4e6SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 38773e06a4e6SHong Zhang anzi = ai[i+1] - ai[i]; 38783e06a4e6SHong Zhang if (anzi) { 38793e06a4e6SHong Zhang buf_si_i[nrows+1] = buf_si_i[nrows] + anzi; /* i-structure */ 38803e06a4e6SHong Zhang buf_si[nrows+1] = i-owners[proc]; /* local row index */ 38813e06a4e6SHong Zhang nrows++; 38823e06a4e6SHong Zhang } 38833e06a4e6SHong Zhang } 3884b1d57f15SBarry Smith ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,si_waits+k);CHKERRQ(ierr); 388502c68681SHong Zhang k++; 38862257cef7SHong Zhang buf_si += len_si[proc]; 388702c68681SHong Zhang } 38882257cef7SHong Zhang 38890c468ba9SBarry Smith if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,ri_waits,status);CHKERRQ(ierr);} 38900c468ba9SBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,si_waits,status);CHKERRQ(ierr);} 389102c68681SHong Zhang 3892ae15b995SBarry Smith ierr = PetscInfo2(seqmat,"nsend: %D, nrecv: %D\n",merge->nsend,merge->nrecv);CHKERRQ(ierr); 38933e06a4e6SHong Zhang for (i=0; i<merge->nrecv; i++){ 3894ae15b995SBarry 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); 38953e06a4e6SHong Zhang } 38963e06a4e6SHong Zhang 38973e06a4e6SHong Zhang ierr = PetscFree(len_si);CHKERRQ(ierr); 389802c68681SHong Zhang ierr = PetscFree(len_ri);CHKERRQ(ierr); 389902c68681SHong Zhang ierr = PetscFree(rj_waits);CHKERRQ(ierr); 39003e06a4e6SHong Zhang ierr = PetscFree(si_waits);CHKERRQ(ierr); 39012257cef7SHong Zhang ierr = PetscFree(ri_waits);CHKERRQ(ierr); 39023e06a4e6SHong Zhang ierr = PetscFree(buf_s);CHKERRQ(ierr); 3903bcc1bcd5SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 390458cb9c82SHong Zhang 3905bcc1bcd5SHong Zhang /* compute a local seq matrix in each processor */ 3906bcc1bcd5SHong Zhang /*----------------------------------------------*/ 390758cb9c82SHong Zhang /* allocate bi array and free space for accumulating nonzero column info */ 3908b1d57f15SBarry Smith ierr = PetscMalloc((m+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr); 390958cb9c82SHong Zhang bi[0] = 0; 391058cb9c82SHong Zhang 3911be0fcf8dSHong Zhang /* create and initialize a linked list */ 3912be0fcf8dSHong Zhang nlnk = N+1; 3913be0fcf8dSHong Zhang ierr = PetscLLCreate(N,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 391458cb9c82SHong Zhang 3915bcc1bcd5SHong Zhang /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */ 391658cb9c82SHong Zhang len = 0; 3917bcc1bcd5SHong Zhang len = ai[owners[rank+1]] - ai[owners[rank]]; 3918a1a86e44SBarry Smith ierr = PetscFreeSpaceGet((PetscInt)(2*len+1),&free_space);CHKERRQ(ierr); 391958cb9c82SHong Zhang current_space = free_space; 392058cb9c82SHong Zhang 3921bcc1bcd5SHong Zhang /* determine symbolic info for each local row */ 3922b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 39233e06a4e6SHong Zhang nextrow = buf_ri_k + merge->nrecv; 39243e06a4e6SHong Zhang nextai = nextrow + merge->nrecv; 39253e06a4e6SHong Zhang for (k=0; k<merge->nrecv; k++){ 39262257cef7SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 39273e06a4e6SHong Zhang nrows = *buf_ri_k[k]; 39283e06a4e6SHong Zhang nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 39292257cef7SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 39303e06a4e6SHong Zhang } 39312257cef7SHong Zhang 3932bcc1bcd5SHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 3933bcc1bcd5SHong Zhang len = 0; 393458cb9c82SHong Zhang for (i=0;i<m;i++) { 393558cb9c82SHong Zhang bnzi = 0; 393658cb9c82SHong Zhang /* add local non-zero cols of this proc's seqmat into lnk */ 393758cb9c82SHong Zhang arow = owners[rank] + i; 393858cb9c82SHong Zhang anzi = ai[arow+1] - ai[arow]; 393958cb9c82SHong Zhang aj = a->j + ai[arow]; 3940be0fcf8dSHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 394158cb9c82SHong Zhang bnzi += nlnk; 394258cb9c82SHong Zhang /* add received col data into lnk */ 394351a7d1a8SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 394455d1abb9SHong Zhang if (i == *nextrow[k]) { /* i-th row */ 39453e06a4e6SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 39463e06a4e6SHong Zhang aj = buf_rj[k] + *nextai[k]; 39473e06a4e6SHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 39483e06a4e6SHong Zhang bnzi += nlnk; 39493e06a4e6SHong Zhang nextrow[k]++; nextai[k]++; 39503e06a4e6SHong Zhang } 395158cb9c82SHong Zhang } 3952bcc1bcd5SHong Zhang if (len < bnzi) len = bnzi; /* =max(bnzi) */ 395358cb9c82SHong Zhang 395458cb9c82SHong Zhang /* if free space is not available, make more free space */ 395558cb9c82SHong Zhang if (current_space->local_remaining<bnzi) { 3956a1a86e44SBarry Smith ierr = PetscFreeSpaceGet(current_space->total_array_size,¤t_space);CHKERRQ(ierr); 395758cb9c82SHong Zhang nspacedouble++; 395858cb9c82SHong Zhang } 395958cb9c82SHong Zhang /* copy data into free space, then initialize lnk */ 3960be0fcf8dSHong Zhang ierr = PetscLLClean(N,N,bnzi,lnk,current_space->array,lnkbt);CHKERRQ(ierr); 3961bcc1bcd5SHong Zhang ierr = MatPreallocateSet(i+owners[rank],bnzi,current_space->array,dnz,onz);CHKERRQ(ierr); 3962bcc1bcd5SHong Zhang 396358cb9c82SHong Zhang current_space->array += bnzi; 396458cb9c82SHong Zhang current_space->local_used += bnzi; 396558cb9c82SHong Zhang current_space->local_remaining -= bnzi; 396658cb9c82SHong Zhang 396758cb9c82SHong Zhang bi[i+1] = bi[i] + bnzi; 396858cb9c82SHong Zhang } 3969bcc1bcd5SHong Zhang 3970bcc1bcd5SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 3971bcc1bcd5SHong Zhang 3972b1d57f15SBarry Smith ierr = PetscMalloc((bi[m]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr); 3973a1a86e44SBarry Smith ierr = PetscFreeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 3974be0fcf8dSHong Zhang ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 3975409913e3SHong Zhang 3976bcc1bcd5SHong Zhang /* create symbolic parallel matrix B_mpi */ 3977bcc1bcd5SHong Zhang /*---------------------------------------*/ 3978f69a0ea3SMatthew Knepley ierr = MatCreate(comm,&B_mpi);CHKERRQ(ierr); 397954b84b50SHong Zhang if (n==PETSC_DECIDE) { 3980f69a0ea3SMatthew Knepley ierr = MatSetSizes(B_mpi,m,n,PETSC_DETERMINE,N);CHKERRQ(ierr); 398154b84b50SHong Zhang } else { 3982f69a0ea3SMatthew Knepley ierr = MatSetSizes(B_mpi,m,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 398354b84b50SHong Zhang } 3984bcc1bcd5SHong Zhang ierr = MatSetType(B_mpi,MATMPIAIJ);CHKERRQ(ierr); 3985bcc1bcd5SHong Zhang ierr = MatMPIAIJSetPreallocation(B_mpi,0,dnz,0,onz);CHKERRQ(ierr); 3986bcc1bcd5SHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 398758cb9c82SHong Zhang 39886abd8857SHong Zhang /* B_mpi is not ready for use - assembly will be done by MatMerge_SeqsToMPINumeric() */ 39896abd8857SHong Zhang B_mpi->assembled = PETSC_FALSE; 3990affca5deSHong Zhang B_mpi->ops->destroy = MatDestroy_MPIAIJ_SeqsToMPI; 3991affca5deSHong Zhang merge->bi = bi; 3992affca5deSHong Zhang merge->bj = bj; 399302c68681SHong Zhang merge->buf_ri = buf_ri; 399402c68681SHong Zhang merge->buf_rj = buf_rj; 3995de0260b3SHong Zhang merge->coi = PETSC_NULL; 3996de0260b3SHong Zhang merge->coj = PETSC_NULL; 3997de0260b3SHong Zhang merge->owners_co = PETSC_NULL; 3998affca5deSHong Zhang 3999affca5deSHong Zhang /* attach the supporting struct to B_mpi for reuse */ 4000776b82aeSLisandro Dalcin ierr = PetscContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr); 4001776b82aeSLisandro Dalcin ierr = PetscContainerSetPointer(container,merge);CHKERRQ(ierr); 4002affca5deSHong Zhang ierr = PetscObjectCompose((PetscObject)B_mpi,"MatMergeSeqsToMPI",(PetscObject)container);CHKERRQ(ierr); 4003affca5deSHong Zhang *mpimat = B_mpi; 400438f152feSBarry Smith 400538f152feSBarry Smith ierr = PetscCommDestroy(&comm);CHKERRQ(ierr); 40064ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_Seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 4007e5f2cdd8SHong Zhang PetscFunctionReturn(0); 4008e5f2cdd8SHong Zhang } 400925616d81SHong Zhang 401038f152feSBarry Smith #undef __FUNCT__ 401138f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPI" 4012be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPI(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,MatReuse scall,Mat *mpimat) 401355d1abb9SHong Zhang { 401455d1abb9SHong Zhang PetscErrorCode ierr; 401555d1abb9SHong Zhang 401655d1abb9SHong Zhang PetscFunctionBegin; 40174ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_Seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 401855d1abb9SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 401955d1abb9SHong Zhang ierr = MatMerge_SeqsToMPISymbolic(comm,seqmat,m,n,mpimat);CHKERRQ(ierr); 402055d1abb9SHong Zhang } 402155d1abb9SHong Zhang ierr = MatMerge_SeqsToMPINumeric(seqmat,*mpimat);CHKERRQ(ierr); 40224ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_Seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 402355d1abb9SHong Zhang PetscFunctionReturn(0); 402455d1abb9SHong Zhang } 40254ebed01fSBarry Smith 402625616d81SHong Zhang #undef __FUNCT__ 402725616d81SHong Zhang #define __FUNCT__ "MatGetLocalMat" 4028bc08b0f1SBarry Smith /*@ 402932fba14fSHong Zhang MatGetLocalMat - Creates a SeqAIJ matrix by taking all its local rows 403025616d81SHong Zhang 403132fba14fSHong Zhang Not Collective 403225616d81SHong Zhang 403325616d81SHong Zhang Input Parameters: 403425616d81SHong Zhang + A - the matrix 403525616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 403625616d81SHong Zhang 403725616d81SHong Zhang Output Parameter: 403825616d81SHong Zhang . A_loc - the local sequential matrix generated 403925616d81SHong Zhang 404025616d81SHong Zhang Level: developer 404125616d81SHong Zhang 404225616d81SHong Zhang @*/ 4043be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetLocalMat(Mat A,MatReuse scall,Mat *A_loc) 404425616d81SHong Zhang { 404525616d81SHong Zhang PetscErrorCode ierr; 404601b7ae99SHong Zhang Mat_MPIAIJ *mpimat=(Mat_MPIAIJ*)A->data; 404701b7ae99SHong Zhang Mat_SeqAIJ *mat,*a=(Mat_SeqAIJ*)(mpimat->A)->data,*b=(Mat_SeqAIJ*)(mpimat->B)->data; 404801b7ae99SHong Zhang PetscInt *ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j,*cmap=mpimat->garray; 4049dea91ad1SHong Zhang PetscScalar *aa=a->a,*ba=b->a,*ca; 4050899cda47SBarry Smith PetscInt am=A->rmap.n,i,j,k,cstart=A->cmap.rstart; 40515a7d977cSHong Zhang PetscInt *ci,*cj,col,ncols_d,ncols_o,jo; 405225616d81SHong Zhang 405325616d81SHong Zhang PetscFunctionBegin; 40544ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_Getlocalmat,A,0,0,0);CHKERRQ(ierr); 405501b7ae99SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 4056dea91ad1SHong Zhang ierr = PetscMalloc((1+am)*sizeof(PetscInt),&ci);CHKERRQ(ierr); 4057dea91ad1SHong Zhang ci[0] = 0; 405801b7ae99SHong Zhang for (i=0; i<am; i++){ 4059dea91ad1SHong Zhang ci[i+1] = ci[i] + (ai[i+1] - ai[i]) + (bi[i+1] - bi[i]); 406001b7ae99SHong Zhang } 4061dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscInt),&cj);CHKERRQ(ierr); 4062dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscScalar),&ca);CHKERRQ(ierr); 4063dea91ad1SHong Zhang k = 0; 406401b7ae99SHong Zhang for (i=0; i<am; i++) { 40655a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 40665a7d977cSHong Zhang ncols_d = ai[i+1] - ai[i]; 406701b7ae99SHong Zhang /* off-diagonal portion of A */ 40685a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 40695a7d977cSHong Zhang col = cmap[*bj]; 40705a7d977cSHong Zhang if (col >= cstart) break; 40715a7d977cSHong Zhang cj[k] = col; bj++; 40725a7d977cSHong Zhang ca[k++] = *ba++; 40735a7d977cSHong Zhang } 40745a7d977cSHong Zhang /* diagonal portion of A */ 40755a7d977cSHong Zhang for (j=0; j<ncols_d; j++) { 40765a7d977cSHong Zhang cj[k] = cstart + *aj++; 40775a7d977cSHong Zhang ca[k++] = *aa++; 40785a7d977cSHong Zhang } 40795a7d977cSHong Zhang /* off-diagonal portion of A */ 40805a7d977cSHong Zhang for (j=jo; j<ncols_o; j++) { 40815a7d977cSHong Zhang cj[k] = cmap[*bj++]; 40825a7d977cSHong Zhang ca[k++] = *ba++; 40835a7d977cSHong Zhang } 408425616d81SHong Zhang } 4085dea91ad1SHong Zhang /* put together the new matrix */ 4086899cda47SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,am,A->cmap.N,ci,cj,ca,A_loc);CHKERRQ(ierr); 4087dea91ad1SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 4088dea91ad1SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 4089dea91ad1SHong Zhang mat = (Mat_SeqAIJ*)(*A_loc)->data; 4090e6b907acSBarry Smith mat->free_a = PETSC_TRUE; 4091e6b907acSBarry Smith mat->free_ij = PETSC_TRUE; 4092dea91ad1SHong Zhang mat->nonew = 0; 40935a7d977cSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 40945a7d977cSHong Zhang mat=(Mat_SeqAIJ*)(*A_loc)->data; 40955a7d977cSHong Zhang ci = mat->i; cj = mat->j; ca = mat->a; 40965a7d977cSHong Zhang for (i=0; i<am; i++) { 40975a7d977cSHong Zhang /* off-diagonal portion of A */ 40985a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 40995a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 41005a7d977cSHong Zhang col = cmap[*bj]; 41015a7d977cSHong Zhang if (col >= cstart) break; 4102f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 41035a7d977cSHong Zhang } 41045a7d977cSHong Zhang /* diagonal portion of A */ 4105ecc9b87dSHong Zhang ncols_d = ai[i+1] - ai[i]; 4106ecc9b87dSHong Zhang for (j=0; j<ncols_d; j++) *ca++ = *aa++; 41075a7d977cSHong Zhang /* off-diagonal portion of A */ 4108f33d1a9aSHong Zhang for (j=jo; j<ncols_o; j++) { 4109f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 4110f33d1a9aSHong Zhang } 41115a7d977cSHong Zhang } 41125a7d977cSHong Zhang } else { 41135a7d977cSHong Zhang SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 411425616d81SHong Zhang } 411501b7ae99SHong Zhang 41164ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_Getlocalmat,A,0,0,0);CHKERRQ(ierr); 411725616d81SHong Zhang PetscFunctionReturn(0); 411825616d81SHong Zhang } 411925616d81SHong Zhang 412032fba14fSHong Zhang #undef __FUNCT__ 412132fba14fSHong Zhang #define __FUNCT__ "MatGetLocalMatCondensed" 412232fba14fSHong Zhang /*@C 412332fba14fSHong Zhang MatGetLocalMatCondensed - Creates a SeqAIJ matrix by taking all its local rows and NON-ZERO columns 412432fba14fSHong Zhang 412532fba14fSHong Zhang Not Collective 412632fba14fSHong Zhang 412732fba14fSHong Zhang Input Parameters: 412832fba14fSHong Zhang + A - the matrix 412932fba14fSHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 413032fba14fSHong Zhang - row, col - index sets of rows and columns to extract (or PETSC_NULL) 413132fba14fSHong Zhang 413232fba14fSHong Zhang Output Parameter: 413332fba14fSHong Zhang . A_loc - the local sequential matrix generated 413432fba14fSHong Zhang 413532fba14fSHong Zhang Level: developer 413632fba14fSHong Zhang 413732fba14fSHong Zhang @*/ 4138be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetLocalMatCondensed(Mat A,MatReuse scall,IS *row,IS *col,Mat *A_loc) 413932fba14fSHong Zhang { 414032fba14fSHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 414132fba14fSHong Zhang PetscErrorCode ierr; 414232fba14fSHong Zhang PetscInt i,start,end,ncols,nzA,nzB,*cmap,imark,*idx; 414332fba14fSHong Zhang IS isrowa,iscola; 414432fba14fSHong Zhang Mat *aloc; 414532fba14fSHong Zhang 414632fba14fSHong Zhang PetscFunctionBegin; 41474ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_Getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 414832fba14fSHong Zhang if (!row){ 4149899cda47SBarry Smith start = A->rmap.rstart; end = A->rmap.rend; 415032fba14fSHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,end-start,start,1,&isrowa);CHKERRQ(ierr); 415132fba14fSHong Zhang } else { 415232fba14fSHong Zhang isrowa = *row; 415332fba14fSHong Zhang } 415432fba14fSHong Zhang if (!col){ 4155899cda47SBarry Smith start = A->cmap.rstart; 415632fba14fSHong Zhang cmap = a->garray; 4157899cda47SBarry Smith nzA = a->A->cmap.n; 4158899cda47SBarry Smith nzB = a->B->cmap.n; 415932fba14fSHong Zhang ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 416032fba14fSHong Zhang ncols = 0; 416132fba14fSHong Zhang for (i=0; i<nzB; i++) { 416232fba14fSHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 416332fba14fSHong Zhang else break; 416432fba14fSHong Zhang } 416532fba14fSHong Zhang imark = i; 416632fba14fSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; 416732fba14fSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; 416832fba14fSHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&iscola);CHKERRQ(ierr); 416932fba14fSHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 417032fba14fSHong Zhang } else { 417132fba14fSHong Zhang iscola = *col; 417232fba14fSHong Zhang } 417332fba14fSHong Zhang if (scall != MAT_INITIAL_MATRIX){ 417432fba14fSHong Zhang ierr = PetscMalloc(sizeof(Mat),&aloc);CHKERRQ(ierr); 417532fba14fSHong Zhang aloc[0] = *A_loc; 417632fba14fSHong Zhang } 417732fba14fSHong Zhang ierr = MatGetSubMatrices(A,1,&isrowa,&iscola,scall,&aloc);CHKERRQ(ierr); 417832fba14fSHong Zhang *A_loc = aloc[0]; 417932fba14fSHong Zhang ierr = PetscFree(aloc);CHKERRQ(ierr); 418032fba14fSHong Zhang if (!row){ 418132fba14fSHong Zhang ierr = ISDestroy(isrowa);CHKERRQ(ierr); 418232fba14fSHong Zhang } 418332fba14fSHong Zhang if (!col){ 418432fba14fSHong Zhang ierr = ISDestroy(iscola);CHKERRQ(ierr); 418532fba14fSHong Zhang } 41864ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_Getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 418732fba14fSHong Zhang PetscFunctionReturn(0); 418832fba14fSHong Zhang } 418932fba14fSHong Zhang 419025616d81SHong Zhang #undef __FUNCT__ 419125616d81SHong Zhang #define __FUNCT__ "MatGetBrowsOfAcols" 419225616d81SHong Zhang /*@C 419332fba14fSHong Zhang MatGetBrowsOfAcols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A 419425616d81SHong Zhang 419525616d81SHong Zhang Collective on Mat 419625616d81SHong Zhang 419725616d81SHong Zhang Input Parameters: 4198e240928fSHong Zhang + A,B - the matrices in mpiaij format 419925616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 420025616d81SHong Zhang - rowb, colb - index sets of rows and columns of B to extract (or PETSC_NULL) 420125616d81SHong Zhang 420225616d81SHong Zhang Output Parameter: 420325616d81SHong Zhang + rowb, colb - index sets of rows and columns of B to extract 4204899cda47SBarry Smith . brstart - row index of B_seq from which next B->rmap.n rows are taken from B's local rows 420525616d81SHong Zhang - B_seq - the sequential matrix generated 420625616d81SHong Zhang 420725616d81SHong Zhang Level: developer 420825616d81SHong Zhang 420925616d81SHong Zhang @*/ 4210be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetBrowsOfAcols(Mat A,Mat B,MatReuse scall,IS *rowb,IS *colb,PetscInt *brstart,Mat *B_seq) 421125616d81SHong Zhang { 4212899cda47SBarry Smith Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 421325616d81SHong Zhang PetscErrorCode ierr; 4214b1d57f15SBarry Smith PetscInt *idx,i,start,ncols,nzA,nzB,*cmap,imark; 421525616d81SHong Zhang IS isrowb,iscolb; 421625616d81SHong Zhang Mat *bseq; 421725616d81SHong Zhang 421825616d81SHong Zhang PetscFunctionBegin; 4219899cda47SBarry Smith if (A->cmap.rstart != B->rmap.rstart || A->cmap.rend != B->rmap.rend){ 4220899cda47SBarry 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); 422125616d81SHong Zhang } 42224ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 422325616d81SHong Zhang 422425616d81SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 4225899cda47SBarry Smith start = A->cmap.rstart; 422625616d81SHong Zhang cmap = a->garray; 4227899cda47SBarry Smith nzA = a->A->cmap.n; 4228899cda47SBarry Smith nzB = a->B->cmap.n; 4229b1d57f15SBarry Smith ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 423025616d81SHong Zhang ncols = 0; 42310390132cSHong Zhang for (i=0; i<nzB; i++) { /* row < local row index */ 423225616d81SHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 423325616d81SHong Zhang else break; 423425616d81SHong Zhang } 423525616d81SHong Zhang imark = i; 42360390132cSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; /* local rows */ 42370390132cSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */ 423825616d81SHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&isrowb);CHKERRQ(ierr); 423925616d81SHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 424025616d81SHong Zhang *brstart = imark; 4241899cda47SBarry Smith ierr = ISCreateStride(PETSC_COMM_SELF,B->cmap.N,0,1,&iscolb);CHKERRQ(ierr); 424225616d81SHong Zhang } else { 424325616d81SHong Zhang if (!rowb || !colb) SETERRQ(PETSC_ERR_SUP,"IS rowb and colb must be provided for MAT_REUSE_MATRIX"); 424425616d81SHong Zhang isrowb = *rowb; iscolb = *colb; 424525616d81SHong Zhang ierr = PetscMalloc(sizeof(Mat),&bseq);CHKERRQ(ierr); 424625616d81SHong Zhang bseq[0] = *B_seq; 424725616d81SHong Zhang } 424825616d81SHong Zhang ierr = MatGetSubMatrices(B,1,&isrowb,&iscolb,scall,&bseq);CHKERRQ(ierr); 424925616d81SHong Zhang *B_seq = bseq[0]; 425025616d81SHong Zhang ierr = PetscFree(bseq);CHKERRQ(ierr); 425125616d81SHong Zhang if (!rowb){ 425225616d81SHong Zhang ierr = ISDestroy(isrowb);CHKERRQ(ierr); 425325616d81SHong Zhang } else { 425425616d81SHong Zhang *rowb = isrowb; 425525616d81SHong Zhang } 425625616d81SHong Zhang if (!colb){ 425725616d81SHong Zhang ierr = ISDestroy(iscolb);CHKERRQ(ierr); 425825616d81SHong Zhang } else { 425925616d81SHong Zhang *colb = iscolb; 426025616d81SHong Zhang } 42614ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 426225616d81SHong Zhang PetscFunctionReturn(0); 426325616d81SHong Zhang } 4264429d309bSHong Zhang 4265a61c8c0fSHong Zhang #undef __FUNCT__ 4266a61c8c0fSHong Zhang #define __FUNCT__ "MatGetBrowsOfAoCols" 4267429d309bSHong Zhang /*@C 4268429d309bSHong Zhang MatGetBrowsOfAoCols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns 426901b7ae99SHong Zhang of the OFF-DIAGONAL portion of local A 4270429d309bSHong Zhang 4271429d309bSHong Zhang Collective on Mat 4272429d309bSHong Zhang 4273429d309bSHong Zhang Input Parameters: 4274429d309bSHong Zhang + A,B - the matrices in mpiaij format 427587025532SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 427687025532SHong Zhang . startsj - starting point in B's sending and receiving j-arrays, saved for MAT_REUSE (or PETSC_NULL) 427787025532SHong Zhang - bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or PETSC_NULL) 4278429d309bSHong Zhang 4279429d309bSHong Zhang Output Parameter: 428087025532SHong Zhang + B_oth - the sequential matrix generated 4281429d309bSHong Zhang 4282429d309bSHong Zhang Level: developer 4283429d309bSHong Zhang 4284429d309bSHong Zhang @*/ 4285be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetBrowsOfAoCols(Mat A,Mat B,MatReuse scall,PetscInt **startsj,PetscScalar **bufa_ptr,Mat *B_oth) 4286429d309bSHong Zhang { 4287a6b2eed2SHong Zhang VecScatter_MPI_General *gen_to,*gen_from; 4288429d309bSHong Zhang PetscErrorCode ierr; 4289899cda47SBarry Smith Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 429087025532SHong Zhang Mat_SeqAIJ *b_oth; 4291a6b2eed2SHong Zhang VecScatter ctx=a->Mvctx; 42927adad957SLisandro Dalcin MPI_Comm comm=((PetscObject)ctx)->comm; 42937adad957SLisandro Dalcin PetscMPIInt *rprocs,*sprocs,tag=((PetscObject)ctx)->tag,rank; 4294899cda47SBarry Smith PetscInt *rowlen,*bufj,*bufJ,ncols,aBn=a->B->cmap.n,row,*b_othi,*b_othj; 429587025532SHong Zhang PetscScalar *rvalues,*svalues,*b_otha,*bufa,*bufA; 4296e42f35eeSHong Zhang PetscInt i,j,k,l,ll,nrecvs,nsends,nrows,*srow,*rstarts,*rstartsj = 0,*sstarts,*sstartsj,len; 4297910ba992SMatthew Knepley MPI_Request *rwaits = PETSC_NULL,*swaits = PETSC_NULL; 429887025532SHong Zhang MPI_Status *sstatus,rstatus; 4299aa5bb8c0SSatish Balay PetscMPIInt jj; 4300e42f35eeSHong Zhang PetscInt *cols,sbs,rbs; 4301ba8c8a56SBarry Smith PetscScalar *vals; 4302429d309bSHong Zhang 4303429d309bSHong Zhang PetscFunctionBegin; 4304899cda47SBarry Smith if (A->cmap.rstart != B->rmap.rstart || A->cmap.rend != B->rmap.rend){ 4305899cda47SBarry 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); 4306429d309bSHong Zhang } 43074ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 4308a6b2eed2SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 4309a6b2eed2SHong Zhang 4310a6b2eed2SHong Zhang gen_to = (VecScatter_MPI_General*)ctx->todata; 4311a6b2eed2SHong Zhang gen_from = (VecScatter_MPI_General*)ctx->fromdata; 4312e42f35eeSHong Zhang rvalues = gen_from->values; /* holds the length of receiving row */ 4313e42f35eeSHong Zhang svalues = gen_to->values; /* holds the length of sending row */ 4314a6b2eed2SHong Zhang nrecvs = gen_from->n; 4315a6b2eed2SHong Zhang nsends = gen_to->n; 4316d7ee0231SBarry Smith 4317d7ee0231SBarry Smith ierr = PetscMalloc2(nrecvs,MPI_Request,&rwaits,nsends,MPI_Request,&swaits);CHKERRQ(ierr); 4318a6b2eed2SHong Zhang srow = gen_to->indices; /* local row index to be sent */ 4319a6b2eed2SHong Zhang sstarts = gen_to->starts; 4320a6b2eed2SHong Zhang sprocs = gen_to->procs; 4321a6b2eed2SHong Zhang sstatus = gen_to->sstatus; 4322e42f35eeSHong Zhang sbs = gen_to->bs; 4323e42f35eeSHong Zhang rstarts = gen_from->starts; 4324e42f35eeSHong Zhang rprocs = gen_from->procs; 4325e42f35eeSHong Zhang rbs = gen_from->bs; 4326429d309bSHong Zhang 4327dea91ad1SHong Zhang if (!startsj || !bufa_ptr) scall = MAT_INITIAL_MATRIX; 4328429d309bSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 4329a6b2eed2SHong Zhang /* i-array */ 4330a6b2eed2SHong Zhang /*---------*/ 4331a6b2eed2SHong Zhang /* post receives */ 4332a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 4333e42f35eeSHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]*rbs; 4334e42f35eeSHong Zhang nrows = (rstarts[i+1]-rstarts[i])*rbs; /* num of indices to be received */ 433587025532SHong Zhang ierr = MPI_Irecv(rowlen,nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 4336429d309bSHong Zhang } 4337a6b2eed2SHong Zhang 4338a6b2eed2SHong Zhang /* pack the outgoing message */ 433987025532SHong Zhang ierr = PetscMalloc((nsends+nrecvs+3)*sizeof(PetscInt),&sstartsj);CHKERRQ(ierr); 4340a6b2eed2SHong Zhang rstartsj = sstartsj + nsends +1; 4341a6b2eed2SHong Zhang sstartsj[0] = 0; rstartsj[0] = 0; 4342a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be sent */ 4343a6b2eed2SHong Zhang k = 0; 4344a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 4345e42f35eeSHong Zhang rowlen = (PetscInt*)svalues + sstarts[i]*sbs; 4346e42f35eeSHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of block rows */ 434787025532SHong Zhang for (j=0; j<nrows; j++) { 4348899cda47SBarry Smith row = srow[k] + B->rmap.range[rank]; /* global row idx */ 4349e42f35eeSHong Zhang for (l=0; l<sbs; l++){ 4350e42f35eeSHong Zhang ierr = MatGetRow_MPIAIJ(B,row+l,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); /* rowlength */ 4351e42f35eeSHong Zhang rowlen[j*sbs+l] = ncols; 4352e42f35eeSHong Zhang len += ncols; 4353e42f35eeSHong Zhang ierr = MatRestoreRow_MPIAIJ(B,row+l,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); 4354e42f35eeSHong Zhang } 4355a6b2eed2SHong Zhang k++; 4356429d309bSHong Zhang } 4357e42f35eeSHong Zhang ierr = MPI_Isend(rowlen,nrows*sbs,MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 