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 9427adad957SLisandro Dalcin ierr = MatCreate(((PetscObject)mat)->comm,&A);CHKERRQ(ierr); 94317699dbbSLois Curfman McInnes if (!rank) { 944f69a0ea3SMatthew Knepley ierr = MatSetSizes(A,M,N,M,N);CHKERRQ(ierr); 9453a40ed3dSBarry Smith } else { 946f69a0ea3SMatthew Knepley ierr = MatSetSizes(A,0,0,M,N);CHKERRQ(ierr); 94795373324SBarry Smith } 948f204ca49SKris Buschelman /* This is just a temporary matrix, so explicitly using MATMPIAIJ is probably best */ 949f204ca49SKris Buschelman ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr); 950f204ca49SKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr); 95152e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,A);CHKERRQ(ierr); 952416022c9SBarry Smith 95395373324SBarry Smith /* copy over the A part */ 954ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->A->data; 955899cda47SBarry Smith m = aij->A->rmap.n; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 956899cda47SBarry Smith row = mat->rmap.rstart; 957899cda47SBarry Smith for (i=0; i<ai[m]; i++) {aj[i] += mat->cmap.rstart ;} 95895373324SBarry Smith for (i=0; i<m; i++) { 959416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],aj,a,INSERT_VALUES);CHKERRQ(ierr); 96095373324SBarry Smith row++; a += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 96195373324SBarry Smith } 9622ee70a88SLois Curfman McInnes aj = Aloc->j; 963899cda47SBarry Smith for (i=0; i<ai[m]; i++) {aj[i] -= mat->cmap.rstart;} 96495373324SBarry Smith 96595373324SBarry Smith /* copy over the B part */ 966ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->B->data; 967899cda47SBarry Smith m = aij->B->rmap.n; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 968899cda47SBarry Smith row = mat->rmap.rstart; 969b1d57f15SBarry Smith ierr = PetscMalloc((ai[m]+1)*sizeof(PetscInt),&cols);CHKERRQ(ierr); 970b0a32e0cSBarry Smith ct = cols; 971bfec09a0SHong Zhang for (i=0; i<ai[m]; i++) {cols[i] = aij->garray[aj[i]];} 97295373324SBarry Smith for (i=0; i<m; i++) { 973416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],cols,a,INSERT_VALUES);CHKERRQ(ierr); 97495373324SBarry Smith row++; a += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 97595373324SBarry Smith } 976606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 9776d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 9786d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 97955843e3eSBarry Smith /* 98055843e3eSBarry Smith Everyone has to call to draw the matrix since the graphics waits are 981b0a32e0cSBarry Smith synchronized across all processors that share the PetscDraw object 98255843e3eSBarry Smith */ 983b0a32e0cSBarry Smith ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr); 984e03a110bSBarry Smith if (!rank) { 9857adad957SLisandro Dalcin ierr = PetscObjectSetName((PetscObject)((Mat_MPIAIJ*)(A->data))->A,((PetscObject)mat)->name);CHKERRQ(ierr); 9866831982aSBarry Smith ierr = MatView(((Mat_MPIAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr); 98795373324SBarry Smith } 988b0a32e0cSBarry Smith ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr); 98978b31e54SBarry Smith ierr = MatDestroy(A);CHKERRQ(ierr); 99095373324SBarry Smith } 9913a40ed3dSBarry Smith PetscFunctionReturn(0); 9921eb62cbbSBarry Smith } 9931eb62cbbSBarry Smith 9944a2ae208SSatish Balay #undef __FUNCT__ 9954a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ" 996dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ(Mat mat,PetscViewer viewer) 997416022c9SBarry Smith { 998dfbe8321SBarry Smith PetscErrorCode ierr; 99932077d6dSBarry Smith PetscTruth iascii,isdraw,issocket,isbinary; 1000416022c9SBarry Smith 10013a40ed3dSBarry Smith PetscFunctionBegin; 100232077d6dSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr); 1003fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 1004fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 1005b0a32e0cSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr); 100632077d6dSBarry Smith if (iascii || isdraw || isbinary || issocket) { 10077b2a1423SBarry Smith ierr = MatView_MPIAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr); 10085cd90555SBarry Smith } else { 100979a5c55eSBarry Smith SETERRQ1(PETSC_ERR_SUP,"Viewer type %s not supported by MPIAIJ matrices",((PetscObject)viewer)->type_name); 1010416022c9SBarry Smith } 10113a40ed3dSBarry Smith PetscFunctionReturn(0); 1012416022c9SBarry Smith } 1013416022c9SBarry Smith 10144a2ae208SSatish Balay #undef __FUNCT__ 10154a2ae208SSatish Balay #define __FUNCT__ "MatRelax_MPIAIJ" 1016b1d57f15SBarry Smith PetscErrorCode MatRelax_MPIAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx) 10178a729477SBarry Smith { 101844a69424SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1019dfbe8321SBarry Smith PetscErrorCode ierr; 1020c14dc6b6SHong Zhang Vec bb1; 10218a729477SBarry Smith 10223a40ed3dSBarry Smith PetscFunctionBegin; 1023c14dc6b6SHong Zhang ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr); 10242798e883SHong Zhang 1025c16cb8f2SBarry Smith if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP){ 1026da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1027bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,lits,xx);CHKERRQ(ierr); 10282798e883SHong Zhang its--; 1029da3a660dSBarry Smith } 10302798e883SHong Zhang 10312798e883SHong Zhang while (its--) { 1032ca9f406cSSatish Balay ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1033ca9f406cSSatish Balay ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 10342798e883SHong Zhang 1035c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1036efb30889SBarry Smith ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 1037c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10382798e883SHong Zhang 1039c14dc6b6SHong Zhang /* local sweep */ 104071f1c65dSBarry Smith ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,lits,xx);CHKERRQ(ierr); 10412798e883SHong Zhang } 10423a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_FORWARD_SWEEP){ 1043da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1044c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10452798e883SHong Zhang its--; 1046da3a660dSBarry Smith } 10472798e883SHong Zhang while (its--) { 1048ca9f406cSSatish Balay ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1049ca9f406cSSatish Balay ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 10502798e883SHong Zhang 1051c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1052efb30889SBarry Smith ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 1053c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 1054c14dc6b6SHong Zhang 1055c14dc6b6SHong Zhang /* local sweep */ 105671f1c65dSBarry Smith ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10572798e883SHong Zhang } 10583a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_BACKWARD_SWEEP){ 1059da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 1060c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10612798e883SHong Zhang its--; 1062da3a660dSBarry Smith } 10632798e883SHong Zhang while (its--) { 1064ca9f406cSSatish Balay ierr = VecScatterBegin(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1065ca9f406cSSatish Balay ierr = VecScatterEnd(mat->Mvctx,xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 10662798e883SHong Zhang 1067c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 1068efb30889SBarry Smith ierr = VecScale(mat->lvec,-1.0);CHKERRQ(ierr); 1069c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 10702798e883SHong Zhang 1071c14dc6b6SHong Zhang /* local sweep */ 107271f1c65dSBarry Smith ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 10732798e883SHong Zhang } 10743a40ed3dSBarry Smith } else { 107529bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Parallel SOR not supported"); 1076c16cb8f2SBarry Smith } 1077c14dc6b6SHong Zhang 1078c14dc6b6SHong Zhang ierr = VecDestroy(bb1);CHKERRQ(ierr); 10793a40ed3dSBarry Smith PetscFunctionReturn(0); 10808a729477SBarry Smith } 1081a66be287SLois Curfman McInnes 10824a2ae208SSatish Balay #undef __FUNCT__ 108342e855d1Svictor #define __FUNCT__ "MatPermute_MPIAIJ" 108442e855d1Svictor PetscErrorCode MatPermute_MPIAIJ(Mat A,IS rowp,IS colp,Mat *B) 108542e855d1Svictor { 108642e855d1Svictor MPI_Comm comm,pcomm; 108742e855d1Svictor PetscInt first,local_size,nrows,*rows; 108842e855d1Svictor int ntids; 108942e855d1Svictor IS crowp,growp,irowp,lrowp,lcolp,icolp; 109042e855d1Svictor PetscErrorCode ierr; 109142e855d1Svictor 109242e855d1Svictor PetscFunctionBegin; 109342e855d1Svictor ierr = PetscObjectGetComm((PetscObject)A,&comm); CHKERRQ(ierr); 109442e855d1Svictor /* make a collective version of 'rowp' */ 109542e855d1Svictor ierr = PetscObjectGetComm((PetscObject)rowp,&pcomm); CHKERRQ(ierr); 109642e855d1Svictor if (pcomm==comm) { 109742e855d1Svictor crowp = rowp; 109842e855d1Svictor } else { 109942e855d1Svictor ierr = ISGetSize(rowp,&nrows); CHKERRQ(ierr); 110042e855d1Svictor ierr = ISGetIndices(rowp,&rows); CHKERRQ(ierr); 110142e855d1Svictor ierr = ISCreateGeneral(comm,nrows,rows,&crowp); CHKERRQ(ierr); 110242e855d1Svictor ierr = ISRestoreIndices(rowp,&rows); CHKERRQ(ierr); 110342e855d1Svictor } 110442e855d1Svictor /* collect the global row permutation and invert it */ 110542e855d1Svictor ierr = ISAllGather(crowp,&growp); CHKERRQ(ierr); 110642e855d1Svictor ierr = ISSetPermutation(growp); CHKERRQ(ierr); 110742e855d1Svictor if (pcomm!=comm) { 110842e855d1Svictor ierr = ISDestroy(crowp); CHKERRQ(ierr); 110942e855d1Svictor } 111042e855d1Svictor ierr = ISInvertPermutation(growp,PETSC_DECIDE,&irowp);CHKERRQ(ierr); 111142e855d1Svictor /* get the local target indices */ 111242e855d1Svictor ierr = MatGetOwnershipRange(A,&first,PETSC_NULL); CHKERRQ(ierr); 111342e855d1Svictor ierr = MatGetLocalSize(A,&local_size,PETSC_NULL); CHKERRQ(ierr); 111442e855d1Svictor ierr = ISGetIndices(irowp,&rows); CHKERRQ(ierr); 111542e855d1Svictor ierr = ISCreateGeneral(MPI_COMM_SELF,local_size,rows+first,&lrowp); CHKERRQ(ierr); 111642e855d1Svictor ierr = ISRestoreIndices(irowp,&rows); CHKERRQ(ierr); 111742e855d1Svictor ierr = ISDestroy(irowp); CHKERRQ(ierr); 111842e855d1Svictor /* the column permutation is so much easier; 111942e855d1Svictor make a local version of 'colp' and invert it */ 112042e855d1Svictor ierr = PetscObjectGetComm((PetscObject)colp,&pcomm); CHKERRQ(ierr); 112142e855d1Svictor ierr = MPI_Comm_size(pcomm,&ntids); CHKERRQ(ierr); 112242e855d1Svictor if (ntids==1) { 112342e855d1Svictor lcolp = colp; 112442e855d1Svictor } else { 112542e855d1Svictor ierr = ISGetSize(colp,&nrows); CHKERRQ(ierr); 112642e855d1Svictor ierr = ISGetIndices(colp,&rows); CHKERRQ(ierr); 112742e855d1Svictor ierr = ISCreateGeneral(MPI_COMM_SELF,nrows,rows,&lcolp); CHKERRQ(ierr); 112842e855d1Svictor } 112942e855d1Svictor ierr = ISInvertPermutation(lcolp,PETSC_DECIDE,&icolp); CHKERRQ(ierr); 113042e855d1Svictor ierr = ISSetPermutation(lcolp); CHKERRQ(ierr); 113142e855d1Svictor if (ntids>1) { 113242e855d1Svictor ierr = ISRestoreIndices(colp,&rows); CHKERRQ(ierr); 113342e855d1Svictor ierr = ISDestroy(lcolp); CHKERRQ(ierr); 113442e855d1Svictor } 113542e855d1Svictor /* now we just get the submatrix */ 113642e855d1Svictor ierr = MatGetSubMatrix(A,lrowp,icolp,local_size,MAT_INITIAL_MATRIX,B); CHKERRQ(ierr); 113742e855d1Svictor /* clean up */ 113842e855d1Svictor ierr = ISDestroy(lrowp); CHKERRQ(ierr); 113942e855d1Svictor ierr = ISDestroy(icolp); CHKERRQ(ierr); 114042e855d1Svictor PetscFunctionReturn(0); 114142e855d1Svictor } 114242e855d1Svictor 114342e855d1Svictor #undef __FUNCT__ 11444a2ae208SSatish Balay #define __FUNCT__ "MatGetInfo_MPIAIJ" 1145dfbe8321SBarry Smith PetscErrorCode MatGetInfo_MPIAIJ(Mat matin,MatInfoType flag,MatInfo *info) 1146a66be287SLois Curfman McInnes { 1147a66be287SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 1148a66be287SLois Curfman McInnes Mat A = mat->A,B = mat->B; 1149dfbe8321SBarry Smith PetscErrorCode ierr; 1150329f5518SBarry Smith PetscReal isend[5],irecv[5]; 1151a66be287SLois Curfman McInnes 11523a40ed3dSBarry Smith PetscFunctionBegin; 11534e220ebcSLois Curfman McInnes info->block_size = 1.0; 11544e220ebcSLois Curfman McInnes ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr); 11554e220ebcSLois Curfman McInnes isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 11564e220ebcSLois Curfman McInnes isend[3] = info->memory; isend[4] = info->mallocs; 11574e220ebcSLois Curfman McInnes ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr); 11584e220ebcSLois Curfman McInnes isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded; 11594e220ebcSLois Curfman McInnes isend[3] += info->memory; isend[4] += info->mallocs; 1160a66be287SLois Curfman McInnes if (flag == MAT_LOCAL) { 11614e220ebcSLois Curfman McInnes info->nz_used = isend[0]; 11624e220ebcSLois Curfman McInnes info->nz_allocated = isend[1]; 11634e220ebcSLois Curfman McInnes info->nz_unneeded = isend[2]; 11644e220ebcSLois Curfman McInnes info->memory = isend[3]; 11654e220ebcSLois Curfman McInnes info->mallocs = isend[4]; 1166a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_MAX) { 11677adad957SLisandro Dalcin ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,((PetscObject)matin)->comm);CHKERRQ(ierr); 11684e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11694e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11704e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11714e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11724e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1173a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_SUM) { 11747adad957SLisandro Dalcin ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,((PetscObject)matin)->comm);CHKERRQ(ierr); 11754e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 11764e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 11774e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 11784e220ebcSLois Curfman McInnes info->memory = irecv[3]; 11794e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 1180a66be287SLois Curfman McInnes } 11814e220ebcSLois Curfman McInnes info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 11824e220ebcSLois Curfman McInnes info->fill_ratio_needed = 0; 11834e220ebcSLois Curfman McInnes info->factor_mallocs = 0; 1184899cda47SBarry Smith info->rows_global = (double)matin->rmap.N; 1185899cda47SBarry Smith info->columns_global = (double)matin->cmap.N; 1186899cda47SBarry Smith info->rows_local = (double)matin->rmap.n; 1187899cda47SBarry Smith info->columns_local = (double)matin->cmap.N; 11884e220ebcSLois Curfman McInnes 11893a40ed3dSBarry Smith PetscFunctionReturn(0); 1190a66be287SLois Curfman McInnes } 1191a66be287SLois Curfman McInnes 11924a2ae208SSatish Balay #undef __FUNCT__ 11934a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_MPIAIJ" 11944e0d8c25SBarry Smith PetscErrorCode MatSetOption_MPIAIJ(Mat A,MatOption op,PetscTruth flg) 1195c74985f6SBarry Smith { 1196c0bbcb79SLois Curfman McInnes Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1197dfbe8321SBarry Smith PetscErrorCode ierr; 1198c74985f6SBarry Smith 11993a40ed3dSBarry Smith PetscFunctionBegin; 120012c028f9SKris Buschelman switch (op) { 1201512a5fc5SBarry Smith case MAT_NEW_NONZERO_LOCATIONS: 120212c028f9SKris Buschelman case MAT_NEW_NONZERO_ALLOCATION_ERR: 120312c028f9SKris Buschelman case MAT_KEEP_ZEROED_ROWS: 120412c028f9SKris Buschelman case MAT_NEW_NONZERO_LOCATION_ERR: 120512c028f9SKris Buschelman case MAT_USE_INODES: 120612c028f9SKris Buschelman case MAT_IGNORE_ZERO_ENTRIES: 12074e0d8c25SBarry Smith ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 12084e0d8c25SBarry Smith ierr = MatSetOption(a->B,op,flg);CHKERRQ(ierr); 120912c028f9SKris Buschelman break; 121012c028f9SKris Buschelman case MAT_ROW_ORIENTED: 12114e0d8c25SBarry Smith a->roworiented = flg; 12124e0d8c25SBarry Smith ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 12134e0d8c25SBarry Smith ierr = MatSetOption(a->B,op,flg);CHKERRQ(ierr); 121412c028f9SKris Buschelman break; 12154e0d8c25SBarry Smith case MAT_NEW_DIAGONALS: 1216290bbb0aSBarry Smith ierr = PetscInfo1(A,"Option %s ignored\n",MatOptions[op]);CHKERRQ(ierr); 121712c028f9SKris Buschelman break; 121812c028f9SKris Buschelman case MAT_IGNORE_OFF_PROC_ENTRIES: 12197c922b88SBarry Smith a->donotstash = PETSC_TRUE; 122012c028f9SKris Buschelman break; 122177e54ba9SKris Buschelman case MAT_SYMMETRIC: 12224e0d8c25SBarry Smith ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 122325f421beSHong Zhang break; 122477e54ba9SKris Buschelman case MAT_STRUCTURALLY_SYMMETRIC: 1225bf108f30SBarry Smith case MAT_HERMITIAN: 1226bf108f30SBarry Smith case MAT_SYMMETRY_ETERNAL: 12274e0d8c25SBarry Smith ierr = MatSetOption(a->A,op,flg);CHKERRQ(ierr); 122877e54ba9SKris Buschelman break; 122912c028f9SKris Buschelman default: 1230ad86a440SBarry Smith SETERRQ1(PETSC_ERR_SUP,"unknown option %d",op); 12313a40ed3dSBarry Smith } 12323a40ed3dSBarry Smith PetscFunctionReturn(0); 1233c74985f6SBarry Smith } 1234c74985f6SBarry Smith 12354a2ae208SSatish Balay #undef __FUNCT__ 12364a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_MPIAIJ" 1237b1d57f15SBarry Smith PetscErrorCode MatGetRow_MPIAIJ(Mat matin,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 123839e00950SLois Curfman McInnes { 1239154123eaSLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 124087828ca2SBarry Smith PetscScalar *vworkA,*vworkB,**pvA,**pvB,*v_p; 12416849ba73SBarry Smith PetscErrorCode ierr; 1242899cda47SBarry Smith PetscInt i,*cworkA,*cworkB,**pcA,**pcB,cstart = matin->cmap.rstart; 1243899cda47SBarry Smith PetscInt nztot,nzA,nzB,lrow,rstart = matin->rmap.rstart,rend = matin->rmap.rend; 1244b1d57f15SBarry Smith PetscInt *cmap,*idx_p; 124539e00950SLois Curfman McInnes 12463a40ed3dSBarry Smith PetscFunctionBegin; 1247abc0a331SBarry Smith if (mat->getrowactive) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Already active"); 12487a0afa10SBarry Smith mat->getrowactive = PETSC_TRUE; 12497a0afa10SBarry Smith 125070f0671dSBarry Smith if (!mat->rowvalues && (idx || v)) { 12517a0afa10SBarry Smith /* 12527a0afa10SBarry Smith allocate enough space to hold information from the longest row. 12537a0afa10SBarry Smith */ 12547a0afa10SBarry Smith Mat_SeqAIJ *Aa = (Mat_SeqAIJ*)mat->A->data,*Ba = (Mat_SeqAIJ*)mat->B->data; 1255b1d57f15SBarry Smith PetscInt max = 1,tmp; 1256899cda47SBarry Smith for (i=0; i<matin->rmap.n; i++) { 12577a0afa10SBarry Smith tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i]; 12587a0afa10SBarry Smith if (max < tmp) { max = tmp; } 12597a0afa10SBarry Smith } 1260b1d57f15SBarry Smith ierr = PetscMalloc(max*(sizeof(PetscInt)+sizeof(PetscScalar)),&mat->rowvalues);CHKERRQ(ierr); 1261b1d57f15SBarry Smith mat->rowindices = (PetscInt*)(mat->rowvalues + max); 12627a0afa10SBarry Smith } 12637a0afa10SBarry Smith 126429bbc08cSBarry Smith if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Only local rows") 1265abc0e9e4SLois Curfman McInnes lrow = row - rstart; 126639e00950SLois Curfman McInnes 1267154123eaSLois Curfman McInnes pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB; 1268154123eaSLois Curfman McInnes if (!v) {pvA = 0; pvB = 0;} 1269154123eaSLois Curfman McInnes if (!idx) {pcA = 0; if (!v) pcB = 0;} 1270f830108cSBarry Smith ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1271f830108cSBarry Smith ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 1272154123eaSLois Curfman McInnes nztot = nzA + nzB; 1273154123eaSLois Curfman McInnes 127470f0671dSBarry Smith cmap = mat->garray; 1275154123eaSLois Curfman McInnes if (v || idx) { 1276154123eaSLois Curfman McInnes if (nztot) { 1277154123eaSLois Curfman McInnes /* Sort by increasing column numbers, assuming A and B already sorted */ 1278b1d57f15SBarry Smith PetscInt imark = -1; 1279154123eaSLois Curfman McInnes if (v) { 128070f0671dSBarry Smith *v = v_p = mat->rowvalues; 128139e00950SLois Curfman McInnes for (i=0; i<nzB; i++) { 128270f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) v_p[i] = vworkB[i]; 1283154123eaSLois Curfman McInnes else break; 1284154123eaSLois Curfman McInnes } 1285154123eaSLois Curfman McInnes imark = i; 128670f0671dSBarry Smith for (i=0; i<nzA; i++) v_p[imark+i] = vworkA[i]; 128770f0671dSBarry Smith for (i=imark; i<nzB; i++) v_p[nzA+i] = vworkB[i]; 1288154123eaSLois Curfman McInnes } 1289154123eaSLois Curfman McInnes if (idx) { 129070f0671dSBarry Smith *idx = idx_p = mat->rowindices; 129170f0671dSBarry Smith if (imark > -1) { 129270f0671dSBarry Smith for (i=0; i<imark; i++) { 129370f0671dSBarry Smith idx_p[i] = cmap[cworkB[i]]; 129470f0671dSBarry Smith } 129570f0671dSBarry Smith } else { 1296154123eaSLois Curfman McInnes for (i=0; i<nzB; i++) { 129770f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) idx_p[i] = cmap[cworkB[i]]; 1298154123eaSLois Curfman McInnes else break; 1299154123eaSLois Curfman McInnes } 1300154123eaSLois Curfman McInnes imark = i; 130170f0671dSBarry Smith } 130270f0671dSBarry Smith for (i=0; i<nzA; i++) idx_p[imark+i] = cstart + cworkA[i]; 130370f0671dSBarry Smith for (i=imark; i<nzB; i++) idx_p[nzA+i] = cmap[cworkB[i]]; 130439e00950SLois Curfman McInnes } 13053f97c4b0SBarry Smith } else { 13061ca473b0SSatish Balay if (idx) *idx = 0; 13071ca473b0SSatish Balay if (v) *v = 0; 13081ca473b0SSatish Balay } 1309154123eaSLois Curfman McInnes } 131039e00950SLois Curfman McInnes *nz = nztot; 1311f830108cSBarry Smith ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1312f830108cSBarry Smith ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 13133a40ed3dSBarry Smith PetscFunctionReturn(0); 131439e00950SLois Curfman McInnes } 131539e00950SLois Curfman McInnes 13164a2ae208SSatish Balay #undef __FUNCT__ 13174a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_MPIAIJ" 1318b1d57f15SBarry Smith PetscErrorCode MatRestoreRow_MPIAIJ(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v) 131939e00950SLois Curfman McInnes { 13207a0afa10SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 13213a40ed3dSBarry Smith 13223a40ed3dSBarry Smith PetscFunctionBegin; 1323abc0a331SBarry Smith if (!aij->getrowactive) { 1324abc0a331SBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"MatGetRow() must be called first"); 13257a0afa10SBarry Smith } 13267a0afa10SBarry Smith aij->getrowactive = PETSC_FALSE; 13273a40ed3dSBarry Smith PetscFunctionReturn(0); 132839e00950SLois Curfman McInnes } 132939e00950SLois Curfman McInnes 13304a2ae208SSatish Balay #undef __FUNCT__ 13314a2ae208SSatish Balay #define __FUNCT__ "MatNorm_MPIAIJ" 1332dfbe8321SBarry Smith PetscErrorCode MatNorm_MPIAIJ(Mat mat,NormType type,PetscReal *norm) 1333855ac2c5SLois Curfman McInnes { 1334855ac2c5SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 1335ec8511deSBarry Smith Mat_SeqAIJ *amat = (Mat_SeqAIJ*)aij->A->data,*bmat = (Mat_SeqAIJ*)aij->B->data; 1336dfbe8321SBarry Smith PetscErrorCode ierr; 1337899cda47SBarry Smith PetscInt i,j,cstart = mat->cmap.rstart; 1338329f5518SBarry Smith PetscReal sum = 0.0; 133987828ca2SBarry Smith PetscScalar *v; 134004ca555eSLois Curfman McInnes 13413a40ed3dSBarry Smith PetscFunctionBegin; 134217699dbbSLois Curfman McInnes if (aij->size == 1) { 134314183eadSLois Curfman McInnes ierr = MatNorm(aij->A,type,norm);CHKERRQ(ierr); 134437fa93a5SLois Curfman McInnes } else { 134504ca555eSLois Curfman McInnes if (type == NORM_FROBENIUS) { 134604ca555eSLois Curfman McInnes v = amat->a; 134704ca555eSLois Curfman McInnes for (i=0; i<amat->nz; i++) { 1348aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1349329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 135004ca555eSLois Curfman McInnes #else 135104ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 135204ca555eSLois Curfman McInnes #endif 135304ca555eSLois Curfman McInnes } 135404ca555eSLois Curfman McInnes v = bmat->a; 135504ca555eSLois Curfman McInnes for (i=0; i<bmat->nz; i++) { 1356aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1357329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 135804ca555eSLois Curfman McInnes #else 135904ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 136004ca555eSLois Curfman McInnes #endif 136104ca555eSLois Curfman McInnes } 13627adad957SLisandro Dalcin ierr = MPI_Allreduce(&sum,norm,1,MPIU_REAL,MPI_SUM,((PetscObject)mat)->comm);CHKERRQ(ierr); 136304ca555eSLois Curfman McInnes *norm = sqrt(*norm); 13643a40ed3dSBarry Smith } else if (type == NORM_1) { /* max column norm */ 1365329f5518SBarry Smith PetscReal *tmp,*tmp2; 1366b1d57f15SBarry Smith PetscInt *jj,*garray = aij->garray; 1367899cda47SBarry Smith ierr = PetscMalloc((mat->cmap.N+1)*sizeof(PetscReal),&tmp);CHKERRQ(ierr); 1368899cda47SBarry Smith ierr = PetscMalloc((mat->cmap.N+1)*sizeof(PetscReal),&tmp2);CHKERRQ(ierr); 1369899cda47SBarry Smith ierr = PetscMemzero(tmp,mat->cmap.N*sizeof(PetscReal));CHKERRQ(ierr); 137004ca555eSLois Curfman McInnes *norm = 0.0; 137104ca555eSLois Curfman McInnes v = amat->a; jj = amat->j; 137204ca555eSLois Curfman McInnes for (j=0; j<amat->nz; j++) { 1373bfec09a0SHong Zhang tmp[cstart + *jj++ ] += PetscAbsScalar(*v); v++; 137404ca555eSLois Curfman McInnes } 137504ca555eSLois Curfman McInnes v = bmat->a; jj = bmat->j; 137604ca555eSLois Curfman McInnes for (j=0; j<bmat->nz; j++) { 1377bfec09a0SHong Zhang tmp[garray[*jj++]] += PetscAbsScalar(*v); v++; 137804ca555eSLois Curfman McInnes } 13797adad957SLisandro Dalcin ierr = MPI_Allreduce(tmp,tmp2,mat->cmap.N,MPIU_REAL,MPI_SUM,((PetscObject)mat)->comm);CHKERRQ(ierr); 1380899cda47SBarry Smith for (j=0; j<mat->cmap.N; j++) { 138104ca555eSLois Curfman McInnes if (tmp2[j] > *norm) *norm = tmp2[j]; 138204ca555eSLois Curfman McInnes } 1383606d414cSSatish Balay ierr = PetscFree(tmp);CHKERRQ(ierr); 1384606d414cSSatish Balay ierr = PetscFree(tmp2);CHKERRQ(ierr); 13853a40ed3dSBarry Smith } else if (type == NORM_INFINITY) { /* max row norm */ 1386329f5518SBarry Smith PetscReal ntemp = 0.0; 1387899cda47SBarry Smith for (j=0; j<aij->A->rmap.n; j++) { 1388bfec09a0SHong Zhang v = amat->a + amat->i[j]; 138904ca555eSLois Curfman McInnes sum = 0.0; 139004ca555eSLois Curfman McInnes for (i=0; i<amat->i[j+1]-amat->i[j]; i++) { 1391cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 139204ca555eSLois Curfman McInnes } 1393bfec09a0SHong Zhang v = bmat->a + bmat->i[j]; 139404ca555eSLois Curfman McInnes for (i=0; i<bmat->i[j+1]-bmat->i[j]; i++) { 1395cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 139604ca555eSLois Curfman McInnes } 1397515d9167SLois Curfman McInnes if (sum > ntemp) ntemp = sum; 139804ca555eSLois Curfman McInnes } 13997adad957SLisandro Dalcin ierr = MPI_Allreduce(&ntemp,norm,1,MPIU_REAL,MPI_MAX,((PetscObject)mat)->comm);CHKERRQ(ierr); 1400ca161407SBarry Smith } else { 140129bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"No support for two norm"); 140204ca555eSLois Curfman McInnes } 140337fa93a5SLois Curfman McInnes } 14043a40ed3dSBarry Smith PetscFunctionReturn(0); 1405855ac2c5SLois Curfman McInnes } 1406855ac2c5SLois Curfman McInnes 14074a2ae208SSatish Balay #undef __FUNCT__ 14084a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_MPIAIJ" 1409dfbe8321SBarry Smith PetscErrorCode MatTranspose_MPIAIJ(Mat A,Mat *matout) 1410b7c46309SBarry Smith { 1411b7c46309SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1412da668accSHong Zhang Mat_SeqAIJ *Aloc=(Mat_SeqAIJ*)a->A->data,*Bloc=(Mat_SeqAIJ*)a->B->data; 1413dfbe8321SBarry Smith PetscErrorCode ierr; 1414da668accSHong Zhang PetscInt M = A->rmap.N,N = A->cmap.N,ma,na,mb,*ai,*aj,*bi,*bj,row,*cols,i,*d_nnz; 1415da668accSHong Zhang PetscInt cstart=A->cmap.rstart,ncol; 14163a40ed3dSBarry Smith Mat B; 141787828ca2SBarry Smith PetscScalar *array; 1418b7c46309SBarry Smith 14193a40ed3dSBarry Smith PetscFunctionBegin; 1420da668accSHong Zhang if (!matout && M != N) SETERRQ(PETSC_ERR_ARG_SIZ,"Square matrix only for in-place"); 1421da668accSHong Zhang 1422da668accSHong Zhang /* compute d_nnz for preallocation; o_nnz is approximated by d_nnz to avoid communication */ 1423da668accSHong Zhang ma = A->rmap.n; na = A->cmap.n; mb = a->B->rmap.n; 1424da668accSHong Zhang ai = Aloc->i; aj = Aloc->j; 1425da668accSHong Zhang bi = Bloc->i; bj = Bloc->j; 1426da668accSHong Zhang ierr = PetscMalloc((1+na+bi[mb])*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr); 1427da668accSHong Zhang cols = d_nnz + na + 1; /* work space to be used by B part */ 1428da668accSHong Zhang ierr = PetscMemzero(d_nnz,(1+na)*sizeof(PetscInt));CHKERRQ(ierr); 1429da668accSHong Zhang for (i=0; i<ai[ma]; i++){ 1430da668accSHong Zhang d_nnz[aj[i]] ++; 1431da668accSHong Zhang aj[i] += cstart; /* global col index to be used by MatSetValues() */ 1432d4bb536fSBarry Smith } 1433d4bb536fSBarry Smith 14347adad957SLisandro Dalcin ierr = MatCreate(((PetscObject)A)->comm,&B);CHKERRQ(ierr); 1435899cda47SBarry Smith ierr = MatSetSizes(B,A->cmap.n,A->rmap.n,N,M);CHKERRQ(ierr); 14367adad957SLisandro Dalcin ierr = MatSetType(B,((PetscObject)A)->type_name);CHKERRQ(ierr); 1437da668accSHong Zhang ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,d_nnz);CHKERRQ(ierr); 1438b7c46309SBarry Smith 1439b7c46309SBarry Smith /* copy over the A part */ 1440da668accSHong Zhang array = Aloc->a; 1441899cda47SBarry Smith row = A->rmap.rstart; 1442da668accSHong Zhang for (i=0; i<ma; i++) { 1443da668accSHong Zhang ncol = ai[i+1]-ai[i]; 1444da668accSHong Zhang ierr = MatSetValues(B,ncol,aj,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1445da668accSHong Zhang row++; array += ncol; aj += ncol; 1446b7c46309SBarry Smith } 1447b7c46309SBarry Smith aj = Aloc->j; 1448da668accSHong Zhang for (i=0; i<ai[ma]; i++) aj[i] -= cstart; /* resume local col index */ 1449b7c46309SBarry Smith 1450b7c46309SBarry Smith /* copy over the B part */ 1451da668accSHong Zhang array = Bloc->a; 1452899cda47SBarry Smith row = A->rmap.rstart; 1453da668accSHong Zhang for (i=0; i<bi[mb]; i++) {cols[i] = a->garray[bj[i]];} 1454da668accSHong Zhang for (i=0; i<mb; i++) { 1455da668accSHong Zhang ncol = bi[i+1]-bi[i]; 1456da668accSHong Zhang ierr = MatSetValues(B,ncol,cols,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1457da668accSHong Zhang row++; array += ncol; cols += ncol; 1458b7c46309SBarry Smith } 1459da668accSHong Zhang ierr = PetscFree(d_nnz);CHKERRQ(ierr); 14606d4a8577SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14616d4a8577SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 14627c922b88SBarry Smith if (matout) { 14630de55854SLois Curfman McInnes *matout = B; 14640de55854SLois Curfman McInnes } else { 1465273d9f13SBarry Smith ierr = MatHeaderCopy(A,B);CHKERRQ(ierr); 14660de55854SLois Curfman McInnes } 14673a40ed3dSBarry Smith PetscFunctionReturn(0); 1468b7c46309SBarry Smith } 1469b7c46309SBarry Smith 14704a2ae208SSatish Balay #undef __FUNCT__ 14714a2ae208SSatish Balay #define __FUNCT__ "MatDiagonalScale_MPIAIJ" 1472dfbe8321SBarry Smith PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat,Vec ll,Vec rr) 1473a008b906SSatish Balay { 14744b967eb1SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 14754b967eb1SSatish Balay Mat a = aij->A,b = aij->B; 1476dfbe8321SBarry Smith PetscErrorCode ierr; 1477b1d57f15SBarry Smith PetscInt s1,s2,s3; 1478a008b906SSatish Balay 14793a40ed3dSBarry Smith PetscFunctionBegin; 14804b967eb1SSatish Balay ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr); 14814b967eb1SSatish Balay if (rr) { 1482e1311b90SBarry Smith ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr); 148329bbc08cSBarry Smith if (s1!