173f4d377SMatthew Knepley /*$Id: mpiaij.c,v 1.344 2001/08/10 03:30:48 bsmith Exp $*/ 28a729477SBarry Smith 370f55243SBarry Smith #include "src/mat/impls/aij/mpi/mpiaij.h" 4f5eb4b81SSatish Balay #include "src/vec/vecimpl.h" 5d9942c19SSatish Balay #include "src/inline/spops.h" 68a729477SBarry Smith 7ca44d042SBarry Smith EXTERN int MatSetUpMultiply_MPIAIJ(Mat); 8ca44d042SBarry Smith EXTERN int DisAssemble_MPIAIJ(Mat); 987828ca2SBarry Smith EXTERN int MatSetValues_SeqAIJ(Mat,int,int*,int,int*,PetscScalar*,InsertMode); 1087828ca2SBarry Smith EXTERN int MatGetRow_SeqAIJ(Mat,int,int*,int**,PetscScalar**); 1187828ca2SBarry Smith EXTERN int MatRestoreRow_SeqAIJ(Mat,int,int*,int**,PetscScalar**); 12ca44d042SBarry Smith EXTERN int MatPrintHelp_SeqAIJ(Mat); 13bc5ccf88SSatish Balay 140f5bd95cSBarry Smith /* 150f5bd95cSBarry Smith Local utility routine that creates a mapping from the global column 169e25ed09SBarry Smith number to the local number in the off-diagonal part of the local 170f5bd95cSBarry Smith storage of the matrix. When PETSC_USE_CTABLE is used this is scalable at 180f5bd95cSBarry Smith a slightly higher hash table cost; without it it is not scalable (each processor 190f5bd95cSBarry Smith has an order N integer array but is fast to acess. 209e25ed09SBarry Smith */ 214a2ae208SSatish Balay #undef __FUNCT__ 224a2ae208SSatish Balay #define __FUNCT__ "CreateColmap_MPIAIJ_Private" 230a198c4cSBarry Smith int CreateColmap_MPIAIJ_Private(Mat mat) 249e25ed09SBarry Smith { 2544a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 26273d9f13SBarry Smith int n = aij->B->n,i,ierr; 27dbb450caSBarry Smith 283a40ed3dSBarry Smith PetscFunctionBegin; 29aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 30273d9f13SBarry Smith ierr = PetscTableCreate(n,&aij->colmap);CHKERRQ(ierr); 31b1fc9764SSatish Balay for (i=0; i<n; i++){ 320f5bd95cSBarry Smith ierr = PetscTableAdd(aij->colmap,aij->garray[i]+1,i+1);CHKERRQ(ierr); 33b1fc9764SSatish Balay } 34b1fc9764SSatish Balay #else 35b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(int),&aij->colmap);CHKERRQ(ierr); 36b0a32e0cSBarry Smith PetscLogObjectMemory(mat,mat->N*sizeof(int)); 37273d9f13SBarry Smith ierr = PetscMemzero(aij->colmap,mat->N*sizeof(int));CHKERRQ(ierr); 38905e6a2fSBarry Smith for (i=0; i<n; i++) aij->colmap[aij->garray[i]] = i+1; 39b1fc9764SSatish Balay #endif 403a40ed3dSBarry Smith PetscFunctionReturn(0); 419e25ed09SBarry Smith } 429e25ed09SBarry Smith 430520107fSSatish Balay #define CHUNKSIZE 15 4430770e4dSSatish Balay #define MatSetValues_SeqAIJ_A_Private(row,col,value,addv) \ 450520107fSSatish Balay { \ 460520107fSSatish Balay \ 470520107fSSatish Balay rp = aj + ai[row] + shift; ap = aa + ai[row] + shift; \ 4830770e4dSSatish Balay rmax = aimax[row]; nrow = ailen[row]; \ 49f5e9677aSSatish Balay col1 = col - shift; \ 50f5e9677aSSatish Balay \ 51ba4e3ef2SSatish Balay low = 0; high = nrow; \ 52ba4e3ef2SSatish Balay while (high-low > 5) { \ 53ba4e3ef2SSatish Balay t = (low+high)/2; \ 54ba4e3ef2SSatish Balay if (rp[t] > col) high = t; \ 55ba4e3ef2SSatish Balay else low = t; \ 56ba4e3ef2SSatish Balay } \ 572335bdd2SSatish Balay for (_i=low; _i<high; _i++) { \ 58f5e9677aSSatish Balay if (rp[_i] > col1) break; \ 59f5e9677aSSatish Balay if (rp[_i] == col1) { \ 600520107fSSatish Balay if (addv == ADD_VALUES) ap[_i] += value; \ 610520107fSSatish Balay else ap[_i] = value; \ 6230770e4dSSatish Balay goto a_noinsert; \ 630520107fSSatish Balay } \ 640520107fSSatish Balay } \ 6589280ab3SLois Curfman McInnes if (nonew == 1) goto a_noinsert; \ 6629bbc08cSBarry Smith else if (nonew == -1) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero into matrix"); \ 670520107fSSatish Balay if (nrow >= rmax) { \ 680520107fSSatish Balay /* there is no extra room in row, therefore enlarge */ \ 69273d9f13SBarry Smith int new_nz = ai[am] + CHUNKSIZE,len,*new_i,*new_j; \ 7087828ca2SBarry Smith PetscScalar *new_a; \ 710520107fSSatish Balay \ 7229bbc08cSBarry Smith if (nonew == -2) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero in the matrix"); \ 7389280ab3SLois Curfman McInnes \ 740520107fSSatish Balay /* malloc new storage space */ \ 7587828ca2SBarry Smith len = new_nz*(sizeof(int)+sizeof(PetscScalar))+(am+1)*sizeof(int); \ 76b0a32e0cSBarry Smith ierr = PetscMalloc(len,&new_a);CHKERRQ(ierr); \ 770520107fSSatish Balay new_j = (int*)(new_a + new_nz); \ 780520107fSSatish Balay new_i = new_j + new_nz; \ 790520107fSSatish Balay \ 800520107fSSatish Balay /* copy over old data into new slots */ \ 810520107fSSatish Balay for (ii=0; ii<row+1; ii++) {new_i[ii] = ai[ii];} \ 82273d9f13SBarry Smith for (ii=row+1; ii<am+1; ii++) {new_i[ii] = ai[ii]+CHUNKSIZE;} \ 83549d3d68SSatish Balay ierr = PetscMemcpy(new_j,aj,(ai[row]+nrow+shift)*sizeof(int));CHKERRQ(ierr); \ 840520107fSSatish Balay len = (new_nz - CHUNKSIZE - ai[row] - nrow - shift); \ 85549d3d68SSatish Balay ierr = PetscMemcpy(new_j+ai[row]+shift+nrow+CHUNKSIZE,aj+ai[row]+shift+nrow, \ 86549d3d68SSatish Balay len*sizeof(int));CHKERRQ(ierr); \ 8787828ca2SBarry Smith ierr = PetscMemcpy(new_a,aa,(ai[row]+nrow+shift)*sizeof(PetscScalar));CHKERRQ(ierr); \ 88549d3d68SSatish Balay ierr = PetscMemcpy(new_a+ai[row]+shift+nrow+CHUNKSIZE,aa+ai[row]+shift+nrow, \ 8987828ca2SBarry Smith len*sizeof(PetscScalar));CHKERRQ(ierr); \ 900520107fSSatish Balay /* free up old matrix storage */ \ 91f5e9677aSSatish Balay \ 92606d414cSSatish Balay ierr = PetscFree(a->a);CHKERRQ(ierr); \ 93606d414cSSatish Balay if (!a->singlemalloc) { \ 94606d414cSSatish Balay ierr = PetscFree(a->i);CHKERRQ(ierr); \ 95606d414cSSatish Balay ierr = PetscFree(a->j);CHKERRQ(ierr); \ 96606d414cSSatish Balay } \ 970520107fSSatish Balay aa = a->a = new_a; ai = a->i = new_i; aj = a->j = new_j; \ 987c922b88SBarry Smith a->singlemalloc = PETSC_TRUE; \ 990520107fSSatish Balay \ 1000520107fSSatish Balay rp = aj + ai[row] + shift; ap = aa + ai[row] + shift; \ 10130770e4dSSatish Balay rmax = aimax[row] = aimax[row] + CHUNKSIZE; \ 10287828ca2SBarry Smith PetscLogObjectMemory(A,CHUNKSIZE*(sizeof(int) + sizeof(PetscScalar))); \ 1030520107fSSatish Balay a->maxnz += CHUNKSIZE; \ 1040520107fSSatish Balay a->reallocs++; \ 1050520107fSSatish Balay } \ 1060520107fSSatish Balay N = nrow++ - 1; a->nz++; \ 1070520107fSSatish Balay /* shift up all the later entries in this row */ \ 1080520107fSSatish Balay for (ii=N; ii>=_i; ii--) { \ 1090520107fSSatish Balay rp[ii+1] = rp[ii]; \ 1100520107fSSatish Balay ap[ii+1] = ap[ii]; \ 1110520107fSSatish Balay } \ 112f5e9677aSSatish Balay rp[_i] = col1; \ 1130520107fSSatish Balay ap[_i] = value; \ 11430770e4dSSatish Balay a_noinsert: ; \ 1150520107fSSatish Balay ailen[row] = nrow; \ 1160520107fSSatish Balay } 1170a198c4cSBarry Smith 11830770e4dSSatish Balay #define MatSetValues_SeqAIJ_B_Private(row,col,value,addv) \ 11930770e4dSSatish Balay { \ 12030770e4dSSatish Balay \ 12130770e4dSSatish Balay rp = bj + bi[row] + shift; ap = ba + bi[row] + shift; \ 12230770e4dSSatish Balay rmax = bimax[row]; nrow = bilen[row]; \ 12330770e4dSSatish Balay col1 = col - shift; \ 12430770e4dSSatish Balay \ 125ba4e3ef2SSatish Balay low = 0; high = nrow; \ 126ba4e3ef2SSatish Balay while (high-low > 5) { \ 127ba4e3ef2SSatish Balay t = (low+high)/2; \ 128ba4e3ef2SSatish Balay if (rp[t] > col) high = t; \ 129ba4e3ef2SSatish Balay else low = t; \ 130ba4e3ef2SSatish Balay } \ 1312335bdd2SSatish Balay for (_i=low; _i<high; _i++) { \ 13230770e4dSSatish Balay if (rp[_i] > col1) break; \ 13330770e4dSSatish Balay if (rp[_i] == col1) { \ 13430770e4dSSatish Balay if (addv == ADD_VALUES) ap[_i] += value; \ 13530770e4dSSatish Balay else ap[_i] = value; \ 13630770e4dSSatish Balay goto b_noinsert; \ 13730770e4dSSatish Balay } \ 13830770e4dSSatish Balay } \ 13989280ab3SLois Curfman McInnes if (nonew == 1) goto b_noinsert; \ 14029bbc08cSBarry Smith else if (nonew == -1) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero into matrix"); \ 14130770e4dSSatish Balay if (nrow >= rmax) { \ 14230770e4dSSatish Balay /* there is no extra room in row, therefore enlarge */ \ 143273d9f13SBarry Smith int new_nz = bi[bm] + CHUNKSIZE,len,*new_i,*new_j; \ 14487828ca2SBarry Smith PetscScalar *new_a; \ 14530770e4dSSatish Balay \ 14629bbc08cSBarry Smith if (nonew == -2) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero in the matrix"); \ 14789280ab3SLois Curfman McInnes \ 14830770e4dSSatish Balay /* malloc new storage space */ \ 14987828ca2SBarry Smith len = new_nz*(sizeof(int)+sizeof(PetscScalar))+(bm+1)*sizeof(int); \ 150b0a32e0cSBarry Smith ierr = PetscMalloc(len,&new_a);CHKERRQ(ierr); \ 15130770e4dSSatish Balay new_j = (int*)(new_a + new_nz); \ 15230770e4dSSatish Balay new_i = new_j + new_nz; \ 15330770e4dSSatish Balay \ 15430770e4dSSatish Balay /* copy over old data into new slots */ \ 15530770e4dSSatish Balay for (ii=0; ii<row+1; ii++) {new_i[ii] = bi[ii];} \ 156273d9f13SBarry Smith for (ii=row+1; ii<bm+1; ii++) {new_i[ii] = bi[ii]+CHUNKSIZE;} \ 157549d3d68SSatish Balay ierr = PetscMemcpy(new_j,bj,(bi[row]+nrow+shift)*sizeof(int));CHKERRQ(ierr); \ 15830770e4dSSatish Balay len = (new_nz - CHUNKSIZE - bi[row] - nrow - shift); \ 159549d3d68SSatish Balay ierr = PetscMemcpy(new_j+bi[row]+shift+nrow+CHUNKSIZE,bj+bi[row]+shift+nrow, \ 160549d3d68SSatish Balay len*sizeof(int));CHKERRQ(ierr); \ 