4358dea91ad1SHong Zhang sstartsj[i+1] = len; /* starting point of (i+1)-th outgoing msg in bufj and bufa */ 4359429d309bSHong Zhang } 436087025532SHong Zhang /* recvs and sends of i-array are completed */ 436187025532SHong Zhang i = nrecvs; 436287025532SHong Zhang while (i--) { 4363aa5bb8c0SSatish Balay ierr = MPI_Waitany(nrecvs,rwaits,&jj,&rstatus);CHKERRQ(ierr); 436487025532SHong Zhang } 43650c468ba9SBarry Smith if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);} 4366e42f35eeSHong Zhang 4367a6b2eed2SHong Zhang /* allocate buffers for sending j and a arrays */ 4368a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscInt),&bufj);CHKERRQ(ierr); 4369a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscScalar),&bufa);CHKERRQ(ierr); 4370a6b2eed2SHong Zhang 437187025532SHong Zhang /* create i-array of B_oth */ 437287025532SHong Zhang ierr = PetscMalloc((aBn+2)*sizeof(PetscInt),&b_othi);CHKERRQ(ierr); 437387025532SHong Zhang b_othi[0] = 0; 4374a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be received */ 4375a6b2eed2SHong Zhang k = 0; 4376a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 4377fd0ff01cSHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]*rbs; 4378e42f35eeSHong Zhang nrows = rbs*(rstarts[i+1]-rstarts[i]); /* num of rows to be recieved */ 437987025532SHong Zhang for (j=0; j<nrows; j++) { 438087025532SHong Zhang b_othi[k+1] = b_othi[k] + rowlen[j]; 4381a6b2eed2SHong Zhang len += rowlen[j]; k++; 4382a6b2eed2SHong Zhang } 4383dea91ad1SHong Zhang rstartsj[i+1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */ 4384a6b2eed2SHong Zhang } 4385a6b2eed2SHong Zhang 438687025532SHong Zhang /* allocate space for j and a arrrays of B_oth */ 438787025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscInt),&b_othj);CHKERRQ(ierr); 438887025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscScalar),&b_otha);CHKERRQ(ierr); 4389a6b2eed2SHong Zhang 439087025532SHong Zhang /* j-array */ 439187025532SHong Zhang /*---------*/ 4392a6b2eed2SHong Zhang /* post receives of j-array */ 4393a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 439487025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 439587025532SHong Zhang ierr = MPI_Irecv(b_othj+rstartsj[i],nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 4396a6b2eed2SHong Zhang } 4397e42f35eeSHong Zhang 4398e42f35eeSHong Zhang /* pack the outgoing message j-array */ 4399a6b2eed2SHong Zhang k = 0; 4400a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 4401e42f35eeSHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of block rows */ 4402a6b2eed2SHong Zhang bufJ = bufj+sstartsj[i]; 440387025532SHong Zhang for (j=0; j<nrows; j++) { 4404899cda47SBarry Smith row = srow[k++] + B->rmap.range[rank]; /* global row idx */ 4405e42f35eeSHong Zhang for (ll=0; ll<sbs; ll++){ 4406e42f35eeSHong Zhang ierr = MatGetRow_MPIAIJ(B,row+ll,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 4407a6b2eed2SHong Zhang for (l=0; l<ncols; l++){ 4408a6b2eed2SHong Zhang *bufJ++ = cols[l]; 440987025532SHong Zhang } 4410e42f35eeSHong Zhang ierr = MatRestoreRow_MPIAIJ(B,row+ll,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 4411e42f35eeSHong Zhang } 441287025532SHong Zhang } 441387025532SHong Zhang ierr = MPI_Isend(bufj+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 441487025532SHong Zhang } 441587025532SHong Zhang 441687025532SHong Zhang /* recvs and sends of j-array are completed */ 441787025532SHong Zhang i = nrecvs; 441887025532SHong Zhang while (i--) { 4419aa5bb8c0SSatish Balay ierr = MPI_Waitany(nrecvs,rwaits,&jj,&rstatus);CHKERRQ(ierr); 442087025532SHong Zhang } 44210c468ba9SBarry Smith if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);} 442287025532SHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 442387025532SHong Zhang sstartsj = *startsj; 442487025532SHong Zhang rstartsj = sstartsj + nsends +1; 442587025532SHong Zhang bufa = *bufa_ptr; 442687025532SHong Zhang b_oth = (Mat_SeqAIJ*)(*B_oth)->data; 442787025532SHong Zhang b_otha = b_oth->a; 442887025532SHong Zhang } else { 442987025532SHong Zhang SETERRQ(PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not posses an object container"); 443087025532SHong Zhang } 443187025532SHong Zhang 443287025532SHong Zhang /* a-array */ 443387025532SHong Zhang /*---------*/ 443487025532SHong Zhang /* post receives of a-array */ 443587025532SHong Zhang for (i=0; i<nrecvs; i++){ 443687025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 443787025532SHong Zhang ierr = MPI_Irecv(b_otha+rstartsj[i],nrows,MPIU_SCALAR,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 443887025532SHong Zhang } 4439e42f35eeSHong Zhang 4440e42f35eeSHong Zhang /* pack the outgoing message a-array */ 444187025532SHong Zhang k = 0; 444287025532SHong Zhang for (i=0; i<nsends; i++){ 4443e42f35eeSHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of block rows */ 444487025532SHong Zhang bufA = bufa+sstartsj[i]; 444587025532SHong Zhang for (j=0; j<nrows; j++) { 4446899cda47SBarry Smith row = srow[k++] + B->rmap.range[rank]; /* global row idx */ 4447e42f35eeSHong Zhang for (ll=0; ll<sbs; ll++){ 4448e42f35eeSHong Zhang ierr = MatGetRow_MPIAIJ(B,row+ll,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 444987025532SHong Zhang for (l=0; l<ncols; l++){ 4450a6b2eed2SHong Zhang *bufA++ = vals[l]; 4451a6b2eed2SHong Zhang } 4452e42f35eeSHong Zhang ierr = MatRestoreRow_MPIAIJ(B,row+ll,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 4453e42f35eeSHong Zhang } 4454a6b2eed2SHong Zhang } 445587025532SHong Zhang ierr = MPI_Isend(bufa+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_SCALAR,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 4456a6b2eed2SHong Zhang } 445787025532SHong Zhang /* recvs and sends of a-array are completed */ 445887025532SHong Zhang i = nrecvs; 445987025532SHong Zhang while (i--) { 4460aa5bb8c0SSatish Balay ierr = MPI_Waitany(nrecvs,rwaits,&jj,&rstatus);CHKERRQ(ierr); 446187025532SHong Zhang } 44620c468ba9SBarry Smith if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);} 4463d7ee0231SBarry Smith ierr = PetscFree2(rwaits,swaits);CHKERRQ(ierr); 4464a6b2eed2SHong Zhang 446587025532SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 4466a6b2eed2SHong Zhang /* put together the new matrix */ 4467899cda47SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,aBn,B->cmap.N,b_othi,b_othj,b_otha,B_oth);CHKERRQ(ierr); 4468a6b2eed2SHong Zhang 4469a6b2eed2SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 4470a6b2eed2SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 447187025532SHong Zhang b_oth = (Mat_SeqAIJ *)(*B_oth)->data; 4472e6b907acSBarry Smith b_oth->free_a = PETSC_TRUE; 4473e6b907acSBarry Smith b_oth->free_ij = PETSC_TRUE; 447487025532SHong Zhang b_oth->nonew = 0; 4475a6b2eed2SHong Zhang 4476a6b2eed2SHong Zhang ierr = PetscFree(bufj);CHKERRQ(ierr); 4477dea91ad1SHong Zhang if (!startsj || !bufa_ptr){ 4478dea91ad1SHong Zhang ierr = PetscFree(sstartsj);CHKERRQ(ierr); 4479dea91ad1SHong Zhang ierr = PetscFree(bufa_ptr);CHKERRQ(ierr); 4480dea91ad1SHong Zhang } else { 448187025532SHong Zhang *startsj = sstartsj; 448287025532SHong Zhang *bufa_ptr = bufa; 448387025532SHong Zhang } 4484dea91ad1SHong Zhang } 44854ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 4486429d309bSHong Zhang PetscFunctionReturn(0); 4487429d309bSHong Zhang } 4488ccd8e176SBarry Smith 448943eb5e2fSMatthew Knepley #undef __FUNCT__ 449043eb5e2fSMatthew Knepley #define __FUNCT__ "MatGetCommunicationStructs" 449143eb5e2fSMatthew Knepley /*@C 449243eb5e2fSMatthew Knepley MatGetCommunicationStructs - Provides access to the communication structures used in matrix-vector multiplication. 