=s3) SETERRQ(PETSC_ERR_ARG_SIZ,"right vector non-conforming local size"); 14844b967eb1SSatish Balay /* Overlap communication with computation. */ 1485ca9f406cSSatish Balay ierr = VecScatterBegin(aij->Mvctx,rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1486a008b906SSatish Balay } 14874b967eb1SSatish Balay if (ll) { 1488e1311b90SBarry Smith ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr); 148929bbc08cSBarry Smith if (s1!=s2) SETERRQ(PETSC_ERR_ARG_SIZ,"left vector non-conforming local size"); 1490f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,ll,0);CHKERRQ(ierr); 14914b967eb1SSatish Balay } 14924b967eb1SSatish Balay /* scale the diagonal block */ 1493f830108cSBarry Smith ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr); 14944b967eb1SSatish Balay 14954b967eb1SSatish Balay if (rr) { 14964b967eb1SSatish Balay /* Do a scatter end and then right scale the off-diagonal block */ 1497ca9f406cSSatish Balay ierr = VecScatterEnd(aij->Mvctx,rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD);CHKERRQ(ierr); 1498f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,0,aij->lvec);CHKERRQ(ierr); 14994b967eb1SSatish Balay } 15004b967eb1SSatish Balay 15013a40ed3dSBarry Smith PetscFunctionReturn(0); 1502a008b906SSatish Balay } 1503a008b906SSatish Balay 15044a2ae208SSatish Balay #undef __FUNCT__ 1505521d7252SBarry Smith #define __FUNCT__ "MatSetBlockSize_MPIAIJ" 1506521d7252SBarry Smith PetscErrorCode MatSetBlockSize_MPIAIJ(Mat A,PetscInt bs) 15075a838052SSatish Balay { 1508521d7252SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1509521d7252SBarry Smith PetscErrorCode ierr; 1510521d7252SBarry Smith 15113a40ed3dSBarry Smith PetscFunctionBegin; 1512521d7252SBarry Smith ierr = MatSetBlockSize(a->A,bs);CHKERRQ(ierr); 1513521d7252SBarry Smith ierr = MatSetBlockSize(a->B,bs);CHKERRQ(ierr); 15143a40ed3dSBarry Smith PetscFunctionReturn(0); 15155a838052SSatish Balay } 15164a2ae208SSatish Balay #undef __FUNCT__ 15174a2ae208SSatish Balay #define __FUNCT__ "MatSetUnfactored_MPIAIJ" 1518dfbe8321SBarry Smith PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A) 1519bb5a7306SBarry Smith { 1520bb5a7306SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1521dfbe8321SBarry Smith PetscErrorCode ierr; 15223a40ed3dSBarry Smith 15233a40ed3dSBarry Smith PetscFunctionBegin; 1524bb5a7306SBarry Smith ierr = MatSetUnfactored(a->A);CHKERRQ(ierr); 15253a40ed3dSBarry Smith PetscFunctionReturn(0); 1526bb5a7306SBarry Smith } 1527bb5a7306SBarry Smith 15284a2ae208SSatish Balay #undef __FUNCT__ 15294a2ae208SSatish Balay #define __FUNCT__ "MatEqual_MPIAIJ" 1530dfbe8321SBarry Smith PetscErrorCode MatEqual_MPIAIJ(Mat A,Mat B,PetscTruth *flag) 1531d4bb536fSBarry Smith { 1532d4bb536fSBarry Smith Mat_MPIAIJ *matB = (Mat_MPIAIJ*)B->data,*matA = (Mat_MPIAIJ*)A->data; 1533d4bb536fSBarry Smith Mat a,b,c,d; 1534d4bb536fSBarry Smith PetscTruth flg; 1535dfbe8321SBarry Smith PetscErrorCode ierr; 1536d4bb536fSBarry Smith 15373a40ed3dSBarry Smith PetscFunctionBegin; 1538d4bb536fSBarry Smith a = matA->A; b = matA->B; 1539d4bb536fSBarry Smith c = matB->A; d = matB->B; 1540d4bb536fSBarry Smith 1541d4bb536fSBarry Smith ierr = MatEqual(a,c,&flg);CHKERRQ(ierr); 1542abc0a331SBarry Smith if (flg) { 1543d4bb536fSBarry Smith ierr = MatEqual(b,d,&flg);CHKERRQ(ierr); 1544d4bb536fSBarry Smith } 15457adad957SLisandro Dalcin ierr = MPI_Allreduce(&flg,flag,1,MPI_INT,MPI_LAND,((PetscObject)A)->comm);CHKERRQ(ierr); 15463a40ed3dSBarry Smith PetscFunctionReturn(0); 1547d4bb536fSBarry Smith } 1548d4bb536fSBarry Smith 15494a2ae208SSatish Balay #undef __FUNCT__ 15504a2ae208SSatish Balay #define __FUNCT__ "MatCopy_MPIAIJ" 1551dfbe8321SBarry Smith PetscErrorCode MatCopy_MPIAIJ(Mat A,Mat B,MatStructure str) 1552cb5b572fSBarry Smith { 1553dfbe8321SBarry Smith PetscErrorCode ierr; 1554cb5b572fSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1555cb5b572fSBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 1556cb5b572fSBarry Smith 1557cb5b572fSBarry Smith PetscFunctionBegin; 155833f4a19fSKris Buschelman /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */ 155933f4a19fSKris Buschelman if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) { 1560cb5b572fSBarry Smith /* because of the column compression in the off-processor part of the matrix a->B, 1561cb5b572fSBarry Smith the number of columns in a->B and b->B may be different, hence we cannot call 1562cb5b572fSBarry Smith the MatCopy() directly on the two parts. If need be, we can provide a more 1563cb5b572fSBarry Smith efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices 1564cb5b572fSBarry Smith then copying the submatrices */ 1565cb5b572fSBarry Smith ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr); 1566cb5b572fSBarry Smith } else { 1567cb5b572fSBarry Smith ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 1568cb5b572fSBarry Smith ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr); 1569cb5b572fSBarry Smith } 1570cb5b572fSBarry Smith PetscFunctionReturn(0); 1571cb5b572fSBarry Smith } 1572cb5b572fSBarry Smith 15734a2ae208SSatish Balay #undef __FUNCT__ 15744a2ae208SSatish Balay #define __FUNCT__ "MatSetUpPreallocation_MPIAIJ" 1575dfbe8321SBarry Smith PetscErrorCode MatSetUpPreallocation_MPIAIJ(Mat A) 1576273d9f13SBarry Smith { 1577dfbe8321SBarry Smith PetscErrorCode ierr; 1578273d9f13SBarry Smith 1579273d9f13SBarry Smith PetscFunctionBegin; 1580273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(A,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr); 1581273d9f13SBarry Smith PetscFunctionReturn(0); 1582273d9f13SBarry Smith } 1583273d9f13SBarry Smith 1584ac90fabeSBarry Smith #include "petscblaslapack.h" 1585ac90fabeSBarry Smith #undef __FUNCT__ 1586ac90fabeSBarry Smith #define __FUNCT__ "MatAXPY_MPIAIJ" 1587f4df32b1SMatthew Knepley PetscErrorCode MatAXPY_MPIAIJ(Mat Y,PetscScalar a,Mat X,MatStructure str) 1588ac90fabeSBarry Smith { 1589dfbe8321SBarry Smith PetscErrorCode ierr; 1590b1d57f15SBarry Smith PetscInt i; 1591ac90fabeSBarry Smith Mat_MPIAIJ *xx = (Mat_MPIAIJ *)X->data,*yy = (Mat_MPIAIJ *)Y->data; 15924ce68768SBarry Smith PetscBLASInt bnz,one=1; 1593ac90fabeSBarry Smith Mat_SeqAIJ *x,*y; 1594ac90fabeSBarry Smith 1595ac90fabeSBarry Smith PetscFunctionBegin; 1596ac90fabeSBarry Smith if (str == SAME_NONZERO_PATTERN) { 1597f4df32b1SMatthew Knepley PetscScalar alpha = a; 1598ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->A->data; 1599ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->A->data; 16004ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 1601f4df32b1SMatthew Knepley BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one); 1602ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->B->data; 1603ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->B->data; 16044ce68768SBarry Smith bnz = (PetscBLASInt)x->nz; 1605f4df32b1SMatthew Knepley BLASaxpy_(&bnz,&alpha,x->a,&one,y->a,&one); 1606a30b2313SHong Zhang } else if (str == SUBSET_NONZERO_PATTERN) { 1607f4df32b1SMatthew Knepley ierr = MatAXPY_SeqAIJ(yy->A,a,xx->A,str);CHKERRQ(ierr); 1608c537a176SHong Zhang 1609c537a176SHong Zhang x = (Mat_SeqAIJ *)xx->B->data; 1610a30b2313SHong Zhang y = (Mat_SeqAIJ *)yy->B->data; 1611a30b2313SHong Zhang if (y->xtoy && y->XtoY != xx->B) { 1612a30b2313SHong Zhang ierr = PetscFree(y->xtoy);CHKERRQ(ierr); 1613a30b2313SHong Zhang ierr = MatDestroy(y->XtoY);CHKERRQ(ierr); 1614c537a176SHong Zhang } 1615a30b2313SHong Zhang if (!y->xtoy) { /* get xtoy */ 1616899cda47SBarry Smith ierr = MatAXPYGetxtoy_Private(xx->B->rmap.n,x->i,x->j,xx->garray,y->i,y->j,yy->garray,&y->xtoy);CHKERRQ(ierr); 1617a30b2313SHong Zhang y->XtoY = xx->B; 1618407f6b05SHong Zhang ierr = PetscObjectReference((PetscObject)xx->B);CHKERRQ(ierr); 1619c537a176SHong Zhang } 1620f4df32b1SMatthew Knepley for (i=0; i<x->nz; i++) y->a[y->xtoy[i]] += a*(x->a[i]); 1621ac90fabeSBarry Smith } else { 1622f4df32b1SMatthew Knepley ierr = MatAXPY_Basic(Y,a,X,str);CHKERRQ(ierr); 1623ac90fabeSBarry Smith } 1624ac90fabeSBarry Smith PetscFunctionReturn(0); 1625ac90fabeSBarry Smith } 1626ac90fabeSBarry Smith 1627354c94deSBarry Smith EXTERN PetscErrorCode PETSCMAT_DLLEXPORT MatConjugate_SeqAIJ(Mat); 1628354c94deSBarry Smith 1629354c94deSBarry Smith #undef __FUNCT__ 1630354c94deSBarry Smith #define __FUNCT__ "MatConjugate_MPIAIJ" 1631354c94deSBarry Smith PetscErrorCode PETSCMAT_DLLEXPORT MatConjugate_MPIAIJ(Mat mat) 1632354c94deSBarry Smith { 1633354c94deSBarry Smith #if defined(PETSC_USE_COMPLEX) 1634354c94deSBarry Smith PetscErrorCode ierr; 1635354c94deSBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 1636354c94deSBarry Smith 1637354c94deSBarry Smith PetscFunctionBegin; 1638354c94deSBarry Smith ierr = MatConjugate_SeqAIJ(aij->A);CHKERRQ(ierr); 1639354c94deSBarry Smith ierr = MatConjugate_SeqAIJ(aij->B);CHKERRQ(ierr); 1640354c94deSBarry Smith #else 1641354c94deSBarry Smith PetscFunctionBegin; 1642354c94deSBarry Smith #endif 1643354c94deSBarry Smith PetscFunctionReturn(0); 1644354c94deSBarry Smith } 1645354c94deSBarry Smith 164699cafbc1SBarry Smith #undef __FUNCT__ 164799cafbc1SBarry Smith #define __FUNCT__ "MatRealPart_MPIAIJ" 164899cafbc1SBarry Smith PetscErrorCode MatRealPart_MPIAIJ(Mat A) 164999cafbc1SBarry Smith { 165099cafbc1SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 165199cafbc1SBarry Smith PetscErrorCode ierr; 165299cafbc1SBarry Smith 165399cafbc1SBarry Smith PetscFunctionBegin; 165499cafbc1SBarry Smith ierr = MatRealPart(a->A);CHKERRQ(ierr); 165599cafbc1SBarry Smith ierr = MatRealPart(a->B);CHKERRQ(ierr); 165699cafbc1SBarry Smith PetscFunctionReturn(0); 165799cafbc1SBarry Smith } 165899cafbc1SBarry Smith 165999cafbc1SBarry Smith #undef __FUNCT__ 166099cafbc1SBarry Smith #define __FUNCT__ "MatImaginaryPart_MPIAIJ" 166199cafbc1SBarry Smith PetscErrorCode MatImaginaryPart_MPIAIJ(Mat A) 166299cafbc1SBarry Smith { 166399cafbc1SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 166499cafbc1SBarry Smith PetscErrorCode ierr; 166599cafbc1SBarry Smith 166699cafbc1SBarry Smith PetscFunctionBegin; 166799cafbc1SBarry Smith ierr = MatImaginaryPart(a->A);CHKERRQ(ierr); 166899cafbc1SBarry Smith ierr = MatImaginaryPart(a->B);CHKERRQ(ierr); 166999cafbc1SBarry Smith PetscFunctionReturn(0); 167099cafbc1SBarry Smith } 167199cafbc1SBarry Smith 1672103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 1673103bf8bdSMatthew Knepley 1674103bf8bdSMatthew Knepley #include <boost/parallel/mpi/bsp_process_group.hpp> 1675a2c909beSMatthew Knepley #include <boost/graph/distributed/ilu_default_graph.hpp> 1676a2c909beSMatthew Knepley #include <boost/graph/distributed/ilu_0_block.hpp> 1677a2c909beSMatthew Knepley #include <boost/graph/distributed/ilu_preconditioner.hpp> 1678103bf8bdSMatthew Knepley #include <boost/graph/distributed/petsc/interface.hpp> 1679a2c909beSMatthew Knepley #include <boost/multi_array.hpp> 1680a2c909beSMatthew Knepley #include <boost/parallel/distributed_property_map.hpp> 1681103bf8bdSMatthew Knepley 1682103bf8bdSMatthew Knepley #undef __FUNCT__ 1683103bf8bdSMatthew Knepley #define __FUNCT__ "MatILUFactorSymbolic_MPIAIJ" 1684103bf8bdSMatthew Knepley /* 1685103bf8bdSMatthew Knepley This uses the parallel ILU factorization of Peter Gottschling <pgottsch@osl.iu.edu> 1686103bf8bdSMatthew Knepley */ 1687103bf8bdSMatthew Knepley PetscErrorCode MatILUFactorSymbolic_MPIAIJ(Mat A, IS isrow, IS iscol, MatFactorInfo *info, Mat *fact) 1688103bf8bdSMatthew Knepley { 1689a2c909beSMatthew Knepley namespace petsc = boost::distributed::petsc; 1690a2c909beSMatthew Knepley 1691a2c909beSMatthew Knepley namespace graph_dist = boost::graph::distributed; 1692a2c909beSMatthew Knepley using boost::graph::distributed::ilu_default::process_group_type; 1693a2c909beSMatthew Knepley using boost::graph::ilu_permuted; 1694a2c909beSMatthew Knepley 1695103bf8bdSMatthew Knepley PetscTruth row_identity, col_identity; 1696776b82aeSLisandro Dalcin PetscContainer c; 1697103bf8bdSMatthew Knepley PetscInt m, n, M, N; 1698103bf8bdSMatthew Knepley PetscErrorCode ierr; 1699103bf8bdSMatthew Knepley 1700103bf8bdSMatthew Knepley PetscFunctionBegin; 1701103bf8bdSMatthew Knepley if (info->levels != 0) SETERRQ(PETSC_ERR_SUP,"Only levels = 0 supported for parallel ilu"); 1702103bf8bdSMatthew Knepley ierr = ISIdentity(isrow, &row_identity);CHKERRQ(ierr); 1703103bf8bdSMatthew Knepley ierr = ISIdentity(iscol, &col_identity);CHKERRQ(ierr); 1704103bf8bdSMatthew Knepley if (!row_identity || !col_identity) { 1705103bf8bdSMatthew Knepley SETERRQ(PETSC_ERR_ARG_WRONG,"Row and column permutations must be identity for parallel ILU"); 1706103bf8bdSMatthew Knepley } 1707103bf8bdSMatthew Knepley 1708103bf8bdSMatthew Knepley process_group_type pg; 1709a2c909beSMatthew Knepley typedef graph_dist::ilu_default::ilu_level_graph_type lgraph_type; 1710a2c909beSMatthew Knepley lgraph_type* lgraph_p = new lgraph_type(petsc::num_global_vertices(A), pg, petsc::matrix_distribution(A, pg)); 1711a2c909beSMatthew Knepley lgraph_type& level_graph = *lgraph_p; 1712a2c909beSMatthew Knepley graph_dist::ilu_default::graph_type& graph(level_graph.graph); 1713a2c909beSMatthew Knepley 1714103bf8bdSMatthew Knepley petsc::read_matrix(A, graph, get(boost::edge_weight, graph)); 1715a2c909beSMatthew Knepley ilu_permuted(level_graph); 1716103bf8bdSMatthew Knepley 1717103bf8bdSMatthew Knepley /* put together the new matrix */ 17187adad957SLisandro Dalcin ierr = MatCreate(((PetscObject)A)->comm, fact);CHKERRQ(ierr); 1719103bf8bdSMatthew Knepley ierr = MatGetLocalSize(A, &m, &n);CHKERRQ(ierr); 1720103bf8bdSMatthew Knepley ierr = MatGetSize(A, &M, &N);CHKERRQ(ierr); 1721103bf8bdSMatthew Knepley ierr = MatSetSizes(*fact, m, n, M, N);CHKERRQ(ierr); 17227adad957SLisandro Dalcin ierr = MatSetType(*fact, ((PetscObject)A)->type_name);CHKERRQ(ierr); 172310bd6422SMatthew Knepley ierr = MatAssemblyBegin(*fact, MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 172410bd6422SMatthew Knepley ierr = MatAssemblyEnd(*fact, MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1725103bf8bdSMatthew Knepley (*fact)->factor = FACTOR_LU; 1726103bf8bdSMatthew Knepley 17277adad957SLisandro Dalcin ierr = PetscContainerCreate(((PetscObject)A)->comm, &c); 1728776b82aeSLisandro Dalcin ierr = PetscContainerSetPointer(c, lgraph_p); 1729103bf8bdSMatthew Knepley ierr = PetscObjectCompose((PetscObject) (*fact), "graph", (PetscObject) c); 1730103bf8bdSMatthew Knepley PetscFunctionReturn(0); 1731103bf8bdSMatthew Knepley } 1732103bf8bdSMatthew Knepley 1733103bf8bdSMatthew Knepley #undef __FUNCT__ 1734103bf8bdSMatthew Knepley #define __FUNCT__ "MatLUFactorNumeric_MPIAIJ" 1735103bf8bdSMatthew Knepley PetscErrorCode MatLUFactorNumeric_MPIAIJ(Mat A, MatFactorInfo *info, Mat *B) 1736103bf8bdSMatthew Knepley { 1737103bf8bdSMatthew Knepley PetscFunctionBegin; 1738103bf8bdSMatthew Knepley PetscFunctionReturn(0); 1739103bf8bdSMatthew Knepley } 1740103bf8bdSMatthew Knepley 1741103bf8bdSMatthew Knepley #undef __FUNCT__ 1742103bf8bdSMatthew Knepley #define __FUNCT__ "MatSolve_MPIAIJ" 1743103bf8bdSMatthew Knepley /* 1744103bf8bdSMatthew Knepley This uses the parallel ILU factorization of Peter Gottschling <pgottsch@osl.iu.edu> 1745103bf8bdSMatthew Knepley */ 1746103bf8bdSMatthew Knepley PetscErrorCode MatSolve_MPIAIJ(Mat A, Vec b, Vec x) 1747103bf8bdSMatthew Knepley { 1748a2c909beSMatthew Knepley namespace graph_dist = boost::graph::distributed; 1749a2c909beSMatthew Knepley 1750a2c909beSMatthew Knepley typedef graph_dist::ilu_default::ilu_level_graph_type lgraph_type; 1751a2c909beSMatthew Knepley lgraph_type* lgraph_p; 1752776b82aeSLisandro Dalcin PetscContainer c; 1753103bf8bdSMatthew Knepley PetscErrorCode ierr; 1754103bf8bdSMatthew Knepley 1755103bf8bdSMatthew Knepley PetscFunctionBegin; 1756103bf8bdSMatthew Knepley ierr = PetscObjectQuery((PetscObject) A, "graph", (PetscObject *) &c);CHKERRQ(ierr); 1757776b82aeSLisandro Dalcin ierr = PetscContainerGetPointer(c, (void **) &lgraph_p);CHKERRQ(ierr); 1758103bf8bdSMatthew Knepley ierr = VecCopy(b, x); CHKERRQ(ierr); 1759a2c909beSMatthew Knepley 1760a2c909beSMatthew Knepley PetscScalar* array_x; 1761a2c909beSMatthew Knepley ierr = VecGetArray(x, &array_x);CHKERRQ(ierr); 1762a2c909beSMatthew Knepley PetscInt sx; 1763a2c909beSMatthew Knepley ierr = VecGetSize(x, &sx);CHKERRQ(ierr); 1764a2c909beSMatthew Knepley 1765a2c909beSMatthew Knepley PetscScalar* array_b; 1766a2c909beSMatthew Knepley ierr = VecGetArray(b, &array_b);CHKERRQ(ierr); 1767a2c909beSMatthew Knepley PetscInt sb; 1768a2c909beSMatthew Knepley ierr = VecGetSize(b, &sb);CHKERRQ(ierr); 1769a2c909beSMatthew Knepley 1770a2c909beSMatthew Knepley lgraph_type& level_graph = *lgraph_p; 1771a2c909beSMatthew Knepley graph_dist::ilu_default::graph_type& graph(level_graph.graph); 1772a2c909beSMatthew Knepley 1773a2c909beSMatthew Knepley typedef boost::multi_array_ref<PetscScalar, 1> array_ref_type; 1774a2c909beSMatthew Knepley array_ref_type ref_b(array_b, boost::extents[num_vertices(graph)]), 1775a2c909beSMatthew Knepley ref_x(array_x, boost::extents[num_vertices(graph)]); 1776a2c909beSMatthew Knepley 1777a2c909beSMatthew Knepley typedef boost::iterator_property_map<array_ref_type::iterator, 1778a2c909beSMatthew Knepley boost::property_map<graph_dist::ilu_default::graph_type, boost::vertex_index_t>::type> gvector_type; 1779a2c909beSMatthew Knepley gvector_type vector_b(ref_b.begin(), get(boost::vertex_index, graph)), 1780a2c909beSMatthew Knepley vector_x(ref_x.begin(), get(boost::vertex_index, graph)); 1781a2c909beSMatthew Knepley 1782a2c909beSMatthew Knepley ilu_set_solve(*lgraph_p, vector_b, vector_x); 1783a2c909beSMatthew Knepley 1784103bf8bdSMatthew Knepley PetscFunctionReturn(0); 1785103bf8bdSMatthew Knepley } 1786103bf8bdSMatthew Knepley #endif 1787103bf8bdSMatthew Knepley 178869db28dcSHong Zhang typedef struct { /* used by MatGetRedundantMatrix() for reusing matredundant */ 178969db28dcSHong Zhang PetscInt nzlocal,nsends,nrecvs; 1790aa5bb8c0SSatish Balay PetscMPIInt *send_rank; 1791aa5bb8c0SSatish Balay PetscInt *sbuf_nz,*sbuf_j,**rbuf_j; 179269db28dcSHong Zhang PetscScalar *sbuf_a,**rbuf_a; 179369db28dcSHong Zhang PetscErrorCode (*MatDestroy)(Mat); 179469db28dcSHong Zhang } Mat_Redundant; 179569db28dcSHong Zhang 179669db28dcSHong Zhang #undef __FUNCT__ 179769db28dcSHong Zhang #define __FUNCT__ "PetscContainerDestroy_MatRedundant" 179869db28dcSHong Zhang PetscErrorCode PetscContainerDestroy_MatRedundant(void *ptr) 179969db28dcSHong Zhang { 180069db28dcSHong Zhang PetscErrorCode ierr; 180169db28dcSHong Zhang Mat_Redundant *redund=(Mat_Redundant*)ptr; 180269db28dcSHong Zhang PetscInt i; 180369db28dcSHong Zhang 180469db28dcSHong Zhang PetscFunctionBegin; 180569db28dcSHong Zhang ierr = PetscFree(redund->send_rank);CHKERRQ(ierr); 180669db28dcSHong Zhang ierr = PetscFree(redund->sbuf_j);CHKERRQ(ierr); 180769db28dcSHong Zhang ierr = PetscFree(redund->sbuf_a);CHKERRQ(ierr); 180869db28dcSHong Zhang for (i=0; i<redund->nrecvs; i++){ 180969db28dcSHong Zhang ierr = PetscFree(redund->rbuf_j[i]);CHKERRQ(ierr); 181069db28dcSHong Zhang ierr = PetscFree(redund->rbuf_a[i]);CHKERRQ(ierr); 181169db28dcSHong Zhang } 181269db28dcSHong Zhang ierr = PetscFree3(redund->sbuf_nz,redund->rbuf_j,redund->rbuf_a);CHKERRQ(ierr); 181369db28dcSHong Zhang ierr = PetscFree(redund);CHKERRQ(ierr); 181469db28dcSHong Zhang PetscFunctionReturn(0); 181569db28dcSHong Zhang } 181669db28dcSHong Zhang 181769db28dcSHong Zhang #undef __FUNCT__ 181869db28dcSHong Zhang #define __FUNCT__ "MatDestroy_MatRedundant" 181969db28dcSHong Zhang PetscErrorCode MatDestroy_MatRedundant(Mat A) 182069db28dcSHong Zhang { 182169db28dcSHong Zhang PetscErrorCode ierr; 182269db28dcSHong Zhang PetscContainer container; 182369db28dcSHong Zhang Mat_Redundant *redund=PETSC_NULL; 182469db28dcSHong Zhang 182569db28dcSHong Zhang PetscFunctionBegin; 182669db28dcSHong Zhang ierr = PetscObjectQuery((PetscObject)A,"Mat_Redundant",(PetscObject *)&container);CHKERRQ(ierr); 182769db28dcSHong Zhang if (container) { 182869db28dcSHong Zhang ierr = PetscContainerGetPointer(container,(void **)&redund);CHKERRQ(ierr); 182969db28dcSHong Zhang } else { 183069db28dcSHong Zhang SETERRQ(PETSC_ERR_PLIB,"Container does not exit"); 183169db28dcSHong Zhang } 183269db28dcSHong Zhang A->ops->destroy = redund->MatDestroy; 183369db28dcSHong Zhang ierr = PetscObjectCompose((PetscObject)A,"Mat_Redundant",0);CHKERRQ(ierr); 183469db28dcSHong Zhang ierr = (*A->ops->destroy)(A);CHKERRQ(ierr); 183569db28dcSHong Zhang ierr = PetscContainerDestroy(container);CHKERRQ(ierr); 183669db28dcSHong Zhang PetscFunctionReturn(0); 183769db28dcSHong Zhang } 183869db28dcSHong Zhang 183969db28dcSHong Zhang #undef __FUNCT__ 184069db28dcSHong Zhang #define __FUNCT__ "MatGetRedundantMatrix_MPIAIJ" 184169db28dcSHong Zhang PetscErrorCode MatGetRedundantMatrix_MPIAIJ(Mat mat,PetscInt nsubcomm,MPI_Comm subcomm,PetscInt mlocal_sub,MatReuse reuse,Mat *matredundant) 184269db28dcSHong Zhang { 184369db28dcSHong Zhang PetscMPIInt rank,size; 18447adad957SLisandro Dalcin MPI_Comm comm=((PetscObject)mat)->comm; 184569db28dcSHong Zhang PetscErrorCode ierr; 184669db28dcSHong Zhang PetscInt nsends=0,nrecvs=0,i,rownz_max=0; 184769db28dcSHong Zhang PetscMPIInt *send_rank=PETSC_NULL,*recv_rank=PETSC_NULL; 184869db28dcSHong Zhang PetscInt *rowrange=mat->rmap.range; 184969db28dcSHong Zhang Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 185069db28dcSHong Zhang Mat A=aij->A,B=aij->B,C=*matredundant; 185169db28dcSHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)A->data,*b=(Mat_SeqAIJ*)B->data; 185269db28dcSHong Zhang PetscScalar *sbuf_a; 185369db28dcSHong Zhang PetscInt nzlocal=a->nz+b->nz; 185469db28dcSHong Zhang PetscInt j,cstart=mat->cmap.rstart,cend=mat->cmap.rend,row,nzA,nzB,ncols,*cworkA,*cworkB; 185569db28dcSHong Zhang PetscInt rstart=mat->rmap.rstart,rend=mat->rmap.rend,*bmap=aij->garray,M,N; 185669db28dcSHong Zhang PetscInt *cols,ctmp,lwrite,*rptr,l,*sbuf_j; 185769db28dcSHong Zhang PetscScalar *vals,*aworkA,*aworkB; 185869db28dcSHong Zhang PetscMPIInt tag1,tag2,tag3,imdex; 185969db28dcSHong Zhang MPI_Request *s_waits1=PETSC_NULL,*s_waits2=PETSC_NULL,*s_waits3=PETSC_NULL, 186069db28dcSHong Zhang *r_waits1=PETSC_NULL,*r_waits2=PETSC_NULL,*r_waits3=PETSC_NULL; 186169db28dcSHong Zhang MPI_Status recv_status,*send_status; 186269db28dcSHong Zhang PetscInt *sbuf_nz=PETSC_NULL,*rbuf_nz=PETSC_NULL,count; 186369db28dcSHong Zhang PetscInt **rbuf_j=PETSC_NULL; 186469db28dcSHong Zhang PetscScalar **rbuf_a=PETSC_NULL; 186569db28dcSHong Zhang Mat_Redundant *redund=PETSC_NULL; 186669db28dcSHong Zhang PetscContainer container; 186769db28dcSHong Zhang 186869db28dcSHong Zhang PetscFunctionBegin; 186969db28dcSHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 187069db28dcSHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 187169db28dcSHong Zhang 187269db28dcSHong Zhang if (reuse == MAT_REUSE_MATRIX) { 187369db28dcSHong Zhang ierr = MatGetSize(C,&M,&N);CHKERRQ(ierr); 187469db28dcSHong Zhang if (M != N || M != mat->rmap.N) SETERRQ(PETSC_ERR_ARG_SIZ,"Cannot reuse matrix. Wrong global size"); 187569db28dcSHong Zhang ierr = MatGetLocalSize(C,&M,&N);CHKERRQ(ierr); 187669db28dcSHong Zhang if (M != N || M != mlocal_sub) SETERRQ(PETSC_ERR_ARG_SIZ,"Cannot reuse matrix. Wrong local size"); 187769db28dcSHong Zhang ierr = PetscObjectQuery((PetscObject)C,"Mat_Redundant",(PetscObject *)&container);CHKERRQ(ierr); 187869db28dcSHong Zhang if (container) { 187969db28dcSHong Zhang ierr = PetscContainerGetPointer(container,(void **)&redund);CHKERRQ(ierr); 188069db28dcSHong Zhang } else { 188169db28dcSHong Zhang SETERRQ(PETSC_ERR_PLIB,"Container does not exit"); 188269db28dcSHong Zhang } 188369db28dcSHong Zhang if (nzlocal != redund->nzlocal) SETERRQ(PETSC_ERR_ARG_SIZ,"Cannot