16187828ca2SBarry Smith ierr = PetscMemcpy(new_a,ba,(bi[row]+nrow+shift)*sizeof(PetscScalar));CHKERRQ(ierr); \ 162549d3d68SSatish Balay ierr = PetscMemcpy(new_a+bi[row]+shift+nrow+CHUNKSIZE,ba+bi[row]+shift+nrow, \ 16387828ca2SBarry Smith len*sizeof(PetscScalar));CHKERRQ(ierr); \ 16430770e4dSSatish Balay /* free up old matrix storage */ \ 16530770e4dSSatish Balay \ 166606d414cSSatish Balay ierr = PetscFree(b->a);CHKERRQ(ierr); \ 167606d414cSSatish Balay if (!b->singlemalloc) { \ 168606d414cSSatish Balay ierr = PetscFree(b->i);CHKERRQ(ierr); \ 169606d414cSSatish Balay ierr = PetscFree(b->j);CHKERRQ(ierr); \ 170606d414cSSatish Balay } \ 17174c639caSSatish Balay ba = b->a = new_a; bi = b->i = new_i; bj = b->j = new_j; \ 1727c922b88SBarry Smith b->singlemalloc = PETSC_TRUE; \ 17330770e4dSSatish Balay \ 17430770e4dSSatish Balay rp = bj + bi[row] + shift; ap = ba + bi[row] + shift; \ 17530770e4dSSatish Balay rmax = bimax[row] = bimax[row] + CHUNKSIZE; \ 17687828ca2SBarry Smith PetscLogObjectMemory(B,CHUNKSIZE*(sizeof(int) + sizeof(PetscScalar))); \ 17774c639caSSatish Balay b->maxnz += CHUNKSIZE; \ 17874c639caSSatish Balay b->reallocs++; \ 17930770e4dSSatish Balay } \ 18074c639caSSatish Balay N = nrow++ - 1; b->nz++; \ 18130770e4dSSatish Balay /* shift up all the later entries in this row */ \ 18230770e4dSSatish Balay for (ii=N; ii>=_i; ii--) { \ 18330770e4dSSatish Balay rp[ii+1] = rp[ii]; \ 18430770e4dSSatish Balay ap[ii+1] = ap[ii]; \ 18530770e4dSSatish Balay } \ 18630770e4dSSatish Balay rp[_i] = col1; \ 18730770e4dSSatish Balay ap[_i] = value; \ 18830770e4dSSatish Balay b_noinsert: ; \ 18930770e4dSSatish Balay bilen[row] = nrow; \ 19030770e4dSSatish Balay } 19130770e4dSSatish Balay 1924a2ae208SSatish Balay #undef __FUNCT__ 1934a2ae208SSatish Balay #define __FUNCT__ "MatSetValues_MPIAIJ" 19487828ca2SBarry Smith int MatSetValues_MPIAIJ(Mat mat,int m,int *im,int n,int *in,PetscScalar *v,InsertMode addv) 1958a729477SBarry Smith { 19644a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 19787828ca2SBarry Smith PetscScalar value; 1981eb62cbbSBarry Smith int ierr,i,j,rstart = aij->rstart,rend = aij->rend; 1991eb62cbbSBarry Smith int cstart = aij->cstart,cend = aij->cend,row,col; 200273d9f13SBarry Smith PetscTruth roworiented = aij->roworiented; 2018a729477SBarry Smith 2020520107fSSatish Balay /* Some Variables required in the macro */ 2034ee7247eSSatish Balay Mat A = aij->A; 2044ee7247eSSatish Balay Mat_SeqAIJ *a = (Mat_SeqAIJ*)A->data; 20530770e4dSSatish Balay int *aimax = a->imax,*ai = a->i,*ailen = a->ilen,*aj = a->j; 20687828ca2SBarry Smith PetscScalar *aa = a->a; 207329f5518SBarry Smith PetscTruth ignorezeroentries = (((a->ignorezeroentries)&&(addv==ADD_VALUES))?PETSC_TRUE:PETSC_FALSE); 20830770e4dSSatish Balay Mat B = aij->B; 20930770e4dSSatish Balay Mat_SeqAIJ *b = (Mat_SeqAIJ*)B->data; 210273d9f13SBarry Smith int *bimax = b->imax,*bi = b->i,*bilen = b->ilen,*bj = b->j,bm = aij->B->m,am = aij->A->m; 21187828ca2SBarry Smith PetscScalar *ba = b->a; 21230770e4dSSatish Balay 213ba4e3ef2SSatish Balay int *rp,ii,nrow,_i,rmax,N,col1,low,high,t; 21430770e4dSSatish Balay int nonew = a->nonew,shift = a->indexshift; 21587828ca2SBarry Smith PetscScalar *ap; 2164ee7247eSSatish Balay 2173a40ed3dSBarry Smith PetscFunctionBegin; 2188a729477SBarry Smith for (i=0; i<m; i++) { 2195ef9f2a5SBarry Smith if (im[i] < 0) continue; 220aa482453SBarry Smith #if defined(PETSC_USE_BOPT_g) 221273d9f13SBarry Smith if (im[i] >= mat->M) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Row too large"); 2220a198c4cSBarry Smith #endif 2234b0e389bSBarry Smith if (im[i] >= rstart && im[i] < rend) { 2244b0e389bSBarry Smith row = im[i] - rstart; 2251eb62cbbSBarry Smith for (j=0; j<n; j++) { 2264b0e389bSBarry Smith if (in[j] >= cstart && in[j] < cend){ 2274b0e389bSBarry Smith col = in[j] - cstart; 2284b0e389bSBarry Smith if (roworiented) value = v[i*n+j]; else value = v[i+j*m]; 229329f5518SBarry Smith if (ignorezeroentries && value == 0.0) continue; 23030770e4dSSatish Balay MatSetValues_SeqAIJ_A_Private(row,col,value,addv); 2310520107fSSatish Balay /* ierr = MatSetValues_SeqAIJ(aij->A,1,&row,1,&col,&value,addv);CHKERRQ(ierr); */ 232273d9f13SBarry Smith } else if (in[j] < 0) continue; 233aa482453SBarry Smith #if defined(PETSC_USE_BOPT_g) 234273d9f13SBarry Smith else if (in[j] >= mat->N) {SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Column too large");} 2350a198c4cSBarry Smith #endif 2361eb62cbbSBarry Smith else { 237227d817aSBarry Smith if (mat->was_assembled) { 238905e6a2fSBarry Smith if (!aij->colmap) { 239905e6a2fSBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 240905e6a2fSBarry Smith } 241aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 2420f5bd95cSBarry Smith ierr = PetscTableFind(aij->colmap,in[j]+1,&col);CHKERRQ(ierr); 243fa46199cSSatish Balay col--; 244b1fc9764SSatish Balay #else 245905e6a2fSBarry Smith col = aij->colmap[in[j]] - 1; 246b1fc9764SSatish Balay #endif 247ec8511deSBarry Smith if (col < 0 && !((Mat_SeqAIJ*)(aij->A->data))->nonew) { 2482493cbb0SBarry Smith ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 2494b0e389bSBarry Smith col = in[j]; 2509bf004c3SSatish Balay /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */ 251f9508a3cSSatish Balay B = aij->B; 252f9508a3cSSatish Balay b = (Mat_SeqAIJ*)B->data; 253f9508a3cSSatish Balay bimax = b->imax; bi = b->i; bilen = b->ilen; bj = b->j; 254f9508a3cSSatish Balay ba = b->a; 255d6dfbf8fSBarry Smith } 256c48de900SBarry Smith } else col = in[j]; 2574b0e389bSBarry Smith if (roworiented) value = v[i*n+j]; else value = v[i+j*m]; 258329f5518SBarry Smith if (ignorezeroentries && value == 0.0) continue; 25930770e4dSSatish Balay MatSetValues_SeqAIJ_B_Private(row,col,value,addv); 26030770e4dSSatish Balay /* ierr = MatSetValues_SeqAIJ(aij->B,1,&row,1,&col,&value,addv);CHKERRQ(ierr); */ 2611eb62cbbSBarry Smith } 2621eb62cbbSBarry Smith } 2635ef9f2a5SBarry Smith } else { 26490f02eecSBarry Smith if (!aij->donotstash) { 265d36fbae8SSatish Balay if (roworiented) { 266329f5518SBarry Smith if (ignorezeroentries && v[i*n] == 0.0) continue; 2678798bf22SSatish Balay ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n);CHKERRQ(ierr); 268d36fbae8SSatish Balay } else { 269329f5518SBarry Smith if (ignorezeroentries && v[i] == 0.0) continue; 2708798bf22SSatish Balay ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m);CHKERRQ(ierr); 2714b0e389bSBarry Smith } 2721eb62cbbSBarry Smith } 2738a729477SBarry Smith } 27490f02eecSBarry Smith } 2753a40ed3dSBarry Smith PetscFunctionReturn(0); 2768a729477SBarry Smith } 2778a729477SBarry Smith 2784a2ae208SSatish Balay #undef __FUNCT__ 2794a2ae208SSatish Balay #define __FUNCT__ "MatGetValues_MPIAIJ" 28087828ca2SBarry Smith int MatGetValues_MPIAIJ(Mat mat,int m,int *idxm,int n,int *idxn,PetscScalar *v) 281b49de8d1SLois Curfman McInnes { 282b49de8d1SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 283b49de8d1SLois Curfman McInnes int ierr,i,j,rstart = aij->rstart,rend = aij->rend; 284b49de8d1SLois Curfman McInnes int cstart = aij->cstart,cend = aij->cend,row,col; 285b49de8d1SLois Curfman McInnes 2863a40ed3dSBarry Smith PetscFunctionBegin; 287b49de8d1SLois Curfman McInnes for (i=0; i<m; i++) { 28829bbc08cSBarry Smith if (idxm[i] < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Negative row"); 289273d9f13SBarry Smith if (idxm[i] >= mat->M) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Row too large"); 290b49de8d1SLois Curfman McInnes if (idxm[i] >= rstart && idxm[i] < rend) { 291b49de8d1SLois Curfman McInnes row = idxm[i] - rstart; 292b49de8d1SLois Curfman McInnes for (j=0; j<n; j++) { 29329bbc08cSBarry Smith if (idxn[j] < 0) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Negative column"); 294273d9f13SBarry Smith if (idxn[j] >= mat->N) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Column too large"); 295b49de8d1SLois Curfman McInnes if (idxn[j] >= cstart && idxn[j] < cend){ 296b49de8d1SLois Curfman McInnes col = idxn[j] - cstart; 297b49de8d1SLois Curfman McInnes ierr = MatGetValues(aij->A,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 298fa852ad4SSatish Balay } else { 299905e6a2fSBarry Smith if (!aij->colmap) { 300905e6a2fSBarry Smith ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr); 301905e6a2fSBarry Smith } 302aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 3030f5bd95cSBarry Smith ierr = PetscTableFind(aij->colmap,idxn[j]+1,&col);CHKERRQ(ierr); 304fa46199cSSatish Balay col --; 305b1fc9764SSatish Balay #else 306905e6a2fSBarry Smith col = aij->colmap[idxn[j]] - 1; 307b1fc9764SSatish Balay #endif 308e60e1c95SSatish Balay if ((col < 0) || (aij->garray[col] != idxn[j])) *(v+i*n+j) = 0.0; 309d9d09a02SSatish Balay else { 310b49de8d1SLois Curfman McInnes ierr = MatGetValues(aij->B,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr); 311b49de8d1SLois Curfman McInnes } 312b49de8d1SLois Curfman McInnes } 313b49de8d1SLois Curfman McInnes } 314a8c6a408SBarry Smith } else { 31529bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Only local values currently supported"); 316b49de8d1SLois Curfman McInnes } 317b49de8d1SLois Curfman McInnes } 3183a40ed3dSBarry Smith PetscFunctionReturn(0); 319b49de8d1SLois Curfman McInnes } 320bc5ccf88SSatish Balay 3214a2ae208SSatish