449343eb5e2fSMatthew Knepley 449443eb5e2fSMatthew Knepley Not Collective 449543eb5e2fSMatthew Knepley 449643eb5e2fSMatthew Knepley Input Parameters: 449743eb5e2fSMatthew Knepley . A - The matrix in mpiaij format 449843eb5e2fSMatthew Knepley 449943eb5e2fSMatthew Knepley Output Parameter: 450043eb5e2fSMatthew Knepley + lvec - The local vector holding off-process values from the argument to a matrix-vector product 450143eb5e2fSMatthew Knepley . colmap - A map from global column index to local index into lvec 450243eb5e2fSMatthew Knepley - multScatter - A scatter from the argument of a matrix-vector product to lvec 450343eb5e2fSMatthew Knepley 450443eb5e2fSMatthew Knepley Level: developer 450543eb5e2fSMatthew Knepley 450643eb5e2fSMatthew Knepley @*/ 450743eb5e2fSMatthew Knepley #if defined (PETSC_USE_CTABLE) 450843eb5e2fSMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatGetCommunicationStructs(Mat A, Vec *lvec, PetscTable *colmap, VecScatter *multScatter) 450943eb5e2fSMatthew Knepley #else 451043eb5e2fSMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatGetCommunicationStructs(Mat A, Vec *lvec, PetscInt *colmap[], VecScatter *multScatter) 451143eb5e2fSMatthew Knepley #endif 451243eb5e2fSMatthew Knepley { 451343eb5e2fSMatthew Knepley Mat_MPIAIJ *a; 451443eb5e2fSMatthew Knepley 451543eb5e2fSMatthew Knepley PetscFunctionBegin; 451643eb5e2fSMatthew Knepley PetscValidHeaderSpecific(A, MAT_COOKIE, 1); 451743eb5e2fSMatthew Knepley PetscValidPointer(lvec, 2) 451843eb5e2fSMatthew Knepley PetscValidPointer(colmap, 3) 451943eb5e2fSMatthew Knepley PetscValidPointer(multScatter, 4) 452043eb5e2fSMatthew Knepley a = (Mat_MPIAIJ *) A->data; 452143eb5e2fSMatthew Knepley if (lvec) *lvec = a->lvec; 452243eb5e2fSMatthew Knepley if (colmap) *colmap = a->colmap; 452343eb5e2fSMatthew Knepley if (multScatter) *multScatter = a->Mvctx; 452443eb5e2fSMatthew Knepley PetscFunctionReturn(0); 452543eb5e2fSMatthew Knepley } 452643eb5e2fSMatthew Knepley 452717667f90SBarry Smith EXTERN_C_BEGIN 452817667f90SBarry Smith extern PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_MPIAIJ_MPICRL(Mat,MatType,MatReuse,Mat*); 452917667f90SBarry Smith extern PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_MPIAIJ_MPICSRPERM(Mat,MatType,MatReuse,Mat*); 453017667f90SBarry Smith EXTERN_C_END 453117667f90SBarry Smith 4532ccd8e176SBarry Smith /*MC 4533ccd8e176SBarry Smith MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices. 4534ccd8e176SBarry Smith 4535ccd8e176SBarry Smith Options Database Keys: 4536ccd8e176SBarry Smith . -mat_type mpiaij - sets the matrix type to "mpiaij" during a call to MatSetFromOptions() 4537ccd8e176SBarry Smith 4538ccd8e176SBarry Smith Level: beginner 4539ccd8e176SBarry Smith 4540175b88e8SBarry Smith .seealso: MatCreateMPIAIJ() 4541ccd8e176SBarry Smith M*/ 4542ccd8e176SBarry Smith 4543ccd8e176SBarry Smith EXTERN_C_BEGIN 4544ccd8e176SBarry Smith #undef __FUNCT__ 4545ccd8e176SBarry Smith #define __FUNCT__ "MatCreate_MPIAIJ" 4546be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatCreate_MPIAIJ(Mat B) 4547ccd8e176SBarry Smith { 4548ccd8e176SBarry Smith Mat_MPIAIJ *b; 4549ccd8e176SBarry Smith PetscErrorCode ierr; 4550ccd8e176SBarry Smith PetscMPIInt size; 4551ccd8e176SBarry Smith 4552ccd8e176SBarry Smith PetscFunctionBegin; 45537adad957SLisandro Dalcin ierr = MPI_Comm_size(((PetscObject)B)->comm,&size);CHKERRQ(ierr); 4554ccd8e176SBarry Smith 455538f2d2fdSLisandro Dalcin ierr = PetscNewLog(B,Mat_MPIAIJ,&b);CHKERRQ(ierr); 4556ccd8e176SBarry Smith B->data = (void*)b; 4557ccd8e176SBarry Smith ierr = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 4558ccd8e176SBarry Smith B->factor = 0; 4559899cda47SBarry Smith B->rmap.bs = 1; 4560ccd8e176SBarry Smith B->assembled = PETSC_FALSE; 4561ccd8e176SBarry Smith B->mapping = 0; 4562ccd8e176SBarry Smith 4563ccd8e176SBarry Smith B->insertmode = NOT_SET_VALUES; 4564ccd8e176SBarry Smith b->size = size; 45657adad957SLisandro Dalcin ierr = MPI_Comm_rank(((PetscObject)B)->comm,&b->rank);CHKERRQ(ierr); 4566ccd8e176SBarry Smith 4567ccd8e176SBarry Smith /* build cache for off array entries formed */ 45687adad957SLisandro Dalcin ierr = MatStashCreate_Private(((PetscObject)B)->comm,1,&B->stash);CHKERRQ(ierr); 4569ccd8e176SBarry Smith b->donotstash = PETSC_FALSE; 4570ccd8e176SBarry Smith b->colmap = 0; 4571ccd8e176SBarry Smith b->garray = 0; 4572ccd8e176SBarry Smith b->roworiented = PETSC_TRUE; 4573ccd8e176SBarry Smith 4574ccd8e176SBarry Smith /* stuff used for matrix vector multiply */ 4575ccd8e176SBarry Smith b->lvec = PETSC_NULL; 4576ccd8e176SBarry Smith b->Mvctx = PETSC_NULL; 4577ccd8e176SBarry Smith 4578ccd8e176SBarry Smith /* stuff for MatGetRow() */ 4579ccd8e176SBarry Smith b->rowindices = 0; 4580ccd8e176SBarry Smith b->rowvalues = 0; 4581ccd8e176SBarry Smith b->getrowactive = PETSC_FALSE; 4582ccd8e176SBarry Smith 4583ccd8e176SBarry Smith 4584ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatStoreValues_C", 4585ccd8e176SBarry Smith "MatStoreValues_MPIAIJ", 4586ccd8e176SBarry Smith MatStoreValues_MPIAIJ);CHKERRQ(ierr); 4587ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatRetrieveValues_C", 4588ccd8e176SBarry Smith "MatRetrieveValues_MPIAIJ", 4589ccd8e176SBarry Smith MatRetrieveValues_MPIAIJ);CHKERRQ(ierr); 4590ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatGetDiagonalBlock_C", 4591ccd8e176SBarry Smith "MatGetDiagonalBlock_MPIAIJ", 4592ccd8e176SBarry Smith MatGetDiagonalBlock_MPIAIJ);CHKERRQ(ierr); 4593ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatIsTranspose_C", 4594ccd8e176SBarry Smith "MatIsTranspose_MPIAIJ", 4595ccd8e176SBarry Smith MatIsTranspose_MPIAIJ);CHKERRQ(ierr); 4596ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocation_C", 4597ccd8e176SBarry Smith "MatMPIAIJSetPreallocation_MPIAIJ", 