reuse matrix. Wrong nzlocal"); 188469db28dcSHong Zhang 188569db28dcSHong Zhang nsends = redund->nsends; 188669db28dcSHong Zhang nrecvs = redund->nrecvs; 188769db28dcSHong Zhang send_rank = redund->send_rank; recv_rank = send_rank + size; 188869db28dcSHong Zhang sbuf_nz = redund->sbuf_nz; rbuf_nz = sbuf_nz + nsends; 188969db28dcSHong Zhang sbuf_j = redund->sbuf_j; 189069db28dcSHong Zhang sbuf_a = redund->sbuf_a; 189169db28dcSHong Zhang rbuf_j = redund->rbuf_j; 189269db28dcSHong Zhang rbuf_a = redund->rbuf_a; 189369db28dcSHong Zhang } 189469db28dcSHong Zhang 189569db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 189669db28dcSHong Zhang PetscMPIInt subrank,subsize; 189769db28dcSHong Zhang PetscInt nleftover,np_subcomm; 189869db28dcSHong Zhang /* get the destination processors' id send_rank, nsends and nrecvs */ 189969db28dcSHong Zhang ierr = MPI_Comm_rank(subcomm,&subrank);CHKERRQ(ierr); 190069db28dcSHong Zhang ierr = MPI_Comm_size(subcomm,&subsize);CHKERRQ(ierr); 190169db28dcSHong Zhang ierr = PetscMalloc((2*size+1)*sizeof(PetscMPIInt),&send_rank); 190269db28dcSHong Zhang recv_rank = send_rank + size; 190369db28dcSHong Zhang np_subcomm = size/nsubcomm; 190469db28dcSHong Zhang nleftover = size - nsubcomm*np_subcomm; 190569db28dcSHong Zhang nsends = 0; nrecvs = 0; 190669db28dcSHong Zhang for (i=0; i<size; i++){ /* i=rank*/ 190769db28dcSHong Zhang if (subrank == i/nsubcomm && rank != i){ /* my_subrank == other's subrank */ 190869db28dcSHong Zhang send_rank[nsends] = i; nsends++; 190969db28dcSHong Zhang recv_rank[nrecvs++] = i; 191069db28dcSHong Zhang } 191169db28dcSHong Zhang } 191269db28dcSHong Zhang if (rank >= size - nleftover){/* this proc is a leftover processor */ 191369db28dcSHong Zhang i = size-nleftover-1; 191469db28dcSHong Zhang j = 0; 191569db28dcSHong Zhang while (j < nsubcomm - nleftover){ 191669db28dcSHong Zhang send_rank[nsends++] = i; 191769db28dcSHong Zhang i--; j++; 191869db28dcSHong Zhang } 191969db28dcSHong Zhang } 192069db28dcSHong Zhang 192169db28dcSHong Zhang if (nleftover && subsize == size/nsubcomm && subrank==subsize-1){ /* this proc recvs from leftover processors */ 192269db28dcSHong Zhang for (i=0; i<nleftover; i++){ 192369db28dcSHong Zhang recv_rank[nrecvs++] = size-nleftover+i; 192469db28dcSHong Zhang } 192569db28dcSHong Zhang } 192669db28dcSHong Zhang 192769db28dcSHong Zhang /* allocate sbuf_j, sbuf_a */ 192869db28dcSHong Zhang i = nzlocal + rowrange[rank+1] - rowrange[rank] + 2; 192969db28dcSHong Zhang ierr = PetscMalloc(i*sizeof(PetscInt),&sbuf_j);CHKERRQ(ierr); 193069db28dcSHong Zhang ierr = PetscMalloc((nzlocal+1)*sizeof(PetscScalar),&sbuf_a);CHKERRQ(ierr); 193169db28dcSHong Zhang } /* endof if (reuse == MAT_INITIAL_MATRIX) */ 193269db28dcSHong Zhang 193369db28dcSHong Zhang /* copy mat's local entries into the buffers */ 193469db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 193569db28dcSHong Zhang rownz_max = 0; 193669db28dcSHong Zhang rptr = sbuf_j; 193769db28dcSHong Zhang cols = sbuf_j + rend-rstart + 1; 193869db28dcSHong Zhang vals = sbuf_a; 193969db28dcSHong Zhang rptr[0] = 0; 194069db28dcSHong Zhang for (i=0; i<rend-rstart; i++){ 194169db28dcSHong Zhang row = i + rstart; 194269db28dcSHong Zhang nzA = a->i[i+1] - a->i[i]; nzB = b->i[i+1] - b->i[i]; 194369db28dcSHong Zhang ncols = nzA + nzB; 194469db28dcSHong Zhang cworkA = a->j + a->i[i]; cworkB = b->j + b->i[i]; 194569db28dcSHong Zhang aworkA = a->a + a->i[i]; aworkB = b->a + b->i[i]; 194669db28dcSHong Zhang /* load the column indices for this row into cols */ 194769db28dcSHong Zhang lwrite = 0; 194869db28dcSHong Zhang for (l=0; l<nzB; l++) { 194969db28dcSHong Zhang if ((ctmp = bmap[cworkB[l]]) < cstart){ 195069db28dcSHong Zhang vals[lwrite] = aworkB[l]; 195169db28dcSHong Zhang cols[lwrite++] = ctmp; 195269db28dcSHong Zhang } 195369db28dcSHong Zhang } 195469db28dcSHong Zhang for (l=0; l<nzA; l++){ 195569db28dcSHong Zhang vals[lwrite] = aworkA[l]; 195669db28dcSHong Zhang cols[lwrite++] = cstart + cworkA[l]; 195769db28dcSHong Zhang } 195869db28dcSHong Zhang for (l=0; l<nzB; l++) { 195969db28dcSHong Zhang if ((ctmp = bmap[cworkB[l]]) >= cend){ 196069db28dcSHong Zhang vals[lwrite] = aworkB[l]; 196169db28dcSHong Zhang cols[lwrite++] = ctmp; 196269db28dcSHong Zhang } 196369db28dcSHong Zhang } 196469db28dcSHong Zhang vals += ncols; 196569db28dcSHong Zhang cols += ncols; 196669db28dcSHong Zhang rptr[i+1] = rptr[i] + ncols; 196769db28dcSHong Zhang if (rownz_max < ncols) rownz_max = ncols; 196869db28dcSHong Zhang } 196969db28dcSHong 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); 197069db28dcSHong Zhang } else { /* only copy matrix values into sbuf_a */ 197169db28dcSHong Zhang rptr = sbuf_j; 197269db28dcSHong Zhang vals = sbuf_a; 197369db28dcSHong Zhang rptr[0] = 0; 197469db28dcSHong Zhang for (i=0; i<rend-rstart; i++){ 197569db28dcSHong Zhang row = i + rstart; 197669db28dcSHong Zhang nzA = a->i[i+1] - a->i[i]; nzB = b->i[i+1] - b->i[i]; 197769db28dcSHong Zhang ncols = nzA + nzB; 197869db28dcSHong Zhang cworkA = a->j + a->i[i]; cworkB = b->j + b->i[i]; 197969db28dcSHong Zhang aworkA = a->a + a->i[i]; aworkB = b->a + b->i[i]; 198069db28dcSHong Zhang lwrite = 0; 198169db28dcSHong Zhang for (l=0; l<nzB; l++) { 198269db28dcSHong Zhang if ((ctmp = bmap[cworkB[l]]) < cstart) vals[lwrite++] = aworkB[l]; 198369db28dcSHong Zhang } 198469db28dcSHong Zhang for (l=0; l<nzA; l++) vals[lwrite++] = aworkA[l]; 198569db28dcSHong Zhang for (l=0; l<nzB; l++) { 198669db28dcSHong Zhang if ((ctmp = bmap[cworkB[l]]) >= cend) vals[lwrite++] = aworkB[l]; 198769db28dcSHong Zhang } 198869db28dcSHong Zhang vals += ncols; 198969db28dcSHong Zhang rptr[i+1] = rptr[i] + ncols; 199069db28dcSHong Zhang } 199169db28dcSHong Zhang } /* endof if (reuse == MAT_INITIAL_MATRIX) */ 199269db28dcSHong Zhang 199369db28dcSHong Zhang /* send nzlocal to others, and recv other's nzlocal */ 199469db28dcSHong Zhang /*--------------------------------------------------*/ 199569db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 199669db28dcSHong Zhang ierr = PetscMalloc2(3*(nsends + nrecvs)+1,MPI_Request,&s_waits3,nsends+1,MPI_Status,&send_status);CHKERRQ(ierr); 199769db28dcSHong Zhang s_waits2 = s_waits3 + nsends; 199869db28dcSHong Zhang s_waits1 = s_waits2 + nsends; 199969db28dcSHong Zhang r_waits1 = s_waits1 + nsends; 200069db28dcSHong Zhang r_waits2 = r_waits1 + nrecvs; 200169db28dcSHong Zhang r_waits3 = r_waits2 + nrecvs; 200269db28dcSHong Zhang } else { 200369db28dcSHong Zhang ierr = PetscMalloc2(nsends + nrecvs +1,MPI_Request,&s_waits3,nsends+1,MPI_Status,&send_status);CHKERRQ(ierr); 200469db28dcSHong Zhang r_waits3 = s_waits3 + nsends; 200569db28dcSHong Zhang } 200669db28dcSHong Zhang 200769db28dcSHong Zhang ierr = PetscObjectGetNewTag((PetscObject)mat,&tag3);CHKERRQ(ierr); 200869db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 200969db28dcSHong Zhang /* get new tags to keep the communication clean */ 201069db28dcSHong Zhang ierr = PetscObjectGetNewTag((PetscObject)mat,&tag1);CHKERRQ(ierr); 201169db28dcSHong Zhang ierr = PetscObjectGetNewTag((PetscObject)mat,&tag2);CHKERRQ(ierr); 201269db28dcSHong Zhang ierr = PetscMalloc3(nsends+nrecvs+1,PetscInt,&sbuf_nz,nrecvs,PetscInt*,&rbuf_j,nrecvs,PetscScalar*,&rbuf_a);CHKERRQ(ierr); 201369db28dcSHong Zhang rbuf_nz = sbuf_nz + nsends; 201469db28dcSHong Zhang 201569db28dcSHong Zhang /* post receives of other's nzlocal */ 201669db28dcSHong Zhang for (i=0; i<nrecvs; i++){ 201769db28dcSHong Zhang ierr = MPI_Irecv(rbuf_nz+i,1,MPIU_INT,MPI_ANY_SOURCE,tag1,comm,r_waits1+i);CHKERRQ(ierr); 201869db28dcSHong Zhang } 201969db28dcSHong Zhang /* send nzlocal to others */ 202069db28dcSHong Zhang for (i=0; i<nsends; i++){ 202169db28dcSHong Zhang sbuf_nz[i] = nzlocal; 202269db28dcSHong Zhang ierr = MPI_Isend(sbuf_nz+i,1,MPIU_INT,send_rank[i],tag1,comm,s_waits1+i);CHKERRQ(ierr); 202369db28dcSHong Zhang } 202469db28dcSHong Zhang /* wait on receives of nzlocal; allocate space for rbuf_j, rbuf_a */ 202569db28dcSHong Zhang count = nrecvs; 202669db28dcSHong Zhang while (count) { 202769db28dcSHong Zhang ierr = MPI_Waitany(nrecvs,r_waits1,&imdex,&recv_status);CHKERRQ(ierr); 202869db28dcSHong Zhang recv_rank[imdex] = recv_status.MPI_SOURCE; 202969db28dcSHong Zhang /* allocate rbuf_a and rbuf_j; then post receives of rbuf_j */ 203069db28dcSHong Zhang ierr = PetscMalloc((rbuf_nz[imdex]+1)*sizeof(PetscScalar),&rbuf_a[imdex]);CHKERRQ(ierr); 203169db28dcSHong Zhang 203269db28dcSHong Zhang i = rowrange[recv_status.MPI_SOURCE+1] - rowrange[recv_status.MPI_SOURCE]; /* number of expected mat->i */ 203369db28dcSHong Zhang rbuf_nz[imdex] += i + 2; 203469db28dcSHong Zhang ierr = PetscMalloc(rbuf_nz[imdex]*sizeof(PetscInt),&rbuf_j[imdex]);CHKERRQ(ierr); 203569db28dcSHong Zhang ierr = MPI_Irecv(rbuf_j[imdex],rbuf_nz[imdex],MPIU_INT,recv_status.MPI_SOURCE,tag2,comm,r_waits2+imdex);CHKERRQ(ierr); 203669db28dcSHong Zhang count--; 203769db28dcSHong Zhang } 203869db28dcSHong Zhang /* wait on sends of nzlocal */ 203969db28dcSHong Zhang if (nsends) {ierr = MPI_Waitall(nsends,s_waits1,send_status);CHKERRQ(ierr);} 204069db28dcSHong Zhang /* send mat->i,j to others, and recv from other's */ 204169db28dcSHong Zhang /*------------------------------------------------*/ 204269db28dcSHong Zhang for (i=0; i<nsends; i++){ 204369db28dcSHong Zhang j = nzlocal + rowrange[rank+1] - rowrange[rank] + 1; 204469db28dcSHong Zhang ierr = MPI_Isend(sbuf_j,j,MPIU_INT,send_rank[i],tag2,comm,s_waits2+i);CHKERRQ(ierr); 204569db28dcSHong Zhang } 204669db28dcSHong Zhang /* wait on receives of mat->i,j */ 204769db28dcSHong Zhang /*------------------------------*/ 204869db28dcSHong Zhang count = nrecvs; 204969db28dcSHong Zhang while (count) { 205069db28dcSHong Zhang ierr = MPI_Waitany(nrecvs,r_waits2,&imdex,&recv_status);CHKERRQ(ierr); 205169db28dcSHong Zhang if (recv_rank[imdex] != recv_status.MPI_SOURCE) SETERRQ2(1, "recv_rank %d != MPI_SOURCE %d",recv_rank[imdex],recv_status.MPI_SOURCE); 205269db28dcSHong Zhang count--; 205369db28dcSHong Zhang } 205469db28dcSHong Zhang /* wait on sends of mat->i,j */ 205569db28dcSHong Zhang /*---------------------------*/ 205669db28dcSHong Zhang if (nsends) { 205769db28dcSHong Zhang ierr = MPI_Waitall(nsends,s_waits2,send_status);CHKERRQ(ierr); 205869db28dcSHong Zhang } 205969db28dcSHong Zhang } /* endof if (reuse == MAT_INITIAL_MATRIX) */ 206069db28dcSHong Zhang 206169db28dcSHong Zhang /* post receives, send and receive mat->a */ 206269db28dcSHong Zhang /*----------------------------------------*/ 206369db28dcSHong Zhang for (imdex=0; imdex<nrecvs; imdex++) { 206469db28dcSHong Zhang ierr = MPI_Irecv(rbuf_a[imdex],rbuf_nz[imdex],MPIU_SCALAR,recv_rank[imdex],tag3,comm,r_waits3+imdex);CHKERRQ(ierr); 206569db28dcSHong Zhang } 206669db28dcSHong Zhang for (i=0; i<nsends; i++){ 206769db28dcSHong Zhang ierr = MPI_Isend(sbuf_a,nzlocal,MPIU_SCALAR,send_rank[i],tag3,comm,s_waits3+i);CHKERRQ(ierr); 206869db28dcSHong Zhang } 206969db28dcSHong Zhang count = nrecvs; 207069db28dcSHong Zhang while (count) { 207169db28dcSHong Zhang ierr = MPI_Waitany(nrecvs,r_waits3,&imdex,&recv_status);CHKERRQ(ierr); 207269db28dcSHong Zhang if (recv_rank[imdex] != recv_status.MPI_SOURCE) SETERRQ2(1, "recv_rank %d != MPI_SOURCE %d",recv_rank[imdex],recv_status.MPI_SOURCE); 207369db28dcSHong Zhang count--; 207469db28dcSHong Zhang } 207569db28dcSHong Zhang if (nsends) { 207669db28dcSHong Zhang ierr = MPI_Waitall(nsends,s_waits3,send_status);CHKERRQ(ierr); 207769db28dcSHong Zhang } 207869db28dcSHong Zhang 207969db28dcSHong Zhang ierr = PetscFree2(s_waits3,send_status);CHKERRQ(ierr); 208069db28dcSHong Zhang 208169db28dcSHong Zhang /* create redundant matrix */ 208269db28dcSHong Zhang /*-------------------------*/ 208369db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 208469db28dcSHong Zhang /* compute rownz_max for preallocation */ 208569db28dcSHong Zhang for (imdex=0; imdex<nrecvs; imdex++){ 208669db28dcSHong Zhang j = rowrange[recv_rank[imdex]+1] - rowrange[recv_rank[imdex]]; 208769db28dcSHong Zhang rptr = rbuf_j[imdex]; 208869db28dcSHong Zhang for (i=0; i<j; i++){ 208969db28dcSHong Zhang ncols = rptr[i+1] - rptr[i]; 209069db28dcSHong Zhang if (rownz_max < ncols) rownz_max = ncols; 209169db28dcSHong Zhang } 209269db28dcSHong Zhang } 209369db28dcSHong Zhang 209469db28dcSHong Zhang ierr = MatCreate(subcomm,&C);CHKERRQ(ierr); 209569db28dcSHong Zhang ierr = MatSetSizes(C,mlocal_sub,mlocal_sub,PETSC_DECIDE,PETSC_DECIDE);CHKERRQ(ierr); 209669db28dcSHong Zhang ierr = MatSetFromOptions(C);CHKERRQ(ierr); 209769db28dcSHong Zhang ierr = MatSeqAIJSetPreallocation(C,rownz_max,PETSC_NULL);CHKERRQ(ierr); 209869db28dcSHong Zhang ierr = MatMPIAIJSetPreallocation(C,rownz_max,PETSC_NULL,rownz_max,PETSC_NULL);CHKERRQ(ierr); 209969db28dcSHong Zhang } else { 210069db28dcSHong Zhang C = *matredundant; 210169db28dcSHong Zhang } 210269db28dcSHong Zhang 210369db28dcSHong Zhang /* insert local matrix entries */ 210469db28dcSHong Zhang rptr = sbuf_j; 210569db28dcSHong Zhang cols = sbuf_j + rend-rstart + 1; 210669db28dcSHong Zhang vals = sbuf_a; 210769db28dcSHong Zhang for (i=0; i<rend-rstart; i++){ 210869db28dcSHong Zhang row = i + rstart; 210969db28dcSHong Zhang ncols = rptr[i+1] - rptr[i]; 211069db28dcSHong Zhang ierr = MatSetValues(C,1,&row,ncols,cols,vals,INSERT_VALUES);CHKERRQ(ierr); 211169db28dcSHong Zhang vals += ncols; 211269db28dcSHong Zhang cols += ncols; 211369db28dcSHong Zhang } 211469db28dcSHong Zhang /* insert received matrix entries */ 211569db28dcSHong Zhang for (imdex=0; imdex<nrecvs; imdex++){ 211669db28dcSHong Zhang rstart = rowrange[recv_rank[imdex]]; 211769db28dcSHong Zhang rend = rowrange[recv_rank[imdex]+1]; 211869db28dcSHong Zhang rptr = rbuf_j[imdex]; 211969db28dcSHong Zhang cols = rbuf_j[imdex] + rend-rstart + 1; 212069db28dcSHong Zhang vals = rbuf_a[imdex]; 212169db28dcSHong Zhang for (i=0; i<rend-rstart; i++){ 212269db28dcSHong Zhang row = i + rstart; 212369db28dcSHong Zhang ncols = rptr[i+1] - rptr[i]; 212469db28dcSHong Zhang ierr = MatSetValues(C,1,&row,ncols,cols,vals,INSERT_VALUES);CHKERRQ(ierr); 212569db28dcSHong Zhang vals += ncols; 212669db28dcSHong Zhang cols += ncols; 212769db28dcSHong Zhang } 212869db28dcSHong Zhang } 212969db28dcSHong Zhang ierr = MatAssemblyBegin(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 213069db28dcSHong Zhang ierr = MatAssemblyEnd(C,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 213169db28dcSHong Zhang ierr = MatGetSize(C,&M,&N);CHKERRQ(ierr); 213269db28dcSHong 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); 213369db28dcSHong Zhang if (reuse == MAT_INITIAL_MATRIX){ 213469db28dcSHong Zhang PetscContainer container; 213569db28dcSHong Zhang *matredundant = C; 213669db28dcSHong Zhang /* create a supporting struct and attach it to C for reuse */ 213738f2d2fdSLisandro Dalcin ierr = PetscNewLog(C,Mat_Redundant,&redund);CHKERRQ(ierr); 213869db28dcSHong Zhang ierr = PetscContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr); 213969db28dcSHong Zhang ierr = PetscContainerSetPointer(container,redund);CHKERRQ(ierr); 214069db28dcSHong Zhang ierr = PetscObjectCompose((PetscObject)C,"Mat_Redundant",(PetscObject)container);CHKERRQ(ierr); 214169db28dcSHong Zhang ierr = PetscContainerSetUserDestroy(container,PetscContainerDestroy_MatRedundant);CHKERRQ(ierr); 214269db28dcSHong Zhang 214369db28dcSHong Zhang redund->nzlocal = nzlocal; 214469db28dcSHong Zhang redund->nsends = nsends; 214569db28dcSHong Zhang redund->nrecvs = nrecvs; 214669db28dcSHong Zhang redund->send_rank = send_rank; 214769db28dcSHong Zhang redund->sbuf_nz = sbuf_nz; 214869db28dcSHong Zhang redund->sbuf_j = sbuf_j; 214969db28dcSHong Zhang redund->sbuf_a = sbuf_a; 215069db28dcSHong Zhang redund->rbuf_j = rbuf_j; 215169db28dcSHong Zhang redund->rbuf_a = rbuf_a; 215269db28dcSHong Zhang 215369db28dcSHong Zhang redund->MatDestroy = C->ops->destroy; 215469db28dcSHong Zhang C->ops->destroy = MatDestroy_MatRedundant; 215569db28dcSHong Zhang } 215669db28dcSHong Zhang PetscFunctionReturn(0); 215769db28dcSHong Zhang } 215869db28dcSHong Zhang 215903bc72f1SMatthew Knepley #undef __FUNCT__ 216003bc72f1SMatthew Knepley #define __FUNCT__ "MatGetRowMin_MPIAIJ" 216103bc72f1SMatthew Knepley PetscErrorCode MatGetRowMin_MPIAIJ(Mat A, Vec v, PetscInt idx[]) 216203bc72f1SMatthew Knepley { 216303bc72f1SMatthew Knepley Mat_MPIAIJ *mat = (Mat_MPIAIJ *) A->data; 216403bc72f1SMatthew Knepley PetscInt n = A->rmap.n; 216503bc72f1SMatthew Knepley PetscInt cstart = A->cmap.rstart; 216603bc72f1SMatthew Knepley PetscInt *cmap = mat->garray; 216703bc72f1SMatthew Knepley PetscInt *diagIdx, *offdiagIdx; 216803bc72f1SMatthew Knepley Vec diagV, offdiagV; 216903bc72f1SMatthew Knepley PetscScalar *a, *diagA, *offdiagA; 217003bc72f1SMatthew Knepley PetscInt r; 217103bc72f1SMatthew Knepley PetscErrorCode ierr; 217203bc72f1SMatthew Knepley 217303bc72f1SMatthew Knepley PetscFunctionBegin; 217403bc72f1SMatthew Knepley ierr = PetscMalloc2(n,PetscInt,&diagIdx,n,PetscInt,&offdiagIdx);CHKERRQ(ierr); 2175e64afeacSLisandro Dalcin ierr = VecCreateSeq(((PetscObject)A)->comm, n, &diagV);CHKERRQ(ierr); 2176e64afeacSLisandro Dalcin ierr = VecCreateSeq(((PetscObject)A)->comm, n, &offdiagV);CHKERRQ(ierr); 217703bc72f1SMatthew Knepley ierr = MatGetRowMin(mat->A, diagV, diagIdx);CHKERRQ(ierr); 217803bc72f1SMatthew Knepley ierr = MatGetRowMin(mat->B, offdiagV, offdiagIdx);CHKERRQ(ierr); 217903bc72f1SMatthew Knepley ierr = VecGetArray(v, &a);CHKERRQ(ierr); 218003bc72f1SMatthew Knepley ierr = VecGetArray(diagV, &diagA);CHKERRQ(ierr); 218103bc72f1SMatthew Knepley ierr = VecGetArray(offdiagV, &offdiagA);CHKERRQ(ierr); 218203bc72f1SMatthew Knepley for(r = 0; r < n; ++r) { 2183028cd4eaSSatish Balay if (PetscAbsScalar(diagA[r]) <= PetscAbsScalar(offdiagA[r])) { 218403bc72f1SMatthew Knepley a[r] = diagA[r]; 218503bc72f1SMatthew Knepley idx[r] = cstart + diagIdx[r]; 218603bc72f1SMatthew Knepley } else { 218703bc72f1SMatthew Knepley a[r] = offdiagA[r]; 218803bc72f1SMatthew Knepley idx[r] = cmap[offdiagIdx[r]]; 218903bc72f1SMatthew Knepley } 219003bc72f1SMatthew Knepley } 219103bc72f1SMatthew Knepley ierr = VecRestoreArray(v, &a);CHKERRQ(ierr); 219203bc72f1SMatthew Knepley ierr = VecRestoreArray(diagV, &diagA);CHKERRQ(ierr); 219303bc72f1SMatthew Knepley ierr = VecRestoreArray(offdiagV, &offdiagA);CHKERRQ(ierr); 219403bc72f1SMatthew Knepley ierr = VecDestroy(diagV);CHKERRQ(ierr); 219503bc72f1SMatthew Knepley ierr = VecDestroy(offdiagV);CHKERRQ(ierr); 219603bc72f1SMatthew Knepley ierr = PetscFree2(diagIdx, offdiagIdx);CHKERRQ(ierr); 219703bc72f1SMatthew Knepley PetscFunctionReturn(0); 219803bc72f1SMatthew Knepley } 219903bc72f1SMatthew Knepley 22005494a064SHong Zhang #undef __FUNCT__ 2201829201f2SHong Zhang #define __FUNCT__ "MatGetSeqNonzerostructure_MPIAIJ" 2202829201f2SHong Zhang PetscErrorCode MatGetSeqNonzerostructure_MPIAIJ(Mat mat,Mat *newmat[]) 22035494a064SHong Zhang { 22045494a064SHong Zhang PetscErrorCode ierr; 22055494a064SHong Zhang 22065494a064SHong Zhang PetscFunctionBegin; 22075494a064SHong Zhang ierr = MatGetSubMatrix_MPIAIJ_All(mat,MAT_DO_NOT_GET_VALUES,MAT_INITIAL_MATRIX,newmat);CHKERRQ(ierr); 22085494a064SHong Zhang PetscFunctionReturn(0); 22095494a064SHong Zhang } 22105494a064SHong Zhang 22118a729477SBarry Smith /* -------------------------------------------------------------------*/ 2212cda55fadSBarry Smith static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ, 2213cda55fadSBarry Smith MatGetRow_MPIAIJ, 2214cda55fadSBarry Smith MatRestoreRow_MPIAIJ, 2215cda55fadSBarry Smith MatMult_MPIAIJ, 221697304618SKris Buschelman /* 4*/ MatMultAdd_MPIAIJ, 22177c922b88SBarry Smith MatMultTranspose_MPIAIJ, 22187c922b88SBarry Smith MatMultTransposeAdd_MPIAIJ, 2219103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 2220103bf8bdSMatthew Knepley MatSolve_MPIAIJ, 2221103bf8bdSMatthew Knepley #else 2222cda55fadSBarry Smith 0, 2223103bf8bdSMatthew Knepley #endif 2224cda55fadSBarry Smith 0, 2225cda55fadSBarry Smith 0, 222697304618SKris Buschelman /*10*/ 0, 2227cda55fadSBarry Smith 0, 2228cda55fadSBarry Smith 0, 222944a69424SLois Curfman McInnes MatRelax_MPIAIJ, 2230b7c46309SBarry Smith MatTranspose_MPIAIJ, 223197304618SKris Buschelman /*15*/ MatGetInfo_MPIAIJ, 2232cda55fadSBarry Smith MatEqual_MPIAIJ, 2233cda55fadSBarry Smith MatGetDiagonal_MPIAIJ, 2234cda55fadSBarry Smith MatDiagonalScale_MPIAIJ, 2235cda55fadSBarry Smith MatNorm_MPIAIJ, 223697304618SKris Buschelman /*20*/ MatAssemblyBegin_MPIAIJ, 2237cda55fadSBarry Smith MatAssemblyEnd_MPIAIJ, 22381eb62cbbSBarry Smith 0, 2239cda55fadSBarry Smith MatSetOption_MPIAIJ, 2240cda55fadSBarry Smith MatZeroEntries_MPIAIJ, 224197304618SKris Buschelman /*25*/ MatZeroRows_MPIAIJ, 2242cda55fadSBarry Smith 0, 2243103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 2244103bf8bdSMatthew Knepley MatLUFactorNumeric_MPIAIJ, 2245103bf8bdSMatthew Knepley #else 2246cda55fadSBarry Smith 0, 2247103bf8bdSMatthew Knepley #endif 2248cda55fadSBarry Smith 0, 2249cda55fadSBarry Smith 0, 225097304618SKris Buschelman /*30*/ MatSetUpPreallocation_MPIAIJ, 2251103bf8bdSMatthew Knepley #ifdef PETSC_HAVE_PBGL 2252103bf8bdSMatthew Knepley MatILUFactorSymbolic_MPIAIJ, 2253103bf8bdSMatthew Knepley #else 2254cda55fadSBarry Smith 0, 2255103bf8bdSMatthew Knepley #endif 2256cda55fadSBarry Smith 0, 2257cda55fadSBarry Smith 0, 2258cda55fadSBarry Smith 0, 225997304618SKris Buschelman /*35*/ MatDuplicate_MPIAIJ, 2260cda55fadSBarry Smith 0, 2261cda55fadSBarry Smith 0, 2262cda55fadSBarry Smith 0, 2263cda55fadSBarry Smith 0, 226497304618SKris Buschelman /*40*/ MatAXPY_MPIAIJ, 2265cda55fadSBarry Smith MatGetSubMatrices_MPIAIJ, 2266cda55fadSBarry Smith MatIncreaseOverlap_MPIAIJ, 2267cda55fadSBarry Smith MatGetValues_MPIAIJ, 2268cb5b572fSBarry Smith MatCopy_MPIAIJ, 22698c07d4e3SBarry Smith /*45*/ 0, 2270cda55fadSBarry Smith MatScale_MPIAIJ, 2271cda55fadSBarry Smith 0, 2272cda55fadSBarry Smith 0, 2273cda55fadSBarry Smith 0, 2274521d7252SBarry Smith /*50*/ MatSetBlockSize_MPIAIJ, 2275cda55fadSBarry Smith 0, 2276cda55fadSBarry Smith 0, 2277cda55fadSBarry Smith 0, 2278cda55fadSBarry Smith 0, 227997304618SKris Buschelman /*55*/ MatFDColoringCreate_MPIAIJ, 2280cda55fadSBarry Smith 0, 2281cda55fadSBarry Smith MatSetUnfactored_MPIAIJ, 228242e855d1Svictor MatPermute_MPIAIJ, 2283cda55fadSBarry Smith 0, 228497304618SKris Buschelman /*60*/ MatGetSubMatrix_MPIAIJ, 2285e03a110bSBarry Smith MatDestroy_MPIAIJ, 2286e03a110bSBarry Smith MatView_MPIAIJ, 2287357abbc8SBarry Smith 0, 2288a2243be0SBarry Smith 0, 228997304618SKris Buschelman /*65*/ 0, 2290a2243be0SBarry Smith 0, 2291a2243be0SBarry Smith 0, 2292a2243be0SBarry Smith 0, 2293a2243be0SBarry Smith 0, 229497304618SKris Buschelman /*70*/ 0, 2295a2243be0SBarry Smith 0, 2296a2243be0SBarry Smith MatSetColoring_MPIAIJ, 2297dcf5cc72SBarry Smith #if defined(PETSC_HAVE_ADIC) 2298779c1a83SBarry Smith MatSetValuesAdic_MPIAIJ, 2299dcf5cc72SBarry Smith #else 2300dcf5cc72SBarry Smith 0, 2301dcf5cc72SBarry Smith #endif 230297304618SKris Buschelman MatSetValuesAdifor_MPIAIJ, 230397304618SKris Buschelman /*75*/ 0, 230497304618SKris Buschelman 0, 230597304618SKris Buschelman 0, 230697304618SKris Buschelman 0, 230797304618SKris Buschelman 0, 230897304618SKris Buschelman /*80*/ 0, 230997304618SKris Buschelman 0, 231097304618SKris Buschelman 0, 231197304618SKris Buschelman 0, 231241acf15aSKris Buschelman /*84*/ MatLoad_MPIAIJ, 23136284ec50SHong Zhang 0, 23146284ec50SHong Zhang 0, 23156284ec50SHong Zhang 0, 23166284ec50SHong Zhang 0, 2317865e5f61SKris Buschelman 0, 2318865e5f61SKris Buschelman /*90*/ MatMatMult_MPIAIJ_MPIAIJ, 231926be0446SHong Zhang MatMatMultSymbolic_MPIAIJ_MPIAIJ, 232026be0446SHong Zhang MatMatMultNumeric_MPIAIJ_MPIAIJ, 23217a7894deSKris Buschelman MatPtAP_Basic, 23227a7894deSKris Buschelman MatPtAPSymbolic_MPIAIJ, 23237a7894deSKris Buschelman /*95*/ MatPtAPNumeric_MPIAIJ, 23247a7894deSKris Buschelman 0, 23257a7894deSKris Buschelman 0, 23267a7894deSKris Buschelman 0, 23277a7894deSKris Buschelman 0, 23287a7894deSKris Buschelman /*100*/0, 2329865e5f61SKris Buschelman MatPtAPSymbolic_MPIAIJ_MPIAIJ, 23307a7894deSKris Buschelman MatPtAPNumeric_MPIAIJ_MPIAIJ, 23312fd7e33dSBarry Smith MatConjugate_MPIAIJ, 23322fd7e33dSBarry Smith 0, 233399cafbc1SBarry Smith /*105*/MatSetValuesRow_MPIAIJ, 233499cafbc1SBarry Smith MatRealPart_MPIAIJ, 233569db28dcSHong Zhang MatImaginaryPart_MPIAIJ, 233669db28dcSHong Zhang 0, 233769db28dcSHong Zhang 0, 233869db28dcSHong Zhang /*110*/0, 233903bc72f1SMatthew Knepley MatGetRedundantMatrix_MPIAIJ, 23405494a064SHong Zhang MatGetRowMin_MPIAIJ, 23415494a064SHong Zhang 0, 23425494a064SHong Zhang 0, 2343829201f2SHong Zhang /*115*/MatGetSeqNonzerostructure_MPIAIJ}; 234436ce4990SBarry Smith 23452e8a6d31SBarry Smith /* ----------------------------------------------------------------------------------------*/ 23462e8a6d31SBarry Smith 2347fb2e594dSBarry Smith EXTERN_C_BEGIN 23484a2ae208SSatish Balay #undef __FUNCT__ 23494a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_MPIAIJ" 2350be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatStoreValues_MPIAIJ(Mat mat) 23512e8a6d31SBarry Smith { 23522e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 2353dfbe8321SBarry Smith PetscErrorCode ierr; 23542e8a6d31SBarry Smith 23552e8a6d31SBarry Smith PetscFunctionBegin; 23562e8a6d31SBarry Smith ierr = MatStoreValues(aij->A);CHKERRQ(ierr); 23572e8a6d31SBarry Smith ierr = MatStoreValues(aij->B);CHKERRQ(ierr); 23582e8a6d31SBarry Smith PetscFunctionReturn(0); 23592e8a6d31SBarry Smith } 2360fb2e594dSBarry Smith EXTERN_C_END 23612e8a6d31SBarry Smith 2362fb2e594dSBarry Smith EXTERN_C_BEGIN 23634a2ae208SSatish Balay #undef __FUNCT__ 23644a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_MPIAIJ" 2365be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatRetrieveValues_MPIAIJ(Mat mat) 23662e8a6d31SBarry Smith { 23672e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 2368dfbe8321SBarry Smith PetscErrorCode ierr; 23692e8a6d31SBarry Smith 23702e8a6d31SBarry Smith PetscFunctionBegin; 23712e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr); 23722e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr); 23732e8a6d31SBarry Smith PetscFunctionReturn(0); 23742e8a6d31SBarry Smith } 2375fb2e594dSBarry Smith EXTERN_C_END 23768a729477SBarry Smith 2377e090d566SSatish Balay #include "petscpc.h" 237827508adbSBarry Smith EXTERN_C_BEGIN 23794a2ae208SSatish Balay #undef __FUNCT__ 2380a23d5eceSKris Buschelman #define __FUNCT__ "MatMPIAIJSetPreallocation_MPIAIJ" 2381be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocation_MPIAIJ(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 2382a23d5eceSKris Buschelman { 2383a23d5eceSKris Buschelman Mat_MPIAIJ *b; 2384dfbe8321SBarry Smith PetscErrorCode ierr; 2385b1d57f15SBarry Smith PetscInt i; 2386a23d5eceSKris Buschelman 2387a23d5eceSKris Buschelman PetscFunctionBegin; 2388a23d5eceSKris Buschelman B->preallocated = PETSC_TRUE; 2389a23d5eceSKris Buschelman if (d_nz == PETSC_DEFAULT || d_nz == PETSC_DECIDE) d_nz = 5; 2390a23d5eceSKris Buschelman if (o_nz == PETSC_DEFAULT || o_nz == PETSC_DECIDE) o_nz = 2; 239177431f27SBarry Smith if (d_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"d_nz cannot be less than 0: value %D",d_nz); 239277431f27SBarry Smith if (o_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"o_nz cannot be less than 0: value %D",o_nz); 2393899cda47SBarry Smith 2394899cda47SBarry Smith B->rmap.bs = B->cmap.bs = 1; 23956148ca0dSBarry Smith ierr = PetscMapSetUp(&B->rmap);CHKERRQ(ierr); 23966148ca0dSBarry Smith ierr = PetscMapSetUp(&B->cmap);CHKERRQ(ierr); 2397a23d5eceSKris