Balay #undef __FUNCT__ 3224a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyBegin_MPIAIJ" 323bc5ccf88SSatish Balay int MatAssemblyBegin_MPIAIJ(Mat mat,MatAssemblyType mode) 324bc5ccf88SSatish Balay { 325bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 326d36fbae8SSatish Balay int ierr,nstash,reallocs; 327bc5ccf88SSatish Balay InsertMode addv; 328bc5ccf88SSatish Balay 329bc5ccf88SSatish Balay PetscFunctionBegin; 330bc5ccf88SSatish Balay if (aij->donotstash) { 331bc5ccf88SSatish Balay PetscFunctionReturn(0); 332bc5ccf88SSatish Balay } 333bc5ccf88SSatish Balay 334bc5ccf88SSatish Balay /* make sure all processors are either in INSERTMODE or ADDMODE */ 335bc5ccf88SSatish Balay ierr = MPI_Allreduce(&mat->insertmode,&addv,1,MPI_INT,MPI_BOR,mat->comm);CHKERRQ(ierr); 336bc5ccf88SSatish Balay if (addv == (ADD_VALUES|INSERT_VALUES)) { 33729bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Some processors inserted others added"); 338bc5ccf88SSatish Balay } 339bc5ccf88SSatish Balay mat->insertmode = addv; /* in case this processor had no cache */ 340bc5ccf88SSatish Balay 3418798bf22SSatish Balay ierr = MatStashScatterBegin_Private(&mat->stash,aij->rowners);CHKERRQ(ierr); 3428798bf22SSatish Balay ierr = MatStashGetInfo_Private(&mat->stash,&nstash,&reallocs);CHKERRQ(ierr); 343b0a32e0cSBarry Smith PetscLogInfo(aij->A,"MatAssemblyBegin_MPIAIJ:Stash has %d entries, uses %d mallocs.\n",nstash,reallocs); 344bc5ccf88SSatish Balay PetscFunctionReturn(0); 345bc5ccf88SSatish Balay } 346bc5ccf88SSatish Balay 347bc5ccf88SSatish Balay 3484a2ae208SSatish Balay #undef __FUNCT__ 3494a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyEnd_MPIAIJ" 350bc5ccf88SSatish Balay int MatAssemblyEnd_MPIAIJ(Mat mat,MatAssemblyType mode) 351bc5ccf88SSatish Balay { 352bc5ccf88SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 353a2d1c673SSatish Balay int i,j,rstart,ncols,n,ierr,flg; 354bc5ccf88SSatish Balay int *row,*col,other_disassembled; 35587828ca2SBarry Smith PetscScalar *val; 356bc5ccf88SSatish Balay InsertMode addv = mat->insertmode; 3574032b0d1SHong Zhang #if defined(PETSC_HAVE_SUPERLUDIST) || defined(PETSC_HAVE_SPOOLES) 3589b9367d5SHong Zhang PetscTruth flag; 3599e070d67SMatthew Knepley #endif 360bc5ccf88SSatish Balay 361bc5ccf88SSatish Balay PetscFunctionBegin; 362bc5ccf88SSatish Balay if (!aij->donotstash) { 363a2d1c673SSatish Balay while (1) { 3648798bf22SSatish Balay ierr = MatStashScatterGetMesg_Private(&mat->stash,&n,&row,&col,&val,&flg);CHKERRQ(ierr); 365a2d1c673SSatish Balay if (!flg) break; 366a2d1c673SSatish Balay 367bc5ccf88SSatish Balay for (i=0; i<n;) { 368bc5ccf88SSatish Balay /* Now identify the consecutive vals belonging to the same row */ 369bc5ccf88SSatish Balay for (j=i,rstart=row[j]; j<n; j++) { if (row[j] != rstart) break; } 370bc5ccf88SSatish Balay if (j < n) ncols = j-i; 371bc5ccf88SSatish Balay else ncols = n-i; 372bc5ccf88SSatish Balay /* Now assemble all these values with a single function call */ 373bc5ccf88SSatish Balay ierr = MatSetValues_MPIAIJ(mat,1,row+i,ncols,col+i,val+i,addv);CHKERRQ(ierr); 374bc5ccf88SSatish Balay i = j; 375bc5ccf88SSatish Balay } 376bc5ccf88SSatish Balay } 3778798bf22SSatish Balay ierr = MatStashScatterEnd_Private(&mat->stash);CHKERRQ(ierr); 378bc5ccf88SSatish Balay } 379bc5ccf88SSatish Balay 380bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->A,mode);CHKERRQ(ierr); 381bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->A,mode);CHKERRQ(ierr); 382bc5ccf88SSatish Balay 383bc5ccf88SSatish Balay /* determine if any processor has disassembled, if so we must 384bc5ccf88SSatish Balay also disassemble ourselfs, in order that we may reassemble. */ 385bc5ccf88SSatish Balay /* 386bc5ccf88SSatish Balay if nonzero structure of submatrix B cannot change then we know that 387bc5ccf88SSatish Balay no processor disassembled thus we can skip this stuff 388bc5ccf88SSatish Balay */ 389bc5ccf88SSatish Balay if (!((Mat_SeqAIJ*)aij->B->data)->nonew) { 390bc5ccf88SSatish Balay ierr = MPI_Allreduce(&mat->was_assembled,&other_disassembled,1,MPI_INT,MPI_PROD,mat->comm);CHKERRQ(ierr); 391bc5ccf88SSatish Balay if (mat->was_assembled && !other_disassembled) { 392bc5ccf88SSatish Balay ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr); 393bc5ccf88SSatish Balay } 394bc5ccf88SSatish Balay } 395bc5ccf88SSatish Balay 396bc5ccf88SSatish Balay if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) { 397bc5ccf88SSatish Balay ierr = MatSetUpMultiply_MPIAIJ(mat);CHKERRQ(ierr); 398bc5ccf88SSatish Balay } 399bc5ccf88SSatish Balay ierr = MatAssemblyBegin(aij->B,mode);CHKERRQ(ierr); 400bc5ccf88SSatish Balay ierr = MatAssemblyEnd(aij->B,mode);CHKERRQ(ierr); 401bc5ccf88SSatish Balay 402606d414cSSatish Balay if (aij->rowvalues) { 403606d414cSSatish Balay ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr); 404606d414cSSatish Balay aij->rowvalues = 0; 405606d414cSSatish Balay } 4069b9367d5SHong Zhang #if defined(PETSC_HAVE_SUPERLUDIST) 407e82a3eeeSBarry Smith ierr = PetscOptionsHasName(mat->prefix,"-mat_aij_superlu_dist",&flag);CHKERRQ(ierr); 4089b9367d5SHong Zhang if (flag) { ierr = MatUseSuperLU_DIST_MPIAIJ(mat);CHKERRQ(ierr); } 4099b9367d5SHong Zhang #endif 4104032b0d1SHong Zhang 4114032b0d1SHong Zhang #if defined(PETSC_HAVE_SPOOLES) 412e82a3eeeSBarry Smith ierr = PetscOptionsHasName(mat->prefix,"-mat_aij_spooles",&flag);CHKERRQ(ierr); 4134032b0d1SHong Zhang if (flag) { ierr = MatUseSpooles_MPIAIJ(mat);CHKERRQ(ierr); } 4144032b0d1SHong Zhang #endif 415bc5ccf88SSatish Balay PetscFunctionReturn(0); 416bc5ccf88SSatish Balay } 417bc5ccf88SSatish Balay 4184a2ae208SSatish Balay #undef __FUNCT__ 4194a2ae208SSatish Balay #define __FUNCT__ "MatZeroEntries_MPIAIJ" 4208f6be9afSLois Curfman McInnes int MatZeroEntries_MPIAIJ(Mat A) 4211eb62cbbSBarry Smith { 42244a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 423dbd7a890SLois Curfman McInnes int ierr; 4243a40ed3dSBarry Smith 4253a40ed3dSBarry Smith PetscFunctionBegin; 42678b31e54SBarry Smith ierr = MatZeroEntries(l->A);CHKERRQ(ierr); 42778b31e54SBarry Smith ierr = MatZeroEntries(l->B);CHKERRQ(ierr); 4283a40ed3dSBarry Smith PetscFunctionReturn(0); 4291eb62cbbSBarry Smith } 4301eb62cbbSBarry Smith 4314a2ae208SSatish Balay #undef __FUNCT__ 4324a2ae208SSatish Balay #define __FUNCT__ "MatZeroRows_MPIAIJ" 43387828ca2SBarry Smith int MatZeroRows_MPIAIJ(Mat A,IS is,PetscScalar *diag) 4341eb62cbbSBarry Smith { 43544a69424SLois Curfman McInnes Mat_MPIAIJ *l = (Mat_MPIAIJ*)A->data; 43617699dbbSLois Curfman McInnes int i,ierr,N,*rows,*owners = l->rowners,size = l->size; 437c1dc657dSBarry Smith int *nprocs,j,idx,nsends,row; 43817699dbbSLois Curfman McInnes int nmax,*svalues,*starts,*owner,nrecvs,rank = l->rank; 4395392566eSBarry Smith int *rvalues,tag = A->tag,count,base,slen,n,*source; 4406a5c57faSSatish Balay int *lens,imdex,*lrows,*values,rstart=l->rstart; 441d6dfbf8fSBarry Smith MPI_Comm comm = A->comm; 4421eb62cbbSBarry Smith MPI_Request *send_waits,*recv_waits; 4431eb62cbbSBarry Smith MPI_Status recv_status,*send_status; 4441eb62cbbSBarry Smith IS istmp; 44535d8aa7fSBarry Smith PetscTruth found; 4461eb62cbbSBarry Smith 4473a40ed3dSBarry Smith PetscFunctionBegin; 448e03a110bSBarry Smith ierr = ISGetLocalSize(is,&N);CHKERRQ(ierr); 44978b31e54SBarry Smith ierr = ISGetIndices(is,&rows);CHKERRQ(ierr); 4501eb62cbbSBarry Smith 4511eb62cbbSBarry Smith /* first count number of contributors to each processor */ 452b0a32e0cSBarry Smith ierr = PetscMalloc(2*size*sizeof(int),&nprocs);CHKERRQ(ierr); 453549d3d68SSatish Balay ierr = PetscMemzero(nprocs,2*size*sizeof(int));CHKERRQ(ierr); 454b0a32e0cSBarry Smith ierr = PetscMalloc((N+1)*sizeof(int),&owner);CHKERRQ(ierr); /* see note*/ 4551eb62cbbSBarry Smith for (i=0; i<N; i++) { 4561eb62cbbSBarry Smith idx = rows[i]; 45735d8aa7fSBarry Smith found = PETSC_FALSE; 45817699dbbSLois Curfman McInnes for (j=0; j<size; j++) { 4591eb62cbbSBarry Smith if (idx >= owners[j] && idx < owners[j+1]) { 460c1dc657dSBarry Smith nprocs[2*j]++; nprocs[2*j+1] = 1; owner[i] = j; found = PETSC_TRUE; break; 4611eb62cbbSBarry Smith } 4621eb62cbbSBarry Smith } 46329bbc08cSBarry Smith if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Index out of range"); 4641eb62cbbSBarry Smith } 465c1dc657dSBarry Smith nsends = 0; for (i=0; i<size; i++) { nsends += nprocs[2*i+1];} 4661eb62cbbSBarry Smith 4671eb62cbbSBarry Smith /* inform other processors of number of messages and max length*/ 468c1dc657dSBarry Smith ierr = PetscMaxSum(comm,nprocs,&nmax,&nrecvs);CHKERRQ(ierr); 4691eb62cbbSBarry Smith 4701eb62cbbSBarry Smith /* post receives: */ 471b0a32e0cSBarry Smith ierr = PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(int),&rvalues);CHKERRQ(ierr); 472b0a32e0cSBarry Smith ierr = PetscMalloc((nrecvs+1)*sizeof(MPI_Request),&recv_waits);CHKERRQ(ierr); 4731eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 474ca161407SBarry Smith ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPI_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr); 4751eb62cbbSBarry Smith } 4761eb62cbbSBarry Smith 4771eb62cbbSBarry Smith /* do sends: 4781eb62cbbSBarry Smith 1) starts[i] gives the starting index in svalues for stuff going to 4791eb62cbbSBarry Smith the ith processor 4801eb62cbbSBarry Smith */ 481b0a32e0cSBarry Smith ierr = PetscMalloc((N+1)*sizeof(int),&svalues);CHKERRQ(ierr); 482b0a32e0cSBarry Smith ierr = PetscMalloc((nsends+1)*sizeof(MPI_Request),&send_waits);CHKERRQ(ierr); 483b0a32e0cSBarry Smith ierr = PetscMalloc((size+1)*sizeof(int),&starts);CHKERRQ(ierr); 4841eb62cbbSBarry Smith starts[0] = 0; 485c1dc657dSBarry Smith for (i=1; i<size; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4861eb62cbbSBarry Smith for (i=0; i<N; i++) { 4871eb62cbbSBarry Smith svalues[starts[owner[i]]++] = rows[i]; 4881eb62cbbSBarry Smith } 4896831982aSBarry Smith ierr = ISRestoreIndices(is,&rows);CHKERRQ(ierr); 4901eb62cbbSBarry Smith 4911eb62cbbSBarry Smith starts[0] = 0; 492c1dc657dSBarry Smith for (i=1; i<size+1; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];} 4931eb62cbbSBarry Smith count = 0; 49417699dbbSLois Curfman McInnes for (i=0; i<size; i++) { 495c1dc657dSBarry Smith if (nprocs[2*i+1]) { 496c1dc657dSBarry Smith ierr = MPI_Isend(svalues+starts[i],nprocs[2*i],MPI_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr); 4971eb62cbbSBarry Smith } 4981eb62cbbSBarry Smith } 499606d414cSSatish Balay ierr = PetscFree(starts);CHKERRQ(ierr); 5001eb62cbbSBarry Smith 50117699dbbSLois Curfman McInnes base = owners[rank]; 5021eb62cbbSBarry Smith 5031eb62cbbSBarry Smith /* wait on receives */ 504b0a32e0cSBarry Smith ierr = PetscMalloc(2*(nrecvs+1)*sizeof(int),&lens);CHKERRQ(ierr); 5051eb62cbbSBarry Smith source = lens + nrecvs; 5061eb62cbbSBarry Smith count = nrecvs; slen = 0; 5071eb62cbbSBarry Smith while (count) { 508ca161407SBarry Smith ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr); 5091eb62cbbSBarry Smith /* unpack receives into our local space */ 510ca161407SBarry Smith ierr = MPI_Get_count(&recv_status,MPI_INT,&n);CHKERRQ(ierr); 511d6dfbf8fSBarry Smith source[imdex] = recv_status.MPI_SOURCE; 512d6dfbf8fSBarry Smith lens[imdex] = n; 5131eb62cbbSBarry Smith slen += n; 5141eb62cbbSBarry Smith count--; 5151eb62cbbSBarry Smith } 516606d414cSSatish Balay ierr = PetscFree(recv_waits);CHKERRQ(ierr); 5171eb62cbbSBarry Smith 5181eb62cbbSBarry Smith /* move the data into the send scatter */ 519b0a32e0cSBarry Smith ierr = PetscMalloc((slen+1)*sizeof(int),&lrows);CHKERRQ(ierr); 5201eb62cbbSBarry Smith count = 0; 5211eb62cbbSBarry Smith for (i=0; i<nrecvs; i++) { 5221eb62cbbSBarry Smith values = rvalues + i*nmax; 5231eb62cbbSBarry Smith for (j=0; j<lens[i]; j++) { 5241eb62cbbSBarry Smith lrows[count++] = values[j] - base; 5251eb62cbbSBarry Smith } 5261eb62cbbSBarry Smith } 527606d414cSSatish Balay ierr = PetscFree(rvalues);CHKERRQ(ierr); 528606d414cSSatish Balay ierr = PetscFree(lens);CHKERRQ(ierr); 529606d414cSSatish Balay ierr = PetscFree(owner);CHKERRQ(ierr); 530606d414cSSatish Balay ierr = PetscFree(nprocs);CHKERRQ(ierr); 5311eb62cbbSBarry Smith 5321eb62cbbSBarry Smith /* actually zap the local rows */ 533029af93fSBarry Smith ierr = ISCreateGeneral(PETSC_COMM_SELF,slen,lrows,&istmp);CHKERRQ(ierr); 534b0a32e0cSBarry Smith PetscLogObjectParent(A,istmp); 5356a5c57faSSatish Balay 5366eb55b6aSBarry Smith /* 5376eb55b6aSBarry Smith Zero the required rows. If the "diagonal block" of the matrix 5386eb55b6aSBarry Smith is square and the user wishes to set the diagonal we use seperate 5396eb55b6aSBarry Smith code so that MatSetValues() is not called for each diagonal allocating 5406eb55b6aSBarry Smith new memory, thus calling lots of mallocs and slowing things down. 5416eb55b6aSBarry Smith 5426eb55b6aSBarry Smith Contributed by: Mathew Knepley 5436eb55b6aSBarry Smith */ 544e2d53e46SBarry Smith /* must zero l->B before l->A because the (diag) case below may put values into l->B*/ 545e2d53e46SBarry Smith ierr = MatZeroRows(l->B,istmp,0);CHKERRQ(ierr); 5466eb55b6aSBarry Smith if (diag && (l->A->M == l->A->N)) { 5476eb55b6aSBarry Smith ierr = MatZeroRows(l->A,istmp,diag);CHKERRQ(ierr); 548e2d53e46SBarry Smith } else if (diag) { 549e2d53e46SBarry Smith ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr); 550fa46199cSSatish Balay if (((Mat_SeqAIJ*)l->A->data)->nonew) { 55129bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MatZeroRows() on rectangular matrices cannot be used with the Mat options\n\ 552fa46199cSSatish Balay MAT_NO_NEW_NONZERO_LOCATIONS,MAT_NEW_NONZERO_LOCATION_ERR,MAT_NEW_NONZERO_ALLOCATION_ERR"); 5536525c446SSatish Balay } 554e2d53e46SBarry Smith for (i = 0; i < slen; i++) { 555e2d53e46SBarry Smith row = lrows[i] + rstart; 556e2d53e46SBarry Smith ierr = MatSetValues(A,1,&row,1,&row,diag,INSERT_VALUES);CHKERRQ(ierr); 557e2d53e46SBarry Smith } 558e2d53e46SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 559e2d53e46SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 5606eb55b6aSBarry Smith } else { 5616a5c57faSSatish Balay ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr); 5626eb55b6aSBarry Smith } 56378b31e54SBarry Smith ierr = ISDestroy(istmp);CHKERRQ(ierr); 564606d414cSSatish Balay ierr = PetscFree(lrows);CHKERRQ(ierr); 56572dacd9aSBarry Smith 5661eb62cbbSBarry Smith /* wait on sends */ 5671eb62cbbSBarry Smith if (nsends) { 568b0a32e0cSBarry Smith ierr = PetscMalloc(nsends*sizeof(MPI_Status),&send_status);CHKERRQ(ierr); 569ca161407SBarry Smith ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr); 570606d414cSSatish Balay ierr = PetscFree(send_status);CHKERRQ(ierr); 5711eb62cbbSBarry Smith } 572606d414cSSatish Balay ierr = PetscFree(send_waits);CHKERRQ(ierr); 573606d414cSSatish Balay ierr = PetscFree(svalues);CHKERRQ(ierr); 5741eb62cbbSBarry Smith 5753a40ed3dSBarry Smith PetscFunctionReturn(0); 5761eb62cbbSBarry Smith } 5771eb62cbbSBarry Smith 5784a2ae208SSatish Balay #undef __FUNCT__ 5794a2ae208SSatish Balay #define __FUNCT__ "MatMult_MPIAIJ" 5808f6be9afSLois Curfman McInnes int MatMult_MPIAIJ(Mat A,Vec xx,Vec yy) 5811eb62cbbSBarry Smith { 582416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 583fbd6ef76SBarry Smith int ierr,nt; 584416022c9SBarry Smith 5853a40ed3dSBarry Smith PetscFunctionBegin; 586a2ce50c7SBarry Smith ierr = VecGetLocalSize(xx,&nt);CHKERRQ(ierr); 587273d9f13SBarry Smith if (nt != A->n) { 588273d9f13SBarry Smith SETERRQ2(PETSC_ERR_ARG_SIZ,"Incompatible partition of A (%d) and xx (%d)",A->n,nt); 589fbd6ef76SBarry Smith } 59043a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 591f830108cSBarry Smith ierr = (*a->A->ops->mult)(a->A,xx,yy);CHKERRQ(ierr); 59243a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 593f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,yy,yy);CHKERRQ(ierr); 5943a40ed3dSBarry Smith PetscFunctionReturn(0); 5951eb62cbbSBarry Smith } 5961eb62cbbSBarry Smith 5974a2ae208SSatish Balay #undef __FUNCT__ 5984a2ae208SSatish Balay #define __FUNCT__ "MatMultAdd_MPIAIJ" 5998f6be9afSLois Curfman McInnes int MatMultAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 600da3a660dSBarry Smith { 601416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 602da3a660dSBarry Smith int ierr; 6033a40ed3dSBarry Smith 6043a40ed3dSBarry Smith PetscFunctionBegin; 60543a90d84SBarry Smith ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 606f830108cSBarry Smith ierr = (*a->A->ops->multadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 60743a90d84SBarry Smith ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr); 608f830108cSBarry Smith ierr = (*a->B->ops->multadd)(a->B,a->lvec,zz,zz);CHKERRQ(ierr); 6093a40ed3dSBarry Smith PetscFunctionReturn(0); 610da3a660dSBarry Smith } 611da3a660dSBarry Smith 6124a2ae208SSatish Balay #undef __FUNCT__ 6134a2ae208SSatish Balay #define __FUNCT__ "MatMultTranspose_MPIAIJ" 6147c922b88SBarry Smith int MatMultTranspose_MPIAIJ(Mat A,Vec xx,Vec yy) 615da3a660dSBarry Smith { 616416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 617da3a660dSBarry Smith int ierr; 618da3a660dSBarry Smith 6193a40ed3dSBarry Smith PetscFunctionBegin; 620da3a660dSBarry Smith /* do nondiagonal part */ 6217c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 622da3a660dSBarry Smith /* send it on its way */ 623537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 624da3a660dSBarry Smith /* do local part */ 6257c922b88SBarry Smith ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr); 626da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 627da3a660dSBarry Smith /* inserted in yy until the next line, which is true for my implementation*/ 628da3a660dSBarry Smith /* but is not perhaps always true. */ 629537820f0SBarry Smith ierr = VecScatterEnd(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6303a40ed3dSBarry Smith PetscFunctionReturn(0); 631da3a660dSBarry Smith } 632da3a660dSBarry Smith 6334a2ae208SSatish Balay #undef __FUNCT__ 6344a2ae208SSatish Balay #define __FUNCT__ "MatMultTransposeAdd_MPIAIJ" 6357c922b88SBarry Smith int MatMultTransposeAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz) 636da3a660dSBarry Smith { 637416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 638da3a660dSBarry Smith int ierr; 639da3a660dSBarry Smith 6403a40ed3dSBarry Smith PetscFunctionBegin; 641da3a660dSBarry Smith /* do nondiagonal part */ 6427c922b88SBarry Smith ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr); 643da3a660dSBarry Smith /* send it on its way */ 644537820f0SBarry Smith ierr = VecScatterBegin(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 645da3a660dSBarry Smith /* do local part */ 6467c922b88SBarry