4598ccd8e176SBarry Smith MatMPIAIJSetPreallocation_MPIAIJ);CHKERRQ(ierr); 4599ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C", 4600ccd8e176SBarry Smith "MatMPIAIJSetPreallocationCSR_MPIAIJ", 4601ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR_MPIAIJ);CHKERRQ(ierr); 4602ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatDiagonalScaleLocal_C", 4603ccd8e176SBarry Smith "MatDiagonalScaleLocal_MPIAIJ", 4604ccd8e176SBarry Smith MatDiagonalScaleLocal_MPIAIJ);CHKERRQ(ierr); 460517667f90SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatConvert_mpiaij_mpicsrperm_C", 460617667f90SBarry Smith "MatConvert_MPIAIJ_MPICSRPERM", 460717667f90SBarry Smith MatConvert_MPIAIJ_MPICSRPERM);CHKERRQ(ierr); 460817667f90SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatConvert_mpiaij_mpicrl_C", 460917667f90SBarry Smith "MatConvert_MPIAIJ_MPICRL", 461017667f90SBarry Smith MatConvert_MPIAIJ_MPICRL);CHKERRQ(ierr); 461117667f90SBarry Smith ierr = PetscObjectChangeTypeName((PetscObject)B,MATMPIAIJ);CHKERRQ(ierr); 4612ccd8e176SBarry Smith PetscFunctionReturn(0); 4613ccd8e176SBarry Smith } 4614ccd8e176SBarry Smith EXTERN_C_END 461581824310SBarry Smith 461603bfb495SBarry Smith #undef __FUNCT__ 461703bfb495SBarry Smith #define __FUNCT__ "MatCreateMPIAIJWithSplitArrays" 461858d36128SBarry Smith /*@ 461903bfb495SBarry Smith MatCreateMPIAIJWithSplitArrays - creates a MPI AIJ matrix using arrays that contain the "diagonal" 462003bfb495SBarry Smith and "off-diagonal" part of the matrix in CSR format. 462103bfb495SBarry Smith 462203bfb495SBarry Smith Collective on MPI_Comm 462303bfb495SBarry Smith 462403bfb495SBarry Smith Input Parameters: 462503bfb495SBarry Smith + comm - MPI communicator 462603bfb495SBarry Smith . m - number of local rows (Cannot be PETSC_DECIDE) 462703bfb495SBarry Smith . n - This value should be the same as the local size used in creating the 462803bfb495SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 462903bfb495SBarry Smith calculated if N is given) For square matrices n is almost always m. 463003bfb495SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 463103bfb495SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 463203bfb495SBarry Smith . i - row indices for "diagonal" portion of matrix 463303bfb495SBarry Smith . j - column indices 463403bfb495SBarry Smith . a - matrix values 463503bfb495SBarry Smith . oi - row indices for "off-diagonal" portion of matrix 463603bfb495SBarry Smith . oj - column indices 463703bfb495SBarry Smith - oa - matrix values 463803bfb495SBarry Smith 463903bfb495SBarry Smith Output Parameter: 464003bfb495SBarry Smith . mat - the matrix 464103bfb495SBarry Smith 464203bfb495SBarry Smith Level: advanced 464303bfb495SBarry Smith 464403bfb495SBarry Smith Notes: 464503bfb495SBarry Smith The i, j, and a arrays ARE NOT copied by this routine into the internal format used by PETSc. 464603bfb495SBarry Smith 464703bfb495SBarry Smith The i and j indices are 0 based 464803bfb495SBarry Smith 464903bfb495SBarry Smith See MatCreateMPIAIJ() for the definition of "diagonal" and "off-diagonal" portion of the matrix 465003bfb495SBarry Smith 465103bfb495SBarry Smith 465203bfb495SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 465303bfb495SBarry Smith 465403bfb495SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 46558d7a6e47SBarry Smith MPIAIJ, MatCreateMPIAIJ(), MatCreateMPIAIJWithArrays() 465603bfb495SBarry Smith @*/ 46578d7a6e47SBarry Smith PetscErrorCode PETSCMAT_DLLEXPORT MatCreateMPIAIJWithSplitArrays(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,PetscInt i[],PetscInt j[],PetscScalar a[], 465803bfb495SBarry Smith PetscInt oi[], PetscInt oj[],PetscScalar oa[],Mat *mat) 465903bfb495SBarry Smith { 466003bfb495SBarry Smith PetscErrorCode ierr; 466103bfb495SBarry Smith Mat_MPIAIJ *maij; 466203bfb495SBarry Smith 466303bfb495SBarry Smith PetscFunctionBegin; 466403bfb495SBarry Smith if (m < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"local number of rows (m) cannot be PETSC_DECIDE, or negative"); 466503bfb495SBarry Smith if (i[0]) { 466603bfb495SBarry Smith SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0"); 466703bfb495SBarry Smith } 466803bfb495SBarry Smith if (oi[0]) { 466903bfb495SBarry Smith SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"oi (row indices) must start with 0"); 467003bfb495SBarry Smith } 467103bfb495SBarry Smith ierr = MatCreate(comm,mat);CHKERRQ(ierr); 467203bfb495SBarry Smith ierr = MatSetSizes(*mat,m,n,M,N);CHKERRQ(ierr); 467303bfb495SBarry Smith ierr = MatSetType(*mat,MATMPIAIJ);CHKERRQ(ierr); 467403bfb495SBarry Smith maij = (Mat_MPIAIJ*) (*mat)->data; 46758d7a6e47SBarry Smith maij->donotstash = PETSC_TRUE; 46768d7a6e47SBarry Smith (*mat)->preallocated = PETSC_TRUE; 467703bfb495SBarry Smith 467803bfb495SBarry Smith (*mat)->rmap.bs = (*mat)->cmap.bs = 1; 46796148ca0dSBarry Smith ierr = PetscMapSetUp(&(*mat)->rmap);CHKERRQ(ierr); 46806148ca0dSBarry Smith ierr = PetscMapSetUp(&(*mat)->cmap);CHKERRQ(ierr); 468103bfb495SBarry Smith 468203bfb495SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,m,n,i,j,a,&maij->A);CHKERRQ(ierr); 468303bfb495SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,m,(*mat)->cmap.N,oi,oj,oa,&maij->B);CHKERRQ(ierr); 468403bfb495SBarry Smith 46858d7a6e47SBarry Smith ierr = MatAssemblyBegin(maij->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 46868d7a6e47SBarry Smith ierr = MatAssemblyEnd(maij->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 46878d7a6e47SBarry Smith ierr = MatAssemblyBegin(maij->B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 46888d7a6e47SBarry Smith ierr = MatAssemblyEnd(maij->B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 46898d7a6e47SBarry Smith 469003bfb495SBarry Smith ierr = MatAssemblyBegin(*mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 469103bfb495SBarry Smith ierr = MatAssemblyEnd(*mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 469203bfb495SBarry Smith PetscFunctionReturn(0); 469303bfb495SBarry Smith } 469403bfb495SBarry Smith 469581824310SBarry Smith /* 469681824310SBarry Smith Special version for direct calls from Fortran 469781824310SBarry Smith */ 469881824310SBarry Smith #if defined(PETSC_HAVE_FORTRAN_CAPS) 469981824310SBarry Smith #define matsetvaluesmpiaij_ MATSETVALUESMPIAIJ 470081824310SBarry Smith #elif !defined(PETSC_HAVE_FORTRAN_UNDERSCORE) 470181824310SBarry Smith #define matsetvaluesmpiaij_ matsetvaluesmpiaij 470281824310SBarry Smith #endif 470381824310SBarry Smith 470481824310SBarry Smith /* Change these macros so can be used in void function */ 470581824310SBarry Smith #undef CHKERRQ 47067adad957SLisandro Dalcin #define CHKERRQ(ierr) CHKERRABORT(((PetscObject)mat)->comm,ierr) 