Buschelman if (d_nnz) { 2398899cda47SBarry Smith for (i=0; i<B->rmap.n; i++) { 239977431f27SBarry 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]); 2400a23d5eceSKris Buschelman } 2401a23d5eceSKris Buschelman } 2402a23d5eceSKris Buschelman if (o_nnz) { 2403899cda47SBarry Smith for (i=0; i<B->rmap.n; i++) { 240477431f27SBarry 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]); 2405a23d5eceSKris Buschelman } 2406a23d5eceSKris Buschelman } 2407a23d5eceSKris Buschelman b = (Mat_MPIAIJ*)B->data; 2408899cda47SBarry Smith 2409899cda47SBarry Smith /* Explicitly create 2 MATSEQAIJ matrices. */ 2410899cda47SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,&b->A);CHKERRQ(ierr); 2411899cda47SBarry Smith ierr = MatSetSizes(b->A,B->rmap.n,B->cmap.n,B->rmap.n,B->cmap.n);CHKERRQ(ierr); 2412899cda47SBarry Smith ierr = MatSetType(b->A,MATSEQAIJ);CHKERRQ(ierr); 2413899cda47SBarry Smith ierr = PetscLogObjectParent(B,b->A);CHKERRQ(ierr); 2414899cda47SBarry Smith ierr = MatCreate(PETSC_COMM_SELF,&b->B);CHKERRQ(ierr); 2415899cda47SBarry Smith ierr = MatSetSizes(b->B,B->rmap.n,B->cmap.N,B->rmap.n,B->cmap.N);CHKERRQ(ierr); 2416899cda47SBarry Smith ierr = MatSetType(b->B,MATSEQAIJ);CHKERRQ(ierr); 2417899cda47SBarry Smith ierr = PetscLogObjectParent(B,b->B);CHKERRQ(ierr); 2418899cda47SBarry Smith 2419c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->A,d_nz,d_nnz);CHKERRQ(ierr); 2420c60e587dSKris Buschelman ierr = MatSeqAIJSetPreallocation(b->B,o_nz,o_nnz);CHKERRQ(ierr); 2421a23d5eceSKris Buschelman 2422a23d5eceSKris Buschelman PetscFunctionReturn(0); 2423a23d5eceSKris Buschelman } 2424a23d5eceSKris Buschelman EXTERN_C_END 2425a23d5eceSKris Buschelman 24264a2ae208SSatish Balay #undef __FUNCT__ 24274a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_MPIAIJ" 2428dfbe8321SBarry Smith PetscErrorCode MatDuplicate_MPIAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat) 2429d6dfbf8fSBarry Smith { 2430d6dfbf8fSBarry Smith Mat mat; 2431416022c9SBarry Smith Mat_MPIAIJ *a,*oldmat = (Mat_MPIAIJ*)matin->data; 2432dfbe8321SBarry Smith PetscErrorCode ierr; 2433d6dfbf8fSBarry Smith 24343a40ed3dSBarry Smith PetscFunctionBegin; 2435416022c9SBarry Smith *newmat = 0; 24367adad957SLisandro Dalcin ierr = MatCreate(((PetscObject)matin)->comm,&mat);CHKERRQ(ierr); 2437899cda47SBarry Smith ierr = MatSetSizes(mat,matin->rmap.n,matin->cmap.n,matin->rmap.N,matin->cmap.N);CHKERRQ(ierr); 24387adad957SLisandro Dalcin ierr = MatSetType(mat,((PetscObject)matin)->type_name);CHKERRQ(ierr); 24391d5dac46SHong Zhang ierr = PetscMemcpy(mat->ops,matin->ops,sizeof(struct _MatOps));CHKERRQ(ierr); 2440273d9f13SBarry Smith a = (Mat_MPIAIJ*)mat->data; 2441e1b6402fSHong Zhang 2442d6dfbf8fSBarry Smith mat->factor = matin->factor; 2443899cda47SBarry Smith mat->rmap.bs = matin->rmap.bs; 2444c456f294SBarry Smith mat->assembled = PETSC_TRUE; 2445e7641de0SSatish Balay mat->insertmode = NOT_SET_VALUES; 2446273d9f13SBarry Smith mat->preallocated = PETSC_TRUE; 2447d6dfbf8fSBarry Smith 244817699dbbSLois Curfman McInnes a->size = oldmat->size; 244917699dbbSLois Curfman McInnes a->rank = oldmat->rank; 2450e7641de0SSatish Balay a->donotstash = oldmat->donotstash; 2451e7641de0SSatish Balay a->roworiented = oldmat->roworiented; 2452e7641de0SSatish Balay a->rowindices = 0; 2453bcd2baecSBarry Smith a->rowvalues = 0; 2454bcd2baecSBarry Smith a->getrowactive = PETSC_FALSE; 2455d6dfbf8fSBarry Smith 24567adad957SLisandro Dalcin ierr = PetscMapCopy(((PetscObject)mat)->comm,&matin->rmap,&mat->rmap);CHKERRQ(ierr); 24577adad957SLisandro Dalcin ierr = PetscMapCopy(((PetscObject)mat)->comm,&matin->cmap,&mat->cmap);CHKERRQ(ierr); 2458899cda47SBarry Smith 24597adad957SLisandro Dalcin ierr = MatStashCreate_Private(((PetscObject)matin)->comm,1,&mat->stash);CHKERRQ(ierr); 24602ee70a88SLois Curfman McInnes if (oldmat->colmap) { 2461aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 24620f5bd95cSBarry Smith ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr); 2463b1fc9764SSatish Balay #else 2464899cda47SBarry Smith ierr = PetscMalloc((mat->cmap.N)*sizeof(PetscInt),&a->colmap);CHKERRQ(ierr); 2465899cda47SBarry Smith ierr = PetscLogObjectMemory(mat,(mat->cmap.N)*sizeof(PetscInt));CHKERRQ(ierr); 2466899cda47SBarry Smith ierr = PetscMemcpy(a->colmap,oldmat->colmap,(mat->cmap.N)*sizeof(PetscInt));CHKERRQ(ierr); 2467b1fc9764SSatish Balay #endif 2468416022c9SBarry Smith } else a->colmap = 0; 24693f41c07dSBarry Smith if (oldmat->garray) { 2470b1d57f15SBarry Smith PetscInt len; 2471899cda47SBarry Smith len = oldmat->B->cmap.n; 2472b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&a->garray);CHKERRQ(ierr); 247352e6d16bSBarry Smith ierr = PetscLogObjectMemory(mat,len*sizeof(PetscInt));CHKERRQ(ierr); 2474b1d57f15SBarry Smith if (len) { ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(PetscInt));CHKERRQ(ierr); } 2475416022c9SBarry Smith } else a->garray = 0; 2476d6dfbf8fSBarry Smith 2477416022c9SBarry Smith ierr = VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr); 247852e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->lvec);CHKERRQ(ierr); 2479a56f8943SBarry Smith ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr); 248052e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->Mvctx);CHKERRQ(ierr); 24812e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr); 248252e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->A);CHKERRQ(ierr); 24832e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr); 248452e6d16bSBarry Smith ierr = PetscLogObjectParent(mat,a->B);CHKERRQ(ierr); 24857adad957SLisandro Dalcin ierr = PetscFListDuplicate(((PetscObject)matin)->qlist,&((PetscObject)mat)->qlist);CHKERRQ(ierr); 24868a729477SBarry Smith *newmat = mat; 24873a40ed3dSBarry Smith PetscFunctionReturn(0); 24888a729477SBarry Smith } 2489416022c9SBarry Smith 2490e090d566SSatish Balay #include "petscsys.h" 2491416022c9SBarry Smith 24924a2ae208SSatish Balay #undef __FUNCT__ 24934a2ae208SSatish Balay #define __FUNCT__ "MatLoad_MPIAIJ" 2494f69a0ea3SMatthew Knepley PetscErrorCode MatLoad_MPIAIJ(PetscViewer viewer, MatType type,Mat *newmat) 2495416022c9SBarry Smith { 2496d65a2f8fSBarry Smith Mat A; 249787828ca2SBarry Smith PetscScalar *vals,*svals; 249819bcc07fSBarry Smith MPI_Comm comm = ((PetscObject)viewer)->comm; 2499416022c9SBarry Smith MPI_Status status; 25006849ba73SBarry Smith PetscErrorCode ierr; 2501dc231df0SBarry Smith PetscMPIInt rank,size,tag = ((PetscObject)viewer)->tag,maxnz; 2502167e7480SBarry Smith PetscInt i,nz,j,rstart,rend,mmax; 2503b1d57f15SBarry Smith PetscInt header[4],*rowlengths = 0,M,N,m,*cols; 2504910ba992SMatthew Knepley PetscInt *ourlens = PETSC_NULL,*procsnz = PETSC_NULL,*offlens = PETSC_NULL,jj,*mycols,*smycols; 2505dc231df0SBarry Smith PetscInt cend,cstart,n,*rowners; 2506b1d57f15SBarry Smith int fd; 2507416022c9SBarry Smith 25083a40ed3dSBarry Smith PetscFunctionBegin; 25091dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 25101dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 251117699dbbSLois Curfman McInnes if (!rank) { 2512b0a32e0cSBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 25130752156aSBarry Smith ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr); 2514552e946dSBarry Smith if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object"); 25156c5fab8fSBarry Smith } 25166c5fab8fSBarry Smith 2517b1d57f15SBarry Smith ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr); 2518416022c9SBarry Smith M = header[1]; N = header[2]; 2519416022c9SBarry Smith /* determine ownership of all rows */ 252029cdbbc8SSatish Balay m = M/size + ((M % size) > rank); 2521dc231df0SBarry Smith ierr = PetscMalloc((size+1)*sizeof(PetscInt),&rowners);CHKERRQ(ierr); 2522dc231df0SBarry Smith ierr = MPI_Allgather(&m,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr); 2523167e7480SBarry Smith 2524167e7480SBarry Smith /* First process needs enough room for process with most rows */ 2525167e7480SBarry Smith if (!rank) { 2526167e7480SBarry Smith mmax = rowners[1]; 2527167e7480SBarry Smith for (i=2; i<size; i++) { 2528167e7480SBarry Smith mmax = PetscMax(mmax,rowners[i]); 2529167e7480SBarry Smith } 2530167e7480SBarry Smith } else mmax = m; 2531167e7480SBarry Smith 2532416022c9SBarry Smith rowners[0] = 0; 253317699dbbSLois Curfman McInnes for (i=2; i<=size; i++) { 2534416022c9SBarry Smith rowners[i] += rowners[i-1]; 2535416022c9SBarry Smith } 253617699dbbSLois Curfman McInnes rstart = rowners[rank]; 253717699dbbSLois Curfman McInnes rend = rowners[rank+1]; 2538416022c9SBarry Smith 2539416022c9SBarry Smith /* distribute row lengths to all processors */ 2540167e7480SBarry Smith ierr = PetscMalloc2(mmax,PetscInt,&ourlens,mmax,PetscInt,&offlens);CHKERRQ(ierr); 254117699dbbSLois Curfman McInnes if (!rank) { 2542dc231df0SBarry Smith ierr = PetscBinaryRead(fd,ourlens,m,PETSC_INT);CHKERRQ(ierr); 2543dc231df0SBarry Smith ierr = PetscMalloc(m*sizeof(PetscInt),&rowlengths);CHKERRQ(ierr); 2544b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscInt),&procsnz);CHKERRQ(ierr); 2545b1d57f15SBarry Smith ierr = PetscMemzero(procsnz,size*sizeof(PetscInt));CHKERRQ(ierr); 2546dc231df0SBarry Smith for (j=0; j<m; j++) { 2547dc231df0SBarry Smith procsnz[0] += ourlens[j]; 2548dc231df0SBarry Smith } 2549dc231df0SBarry Smith for (i=1; i<size; i++) { 2550dc231df0SBarry Smith ierr = PetscBinaryRead(fd,rowlengths,rowners[i+1]-rowners[i],PETSC_INT);CHKERRQ(ierr); 2551dc231df0SBarry Smith /* calculate the number of nonzeros on each processor */ 2552dc231df0SBarry Smith for (j=0; j<rowners[i+1]-rowners[i]; j++) { 2553416022c9SBarry Smith procsnz[i] += rowlengths[j]; 2554416022c9SBarry Smith } 2555dc231df0SBarry Smith ierr = MPI_Send(rowlengths,rowners[i+1]-rowners[i],MPIU_INT,i,tag,comm);CHKERRQ(ierr); 2556416022c9SBarry Smith } 2557606d414cSSatish Balay ierr = PetscFree(rowlengths);CHKERRQ(ierr); 2558dc231df0SBarry Smith } else { 2559dc231df0SBarry Smith ierr = MPI_Recv(ourlens,m,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 2560dc231df0SBarry Smith } 2561416022c9SBarry Smith 2562dc231df0SBarry Smith if (!rank) { 2563416022c9SBarry Smith /* determine max buffer needed and allocate it */ 2564416022c9SBarry Smith maxnz = 0; 25658a8e0b3aSBarry Smith for (i=0; i<size; i++) { 25660452661fSBarry Smith maxnz = PetscMax(maxnz,procsnz[i]); 2567416022c9SBarry Smith } 2568b1d57f15SBarry Smith ierr = PetscMalloc(maxnz*sizeof(PetscInt),&cols);CHKERRQ(ierr); 2569416022c9SBarry Smith 2570416022c9SBarry Smith /* read in my part of the matrix column indices */ 2571416022c9SBarry Smith nz = procsnz[0]; 2572b1d57f15SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 25730752156aSBarry Smith ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr); 2574d65a2f8fSBarry Smith 2575d65a2f8fSBarry Smith /* read in every one elses and ship off */ 257617699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 2577d65a2f8fSBarry Smith nz = procsnz[i]; 25780752156aSBarry Smith ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 2579b1d57f15SBarry Smith ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr); 2580d65a2f8fSBarry Smith } 2581606d414cSSatish Balay ierr = PetscFree(cols);CHKERRQ(ierr); 25823a40ed3dSBarry Smith } else { 2583416022c9SBarry Smith /* determine buffer space needed for message */ 2584416022c9SBarry Smith nz = 0; 2585416022c9SBarry Smith for (i=0; i<m; i++) { 2586416022c9SBarry Smith nz += ourlens[i]; 2587416022c9SBarry Smith } 2588dc231df0SBarry Smith ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr); 2589416022c9SBarry Smith 2590416022c9SBarry Smith /* receive message of column indices*/ 2591b1d57f15SBarry Smith ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr); 2592b1d57f15SBarry Smith ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr); 259329bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 2594416022c9SBarry Smith } 2595416022c9SBarry Smith 2596b362ba68SBarry Smith /* determine column ownership if matrix is not square */ 2597b362ba68SBarry Smith if (N != M) { 2598b362ba68SBarry Smith n = N/size + ((N % size) > rank); 2599b1d57f15SBarry Smith ierr = MPI_Scan(&n,&cend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 2600b362ba68SBarry Smith cstart = cend - n; 2601b362ba68SBarry Smith } else { 2602b362ba68SBarry Smith cstart = rstart; 2603b362ba68SBarry Smith cend = rend; 2604fb2e594dSBarry Smith n = cend - cstart; 2605b362ba68SBarry Smith } 2606b362ba68SBarry Smith 2607416022c9SBarry Smith /* loop over local rows, determining number of off diagonal entries */ 2608b1d57f15SBarry Smith ierr = PetscMemzero(offlens,m*sizeof(PetscInt));CHKERRQ(ierr); 2609416022c9SBarry Smith jj = 0; 2610416022c9SBarry Smith for (i=0; i<m; i++) { 2611416022c9SBarry Smith for (j=0; j<ourlens[i]; j++) { 2612b362ba68SBarry Smith if (mycols[jj] < cstart || mycols[jj] >= cend) offlens[i]++; 2613416022c9SBarry Smith jj++; 2614416022c9SBarry Smith } 2615416022c9SBarry Smith } 2616d65a2f8fSBarry Smith 2617d65a2f8fSBarry Smith /* create our matrix */ 2618416022c9SBarry Smith for (i=0; i<m; i++) { 2619416022c9SBarry Smith ourlens[i] -= offlens[i]; 2620416022c9SBarry Smith } 2621f69a0ea3SMatthew Knepley ierr = MatCreate(comm,&A);CHKERRQ(ierr); 2622f69a0ea3SMatthew Knepley ierr = MatSetSizes(A,m,n,M,N);CHKERRQ(ierr); 2623d10c748bSKris Buschelman ierr = MatSetType(A,type);CHKERRQ(ierr); 2624d10c748bSKris Buschelman ierr = MatMPIAIJSetPreallocation(A,0,ourlens,0,offlens);CHKERRQ(ierr); 2625d10c748bSKris Buschelman 2626d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2627d65a2f8fSBarry Smith ourlens[i] += offlens[i]; 2628d65a2f8fSBarry Smith } 2629416022c9SBarry Smith 263017699dbbSLois Curfman McInnes if (!rank) { 2631906b51c7SHong Zhang ierr = PetscMalloc((maxnz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2632416022c9SBarry Smith 2633416022c9SBarry Smith /* read in my part of the matrix numerical values */ 2634416022c9SBarry Smith nz = procsnz[0]; 26350752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 2636d65a2f8fSBarry Smith 2637d65a2f8fSBarry Smith /* insert into matrix */ 2638d65a2f8fSBarry Smith jj = rstart; 2639d65a2f8fSBarry Smith smycols = mycols; 2640d65a2f8fSBarry Smith svals = vals; 2641d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2642dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2643d65a2f8fSBarry Smith smycols += ourlens[i]; 2644d65a2f8fSBarry Smith svals += ourlens[i]; 2645d65a2f8fSBarry Smith jj++; 2646416022c9SBarry Smith } 2647416022c9SBarry Smith 2648d65a2f8fSBarry Smith /* read in other processors and ship out */ 264917699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 2650416022c9SBarry Smith nz = procsnz[i]; 26510752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 26527adad957SLisandro Dalcin ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,((PetscObject)A)->tag,comm);CHKERRQ(ierr); 2653416022c9SBarry Smith } 2654606d414cSSatish Balay ierr = PetscFree(procsnz);CHKERRQ(ierr); 26553a40ed3dSBarry Smith } else { 2656d65a2f8fSBarry Smith /* receive numeric values */ 265787828ca2SBarry Smith ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 2658416022c9SBarry Smith 2659d65a2f8fSBarry Smith /* receive message of values*/ 26607adad957SLisandro Dalcin ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,((PetscObject)A)->tag,comm,&status);CHKERRQ(ierr); 2661ca161407SBarry Smith ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr); 266229bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 2663d65a2f8fSBarry Smith 2664d65a2f8fSBarry Smith /* insert into matrix */ 2665d65a2f8fSBarry Smith jj = rstart; 2666d65a2f8fSBarry Smith smycols = mycols; 2667d65a2f8fSBarry Smith svals = vals; 2668d65a2f8fSBarry Smith for (i=0; i<m; i++) { 2669dc231df0SBarry Smith ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 2670d65a2f8fSBarry Smith smycols += ourlens[i]; 2671d65a2f8fSBarry Smith svals += ourlens[i]; 2672d65a2f8fSBarry Smith jj++; 2673d65a2f8fSBarry Smith } 2674d65a2f8fSBarry Smith } 2675dc231df0SBarry Smith ierr = PetscFree2(ourlens,offlens);CHKERRQ(ierr); 2676606d414cSSatish Balay ierr = PetscFree(vals);CHKERRQ(ierr); 2677606d414cSSatish Balay ierr = PetscFree(mycols);CHKERRQ(ierr); 2678606d414cSSatish Balay ierr = PetscFree(rowners);CHKERRQ(ierr); 2679d65a2f8fSBarry Smith 26806d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 26816d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2682d10c748bSKris Buschelman *newmat = A; 26833a40ed3dSBarry Smith PetscFunctionReturn(0); 2684416022c9SBarry Smith } 2685a0ff6018SBarry Smith 26864a2ae208SSatish Balay #undef __FUNCT__ 26874a2ae208SSatish Balay #define __FUNCT__ "MatGetSubMatrix_MPIAIJ" 2688a0ff6018SBarry Smith /* 268929da9460SBarry Smith Not great since it makes two copies of the submatrix, first an SeqAIJ 269029da9460SBarry Smith in local and then by concatenating the local matrices the end result. 269129da9460SBarry Smith Writing it directly would be much like MatGetSubMatrices_MPIAIJ() 2692a0ff6018SBarry Smith */ 2693b1d57f15SBarry Smith PetscErrorCode MatGetSubMatrix_MPIAIJ(Mat mat,IS isrow,IS iscol,PetscInt csize,MatReuse call,Mat *newmat) 2694a0ff6018SBarry Smith { 2695dfbe8321SBarry Smith PetscErrorCode ierr; 269632dcc486SBarry Smith PetscMPIInt rank,size; 2697b1d57f15SBarry Smith PetscInt i,m,n,rstart,row,rend,nz,*cwork,j; 2698b1d57f15SBarry Smith PetscInt *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal; 2699fee21e36SBarry Smith Mat *local,M,Mreuse; 270087828ca2SBarry Smith PetscScalar *vwork,*aa; 27017adad957SLisandro Dalcin MPI_Comm comm = ((PetscObject)mat)->comm; 270200e6dbe6SBarry Smith Mat_SeqAIJ *aij; 27037e2c5f70SBarry Smith 2704a0ff6018SBarry Smith 2705a0ff6018SBarry Smith PetscFunctionBegin; 27061dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 27071dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 270800e6dbe6SBarry Smith 2709fee21e36SBarry Smith if (call == MAT_REUSE_MATRIX) { 2710fee21e36SBarry Smith ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject *)&Mreuse);CHKERRQ(ierr); 2711e005ede5SBarry Smith if (!Mreuse) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse"); 2712fee21e36SBarry Smith local = &Mreuse; 2713fee21e36SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_REUSE_MATRIX,&local);CHKERRQ(ierr); 2714fee21e36SBarry Smith } else { 2715a0ff6018SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&local);CHKERRQ(ierr); 2716fee21e36SBarry Smith Mreuse = *local; 2717606d414cSSatish Balay ierr = PetscFree(local);CHKERRQ(ierr); 2718fee21e36SBarry Smith } 2719a0ff6018SBarry Smith 2720a0ff6018SBarry Smith /* 2721a0ff6018SBarry Smith m - number of local rows 2722a0ff6018SBarry Smith n - number of columns (same on all processors) 2723a0ff6018SBarry Smith rstart - first row in new global matrix generated 2724a0ff6018SBarry Smith */ 2725fee21e36SBarry Smith ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr); 2726a0ff6018SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2727fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 272800e6dbe6SBarry Smith ii = aij->i; 272900e6dbe6SBarry Smith jj = aij->j; 273000e6dbe6SBarry Smith 2731a0ff6018SBarry Smith /* 273200e6dbe6SBarry Smith Determine the number of non-zeros in the diagonal and off-diagonal 273300e6dbe6SBarry Smith portions of the matrix in order to do correct preallocation 2734a0ff6018SBarry Smith */ 273500e6dbe6SBarry Smith 273600e6dbe6SBarry Smith /* first get start and end of "diagonal" columns */ 27376a6a5d1dSBarry Smith if (csize == PETSC_DECIDE) { 2738ab50ec6bSBarry Smith ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr); 2739ab50ec6bSBarry Smith if (mglobal == n) { /* square matrix */ 2740e2c4fddaSBarry Smith nlocal = m; 27416a6a5d1dSBarry Smith } else { 2742ab50ec6bSBarry Smith nlocal = n/size + ((n % size) > rank); 2743ab50ec6bSBarry Smith } 2744ab50ec6bSBarry Smith } else { 27456a6a5d1dSBarry Smith nlocal = csize; 27466a6a5d1dSBarry Smith } 2747b1d57f15SBarry Smith ierr = MPI_Scan(&nlocal,&rend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 274800e6dbe6SBarry Smith rstart = rend - nlocal; 27496a6a5d1dSBarry Smith if (rank == size - 1 && rend != n) { 275077431f27SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Local column sizes %D do not add up to total number of columns %D",rend,n); 27516a6a5d1dSBarry Smith } 275200e6dbe6SBarry Smith 275300e6dbe6SBarry Smith /* next, compute all the lengths */ 2754b1d57f15SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&dlens);CHKERRQ(ierr); 275500e6dbe6SBarry Smith olens = dlens + m; 275600e6dbe6SBarry Smith for (i=0; i<m; i++) { 275700e6dbe6SBarry Smith jend = ii[i+1] - ii[i]; 275800e6dbe6SBarry Smith olen = 0; 275900e6dbe6SBarry Smith dlen = 0; 276000e6dbe6SBarry Smith for (j=0; j<jend; j++) { 276100e6dbe6SBarry Smith if (*jj < rstart || *jj >= rend) olen++; 276200e6dbe6SBarry Smith else dlen++; 276300e6dbe6SBarry Smith jj++; 276400e6dbe6SBarry Smith } 276500e6dbe6SBarry Smith olens[i] = olen; 276600e6dbe6SBarry Smith dlens[i] = dlen; 276700e6dbe6SBarry Smith } 2768f69a0ea3SMatthew Knepley ierr = MatCreate(comm,&M);CHKERRQ(ierr); 2769f69a0ea3SMatthew Knepley ierr = MatSetSizes(M,m,nlocal,PETSC_DECIDE,n);CHKERRQ(ierr); 27707adad957SLisandro Dalcin ierr = MatSetType(M,((PetscObject)mat)->type_name);CHKERRQ(ierr); 2771e2d9671bSKris Buschelman ierr = MatMPIAIJSetPreallocation(M,0,dlens,0,olens);CHKERRQ(ierr); 2772606d414cSSatish Balay ierr = PetscFree(dlens);CHKERRQ(ierr); 2773a0ff6018SBarry Smith } else { 2774b1d57f15SBarry Smith PetscInt ml,nl; 2775a0ff6018SBarry Smith 2776a0ff6018SBarry Smith M = *newmat; 2777a0ff6018SBarry Smith ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr); 277829bbc08cSBarry Smith if (ml != m) SETERRQ(PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request"); 2779a0ff6018SBarry Smith ierr = MatZeroEntries(M);CHKERRQ(ierr); 2780c48de900SBarry Smith /* 2781c48de900SBarry Smith The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 2782c48de900SBarry Smith rather than the slower MatSetValues(). 2783c48de900SBarry Smith */ 2784c48de900SBarry Smith M->was_assembled = PETSC_TRUE; 2785c48de900SBarry Smith M->assembled = PETSC_FALSE; 2786a0ff6018SBarry Smith } 2787a0ff6018SBarry Smith ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr); 2788fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 278900e6dbe6SBarry Smith ii = aij->i; 279000e6dbe6SBarry Smith jj = aij->j; 279100e6dbe6SBarry Smith aa = aij->a; 2792a0ff6018SBarry Smith for (i=0; i<m; i++) { 2793a0ff6018SBarry Smith row = rstart + i; 279400e6dbe6SBarry Smith nz = ii[i+1] - ii[i]; 279500e6dbe6SBarry Smith cwork = jj; jj += nz; 279600e6dbe6SBarry Smith vwork = aa; aa += nz; 27978c638d02SBarry Smith ierr = MatSetValues_MPIAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr); 2798a0ff6018SBarry Smith } 2799a0ff6018SBarry Smith 2800a0ff6018SBarry Smith ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2801a0ff6018SBarry Smith ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2802a0ff6018SBarry Smith *newmat = M; 2803fee21e36SBarry Smith 2804fee21e36SBarry Smith /* save submatrix used in processor for next request */ 2805fee21e36SBarry Smith if (call == MAT_INITIAL_MATRIX) { 2806fee21e36SBarry Smith ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr); 2807fee21e36SBarry Smith ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr); 2808fee21e36SBarry Smith } 2809fee21e36SBarry Smith 2810a0ff6018SBarry Smith PetscFunctionReturn(0); 2811a0ff6018SBarry Smith } 2812273d9f13SBarry Smith 2813e2e86b8fSSatish Balay EXTERN_C_BEGIN 28144a2ae208SSatish Balay #undef __FUNCT__ 2815ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR_MPIAIJ" 2816b7940d39SSatish Balay PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B,const PetscInt Ii[],const PetscInt J[],const PetscScalar v[]) 2817ccd8e176SBarry Smith { 2818899cda47SBarry Smith PetscInt m,cstart, cend,j,nnz,i,d; 2819899cda47SBarry Smith PetscInt *d_nnz,*o_nnz,nnz_max = 0,rstart,ii; 2820ccd8e176SBarry Smith const PetscInt *JJ; 2821ccd8e176SBarry Smith PetscScalar *values; 2822ccd8e176SBarry Smith PetscErrorCode ierr; 2823ccd8e176SBarry Smith 2824ccd8e176SBarry Smith PetscFunctionBegin; 2825b7940d39SSatish Balay if (Ii[0]) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Ii[0] must be 0 it is %D",Ii[0]); 2826899cda47SBarry Smith 2827899cda47SBarry Smith B->rmap.bs = B->cmap.bs = 1; 28286148ca0dSBarry Smith ierr = PetscMapSetUp(&B->rmap);CHKERRQ(ierr); 28296148ca0dSBarry Smith ierr = PetscMapSetUp(&B->cmap);CHKERRQ(ierr); 2830899cda47SBarry Smith m = B->rmap.n; 2831899cda47SBarry Smith cstart = B->cmap.rstart; 2832899cda47SBarry Smith cend = B->cmap.rend; 2833899cda47SBarry Smith rstart = B->rmap.rstart; 2834899cda47SBarry Smith 2835ccd8e176SBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr); 2836ccd8e176SBarry Smith o_nnz = d_nnz + m; 2837ccd8e176SBarry Smith 2838ecc77c7aSBarry Smith #if defined(PETSC_USE_DEBUGGING) 2839ecc77c7aSBarry Smith for (i=0; i<m; i++) { 2840ecc77c7aSBarry Smith nnz = Ii[i+1]- Ii[i]; 2841ecc77c7aSBarry Smith JJ = J + Ii[i]; 2842ecc77c7aSBarry Smith if (nnz < 0) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Local row %D has a negative %D number of columns",i,nnz); 2843ecc77c7aSBarry Smith if (nnz && (JJ[0] < 0)) SETERRRQ1(PETSC_ERR_ARG_WRONGSTATE,"Row %D starts with negative column index",i,j); 2844ecc77c7aSBarry 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); 2845ecc77c7aSBarry Smith for (j=1; j<nnz; j++) { 2846ecc77c7aSBarry 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); 2847ecc77c7aSBarry Smith } 2848ecc77c7aSBarry Smith } 2849ecc77c7aSBarry Smith #endif 2850ecc77c7aSBarry Smith 2851ccd8e176SBarry Smith for (i=0; i<m; i++) { 2852b7940d39SSatish Balay nnz = Ii[i+1]- Ii[i]; 2853b7940d39SSatish Balay JJ = J + Ii[i]; 2854ccd8e176SBarry Smith nnz_max = PetscMax(nnz_max,nnz); 2855ccd8e176SBarry Smith for (j=0; j<nnz; j++) { 2856ccd8e176SBarry Smith if (*JJ >= cstart) break; 2857ccd8e176SBarry Smith JJ++; 2858ccd8e176SBarry Smith } 2859ccd8e176SBarry Smith d = 0; 2860ccd8e176SBarry Smith for (; j<nnz; j++) { 2861ccd8e176SBarry Smith if (*JJ++ >= cend) break; 2862ccd8e176SBarry Smith d++; 2863ccd8e176SBarry Smith } 2864ccd8e176SBarry Smith d_nnz[i] = d; 2865ccd8e176SBarry Smith o_nnz[i] = nnz - d; 2866ccd8e176SBarry Smith } 2867ccd8e176SBarry Smith ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,o_nnz);CHKERRQ(ierr); 2868ccd8e176SBarry Smith ierr = PetscFree(d_nnz);CHKERRQ(ierr); 2869ccd8e176SBarry Smith 2870ccd8e176SBarry Smith if (v) values = (PetscScalar*)v; 2871ccd8e176SBarry Smith else { 2872ccd8e176SBarry Smith ierr = PetscMalloc((nnz_max+1)*sizeof(PetscScalar),&values);CHKERRQ(ierr); 2873ccd8e176SBarry Smith ierr = PetscMemzero(values,nnz_max*sizeof(PetscScalar));CHKERRQ(ierr); 2874ccd8e176SBarry Smith } 2875ccd8e176SBarry Smith 2876ccd8e176SBarry Smith for (i=0; i<m; i++) { 2877ccd8e176SBarry Smith ii = i + rstart; 2878b7940d39SSatish Balay nnz = Ii[i+1]- Ii[i]; 2879b7940d39SSatish Balay ierr = MatSetValues_MPIAIJ(B,1,&ii,nnz,J+Ii[i],values+(v ? Ii[i] : 0),INSERT_VALUES);CHKERRQ(ierr); 2880ccd8e176SBarry Smith } 2881ccd8e176SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2882ccd8e176SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2883ccd8e176SBarry Smith 2884ccd8e176SBarry Smith if (!v) { 2885ccd8e176SBarry Smith ierr = PetscFree(values);CHKERRQ(ierr); 2886ccd8e176SBarry Smith } 2887ccd8e176SBarry Smith PetscFunctionReturn(0); 2888ccd8e176SBarry Smith } 2889e2e86b8fSSatish Balay EXTERN_C_END 2890ccd8e176SBarry Smith 2891ccd8e176SBarry Smith #undef __FUNCT__ 2892ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR" 28931eea217eSSatish Balay /*@ 2894ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in AIJ format 2895ccd8e176SBarry Smith (the default parallel PETSc format). 