Smith ierr = (*a->A->ops->multtransposeadd)(a->A,xx,yy,zz);CHKERRQ(ierr); 647da3a660dSBarry Smith /* receive remote parts: note this assumes the values are not actually */ 648da3a660dSBarry Smith /* inserted in yy until the next line, which is true for my implementation*/ 649da3a660dSBarry Smith /* but is not perhaps always true. */ 6500a198c4cSBarry Smith ierr = VecScatterEnd(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr); 6513a40ed3dSBarry Smith PetscFunctionReturn(0); 652da3a660dSBarry Smith } 653da3a660dSBarry Smith 6541eb62cbbSBarry Smith /* 6551eb62cbbSBarry Smith This only works correctly for square matrices where the subblock A->A is the 6561eb62cbbSBarry Smith diagonal block 6571eb62cbbSBarry Smith */ 6584a2ae208SSatish Balay #undef __FUNCT__ 6594a2ae208SSatish Balay #define __FUNCT__ "MatGetDiagonal_MPIAIJ" 6608f6be9afSLois Curfman McInnes int MatGetDiagonal_MPIAIJ(Mat A,Vec v) 6611eb62cbbSBarry Smith { 6623a40ed3dSBarry Smith int ierr; 663416022c9SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 6643a40ed3dSBarry Smith 6653a40ed3dSBarry Smith PetscFunctionBegin; 666273d9f13SBarry Smith if (A->M != A->N) SETERRQ(PETSC_ERR_SUP,"Supports only square matrix where A->A is diag block"); 6675baf8537SBarry Smith if (a->rstart != a->cstart || a->rend != a->cend) { 66829bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"row partition must equal col partition"); 6693a40ed3dSBarry Smith } 6703a40ed3dSBarry Smith ierr = MatGetDiagonal(a->A,v);CHKERRQ(ierr); 6713a40ed3dSBarry Smith PetscFunctionReturn(0); 6721eb62cbbSBarry Smith } 6731eb62cbbSBarry Smith 6744a2ae208SSatish Balay #undef __FUNCT__ 6754a2ae208SSatish Balay #define __FUNCT__ "MatScale_MPIAIJ" 67687828ca2SBarry Smith int MatScale_MPIAIJ(PetscScalar *aa,Mat A) 677052efed2SBarry Smith { 678052efed2SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 679052efed2SBarry Smith int ierr; 6803a40ed3dSBarry Smith 6813a40ed3dSBarry Smith PetscFunctionBegin; 682052efed2SBarry Smith ierr = MatScale(aa,a->A);CHKERRQ(ierr); 683052efed2SBarry Smith ierr = MatScale(aa,a->B);CHKERRQ(ierr); 6843a40ed3dSBarry Smith PetscFunctionReturn(0); 685052efed2SBarry Smith } 686052efed2SBarry Smith 6874a2ae208SSatish Balay #undef __FUNCT__ 6884a2ae208SSatish Balay #define __FUNCT__ "MatDestroy_MPIAIJ" 689e1311b90SBarry Smith int MatDestroy_MPIAIJ(Mat mat) 6901eb62cbbSBarry Smith { 69144a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 6921eb62cbbSBarry Smith int ierr; 69383e2fdc7SBarry Smith 6943a40ed3dSBarry Smith PetscFunctionBegin; 695aa482453SBarry Smith #if defined(PETSC_USE_LOG) 696b0a32e0cSBarry Smith PetscLogObjectState((PetscObject)mat,"Rows=%d, Cols=%d",mat->M,mat->N); 697a5a9c739SBarry Smith #endif 6988798bf22SSatish Balay ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr); 699606d414cSSatish Balay ierr = PetscFree(aij->rowners);CHKERRQ(ierr); 70078b31e54SBarry Smith ierr = MatDestroy(aij->A);CHKERRQ(ierr); 70178b31e54SBarry Smith ierr = MatDestroy(aij->B);CHKERRQ(ierr); 702aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 7030f5bd95cSBarry Smith if (aij->colmap) {ierr = PetscTableDelete(aij->colmap);CHKERRQ(ierr);} 704b1fc9764SSatish Balay #else 705606d414cSSatish Balay if (aij->colmap) {ierr = PetscFree(aij->colmap);CHKERRQ(ierr);} 706b1fc9764SSatish Balay #endif 707606d414cSSatish Balay if (aij->garray) {ierr = PetscFree(aij->garray);CHKERRQ(ierr);} 7087c922b88SBarry Smith if (aij->lvec) {ierr = VecDestroy(aij->lvec);CHKERRQ(ierr);} 7097c922b88SBarry Smith if (aij->Mvctx) {ierr = VecScatterDestroy(aij->Mvctx);CHKERRQ(ierr);} 710606d414cSSatish Balay if (aij->rowvalues) {ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr);} 711606d414cSSatish Balay ierr = PetscFree(aij);CHKERRQ(ierr); 7123a40ed3dSBarry Smith PetscFunctionReturn(0); 7131eb62cbbSBarry Smith } 714ee50ffe9SBarry Smith 7154aedb280SBarry Smith extern int MatMPIAIJFactorInfo_SuperLu(Mat,PetscViewer); 716a072f7f7SHong Zhang extern int MatFactorInfo_Spooles(Mat,PetscViewer); 7174aedb280SBarry Smith 7184a2ae208SSatish Balay #undef __FUNCT__ 7194a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ_ASCIIorDraworSocket" 720b0a32e0cSBarry Smith int MatView_MPIAIJ_ASCIIorDraworSocket(Mat mat,PetscViewer viewer) 721416022c9SBarry Smith { 72244a69424SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 723dbb450caSBarry Smith Mat_SeqAIJ* C = (Mat_SeqAIJ*)aij->A->data; 724fb9695e5SSatish Balay int ierr,shift = C->indexshift,rank = aij->rank,size = aij->size; 725f1af5d2fSBarry Smith PetscTruth isdraw,isascii,flg; 726b0a32e0cSBarry Smith PetscViewer sviewer; 727f3ef73ceSBarry Smith PetscViewerFormat format; 728416022c9SBarry Smith 7293a40ed3dSBarry Smith PetscFunctionBegin; 730fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 731b0a32e0cSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&isascii);CHKERRQ(ierr); 7320f5bd95cSBarry Smith if (isascii) { 733b0a32e0cSBarry Smith ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr); 734456192e2SBarry Smith if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) { 7354e220ebcSLois Curfman McInnes MatInfo info; 7361dab6e02SBarry Smith ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr); 737888f2ed8SSatish Balay ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr); 738b0a32e0cSBarry Smith ierr = PetscOptionsHasName(PETSC_NULL,"-mat_aij_no_inode",&flg);CHKERRQ(ierr); 7396831982aSBarry Smith if (flg) { 740b0a32e0cSBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %d nz %d nz alloced %d mem %d, not using I-node routines\n", 741273d9f13SBarry Smith rank,mat->m,(int)info.nz_used,(int)info.nz_allocated,(int)info.memory);CHKERRQ(ierr); 7426831982aSBarry Smith } else { 743b0a32e0cSBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %d nz %d nz alloced %d mem %d, using I-node routines\n", 744273d9f13SBarry Smith rank,mat->m,(int)info.nz_used,(int)info.nz_allocated,(int)info.memory);CHKERRQ(ierr); 7456831982aSBarry Smith } 746888f2ed8SSatish Balay ierr = MatGetInfo(aij->A,MAT_LOCAL,&info);CHKERRQ(ierr); 747b0a32e0cSBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] on-diagonal part: nz %d \n",rank,(int)info.nz_used);CHKERRQ(ierr); 748888f2ed8SSatish Balay ierr = MatGetInfo(aij->B,MAT_LOCAL,&info);CHKERRQ(ierr); 749b0a32e0cSBarry Smith ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] off-diagonal part: nz %d \n",rank,(int)info.nz_used);CHKERRQ(ierr); 750b0a32e0cSBarry Smith ierr = PetscViewerFlush(viewer);CHKERRQ(ierr); 751a40aa06bSLois Curfman McInnes ierr = VecScatterView(aij->Mvctx,viewer);CHKERRQ(ierr); 7523a40ed3dSBarry Smith PetscFunctionReturn(0); 753fb9695e5SSatish Balay } else if (format == PETSC_VIEWER_ASCII_INFO) { 7543a40ed3dSBarry Smith PetscFunctionReturn(0); 7554aedb280SBarry Smith } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) { 756*3cea93caSBarry Smith #if defined(PETSC_HAVE_SUPERLUDIST) && !defined(PETSC_USE_SINGLE) 7574aedb280SBarry Smith ierr = MatMPIAIJFactorInfo_SuperLu(mat,viewer);CHKERRQ(ierr); 7584aedb280SBarry Smith #endif 759*3cea93caSBarry Smith #if defined(PETSC_HAVE_SPOOLES) && !defined(PETSC_USE_SINGLE) 760a072f7f7SHong Zhang ierr = MatFactorInfo_Spooles(mat,viewer);CHKERRQ(ierr); 7610473ca23SHong Zhang #endif 762471340fbSHong Zhang 7634aedb280SBarry Smith PetscFunctionReturn(0); 76408480c60SBarry Smith } 7650f5bd95cSBarry Smith } else if (isdraw) { 766b0a32e0cSBarry Smith PetscDraw draw; 76719bcc07fSBarry Smith PetscTruth isnull; 768b0a32e0cSBarry Smith ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr); 769b0a32e0cSBarry Smith ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); if (isnull) PetscFunctionReturn(0); 77019bcc07fSBarry Smith } 77119bcc07fSBarry Smith 77217699dbbSLois Curfman McInnes if (size == 1) { 773e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr); 77478b31e54SBarry Smith ierr = MatView(aij->A,viewer);CHKERRQ(ierr); 7753a40ed3dSBarry Smith } else { 77695373324SBarry Smith /* assemble the entire matrix onto first processor. */ 77795373324SBarry Smith Mat A; 778ec8511deSBarry Smith Mat_SeqAIJ *Aloc; 779273d9f13SBarry Smith int M = mat->M,N = mat->N,m,*ai,*aj,row,*cols,i,*ct; 78087828ca2SBarry Smith PetscScalar *a; 7812ee70a88SLois Curfman McInnes 78217699dbbSLois Curfman McInnes if (!rank) { 78355843e3eSBarry Smith ierr = MatCreateMPIAIJ(mat->comm,M,N,M,N,0,PETSC_NULL,0,PETSC_NULL,&A);CHKERRQ(ierr); 7843a40ed3dSBarry Smith } else { 78555843e3eSBarry Smith ierr = MatCreateMPIAIJ(mat->comm,0,0,M,N,0,PETSC_NULL,0,PETSC_NULL,&A);CHKERRQ(ierr); 78695373324SBarry Smith } 787b0a32e0cSBarry Smith PetscLogObjectParent(mat,A); 788416022c9SBarry Smith 78995373324SBarry Smith /* copy over the A part */ 790ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->A->data; 791273d9f13SBarry Smith m = aij->A->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 79295373324SBarry Smith row = aij->rstart; 793dbb450caSBarry Smith for (i=0; i<ai[m]+shift; i++) {aj[i] += aij->cstart + shift;} 79495373324SBarry Smith for (i=0; i<m; i++) { 795416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],aj,a,INSERT_VALUES);CHKERRQ(ierr); 79695373324SBarry Smith row++; a += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 79795373324SBarry Smith } 7982ee70a88SLois Curfman McInnes aj = Aloc->j; 799dbb450caSBarry Smith for (i=0; i<ai[m]+shift; i++) {aj[i] -= aij->cstart + shift;} 80095373324SBarry Smith 80195373324SBarry Smith /* copy over the B part */ 802ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)aij->B->data; 803273d9f13SBarry Smith m = aij->B->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a; 80495373324SBarry Smith row = aij->rstart; 805b0a32e0cSBarry Smith ierr = PetscMalloc((ai[m]+1)*sizeof(int),&cols);CHKERRQ(ierr); 806b0a32e0cSBarry Smith ct = cols; 807dbb450caSBarry Smith for (i=0; i<ai[m]+shift; i++) {cols[i] = aij->garray[aj[i]+shift];} 80895373324SBarry Smith for (i=0; i<m; i++) { 809416022c9SBarry Smith ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],cols,a,INSERT_VALUES);CHKERRQ(ierr); 81095373324SBarry Smith row++; a += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 81195373324SBarry Smith } 812606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 8136d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 8146d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 81555843e3eSBarry Smith /* 81655843e3eSBarry Smith Everyone has to call to draw the matrix since the graphics waits are 817b0a32e0cSBarry Smith synchronized across all processors that share the PetscDraw object 81855843e3eSBarry Smith */ 819b0a32e0cSBarry Smith ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr); 820e03a110bSBarry Smith if (!rank) { 821e36acaf3SBarry Smith ierr = PetscObjectSetName((PetscObject)((Mat_MPIAIJ*)(A->data))->A,mat->name);CHKERRQ(ierr); 8226831982aSBarry Smith ierr = MatView(((Mat_MPIAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr); 82395373324SBarry Smith } 824b0a32e0cSBarry Smith ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr); 82578b31e54SBarry Smith ierr = MatDestroy(A);CHKERRQ(ierr); 82695373324SBarry Smith } 8273a40ed3dSBarry Smith PetscFunctionReturn(0); 8281eb62cbbSBarry Smith } 8291eb62cbbSBarry Smith 8304a2ae208SSatish Balay #undef __FUNCT__ 8314a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ" 832b0a32e0cSBarry Smith int MatView_MPIAIJ(Mat mat,PetscViewer viewer) 833416022c9SBarry Smith { 834416022c9SBarry Smith int ierr; 8356831982aSBarry Smith PetscTruth isascii,isdraw,issocket,isbinary; 836416022c9SBarry Smith 8373a40ed3dSBarry Smith PetscFunctionBegin; 838b0a32e0cSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&isascii);CHKERRQ(ierr); 839fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr); 840fb9695e5SSatish Balay ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr); 841b0a32e0cSBarry Smith ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr); 8420f5bd95cSBarry Smith if (isascii || isdraw || isbinary || issocket) { 8437b2a1423SBarry Smith ierr = MatView_MPIAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr); 8445cd90555SBarry Smith } else { 84529bbc08cSBarry Smith SETERRQ1(1,"Viewer type %s not supported by MPIAIJ matrices",((PetscObject)viewer)->type_name); 846416022c9SBarry Smith } 8473a40ed3dSBarry Smith PetscFunctionReturn(0); 848416022c9SBarry Smith } 849416022c9SBarry Smith 8501eb62cbbSBarry Smith 851c14dc6b6SHong Zhang 8524a2ae208SSatish Balay #undef __FUNCT__ 8534a2ae208SSatish Balay #define __FUNCT__ "MatRelax_MPIAIJ" 854c14dc6b6SHong Zhang int MatRelax_MPIAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,int its,int lits,Vec xx) 8558a729477SBarry Smith { 85644a69424SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 857c14dc6b6SHong Zhang int ierr; 858c14dc6b6SHong Zhang Vec bb1; 859a6c309e7SHong Zhang PetscScalar mone=-1.0; 8608a729477SBarry Smith 8613a40ed3dSBarry Smith PetscFunctionBegin; 86291723122SBarry Smith if (its <= 0 || lits <= 0) SETERRQ2(PETSC_ERR_ARG_WRONG,"Relaxation requires global its %d and local its %d both positive",its,lits); 863c14dc6b6SHong Zhang 864c14dc6b6SHong Zhang ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr); 8652798e883SHong Zhang 866c16cb8f2SBarry Smith if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP){ 867da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 868bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,lits,xx);CHKERRQ(ierr); 8692798e883SHong Zhang its--; 870da3a660dSBarry Smith } 8712798e883SHong Zhang 8722798e883SHong Zhang while (its--) { 8733a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 8743a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 8752798e883SHong Zhang 876c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 877c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 878c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 8792798e883SHong Zhang 880c14dc6b6SHong Zhang /* local sweep */ 881bd3bf7d3SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,lits,xx); 882c14dc6b6SHong Zhang CHKERRQ(ierr); 8832798e883SHong Zhang } 8843a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_FORWARD_SWEEP){ 885da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 886c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 8872798e883SHong Zhang its--; 888da3a660dSBarry Smith } 8892798e883SHong Zhang while (its--) { 8903a40ed3dSBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 8913a40ed3dSBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 8922798e883SHong Zhang 893c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 894c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 895c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 896c14dc6b6SHong Zhang 897c14dc6b6SHong Zhang /* local sweep */ 898a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 899c14dc6b6SHong Zhang CHKERRQ(ierr); 9002798e883SHong Zhang } 9013a40ed3dSBarry Smith } else if (flag & SOR_LOCAL_BACKWARD_SWEEP){ 902da3a660dSBarry Smith if (flag & SOR_ZERO_INITIAL_GUESS) { 903c14dc6b6SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr); 9042798e883SHong Zhang its--; 905da3a660dSBarry Smith } 9062798e883SHong Zhang while (its--) { 9072e8a6d31SBarry Smith ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 9082e8a6d31SBarry Smith ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr); 9092798e883SHong Zhang 910c14dc6b6SHong Zhang /* update rhs: bb1 = bb - B*x */ 911c14dc6b6SHong Zhang ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr); 912c14dc6b6SHong Zhang ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr); 9132798e883SHong Zhang 914c14dc6b6SHong Zhang /* local sweep */ 915a6c309e7SHong Zhang ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,PETSC_NULL,xx); 916c14dc6b6SHong Zhang CHKERRQ(ierr); 9172798e883SHong Zhang } 9183a40ed3dSBarry Smith } else { 91929bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"Parallel SOR not supported"); 920c16cb8f2SBarry Smith } 921c14dc6b6SHong Zhang 922c14dc6b6SHong Zhang ierr = VecDestroy(bb1);CHKERRQ(ierr); 9233a40ed3dSBarry Smith PetscFunctionReturn(0); 9248a729477SBarry Smith } 925a66be287SLois Curfman McInnes 9264a2ae208SSatish Balay #undef __FUNCT__ 9274a2ae208SSatish Balay #define __FUNCT__ "MatGetInfo_MPIAIJ" 9288f6be9afSLois Curfman McInnes int MatGetInfo_MPIAIJ(Mat matin,MatInfoType flag,MatInfo *info) 929a66be287SLois Curfman McInnes { 930a66be287SLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 931a66be287SLois Curfman McInnes Mat A = mat->A,B = mat->B; 9324e220ebcSLois Curfman McInnes int ierr; 933329f5518SBarry Smith PetscReal isend[5],irecv[5]; 934a66be287SLois Curfman McInnes 9353a40ed3dSBarry Smith PetscFunctionBegin; 9364e220ebcSLois Curfman McInnes info->block_size = 1.0; 9374e220ebcSLois Curfman McInnes ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr); 9384e220ebcSLois Curfman McInnes isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded; 9394e220ebcSLois Curfman McInnes isend[3] = info->memory; isend[4] = info->mallocs; 9404e220ebcSLois Curfman McInnes ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr); 9414e220ebcSLois Curfman McInnes isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded; 9424e220ebcSLois Curfman McInnes isend[3] += info->memory; isend[4] += info->mallocs; 943a66be287SLois Curfman McInnes if (flag == MAT_LOCAL) { 9444e220ebcSLois Curfman McInnes info->nz_used = isend[0]; 9454e220ebcSLois Curfman McInnes info->nz_allocated = isend[1]; 9464e220ebcSLois Curfman McInnes info->nz_unneeded = isend[2]; 9474e220ebcSLois Curfman McInnes info->memory = isend[3]; 9484e220ebcSLois Curfman McInnes info->mallocs = isend[4]; 949a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_MAX) { 950d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,matin->comm);CHKERRQ(ierr); 9514e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 9524e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 9534e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 9544e220ebcSLois Curfman McInnes info->memory = irecv[3]; 9554e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 956a66be287SLois Curfman McInnes } else if (flag == MAT_GLOBAL_SUM) { 957d7d1e502SBarry Smith ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,matin->comm);CHKERRQ(ierr); 9584e220ebcSLois Curfman McInnes info->nz_used = irecv[0]; 9594e220ebcSLois Curfman McInnes info->nz_allocated = irecv[1]; 9604e220ebcSLois Curfman McInnes info->nz_unneeded = irecv[2]; 9614e220ebcSLois Curfman McInnes info->memory = irecv[3]; 9624e220ebcSLois Curfman McInnes info->mallocs = irecv[4]; 963a66be287SLois Curfman McInnes } 9644e220ebcSLois Curfman McInnes info->fill_ratio_given = 0; /* no