470781824310SBarry Smith #undef SETERRQ2 47087adad957SLisandro Dalcin #define SETERRQ2(ierr,b,c,d) CHKERRABORT(((PetscObject)mat)->comm,ierr) 470981824310SBarry Smith #undef SETERRQ 47107adad957SLisandro Dalcin #define SETERRQ(ierr,b) CHKERRABORT(((PetscObject)mat)->comm,ierr) 471181824310SBarry Smith 471281824310SBarry Smith EXTERN_C_BEGIN 471381824310SBarry Smith #undef __FUNCT__ 471481824310SBarry Smith #define __FUNCT__ "matsetvaluesmpiaij_" 47151f6cc5b2SSatish Balay void PETSC_STDCALL matsetvaluesmpiaij_(Mat *mmat,PetscInt *mm,const PetscInt im[],PetscInt *mn,const PetscInt in[],const PetscScalar v[],InsertMode *maddv,PetscErrorCode *_ierr) 471681824310SBarry Smith { 471781824310SBarry Smith Mat mat = *mmat; 471881824310SBarry Smith PetscInt m = *mm, n = *mn; 471981824310SBarry Smith InsertMode addv = *maddv; 472081824310SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 472181824310SBarry Smith PetscScalar value; 472281824310SBarry Smith PetscErrorCode ierr; 4723899cda47SBarry Smith 472481824310SBarry Smith MatPreallocated(mat); 472581824310SBarry Smith if (mat->insertmode == NOT_SET_VALUES) { 472681824310SBarry Smith mat->insertmode = addv; 472781824310SBarry Smith } 472881824310SBarry Smith #if defined(PETSC_USE_DEBUG) 472981824310SBarry Smith else if (mat->insertmode != addv) { 473081824310SBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Cannot mix add values and insert values"); 473181824310SBarry Smith } 473281824310SBarry Smith #endif 473381824310SBarry Smith { 4734899cda47SBarry Smith PetscInt i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend; 4735899cda47SBarry Smith PetscInt cstart = mat->cmap.rstart,cend = mat->cmap.rend,row,col; 473681824310SBarry Smith PetscTruth roworiented = aij->roworiented; 473781824310SBarry Smith 473881824310SBarry Smith /* Some Variables required in the macro */ 473981824310SBarry Smith Mat A = aij->A; 474081824310SBarry Smith Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 474181824310SBarry Smith PetscInt *aimax = a->imax,*ai = a->i,*ailen = a->ilen,*aj = a->j; 474281824310SBarry Smith PetscScalar *aa = a->a; 474381824310SBarry Smith PetscTruth ignorezeroentries = (((a->ignorezeroentries)&&(addv==ADD_VALUES))?PETSC_TRUE:PETSC_FALSE); 474481824310SBarry Smith Mat B = aij->B; 474581824310SBarry Smith Mat_SeqAIJ *b = (Mat_SeqAIJ*)B->data; 4746899cda47SBarry Smith PetscInt *bimax = b->imax,*bi = b->i,*bilen = b->ilen,*bj = b->j,bm = aij->B->rmap.n,am = aij->A->rmap.n; 474781824310SBarry Smith PetscScalar *ba = b->a; 474881824310SBarry Smith 474981824310SBarry Smith PetscInt *rp1,*rp2,ii,nrow1,nrow2,_i,rmax1,rmax2,N,low1,high1,low2,high2,t,lastcol1,lastcol2; 475081824310SBarry Smith PetscInt nonew = a->nonew; 475181824310SBarry Smith PetscScalar *ap1,*ap2; 475281824310SBarry Smith 475381824310SBarry Smith PetscFunctionBegin; 475481824310SBarry Smith for (i=0; i<m; i++) { 475581824310SBarry Smith if (im[i] < 0) continue; 475681824310SBarry Smith #if defined(PETSC_USE_DEBUG) 4757899cda47SBarry 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); 475881824310SBarry Smith #endif 475981824310SBarry Smith if (im[i] >= rstart && im[i] < rend) { 476081824310SBarry Smith row = im[i] - rstart; 476181824310SBarry Smith lastcol1 = -1; 476281824310SBarry Smith rp1 = aj + ai[row]; 476381824310SBarry Smith ap1 = aa + ai[row]; 476481824310SBarry Smith rmax1 = aimax[row]; 476581824310SBarry Smith nrow1 = ailen[row]; 476681824310SBarry Smith low1 = 0; 476781824310SBarry Smith high1 = nrow1; 476881824310SBarry Smith lastcol2 = -1; 476981824310SBarry Smith rp2 = bj + bi[row]; 477081824310SBarry Smith ap2 = ba + bi[row]; 477181824310SBarry Smith rmax2 = bimax[row]; 477281824310SBarry Smith nrow2 = bilen[row]; 477381824310SBarry Smith low2 = 0; 477481824310SBarry Smith high2 = nrow2; 477581824310SBarry Smith 477681824310SBarry Smith for (j=0; j<n; j++) { 477781824310SBarry Smith if (roworiented) value = v[i*n+j]; else value = v[i+j*m]; 477881824310SBarry Smith if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES)) continue; 477981824310SBarry Smith if (in[j] >= cstart && in[j] < cend){ 478081824310SBarry Smith col = in[j] - cstart; 478181824310SBarry Smith MatSetValues_SeqAIJ_A_Private(row,col,value,addv); 478281824310SBarry Smith } else if (in[j] < 0) continue; 478381824310SBarry Smith #if defined(PETSC_USE_DEBUG) 4784899cda47SBarry 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);} 478581824310SBarry Smith #endif 478681824310SBarry Smith else { 478781824310SBarry Smith if (mat->was_assembled) { 478881824310SBarry Smith if (!aij->colmap) { 478981824310SBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 479081824310SBarry Smith } 479181824310SBarry Smith #if defined (PETSC_USE_CTABLE) 479281824310SBarry Smith ierr = PetscTableFind(aij->colmap,in[j]+1,&col);CHKERRQ(ierr); 479381824310SBarry Smith col--; 479481824310SBarry Smith #else 479581824310SBarry Smith col = aij->colmap[in[j]] - 1; 479681824310SBarry Smith #endif 479781824310SBarry Smith if (col < 0 && !((Mat_SeqAIJ*)(aij->A->data))->nonew) { 479881824310SBarry Smith ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 479981824310SBarry Smith col = in[j]; 480081824310SBarry Smith /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 480181824310SBarry Smith B = aij->B; 480281824310SBarry Smith b = (Mat_SeqAIJ*)B->data; 480381824310SBarry Smith bimax = b->imax; bi = b->i; bilen = b->ilen; bj = b->j; 480481824310SBarry Smith rp2 = bj + bi[row]; 480581824310SBarry Smith ap2 = ba + bi[row]; 480681824310SBarry Smith rmax2 = bimax[row]; 480781824310SBarry Smith nrow2 = bilen[row]; 480881824310SBarry Smith low2 = 0; 480981824310SBarry Smith high2 = nrow2; 4810899cda47SBarry Smith bm = aij->B->rmap.n; 481181824310SBarry Smith ba = b->a; 481281824310SBarry Smith } 481381824310SBarry Smith } else col = in[j]; 481481824310SBarry Smith MatSetValues_SeqAIJ_B_Private(row,col,value,addv); 481581824310SBarry Smith } 481681824310SBarry Smith } 481781824310SBarry Smith } else { 481881824310SBarry Smith if (!aij->donotstash) { 481981824310SBarry Smith if (roworiented) { 482081824310SBarry Smith if (ignorezeroentries && v[i*n] == 0.0) continue; 482181824310SBarry Smith ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n);CHKERRQ(ierr); 482281824310SBarry Smith } else { 482381824310SBarry Smith if (ignorezeroentries && v[i] == 0.0) continue; 482481824310SBarry Smith ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m);CHKERRQ(ierr); 482581824310SBarry Smith } 482681824310SBarry Smith } 482781824310SBarry Smith } 482881824310SBarry Smith }} 482981824310SBarry Smith PetscFunctionReturnVoid(); 483081824310SBarry Smith } 483181824310SBarry Smith EXTERN_C_END 483203bfb495SBarry Smith 4833