2896ccd8e176SBarry Smith 2897ccd8e176SBarry Smith Collective on MPI_Comm 2898ccd8e176SBarry Smith 2899ccd8e176SBarry Smith Input Parameters: 2900a1661176SMatthew Knepley + B - the matrix 2901ccd8e176SBarry Smith . i - the indices into j for the start of each local row (starts with zero) 2902ccd8e176SBarry Smith . j - the column indices for each local row (starts with zero) these must be sorted for each row 2903ccd8e176SBarry Smith - v - optional values in the matrix 2904ccd8e176SBarry Smith 2905ccd8e176SBarry Smith Level: developer 2906ccd8e176SBarry Smith 290712251496SSatish Balay Notes: 290812251496SSatish Balay The i, j, and a arrays ARE copied by this routine into the internal format used by PETSc; 290912251496SSatish Balay thus you CANNOT change the matrix entries by changing the values of a[] after you have 291012251496SSatish Balay called this routine. Use MatCreateMPIAIJWithSplitArrays() to avoid needing to copy the arrays. 291112251496SSatish Balay 291212251496SSatish Balay The i and j indices are 0 based, and i indices are indices corresponding to the local j array. 291312251496SSatish Balay 291412251496SSatish Balay The format which is used for the sparse matrix input, is equivalent to a 291512251496SSatish Balay row-major ordering.. i.e for the following matrix, the input data expected is 291612251496SSatish Balay as shown: 291712251496SSatish Balay 291812251496SSatish Balay 1 0 0 291912251496SSatish Balay 2 0 3 P0 292012251496SSatish Balay ------- 292112251496SSatish Balay 4 5 6 P1 292212251496SSatish Balay 292312251496SSatish Balay Process0 [P0]: rows_owned=[0,1] 292412251496SSatish Balay i = {0,1,3} [size = nrow+1 = 2+1] 292512251496SSatish Balay j = {0,0,2} [size = nz = 6] 292612251496SSatish Balay v = {1,2,3} [size = nz = 6] 292712251496SSatish Balay 292812251496SSatish Balay Process1 [P1]: rows_owned=[2] 292912251496SSatish Balay i = {0,3} [size = nrow+1 = 1+1] 293012251496SSatish Balay j = {0,1,2} [size = nz = 6] 293112251496SSatish Balay v = {4,5,6} [size = nz = 6] 293212251496SSatish Balay 2933ecc77c7aSBarry Smith The column indices for each row MUST be sorted. 29342fb0ec9aSBarry Smith 2935ccd8e176SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2936ccd8e176SBarry Smith 29372fb0ec9aSBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatCreateMPIAIJ(), MPIAIJ, 29388d7a6e47SBarry Smith MatCreateSeqAIJWithArrays(), MatCreateMPIAIJWithSplitArrays() 2939ccd8e176SBarry Smith @*/ 2940be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocationCSR(Mat B,const PetscInt i[],const PetscInt j[], const PetscScalar v[]) 2941ccd8e176SBarry Smith { 2942ccd8e176SBarry Smith PetscErrorCode ierr,(*f)(Mat,const PetscInt[],const PetscInt[],const PetscScalar[]); 2943ccd8e176SBarry Smith 2944ccd8e176SBarry Smith PetscFunctionBegin; 2945ccd8e176SBarry Smith ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",(void (**)(void))&f);CHKERRQ(ierr); 2946ccd8e176SBarry Smith if (f) { 2947ccd8e176SBarry Smith ierr = (*f)(B,i,j,v);CHKERRQ(ierr); 2948ccd8e176SBarry Smith } 2949ccd8e176SBarry Smith PetscFunctionReturn(0); 2950ccd8e176SBarry Smith } 2951ccd8e176SBarry Smith 2952ccd8e176SBarry Smith #undef __FUNCT__ 29534a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJSetPreallocation" 2954273d9f13SBarry Smith /*@C 2955ccd8e176SBarry Smith MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in AIJ format 2956273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2957273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2958273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2959273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2960273d9f13SBarry Smith 2961273d9f13SBarry Smith Collective on MPI_Comm 2962273d9f13SBarry Smith 2963273d9f13SBarry Smith Input Parameters: 2964273d9f13SBarry Smith + A - the matrix 2965273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2966273d9f13SBarry Smith (same value is used for all local rows) 2967273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2968273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2969273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2970273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2971273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2972273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2973273d9f13SBarry Smith submatrix (same value is used for all local rows). 2974273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2975273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2976273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2977273d9f13SBarry Smith structure. The size of this array is equal to the number 2978273d9f13SBarry Smith of local rows, i.e 'm'. 2979273d9f13SBarry Smith 298049a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 298149a6f317SBarry Smith 2982273d9f13SBarry Smith The AIJ format (also called the Yale sparse matrix format or 2983ccd8e176SBarry Smith compressed row storage (CSR)), is fully compatible with standard Fortran 77 2984ccd8e176SBarry Smith storage. The stored row and column indices begin with zero. See the users manual for details. 2985273d9f13SBarry Smith 2986273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2987273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2988273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2989273d9f13SBarry Smith 2990273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2991273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2992273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2993273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2994273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2995273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2996273d9f13SBarry Smith 2997273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2998273d9f13SBarry Smith 2999*aa95bbe8SBarry Smith You can call MatGetInfo() to get information on how effective the preallocation was; 3000*aa95bbe8SBarry Smith for example the fields mallocs,nz_allocated,nz_used,nz_unneeded; 3001*aa95bbe8SBarry Smith You can also run with the option -info and look for messages with the string 3002*aa95bbe8SBarry Smith malloc in them to see if additional memory allocation was needed. 3003*aa95bbe8SBarry Smith 3004273d9f13SBarry Smith Example usage: 3005273d9f13SBarry Smith 3006273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 3007273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 3008273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 3009273d9f13SBarry Smith as follows: 3010273d9f13SBarry Smith 3011273d9f13SBarry Smith .vb 3012273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 3013273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 3014273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 3015273d9f13SBarry Smith ------------------------------------- 3016273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 3017273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 3018273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 3019273d9f13SBarry Smith ------------------------------------- 3020273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 3021273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 3022273d9f13SBarry Smith .ve 3023273d9f13SBarry Smith 3024273d9f13SBarry Smith This can be represented as a collection of submatrices as: 3025273d9f13SBarry Smith 3026273d9f13SBarry Smith .vb 3027273d9f13SBarry Smith A B C 3028273d9f13SBarry Smith D E F 3029273d9f13SBarry Smith G H I 3030273d9f13SBarry Smith .ve 3031273d9f13SBarry Smith 3032273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 3033273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 3034273d9f13SBarry Smith 3035273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 3036273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 3037273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 3038273d9f13SBarry Smith 3039273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 3040273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 3041273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 3042273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 3043273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 3044273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 3045273d9f13SBarry Smith 3046273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 3047273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 3048273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 3049273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 3050273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 3051273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 3052273d9f13SBarry Smith .vb 3053273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 3054273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 3055273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 3056273d9f13SBarry Smith .ve 3057273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 3058273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 3059273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 3060273d9f13SBarry Smith 34 values. 3061273d9f13SBarry Smith 3062273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 3063273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 3064273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 3065273d9f13SBarry Smith .vb 3066273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 3067273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 3068273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 3069273d9f13SBarry Smith .ve 3070273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 3071273d9f13SBarry Smith hence pre-allocation is perfect. 3072273d9f13SBarry Smith 3073273d9f13SBarry Smith Level: intermediate 3074273d9f13SBarry Smith 3075273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 3076273d9f13SBarry Smith 3077ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateMPIAIJ(), MatMPIAIJSetPreallocationCSR(), 3078*aa95bbe8SBarry Smith MPIAIJ, MatGetInfo() 3079273d9f13SBarry Smith @*/ 3080be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[]) 3081273d9f13SBarry Smith { 3082b1d57f15SBarry Smith PetscErrorCode ierr,(*f)(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]); 3083273d9f13SBarry Smith 3084273d9f13SBarry Smith PetscFunctionBegin; 3085a23d5eceSKris Buschelman ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocation_C",(void (**)(void))&f);CHKERRQ(ierr); 3086a23d5eceSKris Buschelman if (f) { 3087a23d5eceSKris Buschelman ierr = (*f)(B,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 3088273d9f13SBarry Smith } 3089273d9f13SBarry Smith PetscFunctionReturn(0); 3090273d9f13SBarry Smith } 3091273d9f13SBarry Smith 30924a2ae208SSatish Balay #undef __FUNCT__ 30932fb0ec9aSBarry Smith #define __FUNCT__ "MatCreateMPIAIJWithArrays" 309458d36128SBarry Smith /*@ 30952fb0ec9aSBarry Smith MatCreateMPIAIJWithArrays - creates a MPI AIJ matrix using arrays that contain in standard 30962fb0ec9aSBarry Smith CSR format the local rows. 30972fb0ec9aSBarry Smith 30982fb0ec9aSBarry Smith Collective on MPI_Comm 30992fb0ec9aSBarry Smith 31002fb0ec9aSBarry Smith Input Parameters: 31012fb0ec9aSBarry Smith + comm - MPI communicator 31022fb0ec9aSBarry Smith . m - number of local rows (Cannot be PETSC_DECIDE) 31032fb0ec9aSBarry Smith . n - This value should be the same as the local size used in creating the 31042fb0ec9aSBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 31052fb0ec9aSBarry Smith calculated if N is given) For square matrices n is almost always m. 31062fb0ec9aSBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 31072fb0ec9aSBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 31082fb0ec9aSBarry Smith . i - row indices 31092fb0ec9aSBarry Smith . j - column indices 31102fb0ec9aSBarry Smith - a - matrix values 31112fb0ec9aSBarry Smith 31122fb0ec9aSBarry Smith Output Parameter: 31132fb0ec9aSBarry Smith . mat - the matrix 311403bfb495SBarry Smith 31152fb0ec9aSBarry Smith Level: intermediate 31162fb0ec9aSBarry Smith 31172fb0ec9aSBarry Smith Notes: 31182fb0ec9aSBarry Smith The i, j, and a arrays ARE copied by this routine into the internal format used by PETSc; 31192fb0ec9aSBarry Smith thus you CANNOT change the matrix entries by changing the values of a[] after you have 31208d7a6e47SBarry Smith called this routine. Use MatCreateMPIAIJWithSplitArrays() to avoid needing to copy the arrays. 31212fb0ec9aSBarry Smith 312212251496SSatish Balay The i and j indices are 0 based, and i indices are indices corresponding to the local j array. 312312251496SSatish Balay 312412251496SSatish Balay The format which is used for the sparse matrix input, is equivalent to a 312512251496SSatish Balay row-major ordering.. i.e for the following matrix, the input data expected is 312612251496SSatish Balay as shown: 312712251496SSatish Balay 312812251496SSatish Balay 1 0 0 312912251496SSatish Balay 2 0 3 P0 313012251496SSatish Balay ------- 313112251496SSatish Balay 4 5 6 P1 313212251496SSatish Balay 313312251496SSatish Balay Process0 [P0]: rows_owned=[0,1] 313412251496SSatish Balay i = {0,1,3} [size = nrow+1 = 2+1] 313512251496SSatish Balay j = {0,0,2} [size = nz = 6] 313612251496SSatish Balay v = {1,2,3} [size = nz = 6] 313712251496SSatish Balay 313812251496SSatish Balay Process1 [P1]: rows_owned=[2] 313912251496SSatish Balay i = {0,3} [size = nrow+1 = 1+1] 314012251496SSatish Balay j = {0,1,2} [size = nz = 6] 314112251496SSatish Balay v = {4,5,6} [size = nz = 6] 31422fb0ec9aSBarry Smith 31432fb0ec9aSBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 31442fb0ec9aSBarry Smith 31452fb0ec9aSBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 31468d7a6e47SBarry Smith MPIAIJ, MatCreateMPIAIJ(), MatCreateMPIAIJWithSplitArrays() 31472fb0ec9aSBarry Smith @*/ 314882b90586SSatish 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) 31492fb0ec9aSBarry Smith { 31502fb0ec9aSBarry Smith PetscErrorCode ierr; 31512fb0ec9aSBarry Smith 31522fb0ec9aSBarry Smith PetscFunctionBegin; 31532fb0ec9aSBarry Smith if (i[0]) { 31542fb0ec9aSBarry Smith SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0"); 31552fb0ec9aSBarry Smith } 31562fb0ec9aSBarry Smith if (m < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"local number of rows (m) cannot be PETSC_DECIDE, or negative"); 31572fb0ec9aSBarry Smith ierr = MatCreate(comm,mat);CHKERRQ(ierr); 3158d4146a68SBarry Smith ierr = MatSetSizes(*mat,m,n,M,N);CHKERRQ(ierr); 31592fb0ec9aSBarry Smith ierr = MatSetType(*mat,MATMPIAIJ);CHKERRQ(ierr); 31602fb0ec9aSBarry Smith ierr = MatMPIAIJSetPreallocationCSR(*mat,i,j,a);CHKERRQ(ierr); 31612fb0ec9aSBarry Smith PetscFunctionReturn(0); 31622fb0ec9aSBarry Smith } 31632fb0ec9aSBarry Smith 31642fb0ec9aSBarry Smith #undef __FUNCT__ 31654a2ae208SSatish Balay #define __FUNCT__ "MatCreateMPIAIJ" 3166273d9f13SBarry Smith /*@C 3167273d9f13SBarry Smith MatCreateMPIAIJ - Creates a sparse parallel matrix in AIJ format 3168273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 3169273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 3170273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 3171273d9f13SBarry Smith performance can be increased by more than a factor of 50. 3172273d9f13SBarry Smith 3173273d9f13SBarry Smith Collective on MPI_Comm 3174273d9f13SBarry Smith 3175273d9f13SBarry Smith Input Parameters: 3176273d9f13SBarry Smith + comm - MPI communicator 3177273d9f13SBarry Smith . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 3178273d9f13SBarry Smith This value should be the same as the local size used in creating the 3179273d9f13SBarry Smith y vector for the matrix-vector product y = Ax. 3180273d9f13SBarry Smith . n - This value should be the same as the local size used in creating the 3181273d9f13SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 3182273d9f13SBarry Smith calculated if N is given) For square matrices n is almost always m. 3183273d9f13SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 3184273d9f13SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 3185273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 3186273d9f13SBarry Smith (same value is used for all local rows) 3187273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 3188273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 3189273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 3190273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 3191273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 3192273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 3193273d9f13SBarry Smith submatrix (same value is used for all local rows). 3194273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 3195273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 3196273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 3197273d9f13SBarry Smith structure. The size of this array is equal to the number 3198273d9f13SBarry Smith of local rows, i.e 'm'. 3199273d9f13SBarry Smith 3200273d9f13SBarry Smith Output Parameter: 3201273d9f13SBarry Smith . A - the matrix 3202273d9f13SBarry Smith 3203175b88e8SBarry Smith It is recommended that one use the MatCreate(), MatSetType() and/or MatSetFromOptions(), 3204175b88e8SBarry Smith MatXXXXSetPreallocation() paradgm instead of this routine directly. This is definitely 3205175b88e8SBarry Smith true if you plan to use the external direct solvers such as SuperLU, MUMPS or Spooles. 3206175b88e8SBarry Smith [MatXXXXSetPreallocation() is, for example, MatSeqAIJSetPreallocation] 3207175b88e8SBarry Smith 3208273d9f13SBarry Smith Notes: 320949a6f317SBarry Smith If the *_nnz parameter is given then the *_nz parameter is ignored 321049a6f317SBarry Smith 3211273d9f13SBarry Smith m,n,M,N parameters specify the size of the matrix, and its partitioning across 3212273d9f13SBarry Smith processors, while d_nz,d_nnz,o_nz,o_nnz parameters specify the approximate 3213273d9f13SBarry Smith storage requirements for this matrix. 3214273d9f13SBarry Smith 3215273d9f13SBarry Smith If PETSC_DECIDE or PETSC_DETERMINE is used for a particular argument on one 3216273d9f13SBarry Smith processor than it must be used on all processors that share the object for 3217273d9f13SBarry Smith that argument. 3218273d9f13SBarry Smith 3219273d9f13SBarry Smith The user MUST specify either the local or global matrix dimensions 3220273d9f13SBarry Smith (possibly both). 3221273d9f13SBarry Smith 322233a7c187SSatish Balay The parallel matrix is partitioned across processors such that the 322333a7c187SSatish Balay first m0 rows belong to process 0, the next m1 rows belong to 322433a7c187SSatish Balay process 1, the next m2 rows belong to process 2 etc.. where 322533a7c187SSatish Balay m0,m1,m2,.. are the input parameter 'm'. i.e each processor stores 322633a7c187SSatish Balay values corresponding to [m x N] submatrix. 3227273d9f13SBarry Smith 322833a7c187SSatish Balay The columns are logically partitioned with the n0 columns belonging 322933a7c187SSatish Balay to 0th partition, the next n1 columns belonging to the next 323033a7c187SSatish Balay partition etc.. where n0,n1,n2... are the the input parameter 'n'. 323133a7c187SSatish Balay 323233a7c187SSatish Balay The DIAGONAL portion of the local submatrix on any given processor 323333a7c187SSatish Balay is the submatrix corresponding to the rows and columns m,n 323433a7c187SSatish Balay corresponding to the given processor. i.e diagonal matrix on 323533a7c187SSatish Balay process 0 is [m0 x n0], diagonal matrix on process 1 is [m1 x n1] 323633a7c187SSatish Balay etc. The remaining portion of the local submatrix [m x (N-n)] 323733a7c187SSatish Balay constitute the OFF-DIAGONAL portion. The example below better 323833a7c187SSatish Balay illustrates this concept. 323933a7c187SSatish Balay 324033a7c187SSatish Balay For a square global matrix we define each processor's diagonal portion 324133a7c187SSatish Balay to be its local rows and the corresponding columns (a square submatrix); 324233a7c187SSatish Balay each processor's off-diagonal portion encompasses the remainder of the 324333a7c187SSatish Balay local matrix (a rectangular submatrix). 3244273d9f13SBarry Smith 3245273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 3246273d9f13SBarry Smith 324797d05335SKris Buschelman When calling this routine with a single process communicator, a matrix of 324897d05335SKris Buschelman type SEQAIJ is returned. If a matrix of type MPIAIJ is desired for this 324997d05335SKris Buschelman type of communicator, use the construction mechanism: 325097d05335SKris Buschelman MatCreate(...,&A); MatSetType(A,MPIAIJ); MatMPIAIJSetPreallocation(A,...); 325197d05335SKris Buschelman 3252273d9f13SBarry Smith By default, this format uses inodes (identical nodes) when possible. 3253273d9f13SBarry Smith We search for consecutive rows with the same nonzero structure, thereby 3254273d9f13SBarry Smith reusing matrix information to achieve increased efficiency. 3255273d9f13SBarry Smith 3256273d9f13SBarry Smith Options Database Keys: 3257923f20ffSKris Buschelman + -mat_no_inode - Do not use inodes 3258923f20ffSKris Buschelman . -mat_inode_limit <limit> - Sets inode limit (max limit=5) 3259273d9f13SBarry Smith - -mat_aij_oneindex - Internally use indexing starting at 1 3260273d9f13SBarry Smith rather than 0. Note that when calling MatSetValues(), 3261273d9f13SBarry Smith the user still MUST index entries starting at 0! 3262273d9f13SBarry Smith 3263273d9f13SBarry Smith 3264273d9f13SBarry Smith Example usage: 3265273d9f13SBarry Smith 3266273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 3267273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 3268273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 3269273d9f13SBarry Smith as follows: 3270273d9f13SBarry Smith 3271273d9f13SBarry Smith .vb 3272273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 3273273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 3274273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 3275273d9f13SBarry Smith ------------------------------------- 3276273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 3277273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 3278273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 3279273d9f13SBarry Smith ------------------------------------- 3280273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 3281273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 3282273d9f13SBarry Smith .ve 3283273d9f13SBarry Smith 3284273d9f13SBarry Smith This can be represented as a collection of submatrices as: 3285273d9f13SBarry Smith 3286273d9f13SBarry Smith .vb 3287273d9f13SBarry Smith A B C 3288273d9f13SBarry Smith D E F 3289273d9f13SBarry Smith G H I 3290273d9f13SBarry Smith .ve 3291273d9f13SBarry Smith 3292273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 3293273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 3294273d9f13SBarry Smith 3295273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 3296273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 3297273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 3298273d9f13SBarry Smith 3299273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 3300273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 3301273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 3302273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 3303273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 3304273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 3305273d9f13SBarry Smith 3306273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 3307273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 3308273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 3309273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 3310273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 3311273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 3312273d9f13SBarry Smith .vb 3313273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 3314273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 3315273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 3316273d9f13SBarry Smith .ve 3317273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 3318273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 3319273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 3320273d9f13SBarry Smith 34 values. 3321273d9f13SBarry Smith 3322273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 3323273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 3324273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 3325273d9f13SBarry Smith .vb 3326273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 3327273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 3328273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 3329273d9f13SBarry Smith .ve 3330273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 3331273d9f13SBarry Smith hence pre-allocation is perfect. 