parallel LU/ILU/Cholesky */ 9654e220ebcSLois Curfman McInnes info->fill_ratio_needed = 0; 9664e220ebcSLois Curfman McInnes info->factor_mallocs = 0; 967273d9f13SBarry Smith info->rows_global = (double)matin->M; 968273d9f13SBarry Smith info->columns_global = (double)matin->N; 969273d9f13SBarry Smith info->rows_local = (double)matin->m; 970273d9f13SBarry Smith info->columns_local = (double)matin->N; 9714e220ebcSLois Curfman McInnes 9723a40ed3dSBarry Smith PetscFunctionReturn(0); 973a66be287SLois Curfman McInnes } 974a66be287SLois Curfman McInnes 9754a2ae208SSatish Balay #undef __FUNCT__ 9764a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_MPIAIJ" 9778f6be9afSLois Curfman McInnes int MatSetOption_MPIAIJ(Mat A,MatOption op) 978c74985f6SBarry Smith { 979c0bbcb79SLois Curfman McInnes Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 9801dee9f54SBarry Smith int ierr; 981c74985f6SBarry Smith 9823a40ed3dSBarry Smith PetscFunctionBegin; 98312c028f9SKris Buschelman switch (op) { 98412c028f9SKris Buschelman case MAT_NO_NEW_NONZERO_LOCATIONS: 98512c028f9SKris Buschelman case MAT_YES_NEW_NONZERO_LOCATIONS: 98612c028f9SKris Buschelman case MAT_COLUMNS_UNSORTED: 98712c028f9SKris Buschelman case MAT_COLUMNS_SORTED: 98812c028f9SKris Buschelman case MAT_NEW_NONZERO_ALLOCATION_ERR: 98912c028f9SKris Buschelman case MAT_KEEP_ZEROED_ROWS: 99012c028f9SKris Buschelman case MAT_NEW_NONZERO_LOCATION_ERR: 99112c028f9SKris Buschelman case MAT_USE_INODES: 99212c028f9SKris Buschelman case MAT_DO_NOT_USE_INODES: 99312c028f9SKris Buschelman case MAT_IGNORE_ZERO_ENTRIES: 9941dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 9951dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 99612c028f9SKris Buschelman break; 99712c028f9SKris Buschelman case MAT_ROW_ORIENTED: 9987c922b88SBarry Smith a->roworiented = PETSC_TRUE; 9991dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 10001dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 100112c028f9SKris Buschelman break; 100212c028f9SKris Buschelman case MAT_ROWS_SORTED: 100312c028f9SKris Buschelman case MAT_ROWS_UNSORTED: 100412c028f9SKris Buschelman case MAT_YES_NEW_DIAGONALS: 1005d03495bdSKris Buschelman case MAT_USE_SINGLE_PRECISION_SOLVES: 1006b0a32e0cSBarry Smith PetscLogInfo(A,"MatSetOption_MPIAIJ:Option ignored\n"); 100712c028f9SKris Buschelman break; 100812c028f9SKris Buschelman case MAT_COLUMN_ORIENTED: 10097c922b88SBarry Smith a->roworiented = PETSC_FALSE; 10101dee9f54SBarry Smith ierr = MatSetOption(a->A,op);CHKERRQ(ierr); 10111dee9f54SBarry Smith ierr = MatSetOption(a->B,op);CHKERRQ(ierr); 101212c028f9SKris Buschelman break; 101312c028f9SKris Buschelman case MAT_IGNORE_OFF_PROC_ENTRIES: 10147c922b88SBarry Smith a->donotstash = PETSC_TRUE; 101512c028f9SKris Buschelman break; 101612c028f9SKris Buschelman case MAT_NO_NEW_DIAGONALS: 101729bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"MAT_NO_NEW_DIAGONALS"); 101812c028f9SKris Buschelman default: 101929bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"unknown option"); 10203a40ed3dSBarry Smith } 10213a40ed3dSBarry Smith PetscFunctionReturn(0); 1022c74985f6SBarry Smith } 1023c74985f6SBarry Smith 10244a2ae208SSatish Balay #undef __FUNCT__ 10254a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_MPIAIJ" 102687828ca2SBarry Smith int MatGetRow_MPIAIJ(Mat matin,int row,int *nz,int **idx,PetscScalar **v) 102739e00950SLois Curfman McInnes { 1028154123eaSLois Curfman McInnes Mat_MPIAIJ *mat = (Mat_MPIAIJ*)matin->data; 102987828ca2SBarry Smith PetscScalar *vworkA,*vworkB,**pvA,**pvB,*v_p; 1030154123eaSLois Curfman McInnes int i,ierr,*cworkA,*cworkB,**pcA,**pcB,cstart = mat->cstart; 1031154123eaSLois Curfman McInnes int nztot,nzA,nzB,lrow,rstart = mat->rstart,rend = mat->rend; 103270f0671dSBarry Smith int *cmap,*idx_p; 103339e00950SLois Curfman McInnes 10343a40ed3dSBarry Smith PetscFunctionBegin; 103529bbc08cSBarry Smith if (mat->getrowactive == PETSC_TRUE) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Already active"); 10367a0afa10SBarry Smith mat->getrowactive = PETSC_TRUE; 10377a0afa10SBarry Smith 103870f0671dSBarry Smith if (!mat->rowvalues && (idx || v)) { 10397a0afa10SBarry Smith /* 10407a0afa10SBarry Smith allocate enough space to hold information from the longest row. 10417a0afa10SBarry Smith */ 10427a0afa10SBarry Smith Mat_SeqAIJ *Aa = (Mat_SeqAIJ*)mat->A->data,*Ba = (Mat_SeqAIJ*)mat->B->data; 1043273d9f13SBarry Smith int max = 1,tmp; 1044273d9f13SBarry Smith for (i=0; i<matin->m; i++) { 10457a0afa10SBarry Smith tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i]; 10467a0afa10SBarry Smith if (max < tmp) { max = tmp; } 10477a0afa10SBarry Smith } 104887828ca2SBarry Smith ierr = PetscMalloc(max*(sizeof(int)+sizeof(PetscScalar)),&mat->rowvalues);CHKERRQ(ierr); 10497a0afa10SBarry Smith mat->rowindices = (int*)(mat->rowvalues + max); 10507a0afa10SBarry Smith } 10517a0afa10SBarry Smith 105229bbc08cSBarry Smith if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Only local rows") 1053abc0e9e4SLois Curfman McInnes lrow = row - rstart; 105439e00950SLois Curfman McInnes 1055154123eaSLois Curfman McInnes pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB; 1056154123eaSLois Curfman McInnes if (!v) {pvA = 0; pvB = 0;} 1057154123eaSLois Curfman McInnes if (!idx) {pcA = 0; if (!v) pcB = 0;} 1058f830108cSBarry Smith ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1059f830108cSBarry Smith ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 1060154123eaSLois Curfman McInnes nztot = nzA + nzB; 1061154123eaSLois Curfman McInnes 106270f0671dSBarry Smith cmap = mat->garray; 1063154123eaSLois Curfman McInnes if (v || idx) { 1064154123eaSLois Curfman McInnes if (nztot) { 1065154123eaSLois Curfman McInnes /* Sort by increasing column numbers, assuming A and B already sorted */ 106670f0671dSBarry Smith int imark = -1; 1067154123eaSLois Curfman McInnes if (v) { 106870f0671dSBarry Smith *v = v_p = mat->rowvalues; 106939e00950SLois Curfman McInnes for (i=0; i<nzB; i++) { 107070f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) v_p[i] = vworkB[i]; 1071154123eaSLois Curfman McInnes else break; 1072154123eaSLois Curfman McInnes } 1073154123eaSLois Curfman McInnes imark = i; 107470f0671dSBarry Smith for (i=0; i<nzA; i++) v_p[imark+i] = vworkA[i]; 107570f0671dSBarry Smith for (i=imark; i<nzB; i++) v_p[nzA+i] = vworkB[i]; 1076154123eaSLois Curfman McInnes } 1077154123eaSLois Curfman McInnes if (idx) { 107870f0671dSBarry Smith *idx = idx_p = mat->rowindices; 107970f0671dSBarry Smith if (imark > -1) { 108070f0671dSBarry Smith for (i=0; i<imark; i++) { 108170f0671dSBarry Smith idx_p[i] = cmap[cworkB[i]]; 108270f0671dSBarry Smith } 108370f0671dSBarry Smith } else { 1084154123eaSLois Curfman McInnes for (i=0; i<nzB; i++) { 108570f0671dSBarry Smith if (cmap[cworkB[i]] < cstart) idx_p[i] = cmap[cworkB[i]]; 1086154123eaSLois Curfman McInnes else break; 1087154123eaSLois Curfman McInnes } 1088154123eaSLois Curfman McInnes imark = i; 108970f0671dSBarry Smith } 109070f0671dSBarry Smith for (i=0; i<nzA; i++) idx_p[imark+i] = cstart + cworkA[i]; 109170f0671dSBarry Smith for (i=imark; i<nzB; i++) idx_p[nzA+i] = cmap[cworkB[i]]; 109239e00950SLois Curfman McInnes } 10933f97c4b0SBarry Smith } else { 10941ca473b0SSatish Balay if (idx) *idx = 0; 10951ca473b0SSatish Balay if (v) *v = 0; 10961ca473b0SSatish Balay } 1097154123eaSLois Curfman McInnes } 109839e00950SLois Curfman McInnes *nz = nztot; 1099f830108cSBarry Smith ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr); 1100f830108cSBarry Smith ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr); 11013a40ed3dSBarry Smith PetscFunctionReturn(0); 110239e00950SLois Curfman McInnes } 110339e00950SLois Curfman McInnes 11044a2ae208SSatish Balay #undef __FUNCT__ 11054a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_MPIAIJ" 110687828ca2SBarry Smith int MatRestoreRow_MPIAIJ(Mat mat,int row,int *nz,int **idx,PetscScalar **v) 110739e00950SLois Curfman McInnes { 11087a0afa10SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 11093a40ed3dSBarry Smith 11103a40ed3dSBarry Smith PetscFunctionBegin; 11117a0afa10SBarry Smith if (aij->getrowactive == PETSC_FALSE) { 111229bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"MatGetRow not called"); 11137a0afa10SBarry Smith } 11147a0afa10SBarry Smith aij->getrowactive = PETSC_FALSE; 11153a40ed3dSBarry Smith PetscFunctionReturn(0); 111639e00950SLois Curfman McInnes } 111739e00950SLois Curfman McInnes 11184a2ae208SSatish Balay #undef __FUNCT__ 11194a2ae208SSatish Balay #define __FUNCT__ "MatNorm_MPIAIJ" 1120329f5518SBarry Smith int MatNorm_MPIAIJ(Mat mat,NormType type,PetscReal *norm) 1121855ac2c5SLois Curfman McInnes { 1122855ac2c5SLois Curfman McInnes Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 1123ec8511deSBarry Smith Mat_SeqAIJ *amat = (Mat_SeqAIJ*)aij->A->data,*bmat = (Mat_SeqAIJ*)aij->B->data; 1124416022c9SBarry Smith int ierr,i,j,cstart = aij->cstart,shift = amat->indexshift; 1125329f5518SBarry Smith PetscReal sum = 0.0; 112687828ca2SBarry Smith PetscScalar *v; 112704ca555eSLois Curfman McInnes 11283a40ed3dSBarry Smith PetscFunctionBegin; 112917699dbbSLois Curfman McInnes if (aij->size == 1) { 113014183eadSLois Curfman McInnes ierr = MatNorm(aij->A,type,norm);CHKERRQ(ierr); 113137fa93a5SLois