3332273d9f13SBarry Smith 3333273d9f13SBarry Smith Level: intermediate 3334273d9f13SBarry Smith 3335273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 3336273d9f13SBarry Smith 3337ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 33382fb0ec9aSBarry Smith MPIAIJ, MatCreateMPIAIJWithArrays() 3339273d9f13SBarry Smith @*/ 3340be1d678aSKris 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) 3341273d9f13SBarry Smith { 33426849ba73SBarry Smith PetscErrorCode ierr; 3343b1d57f15SBarry Smith PetscMPIInt size; 3344273d9f13SBarry Smith 3345273d9f13SBarry Smith PetscFunctionBegin; 3346f69a0ea3SMatthew Knepley ierr = MatCreate(comm,A);CHKERRQ(ierr); 3347f69a0ea3SMatthew Knepley ierr = MatSetSizes(*A,m,n,M,N);CHKERRQ(ierr); 3348273d9f13SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3349273d9f13SBarry Smith if (size > 1) { 3350273d9f13SBarry Smith ierr = MatSetType(*A,MATMPIAIJ);CHKERRQ(ierr); 3351273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(*A,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 3352273d9f13SBarry Smith } else { 3353273d9f13SBarry Smith ierr = MatSetType(*A,MATSEQAIJ);CHKERRQ(ierr); 3354273d9f13SBarry Smith ierr = MatSeqAIJSetPreallocation(*A,d_nz,d_nnz);CHKERRQ(ierr); 3355273d9f13SBarry Smith } 3356273d9f13SBarry Smith PetscFunctionReturn(0); 3357273d9f13SBarry Smith } 3358195d93cdSBarry Smith 33594a2ae208SSatish Balay #undef __FUNCT__ 33604a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJGetSeqAIJ" 3361be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMPIAIJGetSeqAIJ(Mat A,Mat *Ad,Mat *Ao,PetscInt *colmap[]) 3362195d93cdSBarry Smith { 3363195d93cdSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 3364b1d57f15SBarry Smith 3365195d93cdSBarry Smith PetscFunctionBegin; 3366195d93cdSBarry Smith *Ad = a->A; 3367195d93cdSBarry Smith *Ao = a->B; 3368195d93cdSBarry Smith *colmap = a->garray; 3369195d93cdSBarry Smith PetscFunctionReturn(0); 3370195d93cdSBarry Smith } 3371a2243be0SBarry Smith 3372a2243be0SBarry Smith #undef __FUNCT__ 3373a2243be0SBarry Smith #define __FUNCT__ "MatSetColoring_MPIAIJ" 3374dfbe8321SBarry Smith PetscErrorCode MatSetColoring_MPIAIJ(Mat A,ISColoring coloring) 3375a2243be0SBarry Smith { 3376dfbe8321SBarry Smith PetscErrorCode ierr; 3377b1d57f15SBarry Smith PetscInt i; 3378a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 3379a2243be0SBarry Smith 3380a2243be0SBarry Smith PetscFunctionBegin; 33818ee2e534SBarry Smith if (coloring->ctype == IS_COLORING_GLOBAL) { 338208b6dcc0SBarry Smith ISColoringValue *allcolors,*colors; 3383a2243be0SBarry Smith ISColoring ocoloring; 3384a2243be0SBarry Smith 3385a2243be0SBarry Smith /* set coloring for diagonal portion */ 3386a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,coloring);CHKERRQ(ierr); 3387a2243be0SBarry Smith 3388a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 33897adad957SLisandro Dalcin ierr = ISAllGatherColors(((PetscObject)A)->comm,coloring->n,coloring->colors,PETSC_NULL,&allcolors);CHKERRQ(ierr); 3390899cda47SBarry Smith ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 3391899cda47SBarry Smith for (i=0; i<a->B->cmap.n; i++) { 3392a2243be0SBarry Smith colors[i] = allcolors[a->garray[i]]; 3393a2243be0SBarry Smith } 3394a2243be0SBarry Smith ierr = PetscFree(allcolors);CHKERRQ(ierr); 339595a80f87SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,coloring->n,a->B->cmap.n,colors,&ocoloring);CHKERRQ(ierr); 3396a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 3397a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 3398a2243be0SBarry Smith } else if (coloring->ctype == IS_COLORING_GHOSTED) { 339908b6dcc0SBarry Smith ISColoringValue *colors; 3400b1d57f15SBarry Smith PetscInt *larray; 3401a2243be0SBarry Smith ISColoring ocoloring; 3402a2243be0SBarry Smith 3403a2243be0SBarry Smith /* set coloring for diagonal portion */ 3404899cda47SBarry Smith ierr = PetscMalloc((a->A->cmap.n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 3405899cda47SBarry Smith for (i=0; i<a->A->cmap.n; i++) { 3406899cda47SBarry Smith larray[i] = i + A->cmap.rstart; 3407a2243be0SBarry Smith } 3408899cda47SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->A->cmap.n,larray,PETSC_NULL,larray);CHKERRQ(ierr); 3409899cda47SBarry Smith ierr = PetscMalloc((a->A->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 3410899cda47SBarry Smith for (i=0; i<a->A->cmap.n; i++) { 3411a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 3412a2243be0SBarry Smith } 3413a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 341495a80f87SBarry Smith ierr = ISColoringCreate(PETSC_COMM_SELF,coloring->n,a->A->cmap.n,colors,&ocoloring);CHKERRQ(ierr); 3415a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,ocoloring);CHKERRQ(ierr); 3416a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 3417a2243be0SBarry Smith 3418a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 3419899cda47SBarry Smith ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr); 3420899cda47SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->B->cmap.n,a->garray,PETSC_NULL,larray);CHKERRQ(ierr); 3421899cda47SBarry Smith ierr = PetscMalloc((a->B->cmap.n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr); 3422899cda47SBarry Smith for (i=0; i<a->B->cmap.n; i++) { 3423a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 3424a2243be0SBarry Smith } 3425a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 342695a80f87SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,coloring->n,a->B->cmap.n,colors,&ocoloring);CHKERRQ(ierr); 3427a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 3428a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 3429a2243be0SBarry Smith } else { 343077431f27SBarry Smith SETERRQ1(PETSC_ERR_SUP,"No support ISColoringType %d",(int)coloring->ctype); 3431a2243be0SBarry Smith } 3432a2243be0SBarry Smith 3433a2243be0SBarry Smith PetscFunctionReturn(0); 3434a2243be0SBarry Smith } 3435a2243be0SBarry Smith 3436dcf5cc72SBarry Smith #if defined(PETSC_HAVE_ADIC) 3437a2243be0SBarry Smith #undef __FUNCT__ 3438779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdic_MPIAIJ" 3439dfbe8321SBarry Smith PetscErrorCode MatSetValuesAdic_MPIAIJ(Mat A,void *advalues) 3440a2243be0SBarry Smith { 3441a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 3442dfbe8321SBarry Smith PetscErrorCode ierr; 3443a2243be0SBarry Smith 3444a2243be0SBarry Smith PetscFunctionBegin; 3445779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->A,advalues);CHKERRQ(ierr); 3446779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->B,advalues);CHKERRQ(ierr); 3447779c1a83SBarry Smith PetscFunctionReturn(0); 3448779c1a83SBarry Smith } 3449dcf5cc72SBarry Smith #endif 3450779c1a83SBarry Smith 3451779c1a83SBarry Smith #undef __FUNCT__ 3452779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdifor_MPIAIJ" 3453b1d57f15SBarry Smith PetscErrorCode MatSetValuesAdifor_MPIAIJ(Mat A,PetscInt nl,void *advalues) 3454779c1a83SBarry Smith { 3455779c1a83SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 3456dfbe8321SBarry Smith PetscErrorCode ierr; 3457779c1a83SBarry Smith 3458779c1a83SBarry Smith PetscFunctionBegin; 3459779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->A,nl,advalues);CHKERRQ(ierr); 3460779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->B,nl,advalues);CHKERRQ(ierr); 3461a2243be0SBarry Smith PetscFunctionReturn(0); 3462a2243be0SBarry Smith } 3463c5d6d63eSBarry Smith 3464c5d6d63eSBarry Smith #undef __FUNCT__ 346551dd7536SBarry Smith #define __FUNCT__ "MatMerge" 3466bc08b0f1SBarry Smith /*@ 346751dd7536SBarry Smith MatMerge - Creates a single large PETSc matrix by concatinating sequential 346851dd7536SBarry Smith matrices from each processor 3469c5d6d63eSBarry Smith 3470c5d6d63eSBarry Smith Collective on MPI_Comm 3471c5d6d63eSBarry Smith 3472c5d6d63eSBarry Smith Input Parameters: 347351dd7536SBarry Smith + comm - the communicators the parallel matrix will live on 3474d6bb3c2dSHong Zhang . inmat - the input sequential matrices 34750e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 3476d6bb3c2dSHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 347751dd7536SBarry Smith 347851dd7536SBarry Smith Output Parameter: 347951dd7536SBarry Smith . outmat - the parallel matrix generated 3480c5d6d63eSBarry Smith 34817e25d530SSatish Balay Level: advanced 34827e25d530SSatish Balay 3483f08fae4eSHong Zhang Notes: The number of columns of the matrix in EACH processor MUST be the same. 3484c5d6d63eSBarry Smith 3485c5d6d63eSBarry Smith @*/ 3486be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat) 3487c5d6d63eSBarry Smith { 3488dfbe8321SBarry Smith PetscErrorCode ierr; 3489b7940d39SSatish Balay PetscInt m,N,i,rstart,nnz,Ii,*dnz,*onz; 3490ba8c8a56SBarry Smith PetscInt *indx; 3491ba8c8a56SBarry Smith PetscScalar *values; 3492c5d6d63eSBarry Smith 3493c5d6d63eSBarry Smith PetscFunctionBegin; 34940e36024fSHong Zhang ierr = MatGetSize(inmat,&m,&N);CHKERRQ(ierr); 3495d6bb3c2dSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 3496d6bb3c2dSHong Zhang /* count nonzeros in each row, for diagonal and off diagonal portion of matrix */ 34970e36024fSHong Zhang if (n == PETSC_DECIDE){ 3498357abbc8SBarry Smith ierr = PetscSplitOwnership(comm,&n,&N);CHKERRQ(ierr); 34990e36024fSHong Zhang } 3500357abbc8SBarry Smith ierr = MPI_Scan(&m, &rstart,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr); 3501357abbc8SBarry Smith rstart -= m; 3502d6bb3c2dSHong Zhang 3503d6bb3c2dSHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 3504d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 3505ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 3506d6bb3c2dSHong Zhang ierr = MatPreallocateSet(i+rstart,nnz,indx,dnz,onz);CHKERRQ(ierr); 3507ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr); 3508d6bb3c2dSHong Zhang } 3509d6bb3c2dSHong Zhang /* This routine will ONLY return MPIAIJ type matrix */ 3510f69a0ea3SMatthew Knepley ierr = MatCreate(comm,outmat);CHKERRQ(ierr); 3511f69a0ea3SMatthew Knepley ierr = MatSetSizes(*outmat,m,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 3512d6bb3c2dSHong Zhang ierr = MatSetType(*outmat,MATMPIAIJ);CHKERRQ(ierr); 3513d6bb3c2dSHong Zhang ierr = MatMPIAIJSetPreallocation(*outmat,0,dnz,0,onz);CHKERRQ(ierr); 3514d6bb3c2dSHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 3515d6bb3c2dSHong Zhang 3516d6bb3c2dSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 3517d6bb3c2dSHong Zhang ierr = MatGetOwnershipRange(*outmat,&rstart,PETSC_NULL);CHKERRQ(ierr); 3518d6bb3c2dSHong Zhang } else { 351977431f27SBarry Smith SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 3520d6bb3c2dSHong Zhang } 3521d6bb3c2dSHong Zhang 3522d6bb3c2dSHong Zhang for (i=0;i<m;i++) { 3523ba8c8a56SBarry Smith ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 3524b7940d39SSatish Balay Ii = i + rstart; 3525b7940d39SSatish Balay ierr = MatSetValues(*outmat,1,&Ii,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 3526ba8c8a56SBarry Smith ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr); 3527d6bb3c2dSHong Zhang } 3528d6bb3c2dSHong Zhang ierr = MatDestroy(inmat);CHKERRQ(ierr); 3529d6bb3c2dSHong Zhang ierr = MatAssemblyBegin(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3530d6bb3c2dSHong Zhang ierr = MatAssemblyEnd(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 353151dd7536SBarry Smith 3532c5d6d63eSBarry Smith PetscFunctionReturn(0); 3533c5d6d63eSBarry Smith } 3534c5d6d63eSBarry Smith 3535c5d6d63eSBarry Smith #undef __FUNCT__ 3536c5d6d63eSBarry Smith #define __FUNCT__ "MatFileSplit" 3537dfbe8321SBarry Smith PetscErrorCode MatFileSplit(Mat A,char *outfile) 3538c5d6d63eSBarry Smith { 3539dfbe8321SBarry Smith PetscErrorCode ierr; 354032dcc486SBarry Smith PetscMPIInt rank; 3541b1d57f15SBarry Smith PetscInt m,N,i,rstart,nnz; 3542de4209c5SBarry Smith size_t len; 3543b1d57f15SBarry Smith const PetscInt *indx; 3544c5d6d63eSBarry Smith PetscViewer out; 3545c5d6d63eSBarry Smith char *name; 3546c5d6d63eSBarry Smith Mat B; 3547b3cc6726SBarry Smith const PetscScalar *values; 3548c5d6d63eSBarry Smith 3549c5d6d63eSBarry Smith PetscFunctionBegin; 3550c5d6d63eSBarry Smith ierr = MatGetLocalSize(A,&m,0);CHKERRQ(ierr); 3551c5d6d63eSBarry Smith ierr = MatGetSize(A,0,&N);CHKERRQ(ierr); 3552f204ca49SKris Buschelman /* Should this be the type of the diagonal block of A? */ 3553f69a0ea3SMatthew Knepley ierr = MatCreate(PETSC_COMM_SELF,&B);CHKERRQ(ierr); 3554f69a0ea3SMatthew Knepley ierr = MatSetSizes(B,m,N,m,N);CHKERRQ(ierr); 3555f204ca49SKris Buschelman ierr = MatSetType(B,MATSEQAIJ);CHKERRQ(ierr); 3556f204ca49SKris Buschelman ierr = MatSeqAIJSetPreallocation(B,0,PETSC_NULL);CHKERRQ(ierr); 3557c5d6d63eSBarry Smith ierr = MatGetOwnershipRange(A,&rstart,0);CHKERRQ(ierr); 3558c5d6d63eSBarry Smith for (i=0;i<m;i++) { 3559c5d6d63eSBarry Smith ierr = MatGetRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 3560c5d6d63eSBarry Smith ierr = MatSetValues(B,1,&i,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 3561c5d6d63eSBarry Smith ierr = MatRestoreRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 3562c5d6d63eSBarry Smith } 3563c5d6d63eSBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3564c5d6d63eSBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 3565c5d6d63eSBarry Smith 35667adad957SLisandro Dalcin ierr = MPI_Comm_rank(((PetscObject)A)->comm,&rank);CHKERRQ(ierr); 3567c5d6d63eSBarry Smith ierr = PetscStrlen(outfile,&len);CHKERRQ(ierr); 3568c5d6d63eSBarry Smith ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr); 3569c5d6d63eSBarry Smith sprintf(name,"%s.%d",outfile,rank); 3570852598b0SBarry Smith ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,FILE_MODE_APPEND,&out);CHKERRQ(ierr); 3571c5d6d63eSBarry Smith ierr = PetscFree(name); 3572c5d6d63eSBarry Smith ierr = MatView(B,out);CHKERRQ(ierr); 3573c5d6d63eSBarry Smith ierr = PetscViewerDestroy(out);CHKERRQ(ierr); 3574c5d6d63eSBarry Smith ierr = MatDestroy(B);CHKERRQ(ierr); 3575c5d6d63eSBarry Smith PetscFunctionReturn(0); 3576c5d6d63eSBarry Smith } 3577e5f2cdd8SHong Zhang 357851a7d1a8SHong Zhang EXTERN PetscErrorCode MatDestroy_MPIAIJ(Mat); 357951a7d1a8SHong Zhang #undef __FUNCT__ 358051a7d1a8SHong Zhang #define __FUNCT__ "MatDestroy_MPIAIJ_SeqsToMPI" 3581be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatDestroy_MPIAIJ_SeqsToMPI(Mat A) 358251a7d1a8SHong Zhang { 358351a7d1a8SHong Zhang PetscErrorCode ierr; 3584671beff6SHong Zhang Mat_Merge_SeqsToMPI *merge; 3585776b82aeSLisandro Dalcin PetscContainer container; 358651a7d1a8SHong Zhang 358751a7d1a8SHong Zhang PetscFunctionBegin; 3588671beff6SHong Zhang ierr = PetscObjectQuery((PetscObject)A,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 3589671beff6SHong Zhang if (container) { 3590776b82aeSLisandro Dalcin ierr = PetscContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 359151a7d1a8SHong Zhang ierr = PetscFree(merge->id_r);CHKERRQ(ierr); 35923e06a4e6SHong Zhang ierr = PetscFree(merge->len_s);CHKERRQ(ierr); 35933e06a4e6SHong Zhang ierr = PetscFree(merge->len_r);CHKERRQ(ierr); 359451a7d1a8SHong Zhang ierr = PetscFree(merge->bi);CHKERRQ(ierr); 359551a7d1a8SHong Zhang ierr = PetscFree(merge->bj);CHKERRQ(ierr); 359602c68681SHong Zhang ierr = PetscFree(merge->buf_ri);CHKERRQ(ierr); 359702c68681SHong Zhang ierr = PetscFree(merge->buf_rj);CHKERRQ(ierr); 359805b42c5fSBarry Smith ierr = PetscFree(merge->coi);CHKERRQ(ierr); 359905b42c5fSBarry Smith ierr = PetscFree(merge->coj);CHKERRQ(ierr); 360005b42c5fSBarry Smith ierr = PetscFree(merge->owners_co);CHKERRQ(ierr); 36012c72b5baSSatish Balay ierr = PetscFree(merge->rowmap.range);CHKERRQ(ierr); 3602671beff6SHong Zhang 3603776b82aeSLisandro Dalcin ierr = PetscContainerDestroy(container);CHKERRQ(ierr); 3604671beff6SHong Zhang ierr = PetscObjectCompose((PetscObject)A,"MatMergeSeqsToMPI",0);CHKERRQ(ierr); 3605671beff6SHong Zhang } 360651a7d1a8SHong Zhang ierr = PetscFree(merge);CHKERRQ(ierr); 360751a7d1a8SHong Zhang 360851a7d1a8SHong Zhang ierr = MatDestroy_MPIAIJ(A);CHKERRQ(ierr); 360951a7d1a8SHong Zhang PetscFunctionReturn(0); 361051a7d1a8SHong Zhang } 361151a7d1a8SHong Zhang 361258cb9c82SHong Zhang #include "src/mat/utils/freespace.h" 3613be0fcf8dSHong Zhang #include "petscbt.h" 36144ebed01fSBarry Smith 3615e5f2cdd8SHong Zhang #undef __FUNCT__ 361638f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPINumeric" 3617e5f2cdd8SHong Zhang /*@C 3618f08fae4eSHong Zhang MatMerge_SeqsToMPI - Creates a MPIAIJ matrix by adding sequential 3619e5f2cdd8SHong Zhang matrices from each processor 3620e5f2cdd8SHong Zhang 3621e5f2cdd8SHong Zhang Collective on MPI_Comm 3622e5f2cdd8SHong Zhang 3623e5f2cdd8SHong Zhang Input Parameters: 3624e5f2cdd8SHong Zhang + comm - the communicators the parallel matrix will live on 3625f08fae4eSHong Zhang . seqmat - the input sequential matrices 36260e36024fSHong Zhang . m - number of local rows (or PETSC_DECIDE) 36270e36024fSHong Zhang . n - number of local columns (or PETSC_DECIDE) 3628e5f2cdd8SHong Zhang - scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 3629e5f2cdd8SHong Zhang 3630e5f2cdd8SHong Zhang Output Parameter: 3631f08fae4eSHong Zhang . mpimat - the parallel matrix generated 3632e5f2cdd8SHong Zhang 3633e5f2cdd8SHong Zhang Level: advanced 3634e5f2cdd8SHong Zhang 3635affca5deSHong Zhang Notes: 3636affca5deSHong Zhang The dimensions of the sequential matrix in each processor MUST be the same. 3637affca5deSHong Zhang The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be 3638affca5deSHong Zhang destroyed when mpimat is destroyed. Call PetscObjectQuery() to access seqmat. 3639e5f2cdd8SHong Zhang @*/ 3640be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPINumeric(Mat seqmat,Mat mpimat) 364155d1abb9SHong Zhang { 364255d1abb9SHong Zhang PetscErrorCode ierr; 36437adad957SLisandro Dalcin MPI_Comm comm=((PetscObject)mpimat)->comm; 364455d1abb9SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 3645b1d57f15SBarry Smith PetscMPIInt size,rank,taga,*len_s; 3646899cda47SBarry Smith PetscInt N=mpimat->cmap.N,i,j,*owners,*ai=a->i,*aj=a->j; 3647b1d57f15SBarry Smith PetscInt proc,m; 3648b1d57f15SBarry Smith PetscInt **buf_ri,**buf_rj; 3649b1d57f15SBarry Smith PetscInt k,anzi,*bj_i,*bi,*bj,arow,bnzi,nextaj; 3650b1d57f15SBarry Smith PetscInt nrows,**buf_ri_k,**nextrow,**nextai; 365155d1abb9SHong Zhang MPI_Request *s_waits,*r_waits; 365255d1abb9SHong Zhang MPI_Status *status; 3653ce805ee4SHong Zhang MatScalar *aa=a->a,**abuf_r,*ba_i; 365455d1abb9SHong Zhang Mat_Merge_SeqsToMPI *merge; 3655776b82aeSLisandro Dalcin PetscContainer container; 365655d1abb9SHong Zhang 365755d1abb9SHong Zhang PetscFunctionBegin; 36584ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_Seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 36593c2c1871SHong Zhang 366055d1abb9SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 366155d1abb9SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 366255d1abb9SHong Zhang 366355d1abb9SHong Zhang ierr = PetscObjectQuery((PetscObject)mpimat,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr); 366455d1abb9SHong Zhang if (container) { 3665776b82aeSLisandro Dalcin ierr = PetscContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr); 366655d1abb9SHong Zhang } 366755d1abb9SHong Zhang bi = merge->bi; 366855d1abb9SHong Zhang bj = merge->bj; 366955d1abb9SHong Zhang buf_ri = merge->buf_ri; 367055d1abb9SHong Zhang buf_rj = merge->buf_rj; 367155d1abb9SHong Zhang 367255d1abb9SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 3673357abbc8SBarry Smith owners = merge->rowmap.range; 367455d1abb9SHong Zhang len_s = merge->len_s; 367555d1abb9SHong Zhang 367655d1abb9SHong Zhang /* send and recv matrix values */ 367755d1abb9SHong Zhang /*-----------------------------*/ 3678357abbc8SBarry Smith ierr = PetscObjectGetNewTag((PetscObject)mpimat,&taga);CHKERRQ(ierr); 367955d1abb9SHong Zhang ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr); 368055d1abb9SHong Zhang 368155d1abb9SHong Zhang ierr = PetscMalloc((merge->nsend+1)*sizeof(MPI_Request),&s_waits);CHKERRQ(ierr); 368255d1abb9SHong Zhang for (proc=0,k=0; proc<size; proc++){ 368355d1abb9SHong Zhang if (!len_s[proc]) continue; 368455d1abb9SHong Zhang i = owners[proc]; 368555d1abb9SHong Zhang ierr = MPI_Isend(aa+ai[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRQ(ierr); 368655d1abb9SHong Zhang k++; 368755d1abb9SHong Zhang } 368855d1abb9SHong Zhang 36890c468ba9SBarry Smith if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRQ(ierr);} 36900c468ba9SBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRQ(ierr);} 369155d1abb9SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 369255d1abb9SHong Zhang 369355d1abb9SHong Zhang ierr = PetscFree(s_waits);CHKERRQ(ierr); 369455d1abb9SHong Zhang ierr = PetscFree(r_waits);CHKERRQ(ierr); 369555d1abb9SHong Zhang 369655d1abb9SHong Zhang /* insert mat values of mpimat */ 369755d1abb9SHong Zhang /*----------------------------*/ 369855d1abb9SHong Zhang ierr = PetscMalloc(N*sizeof(MatScalar),&ba_i);CHKERRQ(ierr); 3699b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 370055d1abb9SHong Zhang nextrow = buf_ri_k + merge->nrecv; 370155d1abb9SHong Zhang nextai = nextrow + merge->nrecv; 370255d1abb9SHong Zhang 370355d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ 370455d1abb9SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 370555d1abb9SHong Zhang nrows = *(buf_ri_k[k]); 370655d1abb9SHong Zhang nextrow[k] = buf_ri_k[k]+1; /* next row number of k-th recved i-structure */ 370755d1abb9SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 370855d1abb9SHong Zhang } 370955d1abb9SHong Zhang 371055d1abb9SHong Zhang /* set values of ba */ 3711357abbc8SBarry Smith m = merge->rowmap.n; 371255d1abb9SHong Zhang for (i=0; i<m; i++) { 371355d1abb9SHong Zhang arow = owners[rank] + i; 371455d1abb9SHong Zhang bj_i = bj+bi[i]; /* col indices of the i-th row of mpimat */ 371555d1abb9SHong Zhang bnzi = bi[i+1] - bi[i]; 371655d1abb9SHong Zhang ierr = PetscMemzero(ba_i,bnzi*sizeof(MatScalar));CHKERRQ(ierr); 371755d1abb9SHong Zhang 371855d1abb9SHong Zhang /* add local non-zero vals of this proc's seqmat into ba */ 371955d1abb9SHong Zhang anzi = ai[arow+1] - ai[arow]; 372055d1abb9SHong Zhang aj = a->j + ai[arow]; 372155d1abb9SHong Zhang aa = a->a + ai[arow]; 372255d1abb9SHong Zhang nextaj = 0; 372355d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 372455d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 372555d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 372655d1abb9SHong Zhang } 372755d1abb9SHong Zhang } 372855d1abb9SHong Zhang 372955d1abb9SHong Zhang /* add received vals into ba */ 373055d1abb9SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 373155d1abb9SHong Zhang /* i-th row */ 373255d1abb9SHong Zhang if (i == *nextrow[k]) { 373355d1abb9SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 373455d1abb9SHong Zhang aj = buf_rj[k] + *(nextai[k]); 373555d1abb9SHong Zhang aa = abuf_r[k] + *(nextai[k]); 373655d1abb9SHong Zhang nextaj = 0; 373755d1abb9SHong Zhang for (j=0; nextaj<anzi; j++){ 373855d1abb9SHong Zhang if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */ 373955d1abb9SHong Zhang ba_i[j] += aa[nextaj++]; 374055d1abb9SHong Zhang } 374155d1abb9SHong Zhang } 374255d1abb9SHong Zhang nextrow[k]++; nextai[k]++; 374355d1abb9SHong Zhang } 374455d1abb9SHong Zhang } 374555d1abb9SHong Zhang ierr = MatSetValues(mpimat,1,&arow,bnzi,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr); 374655d1abb9SHong Zhang } 374755d1abb9SHong Zhang ierr = MatAssemblyBegin(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 374855d1abb9SHong Zhang ierr = MatAssemblyEnd(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 374955d1abb9SHong Zhang 375055d1abb9SHong Zhang ierr = PetscFree(abuf_r);CHKERRQ(ierr); 375155d1abb9SHong Zhang ierr = PetscFree(ba_i);CHKERRQ(ierr); 375255d1abb9SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 37534ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_Seqstompinum,seqmat,0,0,0);CHKERRQ(ierr); 375455d1abb9SHong Zhang PetscFunctionReturn(0); 375555d1abb9SHong Zhang } 375638f152feSBarry Smith 375738f152feSBarry Smith #undef __FUNCT__ 375838f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPISymbolic" 3759be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPISymbolic(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,Mat *mpimat) 3760e5f2cdd8SHong Zhang { 3761f08fae4eSHong Zhang PetscErrorCode ierr; 376255a3bba9SHong Zhang Mat B_mpi; 3763c2234fe3SHong Zhang Mat_SeqAIJ *a=(Mat_SeqAIJ*)seqmat->data; 3764b1d57f15SBarry Smith PetscMPIInt size,rank,tagi,tagj,*len_s,*len_si,*len_ri; 3765b1d57f15SBarry Smith PetscInt **buf_rj,**buf_ri,**buf_ri_k; 3766899cda47SBarry Smith PetscInt M=seqmat->rmap.n,N=seqmat->cmap.n,i,*owners,*ai=a->i,*aj=a->j; 3767b1d57f15SBarry Smith PetscInt len,proc,*dnz,*onz; 3768b1d57f15SBarry Smith PetscInt k,anzi,*bi,*bj,*lnk,nlnk,arow,bnzi,nspacedouble=0; 3769b1d57f15SBarry Smith PetscInt nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextai; 377055d1abb9SHong Zhang MPI_Request *si_waits,*sj_waits,*ri_waits,*rj_waits; 377158cb9c82SHong Zhang MPI_Status *status; 3772a1a86e44SBarry Smith PetscFreeSpaceList free_space=PETSC_NULL,current_space=PETSC_NULL; 3773be0fcf8dSHong Zhang PetscBT lnkbt; 377451a7d1a8SHong Zhang Mat_Merge_SeqsToMPI *merge; 3775776b82aeSLisandro Dalcin PetscContainer container; 377602c68681SHong Zhang 3777e5f2cdd8SHong Zhang PetscFunctionBegin; 37784ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_Seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 37793c2c1871SHong Zhang 378038f152feSBarry Smith /* make sure it is a PETSc comm */ 378138f152feSBarry Smith ierr = PetscCommDuplicate(comm,&comm,PETSC_NULL);CHKERRQ(ierr); 3782e5f2cdd8SHong Zhang ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 3783e5f2cdd8SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 378455d1abb9SHong Zhang 378551a7d1a8SHong Zhang ierr = PetscNew(Mat_Merge_SeqsToMPI,&merge);CHKERRQ(ierr); 3786c2234fe3SHong Zhang ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr); 3787e5f2cdd8SHong Zhang 37886abd8857SHong Zhang /* determine row ownership */ 3789f08fae4eSHong Zhang /*---------------------------------------------------------*/ 3790b167c4dbSHong Zhang ierr = PetscMapInitialize(comm,&merge->rowmap);CHKERRQ(ierr); 3791899cda47SBarry Smith merge->rowmap.n = m; 3792899cda47SBarry Smith merge->rowmap.N = M; 3793fc42d0c8SSatish Balay merge->rowmap.bs = 1; 37946148ca0dSBarry Smith ierr = PetscMapSetUp(&merge->rowmap);CHKERRQ(ierr); 3795b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&len_si);CHKERRQ(ierr); 3796b1d57f15SBarry Smith ierr = PetscMalloc(size*sizeof(PetscMPIInt),&merge->len_s);CHKERRQ(ierr); 379755d1abb9SHong Zhang 3798357abbc8SBarry Smith m = merge->rowmap.n; 3799357abbc8SBarry Smith M = merge->rowmap.N; 3800357abbc8SBarry Smith owners = merge->rowmap.range; 38016abd8857SHong Zhang 38026abd8857SHong Zhang /* determine the number of messages to send, their lengths */ 38036abd8857SHong Zhang /*---------------------------------------------------------*/ 38043e06a4e6SHong Zhang len_s = merge->len_s; 380551a7d1a8SHong Zhang 38062257cef7SHong Zhang len = 0; /* length of buf_si[] */ 3807c2234fe3SHong Zhang merge->nsend = 0; 3808409913e3SHong Zhang for (proc=0; proc<size; proc++){ 38092257cef7SHong Zhang len_si[proc] = 0; 38103e06a4e6SHong Zhang if (proc == rank){ 38116abd8857SHong Zhang len_s[proc] = 0; 38123e06a4e6SHong Zhang } else { 381302c68681SHong Zhang len_si[proc] = owners[proc+1] - owners[proc] + 1; 38143e06a4e6SHong Zhang len_s[proc] = ai[owners[proc+1]] - ai[owners[proc]]; /* num of rows to be sent to [proc] */ 38153e06a4e6SHong Zhang } 38163e06a4e6SHong Zhang if (len_s[proc]) { 3817c2234fe3SHong Zhang merge->nsend++; 38182257cef7SHong Zhang nrows = 0; 38192257cef7SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 38202257cef7SHong Zhang if (ai[i+1] > ai[i]) nrows++; 38212257cef7SHong Zhang } 38222257cef7SHong Zhang len_si[proc] = 2*(nrows+1); 38232257cef7SHong Zhang len += len_si[proc]; 3824409913e3SHong Zhang } 382558cb9c82SHong Zhang } 3826409913e3SHong Zhang 38272257cef7SHong Zhang /* determine the number and length of messages to receive for ij-structure */ 38282257cef7SHong Zhang /*-------------------------------------------------------------------------*/ 382951a7d1a8SHong Zhang ierr = PetscGatherNumberOfMessages(comm,PETSC_NULL,len_s,&merge->nrecv);CHKERRQ(ierr); 383055d1abb9SHong Zhang ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr); 3831671beff6SHong Zhang 38323e06a4e6SHong Zhang /* post the Irecv of j-structure */ 38333e06a4e6SHong Zhang /*-------------------------------*/ 38342c72b5baSSatish Balay ierr = PetscCommGetNewTag(comm,&tagj);CHKERRQ(ierr); 38353e06a4e6SHong Zhang ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rj_waits);CHKERRQ(ierr); 383602c68681SHong Zhang 38373e06a4e6SHong Zhang /* post the Isend of j-structure */ 3838affca5deSHong Zhang /*--------------------------------*/ 38392257cef7SHong Zhang ierr = PetscMalloc((2*merge->nsend+1)*sizeof(MPI_Request),&si_waits);CHKERRQ(ierr); 384002c68681SHong Zhang sj_waits = si_waits + merge->nsend; 38413e06a4e6SHong Zhang 38422257cef7SHong Zhang for (proc=0, k=0; proc<size; proc++){ 3843409913e3SHong Zhang if (!len_s[proc]) continue; 384402c68681SHong Zhang i = owners[proc]; 3845b1d57f15SBarry Smith ierr = MPI_Isend(aj+ai[i],len_s[proc],MPIU_INT,proc,tagj,comm,sj_waits+k);CHKERRQ(ierr); 384651a7d1a8SHong Zhang k++; 384751a7d1a8SHong Zhang } 384851a7d1a8SHong Zhang 38493e06a4e6SHong Zhang /* receives and sends of j-structure are complete */ 38503e06a4e6SHong Zhang /*------------------------------------------------*/ 38510c468ba9SBarry Smith if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,rj_waits,status);CHKERRQ(ierr);} 38520c468ba9SBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,sj_waits,status);CHKERRQ(ierr);} 385302c68681SHong Zhang 385402c68681SHong Zhang /* send and recv i-structure */ 385502c68681SHong Zhang /*---------------------------*/ 38562c72b5baSSatish Balay ierr = PetscCommGetNewTag(comm,&tagi);CHKERRQ(ierr); 385702c68681SHong Zhang ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&ri_waits);CHKERRQ(ierr); 385802c68681SHong Zhang 3859b1d57f15SBarry Smith ierr = PetscMalloc((len+1)*sizeof(PetscInt),&buf_s);CHKERRQ(ierr); 38603e06a4e6SHong Zhang buf_si = buf_s; /* points to the beginning of k-th msg to be sent */ 38612257cef7SHong Zhang for (proc=0,k=0; proc<size; proc++){ 386202c68681SHong Zhang if (!len_s[proc]) continue; 38633e06a4e6SHong Zhang /* form outgoing message for i-structure: 38643e06a4e6SHong Zhang buf_si[0]: nrows to be sent 38653e06a4e6SHong Zhang [1:nrows]: row index (global) 38663e06a4e6SHong Zhang [nrows+1:2*nrows+1]: i-structure index 38673e06a4e6SHong Zhang */ 38683e06a4e6SHong Zhang /*-------------------------------------------*/ 38692257cef7SHong Zhang nrows = len_si[proc]/2 - 1; 38703e06a4e6SHong Zhang buf_si_i = buf_si + nrows+1; 38713e06a4e6SHong Zhang buf_si[0] = nrows; 38723e06a4e6SHong Zhang buf_si_i[0] = 0; 38733e06a4e6SHong Zhang nrows = 0; 38743e06a4e6SHong Zhang for (i=owners[proc]; i<owners[proc+1]; i++){ 38753e06a4e6SHong Zhang anzi = ai[i+1] - ai[i]; 38763e06a4e6SHong Zhang if (anzi) { 38773e06a4e6SHong Zhang buf_si_i[nrows+1] = buf_si_i[nrows] + anzi; /* i-structure */ 38783e06a4e6SHong Zhang buf_si[nrows+1] = i-owners[proc]; /* local row index */ 38793e06a4e6SHong Zhang nrows++; 38803e06a4e6SHong Zhang } 38813e06a4e6SHong Zhang } 3882b1d57f15SBarry Smith ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,si_waits+k);CHKERRQ(ierr); 388302c68681SHong Zhang k++; 38842257cef7SHong Zhang buf_si += len_si[proc]; 388502c68681SHong Zhang } 38862257cef7SHong Zhang 38870c468ba9SBarry Smith if (merge->nrecv) {ierr = MPI_Waitall(merge->nrecv,ri_waits,status);CHKERRQ(ierr);} 38880c468ba9SBarry Smith if (merge->nsend) {ierr = MPI_Waitall(merge->nsend,si_waits,status);CHKERRQ(ierr);} 388902c68681SHong Zhang 3890ae15b995SBarry Smith ierr = PetscInfo2(seqmat,"nsend: %D, nrecv: %D\n",merge->nsend,merge->nrecv);CHKERRQ(ierr); 38913e06a4e6SHong Zhang for (i=0; i<merge->nrecv; i++){ 3892ae15b995SBarry 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); 38933e06a4e6SHong Zhang } 38943e06a4e6SHong Zhang 38953e06a4e6SHong Zhang ierr = PetscFree(len_si);CHKERRQ(ierr); 389602c68681SHong Zhang ierr = PetscFree(len_ri);CHKERRQ(ierr); 389702c68681SHong Zhang ierr = PetscFree(rj_waits);CHKERRQ(ierr); 38983e06a4e6SHong Zhang ierr = PetscFree(si_waits);CHKERRQ(ierr); 38992257cef7SHong Zhang ierr = PetscFree(ri_waits);CHKERRQ(ierr); 39003e06a4e6SHong Zhang ierr = PetscFree(buf_s);CHKERRQ(ierr); 3901bcc1bcd5SHong Zhang ierr = PetscFree(status);CHKERRQ(ierr); 390258cb9c82SHong Zhang 3903bcc1bcd5SHong Zhang /* compute a local seq matrix in each processor */ 3904bcc1bcd5SHong Zhang /*----------------------------------------------*/ 390558cb9c82SHong Zhang /* allocate bi array and free space for accumulating nonzero column info */ 3906b1d57f15SBarry Smith ierr = PetscMalloc((m+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr); 390758cb9c82SHong Zhang bi[0] = 0; 390858cb9c82SHong Zhang 3909be0fcf8dSHong Zhang /* create and initialize a linked list */ 3910be0fcf8dSHong Zhang nlnk = N+1; 3911be0fcf8dSHong Zhang ierr = PetscLLCreate(N,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 391258cb9c82SHong Zhang 3913bcc1bcd5SHong Zhang /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */ 391458cb9c82SHong Zhang len = 0; 3915bcc1bcd5SHong Zhang len = ai[owners[rank+1]] - ai[owners[rank]]; 3916a1a86e44SBarry Smith ierr = PetscFreeSpaceGet((PetscInt)(2*len+1),&free_space);CHKERRQ(ierr); 391758cb9c82SHong Zhang current_space = free_space; 391858cb9c82SHong Zhang 3919bcc1bcd5SHong Zhang /* determine symbolic info for each local row */ 3920b1d57f15SBarry Smith ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr); 39213e06a4e6SHong Zhang nextrow = buf_ri_k + merge->nrecv; 39223e06a4e6SHong Zhang nextai = nextrow + merge->nrecv; 39233e06a4e6SHong Zhang for (k=0; k<merge->nrecv; k++){ 39242257cef7SHong Zhang buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */ 39253e06a4e6SHong Zhang nrows = *buf_ri_k[k]; 39263e06a4e6SHong Zhang nextrow[k] = buf_ri_k[k] + 1; /* next row number of k-th recved i-structure */ 39272257cef7SHong Zhang nextai[k] = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure */ 39283e06a4e6SHong Zhang } 39292257cef7SHong Zhang 3930bcc1bcd5SHong Zhang ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr); 3931bcc1bcd5SHong Zhang len = 0; 393258cb9c82SHong Zhang for (i=0;i<m;i++) { 393358cb9c82SHong Zhang bnzi = 0; 393458cb9c82SHong Zhang /* add local non-zero cols of this proc's seqmat into lnk */ 393558cb9c82SHong Zhang arow = owners[rank] + i; 393658cb9c82SHong Zhang anzi = ai[arow+1] - ai[arow]; 393758cb9c82SHong Zhang aj = a->j + ai[arow]; 3938be0fcf8dSHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 393958cb9c82SHong Zhang bnzi += nlnk; 394058cb9c82SHong Zhang /* add received col data into lnk */ 394151a7d1a8SHong Zhang for (k=0; k<merge->nrecv; k++){ /* k-th received message */ 394255d1abb9SHong Zhang if (i == *nextrow[k]) { /* i-th row */ 39433e06a4e6SHong Zhang anzi = *(nextai[k]+1) - *nextai[k]; 39443e06a4e6SHong Zhang aj = buf_rj[k] + *nextai[k]; 39453e06a4e6SHong Zhang ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr); 39463e06a4e6SHong Zhang bnzi += nlnk; 39473e06a4e6SHong Zhang nextrow[k]++; nextai[k]++; 39483e06a4e6SHong Zhang } 394958cb9c82SHong Zhang } 3950bcc1bcd5SHong Zhang if (len < bnzi) len = bnzi; /* =max(bnzi) */ 395158cb9c82SHong Zhang 395258cb9c82SHong Zhang /* if free space is not available, make more free space */ 395358cb9c82SHong Zhang if (current_space->local_remaining<bnzi) { 3954a1a86e44SBarry Smith ierr = PetscFreeSpaceGet(current_space->total_array_size,¤t_space);CHKERRQ(ierr); 395558cb9c82SHong Zhang nspacedouble++; 395658cb9c82SHong Zhang } 395758cb9c82SHong Zhang /* copy data into free space, then initialize lnk */ 3958be0fcf8dSHong Zhang ierr = PetscLLClean(N,N,bnzi,lnk,current_space->array,lnkbt);CHKERRQ(ierr); 3959bcc1bcd5SHong Zhang ierr = MatPreallocateSet(i+owners[rank],bnzi,current_space->array,dnz,onz);CHKERRQ(ierr); 3960bcc1bcd5SHong Zhang 396158cb9c82SHong Zhang current_space->array += bnzi; 396258cb9c82SHong Zhang current_space->local_used += bnzi; 396358cb9c82SHong Zhang current_space->local_remaining -= bnzi; 396458cb9c82SHong Zhang 396558cb9c82SHong Zhang bi[i+1] = bi[i] + bnzi; 396658cb9c82SHong Zhang } 3967bcc1bcd5SHong Zhang 3968bcc1bcd5SHong Zhang ierr = PetscFree(buf_ri_k);CHKERRQ(ierr); 3969bcc1bcd5SHong Zhang 3970b1d57f15SBarry Smith ierr = PetscMalloc((bi[m]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr); 3971a1a86e44SBarry Smith ierr = PetscFreeSpaceContiguous(&free_space,bj);CHKERRQ(ierr); 3972be0fcf8dSHong Zhang ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr); 3973409913e3SHong Zhang 3974bcc1bcd5SHong Zhang /* create symbolic parallel matrix B_mpi */ 3975bcc1bcd5SHong Zhang /*---------------------------------------*/ 3976f69a0ea3SMatthew Knepley ierr = MatCreate(comm,&B_mpi);CHKERRQ(ierr); 397754b84b50SHong Zhang if (n==PETSC_DECIDE) { 3978f69a0ea3SMatthew Knepley ierr = MatSetSizes(B_mpi,m,n,PETSC_DETERMINE,N);CHKERRQ(ierr); 397954b84b50SHong Zhang } else { 3980f69a0ea3SMatthew Knepley ierr = MatSetSizes(B_mpi,m,n,PETSC_DETERMINE,PETSC_DETERMINE);CHKERRQ(ierr); 398154b84b50SHong Zhang } 3982bcc1bcd5SHong Zhang ierr = MatSetType(B_mpi,MATMPIAIJ);CHKERRQ(ierr); 3983bcc1bcd5SHong Zhang ierr = MatMPIAIJSetPreallocation(B_mpi,0,dnz,0,onz);CHKERRQ(ierr); 3984bcc1bcd5SHong Zhang ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr); 398558cb9c82SHong Zhang 39866abd8857SHong Zhang /* B_mpi is not ready for use - assembly will be done by MatMerge_SeqsToMPINumeric() */ 39876abd8857SHong Zhang B_mpi->assembled = PETSC_FALSE; 3988affca5deSHong Zhang B_mpi->ops->destroy = MatDestroy_MPIAIJ_SeqsToMPI; 3989affca5deSHong Zhang merge->bi = bi; 3990affca5deSHong Zhang merge->bj = bj; 399102c68681SHong Zhang merge->buf_ri = buf_ri; 399202c68681SHong Zhang merge->buf_rj = buf_rj; 3993de0260b3SHong Zhang merge->coi = PETSC_NULL; 3994de0260b3SHong Zhang merge->coj = PETSC_NULL; 3995de0260b3SHong Zhang merge->owners_co = PETSC_NULL; 3996affca5deSHong Zhang 3997affca5deSHong Zhang /* attach the supporting struct to B_mpi for reuse */ 3998776b82aeSLisandro Dalcin ierr = PetscContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr); 3999776b82aeSLisandro Dalcin ierr = PetscContainerSetPointer(container,merge);CHKERRQ(ierr); 4000affca5deSHong Zhang ierr = PetscObjectCompose((PetscObject)B_mpi,"MatMergeSeqsToMPI",(PetscObject)container);CHKERRQ(ierr); 4001affca5deSHong Zhang *mpimat = B_mpi; 400238f152feSBarry Smith 400338f152feSBarry Smith ierr = PetscCommDestroy(&comm);CHKERRQ(ierr); 40044ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_Seqstompisym,seqmat,0,0,0);CHKERRQ(ierr); 4005e5f2cdd8SHong Zhang PetscFunctionReturn(0); 4006e5f2cdd8SHong Zhang } 400725616d81SHong Zhang 400838f152feSBarry Smith #undef __FUNCT__ 400938f152feSBarry Smith #define __FUNCT__ "MatMerge_SeqsToMPI" 4010be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatMerge_SeqsToMPI(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,MatReuse scall,Mat *mpimat) 401155d1abb9SHong Zhang { 401255d1abb9SHong Zhang PetscErrorCode ierr; 401355d1abb9SHong Zhang 401455d1abb9SHong Zhang PetscFunctionBegin; 40154ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_Seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 401655d1abb9SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 401755d1abb9SHong Zhang ierr = MatMerge_SeqsToMPISymbolic(comm,seqmat,m,n,mpimat);CHKERRQ(ierr); 401855d1abb9SHong Zhang } 401955d1abb9SHong Zhang ierr = MatMerge_SeqsToMPINumeric(seqmat,*mpimat);CHKERRQ(ierr); 40204ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_Seqstompi,seqmat,0,0,0);CHKERRQ(ierr); 402155d1abb9SHong Zhang PetscFunctionReturn(0); 402255d1abb9SHong Zhang } 40234ebed01fSBarry Smith 402425616d81SHong Zhang #undef __FUNCT__ 402525616d81SHong Zhang #define __FUNCT__ "MatGetLocalMat" 4026bc08b0f1SBarry Smith /*@ 402732fba14fSHong Zhang MatGetLocalMat - Creates a SeqAIJ matrix by taking all its local rows 402825616d81SHong Zhang 402932fba14fSHong Zhang Not Collective 403025616d81SHong Zhang 403125616d81SHong Zhang Input Parameters: 403225616d81SHong Zhang + A - the matrix 403325616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 403425616d81SHong Zhang 403525616d81SHong Zhang Output Parameter: 403625616d81SHong Zhang . A_loc - the local sequential matrix generated 403725616d81SHong Zhang 403825616d81SHong Zhang Level: developer 403925616d81SHong Zhang 404025616d81SHong Zhang @*/ 4041be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetLocalMat(Mat A,MatReuse scall,Mat *A_loc) 404225616d81SHong Zhang { 404325616d81SHong Zhang PetscErrorCode ierr; 404401b7ae99SHong Zhang Mat_MPIAIJ *mpimat=(Mat_MPIAIJ*)A->data; 404501b7ae99SHong Zhang Mat_SeqAIJ *mat,*a=(Mat_SeqAIJ*)(mpimat->A)->data,*b=(Mat_SeqAIJ*)(mpimat->B)->data; 404601b7ae99SHong Zhang PetscInt *ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j,*cmap=mpimat->garray; 4047dea91ad1SHong Zhang PetscScalar *aa=a->a,*ba=b->a,*ca; 4048899cda47SBarry Smith PetscInt am=A->rmap.n,i,j,k,cstart=A->cmap.rstart; 40495a7d977cSHong Zhang PetscInt *ci,*cj,col,ncols_d,ncols_o,jo; 405025616d81SHong Zhang 405125616d81SHong Zhang PetscFunctionBegin; 40524ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_Getlocalmat,A,0,0,0);CHKERRQ(ierr); 405301b7ae99SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 4054dea91ad1SHong Zhang ierr = PetscMalloc((1+am)*sizeof(PetscInt),&ci);CHKERRQ(ierr); 4055dea91ad1SHong Zhang ci[0] = 0; 405601b7ae99SHong Zhang for (i=0; i<am; i++){ 4057dea91ad1SHong Zhang ci[i+1] = ci[i] + (ai[i+1] - ai[i]) + (bi[i+1] - bi[i]); 405801b7ae99SHong Zhang } 4059dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscInt),&cj);CHKERRQ(ierr); 4060dea91ad1SHong Zhang ierr = PetscMalloc((1+ci[am])*sizeof(PetscScalar),&ca);CHKERRQ(ierr); 4061dea91ad1SHong Zhang k = 0; 406201b7ae99SHong Zhang for (i=0; i<am; i++) { 40635a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 40645a7d977cSHong Zhang ncols_d = ai[i+1] - ai[i]; 406501b7ae99SHong Zhang /* off-diagonal portion of A */ 40665a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 40675a7d977cSHong Zhang col = cmap[*bj]; 40685a7d977cSHong Zhang if (col >= cstart) break; 40695a7d977cSHong Zhang cj[k] = col; bj++; 40705a7d977cSHong Zhang ca[k++] = *ba++; 40715a7d977cSHong Zhang } 40725a7d977cSHong Zhang /* diagonal portion of A */ 40735a7d977cSHong Zhang for (j=0; j<ncols_d; j++) { 40745a7d977cSHong Zhang cj[k] = cstart + *aj++; 40755a7d977cSHong Zhang ca[k++] = *aa++; 40765a7d977cSHong Zhang } 40775a7d977cSHong Zhang /* off-diagonal portion of A */ 40785a7d977cSHong Zhang for (j=jo; j<ncols_o; j++) { 40795a7d977cSHong Zhang cj[k] = cmap[*bj++]; 40805a7d977cSHong Zhang ca[k++] = *ba++; 40815a7d977cSHong Zhang } 408225616d81SHong Zhang } 4083dea91ad1SHong Zhang /* put together the new matrix */ 4084899cda47SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,am,A->cmap.N,ci,cj,ca,A_loc);CHKERRQ(ierr); 4085dea91ad1SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 4086dea91ad1SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 4087dea91ad1SHong Zhang mat = (Mat_SeqAIJ*)(*A_loc)->data; 4088e6b907acSBarry Smith mat->free_a = PETSC_TRUE; 4089e6b907acSBarry Smith mat->free_ij = PETSC_TRUE; 4090dea91ad1SHong Zhang mat->nonew = 0; 40915a7d977cSHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 40925a7d977cSHong Zhang mat=(Mat_SeqAIJ*)(*A_loc)->data; 40935a7d977cSHong Zhang ci = mat->i; cj = mat->j; ca = mat->a; 40945a7d977cSHong Zhang for (i=0; i<am; i++) { 40955a7d977cSHong Zhang /* off-diagonal portion of A */ 40965a7d977cSHong Zhang ncols_o = bi[i+1] - bi[i]; 40975a7d977cSHong Zhang for (jo=0; jo<ncols_o; jo++) { 40985a7d977cSHong Zhang col = cmap[*bj]; 40995a7d977cSHong Zhang if (col >= cstart) break; 4100f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 41015a7d977cSHong Zhang } 41025a7d977cSHong Zhang /* diagonal portion of A */ 4103ecc9b87dSHong Zhang ncols_d = ai[i+1] - ai[i]; 4104ecc9b87dSHong Zhang for (j=0; j<ncols_d; j++) *ca++ = *aa++; 41055a7d977cSHong Zhang /* off-diagonal portion of A */ 4106f33d1a9aSHong Zhang for (j=jo; j<ncols_o; j++) { 4107f33d1a9aSHong Zhang *ca++ = *ba++; bj++; 4108f33d1a9aSHong Zhang } 41095a7d977cSHong Zhang } 41105a7d977cSHong Zhang } else { 41115a7d977cSHong Zhang SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall); 411225616d81SHong Zhang } 411301b7ae99SHong Zhang 41144ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_Getlocalmat,A,0,0,0);CHKERRQ(ierr); 411525616d81SHong Zhang PetscFunctionReturn(0); 411625616d81SHong Zhang } 411725616d81SHong Zhang 411832fba14fSHong Zhang #undef __FUNCT__ 411932fba14fSHong Zhang #define __FUNCT__ "MatGetLocalMatCondensed" 412032fba14fSHong Zhang /*@C 412132fba14fSHong Zhang MatGetLocalMatCondensed - Creates a SeqAIJ matrix by taking all its local rows and NON-ZERO columns 412232fba14fSHong Zhang 412332fba14fSHong Zhang Not Collective 412432fba14fSHong Zhang 412532fba14fSHong Zhang Input Parameters: 412632fba14fSHong Zhang + A - the matrix 412732fba14fSHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 412832fba14fSHong Zhang - row, col - index sets of rows and columns to extract (or PETSC_NULL) 412932fba14fSHong Zhang 413032fba14fSHong Zhang Output Parameter: 413132fba14fSHong Zhang . A_loc - the local sequential matrix generated 413232fba14fSHong Zhang 413332fba14fSHong Zhang Level: developer 413432fba14fSHong Zhang 413532fba14fSHong Zhang @*/ 4136be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetLocalMatCondensed(Mat A,MatReuse scall,IS *row,IS *col,Mat *A_loc) 413732fba14fSHong Zhang { 413832fba14fSHong Zhang Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 413932fba14fSHong Zhang PetscErrorCode ierr; 414032fba14fSHong Zhang PetscInt i,start,end,ncols,nzA,nzB,*cmap,imark,*idx; 414132fba14fSHong Zhang IS isrowa,iscola; 414232fba14fSHong Zhang Mat *aloc; 414332fba14fSHong Zhang 414432fba14fSHong Zhang PetscFunctionBegin; 41454ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_Getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 414632fba14fSHong Zhang if (!row){ 4147899cda47SBarry Smith start = A->rmap.rstart; end = A->rmap.rend; 414832fba14fSHong Zhang ierr = ISCreateStride(PETSC_COMM_SELF,end-start,start,1,&isrowa);CHKERRQ(ierr); 414932fba14fSHong Zhang } else { 415032fba14fSHong Zhang isrowa = *row; 415132fba14fSHong Zhang } 415232fba14fSHong Zhang if (!col){ 4153899cda47SBarry Smith start = A->cmap.rstart; 415432fba14fSHong Zhang cmap = a->garray; 4155899cda47SBarry Smith nzA = a->A->cmap.n; 4156899cda47SBarry Smith nzB = a->B->cmap.n; 415732fba14fSHong Zhang ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 415832fba14fSHong Zhang ncols = 0; 415932fba14fSHong Zhang for (i=0; i<nzB; i++) { 416032fba14fSHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 416132fba14fSHong Zhang else break; 416232fba14fSHong Zhang } 416332fba14fSHong Zhang imark = i; 416432fba14fSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; 416532fba14fSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; 416632fba14fSHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&iscola);CHKERRQ(ierr); 416732fba14fSHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 416832fba14fSHong Zhang } else { 416932fba14fSHong Zhang iscola = *col; 417032fba14fSHong Zhang } 417132fba14fSHong Zhang if (scall != MAT_INITIAL_MATRIX){ 417232fba14fSHong Zhang ierr = PetscMalloc(sizeof(Mat),&aloc);CHKERRQ(ierr); 417332fba14fSHong Zhang aloc[0] = *A_loc; 417432fba14fSHong Zhang } 417532fba14fSHong Zhang ierr = MatGetSubMatrices(A,1,&isrowa,&iscola,scall,&aloc);CHKERRQ(ierr); 417632fba14fSHong Zhang *A_loc = aloc[0]; 417732fba14fSHong Zhang ierr = PetscFree(aloc);CHKERRQ(ierr); 417832fba14fSHong Zhang if (!row){ 417932fba14fSHong Zhang ierr = ISDestroy(isrowa);CHKERRQ(ierr); 418032fba14fSHong Zhang } 418132fba14fSHong Zhang if (!col){ 418232fba14fSHong Zhang ierr = ISDestroy(iscola);CHKERRQ(ierr); 418332fba14fSHong Zhang } 41844ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_Getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr); 418532fba14fSHong Zhang PetscFunctionReturn(0); 418632fba14fSHong Zhang } 418732fba14fSHong Zhang 418825616d81SHong Zhang #undef __FUNCT__ 418925616d81SHong Zhang #define __FUNCT__ "MatGetBrowsOfAcols" 419025616d81SHong Zhang /*@C 419132fba14fSHong Zhang MatGetBrowsOfAcols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A 419225616d81SHong Zhang 419325616d81SHong Zhang Collective on Mat 419425616d81SHong Zhang 419525616d81SHong Zhang Input Parameters: 4196e240928fSHong Zhang + A,B - the matrices in mpiaij format 419725616d81SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 419825616d81SHong Zhang - rowb, colb - index sets of rows and columns of B to extract (or PETSC_NULL) 419925616d81SHong Zhang 420025616d81SHong Zhang Output Parameter: 420125616d81SHong Zhang + rowb, colb - index sets of rows and columns of B to extract 4202899cda47SBarry Smith . brstart - row index of B_seq from which next B->rmap.n rows are taken from B's local rows 420325616d81SHong Zhang - B_seq - the sequential matrix generated 420425616d81SHong Zhang 420525616d81SHong Zhang Level: developer 420625616d81SHong Zhang 420725616d81SHong Zhang @*/ 4208be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetBrowsOfAcols(Mat A,Mat B,MatReuse scall,IS *rowb,IS *colb,PetscInt *brstart,Mat *B_seq) 420925616d81SHong Zhang { 4210899cda47SBarry Smith Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 421125616d81SHong Zhang PetscErrorCode ierr; 4212b1d57f15SBarry Smith PetscInt *idx,i,start,ncols,nzA,nzB,*cmap,imark; 421325616d81SHong Zhang IS isrowb,iscolb; 421425616d81SHong Zhang Mat *bseq; 421525616d81SHong Zhang 421625616d81SHong Zhang PetscFunctionBegin; 4217899cda47SBarry Smith if (A->cmap.rstart != B->rmap.rstart || A->cmap.rend != B->rmap.rend){ 4218899cda47SBarry 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); 421925616d81SHong Zhang } 42204ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 422125616d81SHong Zhang 422225616d81SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 4223899cda47SBarry Smith start = A->cmap.rstart; 422425616d81SHong Zhang cmap = a->garray; 4225899cda47SBarry Smith nzA = a->A->cmap.n; 4226899cda47SBarry Smith nzB = a->B->cmap.n; 4227b1d57f15SBarry Smith ierr = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr); 422825616d81SHong Zhang ncols = 0; 42290390132cSHong Zhang for (i=0; i<nzB; i++) { /* row < local row index */ 423025616d81SHong Zhang if (cmap[i] < start) idx[ncols++] = cmap[i]; 423125616d81SHong Zhang else break; 423225616d81SHong Zhang } 423325616d81SHong Zhang imark = i; 42340390132cSHong Zhang for (i=0; i<nzA; i++) idx[ncols++] = start + i; /* local rows */ 42350390132cSHong Zhang for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */ 423625616d81SHong Zhang ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&isrowb);CHKERRQ(ierr); 423725616d81SHong Zhang ierr = PetscFree(idx);CHKERRQ(ierr); 423825616d81SHong Zhang *brstart = imark; 4239899cda47SBarry Smith ierr = ISCreateStride(PETSC_COMM_SELF,B->cmap.N,0,1,&iscolb);CHKERRQ(ierr); 424025616d81SHong Zhang } else { 424125616d81SHong Zhang if (!rowb || !colb) SETERRQ(PETSC_ERR_SUP,"IS rowb and colb must be provided for MAT_REUSE_MATRIX"); 424225616d81SHong Zhang isrowb = *rowb; iscolb = *colb; 424325616d81SHong Zhang ierr = PetscMalloc(sizeof(Mat),&bseq);CHKERRQ(ierr); 424425616d81SHong Zhang bseq[0] = *B_seq; 424525616d81SHong Zhang } 424625616d81SHong Zhang ierr = MatGetSubMatrices(B,1,&isrowb,&iscolb,scall,&bseq);CHKERRQ(ierr); 424725616d81SHong Zhang *B_seq = bseq[0]; 424825616d81SHong Zhang ierr = PetscFree(bseq);CHKERRQ(ierr); 424925616d81SHong Zhang if (!rowb){ 425025616d81SHong Zhang ierr = ISDestroy(isrowb);CHKERRQ(ierr); 425125616d81SHong Zhang } else { 425225616d81SHong Zhang *rowb = isrowb; 425325616d81SHong Zhang } 425425616d81SHong Zhang if (!colb){ 425525616d81SHong Zhang ierr = ISDestroy(iscolb);CHKERRQ(ierr); 425625616d81SHong Zhang } else { 425725616d81SHong Zhang *colb = iscolb; 425825616d81SHong Zhang } 42594ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr); 426025616d81SHong Zhang PetscFunctionReturn(0); 426125616d81SHong Zhang } 4262429d309bSHong Zhang 4263a61c8c0fSHong Zhang #undef __FUNCT__ 4264a61c8c0fSHong Zhang #define __FUNCT__ "MatGetBrowsOfAoCols" 4265429d309bSHong Zhang /*@C 4266429d309bSHong Zhang MatGetBrowsOfAoCols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns 426701b7ae99SHong Zhang of the OFF-DIAGONAL portion of local A 4268429d309bSHong Zhang 4269429d309bSHong Zhang Collective on Mat 4270429d309bSHong Zhang 4271429d309bSHong Zhang Input Parameters: 4272429d309bSHong Zhang + A,B - the matrices in mpiaij format 427387025532SHong Zhang . scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX 427487025532SHong Zhang . startsj - starting point in B's sending and receiving j-arrays, saved for MAT_REUSE (or PETSC_NULL) 427587025532SHong Zhang - bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or PETSC_NULL) 4276429d309bSHong Zhang 4277429d309bSHong Zhang Output Parameter: 427887025532SHong Zhang + B_oth - the sequential matrix generated 4279429d309bSHong Zhang 4280429d309bSHong Zhang Level: developer 4281429d309bSHong Zhang 4282429d309bSHong Zhang @*/ 4283be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatGetBrowsOfAoCols(Mat A,Mat B,MatReuse scall,PetscInt **startsj,PetscScalar **bufa_ptr,Mat *B_oth) 4284429d309bSHong Zhang { 4285a6b2eed2SHong Zhang VecScatter_MPI_General *gen_to,*gen_from; 4286429d309bSHong Zhang PetscErrorCode ierr; 4287899cda47SBarry Smith Mat_MPIAIJ *a=(Mat_MPIAIJ*)A->data; 428887025532SHong Zhang Mat_SeqAIJ *b_oth; 4289a6b2eed2SHong Zhang VecScatter ctx=a->Mvctx; 42907adad957SLisandro Dalcin MPI_Comm comm=((PetscObject)ctx)->comm; 42917adad957SLisandro Dalcin PetscMPIInt *rprocs,*sprocs,tag=((PetscObject)ctx)->tag,rank; 4292899cda47SBarry Smith PetscInt *rowlen,*bufj,*bufJ,ncols,aBn=a->B->cmap.n,row,*b_othi,*b_othj; 429387025532SHong Zhang PetscScalar *rvalues,*svalues,*b_otha,*bufa,*bufA; 4294e42f35eeSHong Zhang PetscInt i,j,k,l,ll,nrecvs,nsends,nrows,*srow,*rstarts,*rstartsj = 0,*sstarts,*sstartsj,len; 4295910ba992SMatthew Knepley MPI_Request *rwaits = PETSC_NULL,*swaits = PETSC_NULL; 429687025532SHong Zhang MPI_Status *sstatus,rstatus; 4297aa5bb8c0SSatish Balay PetscMPIInt jj; 4298e42f35eeSHong Zhang PetscInt *cols,sbs,rbs; 4299ba8c8a56SBarry Smith PetscScalar *vals; 4300429d309bSHong Zhang 4301429d309bSHong Zhang PetscFunctionBegin; 4302899cda47SBarry Smith if (A->cmap.rstart != B->rmap.rstart || A->cmap.rend != B->rmap.rend){ 4303899cda47SBarry 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); 4304429d309bSHong Zhang } 43054ebed01fSBarry Smith ierr = PetscLogEventBegin(MAT_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 4306a6b2eed2SHong Zhang ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 4307a6b2eed2SHong Zhang 4308a6b2eed2SHong Zhang gen_to = (VecScatter_MPI_General*)ctx->todata; 4309a6b2eed2SHong Zhang gen_from = (VecScatter_MPI_General*)ctx->fromdata; 4310e42f35eeSHong Zhang rvalues = gen_from->values; /* holds the length of receiving row */ 4311e42f35eeSHong Zhang svalues = gen_to->values; /* holds the length of sending row */ 4312a6b2eed2SHong Zhang nrecvs = gen_from->n; 4313a6b2eed2SHong Zhang nsends = gen_to->n; 4314d7ee0231SBarry Smith 4315d7ee0231SBarry Smith ierr = PetscMalloc2(nrecvs,MPI_Request,&rwaits,nsends,MPI_Request,&swaits);CHKERRQ(ierr); 4316a6b2eed2SHong Zhang srow = gen_to->indices; /* local row index to be sent */ 4317a6b2eed2SHong Zhang sstarts = gen_to->starts; 4318a6b2eed2SHong Zhang sprocs = gen_to->procs; 4319a6b2eed2SHong Zhang sstatus = gen_to->sstatus; 4320e42f35eeSHong Zhang sbs = gen_to->bs; 4321e42f35eeSHong Zhang rstarts = gen_from->starts; 4322e42f35eeSHong Zhang rprocs = gen_from->procs; 4323e42f35eeSHong Zhang rbs = gen_from->bs; 4324429d309bSHong Zhang 4325dea91ad1SHong Zhang if (!startsj || !bufa_ptr) scall = MAT_INITIAL_MATRIX; 4326429d309bSHong Zhang if (scall == MAT_INITIAL_MATRIX){ 4327a6b2eed2SHong Zhang /* i-array */ 4328a6b2eed2SHong Zhang /*---------*/ 4329a6b2eed2SHong Zhang /* post receives */ 4330a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 4331e42f35eeSHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]*rbs; 4332e42f35eeSHong Zhang nrows = (rstarts[i+1]-rstarts[i])*rbs; /* num of indices to be received */ 433387025532SHong Zhang ierr = MPI_Irecv(rowlen,nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 4334429d309bSHong Zhang } 4335a6b2eed2SHong Zhang 4336a6b2eed2SHong Zhang /* pack the outgoing message */ 433787025532SHong Zhang ierr = PetscMalloc((nsends+nrecvs+3)*sizeof(PetscInt),&sstartsj);CHKERRQ(ierr); 4338a6b2eed2SHong Zhang rstartsj = sstartsj + nsends +1; 4339a6b2eed2SHong Zhang sstartsj[0] = 0; rstartsj[0] = 0; 4340a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be sent */ 4341a6b2eed2SHong Zhang k = 0; 4342a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 4343e42f35eeSHong Zhang rowlen = (PetscInt*)svalues + sstarts[i]*sbs; 4344e42f35eeSHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of block rows */ 434587025532SHong Zhang for (j=0; j<nrows; j++) { 4346899cda47SBarry Smith row = srow[k] + B->rmap.range[rank]; /* global row idx */ 4347e42f35eeSHong Zhang for (l=0; l<sbs; l++){ 4348e42f35eeSHong Zhang ierr = MatGetRow_MPIAIJ(B,row+l,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); /* rowlength */ 4349e42f35eeSHong Zhang rowlen[j*sbs+l] = ncols; 4350e42f35eeSHong Zhang len += ncols; 4351e42f35eeSHong Zhang ierr = MatRestoreRow_MPIAIJ(B,row+l,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); 4352e42f35eeSHong Zhang } 4353a6b2eed2SHong Zhang k++; 4354429d309bSHong Zhang } 4355e42f35eeSHong Zhang ierr = MPI_Isend(rowlen,nrows*sbs,MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 4356dea91ad1SHong Zhang sstartsj[i+1] = len; /* starting point of (i+1)-th outgoing msg in bufj and bufa */ 4357429d309bSHong Zhang } 435887025532SHong Zhang /* recvs and sends of i-array are completed */ 435987025532SHong Zhang i = nrecvs; 436087025532SHong Zhang while (i--) { 4361aa5bb8c0SSatish Balay ierr = MPI_Waitany(nrecvs,rwaits,&jj,&rstatus);CHKERRQ(ierr); 436287025532SHong Zhang } 43630c468ba9SBarry Smith if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);} 4364e42f35eeSHong Zhang 4365a6b2eed2SHong Zhang /* allocate buffers for sending j and a arrays */ 4366a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscInt),&bufj);CHKERRQ(ierr); 4367a6b2eed2SHong Zhang ierr = PetscMalloc((len+1)*sizeof(PetscScalar),&bufa);CHKERRQ(ierr); 4368a6b2eed2SHong Zhang 436987025532SHong Zhang /* create i-array of B_oth */ 437087025532SHong Zhang ierr = PetscMalloc((aBn+2)*sizeof(PetscInt),&b_othi);CHKERRQ(ierr); 437187025532SHong Zhang b_othi[0] = 0; 4372a6b2eed2SHong Zhang len = 0; /* total length of j or a array to be received */ 4373a6b2eed2SHong Zhang k = 0; 4374a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 4375fd0ff01cSHong Zhang rowlen = (PetscInt*)rvalues + rstarts[i]*rbs; 4376e42f35eeSHong Zhang nrows = rbs*(rstarts[i+1]-rstarts[i]); /* num of rows to be recieved */ 437787025532SHong Zhang for (j=0; j<nrows; j++) { 437887025532SHong Zhang b_othi[k+1] = b_othi[k] + rowlen[j]; 4379a6b2eed2SHong Zhang len += rowlen[j]; k++; 4380a6b2eed2SHong Zhang } 4381dea91ad1SHong Zhang rstartsj[i+1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */ 4382a6b2eed2SHong Zhang } 4383a6b2eed2SHong Zhang 438487025532SHong Zhang /* allocate space for j and a arrrays of B_oth */ 438587025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscInt),&b_othj);CHKERRQ(ierr); 438687025532SHong Zhang ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscScalar),&b_otha);CHKERRQ(ierr); 4387a6b2eed2SHong Zhang 438887025532SHong Zhang /* j-array */ 438987025532SHong Zhang /*---------*/ 4390a6b2eed2SHong Zhang /* post receives of j-array */ 4391a6b2eed2SHong Zhang for (i=0; i<nrecvs; i++){ 439287025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 439387025532SHong Zhang ierr = MPI_Irecv(b_othj+rstartsj[i],nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 4394a6b2eed2SHong Zhang } 4395e42f35eeSHong Zhang 4396e42f35eeSHong Zhang /* pack the outgoing message j-array */ 4397a6b2eed2SHong Zhang k = 0; 4398a6b2eed2SHong Zhang for (i=0; i<nsends; i++){ 4399e42f35eeSHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of block rows */ 4400a6b2eed2SHong Zhang bufJ = bufj+sstartsj[i]; 440187025532SHong Zhang for (j=0; j<nrows; j++) { 4402899cda47SBarry Smith row = srow[k++] + B->rmap.range[rank]; /* global row idx */ 4403e42f35eeSHong Zhang for (ll=0; ll<sbs; ll++){ 4404e42f35eeSHong Zhang ierr = MatGetRow_MPIAIJ(B,row+ll,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 4405a6b2eed2SHong Zhang for (l=0; l<ncols; l++){ 4406a6b2eed2SHong Zhang *bufJ++ = cols[l]; 440787025532SHong Zhang } 4408e42f35eeSHong Zhang ierr = MatRestoreRow_MPIAIJ(B,row+ll,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr); 4409e42f35eeSHong Zhang } 441087025532SHong Zhang } 441187025532SHong Zhang ierr = MPI_Isend(bufj+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 441287025532SHong Zhang } 441387025532SHong Zhang 441487025532SHong Zhang /* recvs and sends of j-array are completed */ 441587025532SHong Zhang i = nrecvs; 441687025532SHong Zhang while (i--) { 4417aa5bb8c0SSatish Balay ierr = MPI_Waitany(nrecvs,rwaits,&jj,&rstatus);CHKERRQ(ierr); 441887025532SHong Zhang } 44190c468ba9SBarry Smith if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);} 442087025532SHong Zhang } else if (scall == MAT_REUSE_MATRIX){ 442187025532SHong Zhang sstartsj = *startsj; 442287025532SHong Zhang rstartsj = sstartsj + nsends +1; 442387025532SHong Zhang bufa = *bufa_ptr; 442487025532SHong Zhang b_oth = (Mat_SeqAIJ*)(*B_oth)->data; 442587025532SHong Zhang b_otha = b_oth->a; 442687025532SHong Zhang } else { 442787025532SHong Zhang SETERRQ(PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not posses an object container"); 442887025532SHong Zhang } 442987025532SHong Zhang 443087025532SHong Zhang /* a-array */ 443187025532SHong Zhang /*---------*/ 443287025532SHong Zhang /* post receives of a-array */ 443387025532SHong Zhang for (i=0; i<nrecvs; i++){ 443487025532SHong Zhang nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */ 443587025532SHong Zhang ierr = MPI_Irecv(b_otha+rstartsj[i],nrows,MPIU_SCALAR,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr); 443687025532SHong Zhang } 4437e42f35eeSHong Zhang 4438e42f35eeSHong Zhang /* pack the outgoing message a-array */ 443987025532SHong Zhang k = 0; 444087025532SHong Zhang for (i=0; i<nsends; i++){ 4441e42f35eeSHong Zhang nrows = sstarts[i+1]-sstarts[i]; /* num of block rows */ 444287025532SHong Zhang bufA = bufa+sstartsj[i]; 444387025532SHong Zhang for (j=0; j<nrows; j++) { 4444899cda47SBarry Smith row = srow[k++] + B->rmap.range[rank]; /* global row idx */ 4445e42f35eeSHong Zhang for (ll=0; ll<sbs; ll++){ 4446e42f35eeSHong Zhang ierr = MatGetRow_MPIAIJ(B,row+ll,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 444787025532SHong Zhang for (l=0; l<ncols; l++){ 4448a6b2eed2SHong Zhang *bufA++ = vals[l]; 4449a6b2eed2SHong Zhang } 4450e42f35eeSHong Zhang ierr = MatRestoreRow_MPIAIJ(B,row+ll,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr); 4451e42f35eeSHong Zhang } 4452a6b2eed2SHong Zhang } 445387025532SHong Zhang ierr = MPI_Isend(bufa+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_SCALAR,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr); 4454a6b2eed2SHong Zhang } 445587025532SHong Zhang /* recvs and sends of a-array are completed */ 445687025532SHong Zhang i = nrecvs; 445787025532SHong Zhang while (i--) { 4458aa5bb8c0SSatish Balay ierr = MPI_Waitany(nrecvs,rwaits,&jj,&rstatus);CHKERRQ(ierr); 445987025532SHong Zhang } 44600c468ba9SBarry Smith if (nsends) {ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);} 4461d7ee0231SBarry Smith ierr = PetscFree2(rwaits,swaits);CHKERRQ(ierr); 4462a6b2eed2SHong Zhang 446387025532SHong Zhang if (scall == MAT_INITIAL_MATRIX){ 4464a6b2eed2SHong Zhang /* put together the new matrix */ 4465899cda47SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,aBn,B->cmap.N,b_othi,b_othj,b_otha,B_oth);CHKERRQ(ierr); 4466a6b2eed2SHong Zhang 4467a6b2eed2SHong Zhang /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */ 4468a6b2eed2SHong Zhang /* Since these are PETSc arrays, change flags to free them as necessary. */ 446987025532SHong Zhang b_oth = (Mat_SeqAIJ *)(*B_oth)->data; 4470e6b907acSBarry Smith b_oth->free_a = PETSC_TRUE; 4471e6b907acSBarry Smith b_oth->free_ij = PETSC_TRUE; 447287025532SHong Zhang b_oth->nonew = 0; 4473a6b2eed2SHong Zhang 4474a6b2eed2SHong Zhang ierr = PetscFree(bufj);CHKERRQ(ierr); 4475dea91ad1SHong Zhang if (!startsj || !bufa_ptr){ 4476dea91ad1SHong Zhang ierr = PetscFree(sstartsj);CHKERRQ(ierr); 4477dea91ad1SHong Zhang ierr = PetscFree(bufa_ptr);CHKERRQ(ierr); 4478dea91ad1SHong Zhang } else { 447987025532SHong Zhang *startsj = sstartsj; 448087025532SHong Zhang *bufa_ptr = bufa; 448187025532SHong Zhang } 4482dea91ad1SHong Zhang } 44834ebed01fSBarry Smith ierr = PetscLogEventEnd(MAT_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr); 4484429d309bSHong Zhang PetscFunctionReturn(0); 4485429d309bSHong Zhang } 4486ccd8e176SBarry Smith 448743eb5e2fSMatthew Knepley #undef __FUNCT__ 448843eb5e2fSMatthew Knepley #define __FUNCT__ "MatGetCommunicationStructs" 448943eb5e2fSMatthew Knepley /*@C 449043eb5e2fSMatthew Knepley MatGetCommunicationStructs - Provides access to the communication structures used in matrix-vector multiplication. 449143eb5e2fSMatthew Knepley 449243eb5e2fSMatthew Knepley Not Collective 449343eb5e2fSMatthew Knepley 449443eb5e2fSMatthew Knepley Input Parameters: 449543eb5e2fSMatthew Knepley . A - The matrix in mpiaij format 449643eb5e2fSMatthew Knepley 449743eb5e2fSMatthew Knepley Output Parameter: 449843eb5e2fSMatthew Knepley + lvec - The local vector holding off-process values from the argument to a matrix-vector product 449943eb5e2fSMatthew Knepley . colmap - A map from global column index to local index into lvec 450043eb5e2fSMatthew Knepley - multScatter - A scatter from the argument of a matrix-vector product to lvec 450143eb5e2fSMatthew Knepley 450243eb5e2fSMatthew Knepley Level: developer 450343eb5e2fSMatthew Knepley 450443eb5e2fSMatthew Knepley @*/ 450543eb5e2fSMatthew Knepley #if defined (PETSC_USE_CTABLE) 450643eb5e2fSMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatGetCommunicationStructs(Mat A, Vec *lvec, PetscTable *colmap, VecScatter *multScatter) 450743eb5e2fSMatthew Knepley #else 450843eb5e2fSMatthew Knepley PetscErrorCode PETSCMAT_DLLEXPORT MatGetCommunicationStructs(Mat A, Vec *lvec, PetscInt *colmap[], VecScatter *multScatter) 450943eb5e2fSMatthew Knepley #endif 451043eb5e2fSMatthew Knepley { 451143eb5e2fSMatthew Knepley Mat_MPIAIJ *a; 451243eb5e2fSMatthew Knepley 451343eb5e2fSMatthew Knepley PetscFunctionBegin; 451443eb5e2fSMatthew Knepley PetscValidHeaderSpecific(A, MAT_COOKIE, 1); 451543eb5e2fSMatthew Knepley PetscValidPointer(lvec, 2) 451643eb5e2fSMatthew Knepley PetscValidPointer(colmap, 3) 451743eb5e2fSMatthew Knepley PetscValidPointer(multScatter, 4) 451843eb5e2fSMatthew Knepley a = (Mat_MPIAIJ *) A->data; 451943eb5e2fSMatthew Knepley if (lvec) *lvec = a->lvec; 452043eb5e2fSMatthew Knepley if (colmap) *colmap = a->colmap; 452143eb5e2fSMatthew Knepley if (multScatter) *multScatter = a->Mvctx; 452243eb5e2fSMatthew Knepley PetscFunctionReturn(0); 452343eb5e2fSMatthew Knepley } 452443eb5e2fSMatthew Knepley 452517667f90SBarry Smith EXTERN_C_BEGIN 452617667f90SBarry Smith extern PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_MPIAIJ_MPICRL(Mat,MatType,MatReuse,Mat*); 452717667f90SBarry Smith extern PetscErrorCode PETSCMAT_DLLEXPORT MatConvert_MPIAIJ_MPICSRPERM(Mat,MatType,MatReuse,Mat*); 452817667f90SBarry Smith EXTERN_C_END 452917667f90SBarry Smith 4530ccd8e176SBarry Smith /*MC 4531ccd8e176SBarry Smith MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices. 4532ccd8e176SBarry Smith 4533ccd8e176SBarry Smith Options Database Keys: 4534ccd8e176SBarry Smith . -mat_type mpiaij - sets the matrix type to "mpiaij" during a call to MatSetFromOptions() 4535ccd8e176SBarry Smith 4536ccd8e176SBarry Smith Level: beginner 4537ccd8e176SBarry Smith 4538175b88e8SBarry Smith .seealso: MatCreateMPIAIJ() 4539ccd8e176SBarry Smith M*/ 4540ccd8e176SBarry Smith 4541ccd8e176SBarry Smith EXTERN_C_BEGIN 4542ccd8e176SBarry Smith #undef __FUNCT__ 4543ccd8e176SBarry Smith #define __FUNCT__ "MatCreate_MPIAIJ" 4544be1d678aSKris Buschelman PetscErrorCode PETSCMAT_DLLEXPORT MatCreate_MPIAIJ(Mat B) 4545ccd8e176SBarry Smith { 4546ccd8e176SBarry Smith Mat_MPIAIJ *b; 4547ccd8e176SBarry Smith PetscErrorCode ierr; 4548ccd8e176SBarry Smith PetscMPIInt size; 4549ccd8e176SBarry Smith 4550ccd8e176SBarry Smith PetscFunctionBegin; 45517adad957SLisandro Dalcin ierr = MPI_Comm_size(((PetscObject)B)->comm,&size);CHKERRQ(ierr); 4552ccd8e176SBarry Smith 455338f2d2fdSLisandro Dalcin ierr = PetscNewLog(B,Mat_MPIAIJ,&b);CHKERRQ(ierr); 4554ccd8e176SBarry Smith B->data = (void*)b; 4555ccd8e176SBarry Smith ierr = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 4556ccd8e176SBarry Smith B->factor = 0; 4557899cda47SBarry Smith B->rmap.bs = 1; 4558ccd8e176SBarry Smith B->assembled = PETSC_FALSE; 4559ccd8e176SBarry Smith B->mapping = 0; 4560ccd8e176SBarry Smith 4561ccd8e176SBarry Smith B->insertmode = NOT_SET_VALUES; 4562ccd8e176SBarry Smith b->size = size; 45637adad957SLisandro Dalcin ierr = MPI_Comm_rank(((PetscObject)B)->comm,&b->rank);CHKERRQ(ierr); 4564ccd8e176SBarry Smith 4565ccd8e176SBarry Smith /* build cache for off array entries formed */ 45667adad957SLisandro Dalcin ierr = MatStashCreate_Private(((PetscObject)B)->comm,1,&B->stash);CHKERRQ(ierr); 4567ccd8e176SBarry Smith b->donotstash = PETSC_FALSE; 4568ccd8e176SBarry Smith b->colmap = 0; 4569ccd8e176SBarry Smith b->garray = 0; 4570ccd8e176SBarry Smith b->roworiented = PETSC_TRUE; 4571ccd8e176SBarry Smith 4572ccd8e176SBarry Smith /* stuff used for matrix vector multiply */ 4573ccd8e176SBarry Smith b->lvec = PETSC_NULL; 4574ccd8e176SBarry Smith b->Mvctx = PETSC_NULL; 4575ccd8e176SBarry Smith 4576ccd8e176SBarry Smith /* stuff for MatGetRow() */ 4577ccd8e176SBarry Smith b->rowindices = 0; 4578ccd8e176SBarry Smith b->rowvalues = 0; 4579ccd8e176SBarry Smith b->getrowactive = PETSC_FALSE; 4580ccd8e176SBarry Smith 4581ccd8e176SBarry Smith 4582ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatStoreValues_C", 4583ccd8e176SBarry Smith "MatStoreValues_MPIAIJ", 4584ccd8e176SBarry Smith MatStoreValues_MPIAIJ);CHKERRQ(ierr); 4585ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatRetrieveValues_C", 4586ccd8e176SBarry Smith "MatRetrieveValues_MPIAIJ", 4587ccd8e176SBarry Smith MatRetrieveValues_MPIAIJ);CHKERRQ(ierr); 4588ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatGetDiagonalBlock_C", 4589ccd8e176SBarry Smith "MatGetDiagonalBlock_MPIAIJ", 4590ccd8e176SBarry Smith MatGetDiagonalBlock_MPIAIJ);CHKERRQ(ierr); 4591ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatIsTranspose_C", 4592ccd8e176SBarry Smith "MatIsTranspose_MPIAIJ", 4593ccd8e176SBarry Smith MatIsTranspose_MPIAIJ);CHKERRQ(ierr); 4594ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocation_C", 4595ccd8e176SBarry Smith "MatMPIAIJSetPreallocation_MPIAIJ", 4596ccd8e176SBarry Smith MatMPIAIJSetPreallocation_MPIAIJ);CHKERRQ(ierr); 4597ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C", 4598ccd8e176SBarry Smith "MatMPIAIJSetPreallocationCSR_MPIAIJ", 4599ccd8e176SBarry Smith MatMPIAIJSetPreallocationCSR_MPIAIJ);CHKERRQ(ierr); 4600ccd8e176SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatDiagonalScaleLocal_C", 4601ccd8e176SBarry Smith "MatDiagonalScaleLocal_MPIAIJ", 4602ccd8e176SBarry Smith MatDiagonalScaleLocal_MPIAIJ);CHKERRQ(ierr); 460317667f90SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatConvert_mpiaij_mpicsrperm_C", 460417667f90SBarry Smith "MatConvert_MPIAIJ_MPICSRPERM", 460517667f90SBarry Smith MatConvert_MPIAIJ_MPICSRPERM);CHKERRQ(ierr); 460617667f90SBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatConvert_mpiaij_mpicrl_C", 460717667f90SBarry Smith "MatConvert_MPIAIJ_MPICRL", 460817667f90SBarry Smith MatConvert_MPIAIJ_MPICRL);CHKERRQ(ierr); 460917667f90SBarry Smith ierr = PetscObjectChangeTypeName((PetscObject)B,MATMPIAIJ);CHKERRQ(ierr); 4610ccd8e176SBarry Smith PetscFunctionReturn(0); 4611ccd8e176SBarry Smith } 4612ccd8e176SBarry Smith EXTERN_C_END 461381824310SBarry Smith 461403bfb495SBarry Smith #undef __FUNCT__ 461503bfb495SBarry Smith #define __FUNCT__ "MatCreateMPIAIJWithSplitArrays" 461658d36128SBarry Smith /*@ 461703bfb495SBarry Smith MatCreateMPIAIJWithSplitArrays - creates a MPI AIJ matrix using arrays that contain the "diagonal" 461803bfb495SBarry Smith and "off-diagonal" part of the matrix in CSR format. 461903bfb495SBarry Smith 462003bfb495SBarry Smith Collective on MPI_Comm 462103bfb495SBarry Smith 462203bfb495SBarry Smith Input Parameters: 462303bfb495SBarry Smith + comm - MPI communicator 462403bfb495SBarry Smith . m - number of local rows (Cannot be PETSC_DECIDE) 462503bfb495SBarry Smith . n - This value should be the same as the local size used in creating the 462603bfb495SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 462703bfb495SBarry Smith calculated if N is given) For square matrices n is almost always m. 462803bfb495SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 462903bfb495SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 463003bfb495SBarry Smith . i - row indices for "diagonal" portion of matrix 463103bfb495SBarry Smith . j - column indices 463203bfb495SBarry Smith . a - matrix values 463303bfb495SBarry Smith . oi - row indices for "off-diagonal" portion of matrix 463403bfb495SBarry Smith . oj - column indices 463503bfb495SBarry Smith - oa - matrix values 463603bfb495SBarry Smith 463703bfb495SBarry Smith Output Parameter: 463803bfb495SBarry Smith . mat - the matrix 463903bfb495SBarry Smith 464003bfb495SBarry Smith Level: advanced 464103bfb495SBarry Smith 464203bfb495SBarry Smith Notes: 464303bfb495SBarry Smith The i, j, and a arrays ARE NOT copied by this routine into the internal format used by PETSc. 464403bfb495SBarry Smith 464503bfb495SBarry Smith The i and j indices are 0 based 464603bfb495SBarry Smith 464703bfb495SBarry Smith See MatCreateMPIAIJ() for the definition of "diagonal" and "off-diagonal" portion of the matrix 464803bfb495SBarry Smith 464903bfb495SBarry Smith 465003bfb495SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 465103bfb495SBarry Smith 465203bfb495SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(), 46538d7a6e47SBarry Smith MPIAIJ, MatCreateMPIAIJ(), MatCreateMPIAIJWithArrays() 465403bfb495SBarry Smith @*/ 46558d7a6e47SBarry Smith PetscErrorCode PETSCMAT_DLLEXPORT MatCreateMPIAIJWithSplitArrays(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,PetscInt i[],PetscInt j[],PetscScalar a[], 465603bfb495SBarry Smith PetscInt oi[], PetscInt oj[],PetscScalar oa[],Mat *mat) 465703bfb495SBarry Smith { 465803bfb495SBarry Smith PetscErrorCode ierr; 465903bfb495SBarry Smith Mat_MPIAIJ *maij; 466003bfb495SBarry Smith 466103bfb495SBarry Smith PetscFunctionBegin; 466203bfb495SBarry Smith if (m < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"local number of rows (m) cannot be PETSC_DECIDE, or negative"); 466303bfb495SBarry Smith if (i[0]) { 466403bfb495SBarry Smith SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"i (row indices) must start with 0"); 466503bfb495SBarry Smith } 466603bfb495SBarry Smith if (oi[0]) { 466703bfb495SBarry Smith SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"oi (row indices) must start with 0"); 466803bfb495SBarry Smith } 466903bfb495SBarry Smith ierr = MatCreate(comm,mat);CHKERRQ(ierr); 467003bfb495SBarry Smith ierr = MatSetSizes(*mat,m,n,M,N);CHKERRQ(ierr); 467103bfb495SBarry Smith ierr = MatSetType(*mat,MATMPIAIJ);CHKERRQ(ierr); 467203bfb495SBarry Smith maij = (Mat_MPIAIJ*) (*mat)->data; 46738d7a6e47SBarry Smith maij->donotstash = PETSC_TRUE; 46748d7a6e47SBarry Smith (*mat)->preallocated = PETSC_TRUE; 467503bfb495SBarry Smith 467603bfb495SBarry Smith (*mat)->rmap.bs = (*mat)->cmap.bs = 1; 46776148ca0dSBarry Smith ierr = PetscMapSetUp(&(*mat)->rmap);CHKERRQ(ierr); 46786148ca0dSBarry Smith ierr = PetscMapSetUp(&(*mat)->cmap);CHKERRQ(ierr); 467903bfb495SBarry Smith 468003bfb495SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,m,n,i,j,a,&maij->A);CHKERRQ(ierr); 468103bfb495SBarry Smith ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,m,(*mat)->cmap.N,oi,oj,oa,&maij->B);CHKERRQ(ierr); 468203bfb495SBarry Smith 46838d7a6e47SBarry Smith ierr = MatAssemblyBegin(maij->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 46848d7a6e47SBarry Smith ierr = MatAssemblyEnd(maij->A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 46858d7a6e47SBarry Smith ierr = MatAssemblyBegin(maij->B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 46868d7a6e47SBarry Smith ierr = MatAssemblyEnd(maij->B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 46878d7a6e47SBarry Smith 468803bfb495SBarry Smith ierr = MatAssemblyBegin(*mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 468903bfb495SBarry Smith ierr = MatAssemblyEnd(*mat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 469003bfb495SBarry Smith PetscFunctionReturn(0); 469103bfb495SBarry Smith } 469203bfb495SBarry Smith 469381824310SBarry Smith /* 469481824310SBarry Smith Special version for direct calls from Fortran 469581824310SBarry Smith */ 469681824310SBarry Smith #if defined(PETSC_HAVE_FORTRAN_CAPS) 469781824310SBarry Smith #define matsetvaluesmpiaij_ MATSETVALUESMPIAIJ 469881824310SBarry Smith #elif !defined(PETSC_HAVE_FORTRAN_UNDERSCORE) 469981824310SBarry Smith #define matsetvaluesmpiaij_ matsetvaluesmpiaij 470081824310SBarry Smith #endif 470181824310SBarry Smith 470281824310SBarry Smith /* Change these macros so can be used in void function */ 470381824310SBarry Smith #undef CHKERRQ 47047adad957SLisandro Dalcin #define CHKERRQ(ierr) CHKERRABORT(((PetscObject)mat)->comm,ierr) 470581824310SBarry Smith #undef SETERRQ2 47067adad957SLisandro Dalcin #define SETERRQ2(ierr,b,c,d) CHKERRABORT(((PetscObject)mat)->comm,ierr) 470781824310SBarry Smith #undef SETERRQ 47087adad957SLisandro Dalcin #define SETERRQ(ierr,b) CHKERRABORT(((PetscObject)mat)->comm,ierr) 470981824310SBarry Smith 471081824310SBarry Smith EXTERN_C_BEGIN 471181824310SBarry Smith #undef __FUNCT__ 471281824310SBarry Smith #define __FUNCT__ "matsetvaluesmpiaij_" 47131f6cc5b2SSatish Balay void PETSC_STDCALL matsetvaluesmpiaij_(Mat *mmat,PetscInt *mm,const PetscInt im[],PetscInt *mn,const PetscInt in[],const PetscScalar v[],InsertMode *maddv,PetscErrorCode *_ierr) 471481824310SBarry Smith { 471581824310SBarry Smith Mat mat = *mmat; 471681824310SBarry Smith PetscInt m = *mm, n = *mn; 471781824310SBarry Smith InsertMode addv = *maddv; 471881824310SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 471981824310SBarry Smith PetscScalar value; 472081824310SBarry Smith PetscErrorCode ierr; 4721899cda47SBarry Smith 472281824310SBarry Smith MatPreallocated(mat); 472381824310SBarry Smith if (mat->insertmode == NOT_SET_VALUES) { 472481824310SBarry Smith mat->insertmode = addv; 472581824310SBarry Smith } 472681824310SBarry Smith #if defined(PETSC_USE_DEBUG) 472781824310SBarry Smith else if (mat->insertmode != addv) { 472881824310SBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Cannot mix add values and insert values"); 472981824310SBarry Smith } 473081824310SBarry Smith #endif 473181824310SBarry Smith { 4732899cda47SBarry Smith PetscInt i,j,rstart = mat->rmap.rstart,rend = mat->rmap.rend; 4733899cda47SBarry Smith PetscInt cstart = mat->cmap.rstart,cend = mat->cmap.rend,row,col; 473481824310SBarry Smith PetscTruth roworiented = aij->roworiented; 473581824310SBarry Smith 473681824310SBarry Smith /* Some Variables required in the macro */ 473781824310SBarry Smith Mat A = aij->A; 473881824310SBarry Smith Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 473981824310SBarry Smith PetscInt *aimax = a->imax,*ai = a->i,*ailen = a->ilen,*aj = a->j; 474081824310SBarry Smith PetscScalar *aa = a->a; 474181824310SBarry Smith PetscTruth ignorezeroentries = (((a->ignorezeroentries)&&(addv==ADD_VALUES))?PETSC_TRUE:PETSC_FALSE); 474281824310SBarry Smith Mat B = aij->B; 474381824310SBarry Smith Mat_SeqAIJ *b = (Mat_SeqAIJ*)B->data; 4744899cda47SBarry Smith PetscInt *bimax = b->imax,*bi = b->i,*bilen = b->ilen,*bj = b->j,bm = aij->B->rmap.n,am = aij->A->rmap.n; 474581824310SBarry Smith PetscScalar *ba = b->a; 474681824310SBarry Smith 474781824310SBarry Smith PetscInt *rp1,*rp2,ii,nrow1,nrow2,_i,rmax1,rmax2,N,low1,high1,low2,high2,t,lastcol1,lastcol2; 474881824310SBarry Smith PetscInt nonew = a->nonew; 474981824310SBarry Smith PetscScalar *ap1,*ap2; 475081824310SBarry Smith 475181824310SBarry Smith PetscFunctionBegin; 475281824310SBarry Smith for (i=0; i<m; i++) { 475381824310SBarry Smith if (im[i] < 0) continue; 475481824310SBarry Smith #if defined(PETSC_USE_DEBUG) 4755899cda47SBarry 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); 475681824310SBarry Smith #endif 475781824310SBarry Smith if (im[i] >= rstart && im[i] < rend) { 475881824310SBarry Smith row = im[i] - rstart; 475981824310SBarry Smith lastcol1 = -1; 476081824310SBarry Smith rp1 = aj + ai[row]; 476181824310SBarry Smith ap1 = aa + ai[row]; 476281824310SBarry Smith rmax1 = aimax[row]; 476381824310SBarry Smith nrow1 = ailen[row]; 476481824310SBarry Smith low1 = 0; 476581824310SBarry Smith high1 = nrow1; 476681824310SBarry Smith lastcol2 = -1; 476781824310SBarry Smith rp2 = bj + bi[row]; 476881824310SBarry Smith ap2 = ba + bi[row]; 476981824310SBarry Smith rmax2 = bimax[row]; 477081824310SBarry Smith nrow2 = bilen[row]; 477181824310SBarry Smith low2 = 0; 477281824310SBarry Smith high2 = nrow2; 477381824310SBarry Smith 477481824310SBarry Smith for (j=0; j<n; j++) { 477581824310SBarry Smith if (roworiented) value = v[i*n+j]; else value = v[i+j*m]; 477681824310SBarry Smith if (ignorezeroentries && value == 0.0 && (addv == ADD_VALUES)) continue; 477781824310SBarry Smith if (in[j] >= cstart && in[j] < cend){ 477881824310SBarry Smith col = in[j] - cstart; 477981824310SBarry Smith MatSetValues_SeqAIJ_A_Private(row,col,value,addv); 478081824310SBarry Smith } else if (in[j] < 0) continue; 478181824310SBarry Smith #if defined(PETSC_USE_DEBUG) 4782899cda47SBarry 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);} 478381824310SBarry Smith #endif 478481824310SBarry Smith else { 478581824310SBarry Smith if (mat->was_assembled) { 478681824310SBarry Smith if (!aij->colmap) { 478781824310SBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 478881824310SBarry Smith } 478981824310SBarry Smith #if defined (PETSC_USE_CTABLE) 479081824310SBarry Smith ierr = PetscTableFind(aij->colmap,in[j]+1,&col);CHKERRQ(ierr); 479181824310SBarry Smith col--; 479281824310SBarry Smith #else 479381824310SBarry Smith col = aij->colmap[in[j]] - 1; 479481824310SBarry Smith #endif 479581824310SBarry Smith if (col < 0 && !((Mat_SeqAIJ*)(aij->A->data))->nonew) { 479681824310SBarry Smith ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 479781824310SBarry Smith col = in[j]; 479881824310SBarry Smith /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 479981824310SBarry Smith B = aij->B; 480081824310SBarry Smith b = (Mat_SeqAIJ*)B->data; 480181824310SBarry Smith bimax = b->imax; bi = b->i; bilen = b->ilen; bj = b->j; 480281824310SBarry Smith rp2 = bj + bi[row]; 480381824310SBarry Smith ap2 = ba + bi[row]; 480481824310SBarry Smith rmax2 = bimax[row]; 480581824310SBarry Smith nrow2 = bilen[row]; 480681824310SBarry Smith low2 = 0; 480781824310SBarry Smith high2 = nrow2; 4808899cda47SBarry Smith bm = aij->B->rmap.n; 480981824310SBarry Smith ba = b->a; 481081824310SBarry Smith } 481181824310SBarry Smith } else col = in[j]; 481281824310SBarry Smith MatSetValues_SeqAIJ_B_Private(row,col,value,addv); 481381824310SBarry Smith } 481481824310SBarry Smith } 481581824310SBarry Smith } else { 481681824310SBarry Smith if (!aij->donotstash) { 481781824310SBarry Smith if (roworiented) { 481881824310SBarry Smith if (ignorezeroentries && v[i*n] == 0.0) continue; 481981824310SBarry Smith ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n);CHKERRQ(ierr); 482081824310SBarry Smith } else { 482181824310SBarry Smith if (ignorezeroentries && v[i] == 0.0) continue; 482281824310SBarry Smith ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m);CHKERRQ(ierr); 482381824310SBarry Smith } 482481824310SBarry Smith } 482581824310SBarry Smith } 482681824310SBarry Smith }} 482781824310SBarry Smith PetscFunctionReturnVoid(); 482881824310SBarry Smith } 482981824310SBarry Smith EXTERN_C_END 483003bfb495SBarry Smith 4831