Curfman McInnes } else { 113204ca555eSLois Curfman McInnes if (type == NORM_FROBENIUS) { 113304ca555eSLois Curfman McInnes v = amat->a; 113404ca555eSLois Curfman McInnes for (i=0; i<amat->nz; i++) { 1135aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1136329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 113704ca555eSLois Curfman McInnes #else 113804ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 113904ca555eSLois Curfman McInnes #endif 114004ca555eSLois Curfman McInnes } 114104ca555eSLois Curfman McInnes v = bmat->a; 114204ca555eSLois Curfman McInnes for (i=0; i<bmat->nz; i++) { 1143aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX) 1144329f5518SBarry Smith sum += PetscRealPart(PetscConj(*v)*(*v)); v++; 114504ca555eSLois Curfman McInnes #else 114604ca555eSLois Curfman McInnes sum += (*v)*(*v); v++; 114704ca555eSLois Curfman McInnes #endif 114804ca555eSLois Curfman McInnes } 1149d7d1e502SBarry Smith ierr = MPI_Allreduce(&sum,norm,1,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 115004ca555eSLois Curfman McInnes *norm = sqrt(*norm); 11513a40ed3dSBarry Smith } else if (type == NORM_1) { /* max column norm */ 1152329f5518SBarry Smith PetscReal *tmp,*tmp2; 115304ca555eSLois Curfman McInnes int *jj,*garray = aij->garray; 1154b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp);CHKERRQ(ierr); 1155b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp2);CHKERRQ(ierr); 1156273d9f13SBarry Smith ierr = PetscMemzero(tmp,mat->N*sizeof(PetscReal));CHKERRQ(ierr); 115704ca555eSLois Curfman McInnes *norm = 0.0; 115804ca555eSLois Curfman McInnes v = amat->a; jj = amat->j; 115904ca555eSLois Curfman McInnes for (j=0; j<amat->nz; j++) { 1160579c6b6fSBarry Smith tmp[cstart + *jj++ + shift] += PetscAbsScalar(*v); v++; 116104ca555eSLois Curfman McInnes } 116204ca555eSLois Curfman McInnes v = bmat->a; jj = bmat->j; 116304ca555eSLois Curfman McInnes for (j=0; j<bmat->nz; j++) { 1164579c6b6fSBarry Smith tmp[garray[*jj++ + shift]] += PetscAbsScalar(*v); v++; 116504ca555eSLois Curfman McInnes } 1166d7d1e502SBarry Smith ierr = MPI_Allreduce(tmp,tmp2,mat->N,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr); 1167273d9f13SBarry Smith for (j=0; j<mat->N; j++) { 116804ca555eSLois Curfman McInnes if (tmp2[j] > *norm) *norm = tmp2[j]; 116904ca555eSLois Curfman McInnes } 1170606d414cSSatish Balay ierr = PetscFree(tmp);CHKERRQ(ierr); 1171606d414cSSatish Balay ierr = PetscFree(tmp2);CHKERRQ(ierr); 11723a40ed3dSBarry Smith } else if (type == NORM_INFINITY) { /* max row norm */ 1173329f5518SBarry Smith PetscReal ntemp = 0.0; 1174273d9f13SBarry Smith for (j=0; j<aij->A->m; j++) { 1175dbb450caSBarry Smith v = amat->a + amat->i[j] + shift; 117604ca555eSLois Curfman McInnes sum = 0.0; 117704ca555eSLois Curfman McInnes for (i=0; i<amat->i[j+1]-amat->i[j]; i++) { 1178cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 117904ca555eSLois Curfman McInnes } 1180dbb450caSBarry Smith v = bmat->a + bmat->i[j] + shift; 118104ca555eSLois Curfman McInnes for (i=0; i<bmat->i[j+1]-bmat->i[j]; i++) { 1182cddf8d76SBarry Smith sum += PetscAbsScalar(*v); v++; 118304ca555eSLois Curfman McInnes } 1184515d9167SLois Curfman McInnes if (sum > ntemp) ntemp = sum; 118504ca555eSLois Curfman McInnes } 1186d7d1e502SBarry Smith ierr = MPI_Allreduce(&ntemp,norm,1,MPIU_REAL,MPI_MAX,mat->comm);CHKERRQ(ierr); 1187ca161407SBarry Smith } else { 118829bbc08cSBarry Smith SETERRQ(PETSC_ERR_SUP,"No support for two norm"); 118904ca555eSLois Curfman McInnes } 119037fa93a5SLois Curfman McInnes } 11913a40ed3dSBarry Smith PetscFunctionReturn(0); 1192855ac2c5SLois Curfman McInnes } 1193855ac2c5SLois Curfman McInnes 11944a2ae208SSatish Balay #undef __FUNCT__ 11954a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_MPIAIJ" 11968f6be9afSLois Curfman McInnes int MatTranspose_MPIAIJ(Mat A,Mat *matout) 1197b7c46309SBarry Smith { 1198b7c46309SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1199dbb450caSBarry Smith Mat_SeqAIJ *Aloc = (Mat_SeqAIJ*)a->A->data; 1200416022c9SBarry Smith int ierr,shift = Aloc->indexshift; 1201273d9f13SBarry Smith int M = A->M,N = A->N,m,*ai,*aj,row,*cols,i,*ct; 12023a40ed3dSBarry Smith Mat B; 120387828ca2SBarry Smith PetscScalar *array; 1204b7c46309SBarry Smith 12053a40ed3dSBarry Smith PetscFunctionBegin; 12067c922b88SBarry Smith if (!matout && M != N) { 120729bbc08cSBarry Smith SETERRQ(PETSC_ERR_ARG_SIZ,"Square matrix only for in-place"); 1208d4bb536fSBarry Smith } 1209d4bb536fSBarry Smith 1210273d9f13SBarry Smith ierr = MatCreateMPIAIJ(A->comm,A->n,A->m,N,M,0,PETSC_NULL,0,PETSC_NULL,&B);CHKERRQ(ierr); 1211b7c46309SBarry Smith 1212b7c46309SBarry Smith /* copy over the A part */ 1213ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->A->data; 1214273d9f13SBarry Smith m = a->A->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1215b7c46309SBarry Smith row = a->rstart; 1216dbb450caSBarry Smith for (i=0; i<ai[m]+shift; i++) {aj[i] += a->cstart + shift;} 1217b7c46309SBarry Smith for (i=0; i<m; i++) { 1218416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],aj,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1219b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i]; 1220b7c46309SBarry Smith } 1221b7c46309SBarry Smith aj = Aloc->j; 12224af08d9eSBarry Smith for (i=0; i<ai[m]+shift; i++) {aj[i] -= a->cstart + shift;} 1223b7c46309SBarry Smith 1224b7c46309SBarry Smith /* copy over the B part */ 1225ec8511deSBarry Smith Aloc = (Mat_SeqAIJ*)a->B->data; 1226273d9f13SBarry Smith m = a->B->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a; 1227b7c46309SBarry Smith row = a->rstart; 1228b0a32e0cSBarry Smith ierr = PetscMalloc((1+ai[m]-shift)*sizeof(int),&cols);CHKERRQ(ierr); 1229b0a32e0cSBarry Smith ct = cols; 1230dbb450caSBarry Smith for (i=0; i<ai[m]+shift; i++) {cols[i] = a->garray[aj[i]+shift];} 1231b7c46309SBarry Smith for (i=0; i<m; i++) { 1232416022c9SBarry Smith ierr = MatSetValues(B,ai[i+1]-ai[i],cols,1,&row,array,INSERT_VALUES);CHKERRQ(ierr); 1233b7c46309SBarry Smith row++; array += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i]; 1234b7c46309SBarry Smith } 1235606d414cSSatish Balay ierr = PetscFree(ct);CHKERRQ(ierr); 12366d4a8577SBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 12376d4a8577SBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 12387c922b88SBarry Smith if (matout) { 12390de55854SLois Curfman McInnes *matout = B; 12400de55854SLois Curfman McInnes } else { 1241273d9f13SBarry Smith ierr = MatHeaderCopy(A,B);CHKERRQ(ierr); 12420de55854SLois Curfman McInnes } 12433a40ed3dSBarry Smith PetscFunctionReturn(0); 1244b7c46309SBarry Smith } 1245b7c46309SBarry Smith 12464a2ae208SSatish Balay #undef __FUNCT__ 12474a2ae208SSatish Balay #define __FUNCT__ "MatDiagonalScale_MPIAIJ" 12484b967eb1SSatish Balay int MatDiagonalScale_MPIAIJ(Mat mat,Vec ll,Vec rr) 1249a008b906SSatish Balay { 12504b967eb1SSatish Balay Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data; 12514b967eb1SSatish Balay Mat a = aij->A,b = aij->B; 1252a008b906SSatish Balay int ierr,s1,s2,s3; 1253a008b906SSatish Balay 12543a40ed3dSBarry Smith PetscFunctionBegin; 12554b967eb1SSatish Balay ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr); 12564b967eb1SSatish Balay if (rr) { 1257e1311b90SBarry Smith ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr); 125829bbc08cSBarry Smith if (s1!=s3) SETERRQ(PETSC_ERR_ARG_SIZ,"right vector non-conforming local size"); 12594b967eb1SSatish Balay /* Overlap communication with computation. */ 126043a90d84SBarry Smith ierr = VecScatterBegin(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1261a008b906SSatish Balay } 12624b967eb1SSatish Balay if (ll) { 1263e1311b90SBarry Smith ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr); 126429bbc08cSBarry Smith if (s1!=s2) SETERRQ(PETSC_ERR_ARG_SIZ,"left vector non-conforming local size"); 1265f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,ll,0);CHKERRQ(ierr); 12664b967eb1SSatish Balay } 12674b967eb1SSatish Balay /* scale the diagonal block */ 1268f830108cSBarry Smith ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr); 12694b967eb1SSatish Balay 12704b967eb1SSatish Balay if (rr) { 12714b967eb1SSatish Balay /* Do a scatter end and then right scale the off-diagonal block */ 127243a90d84SBarry Smith ierr = VecScatterEnd(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr); 1273f830108cSBarry Smith ierr = (*b->ops->diagonalscale)(b,0,aij->lvec);CHKERRQ(ierr); 12744b967eb1SSatish Balay } 12754b967eb1SSatish Balay 12763a40ed3dSBarry Smith PetscFunctionReturn(0); 1277a008b906SSatish Balay } 1278a008b906SSatish Balay 1279a008b906SSatish Balay 12804a2ae208SSatish Balay #undef __FUNCT__ 12814a2ae208SSatish Balay #define __FUNCT__ "MatPrintHelp_MPIAIJ" 12828f6be9afSLois Curfman McInnes int MatPrintHelp_MPIAIJ(Mat A) 1283682d7d0cSBarry Smith { 1284682d7d0cSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 12853a40ed3dSBarry Smith int ierr; 1286682d7d0cSBarry Smith 12873a40ed3dSBarry Smith PetscFunctionBegin; 12883a40ed3dSBarry Smith if (!a->rank) { 12893a40ed3dSBarry Smith ierr = MatPrintHelp_SeqAIJ(a->A);CHKERRQ(ierr); 12903a40ed3dSBarry Smith } 12913a40ed3dSBarry Smith PetscFunctionReturn(0); 1292682d7d0cSBarry Smith } 1293682d7d0cSBarry Smith 12944a2ae208SSatish Balay #undef __FUNCT__ 12954a2ae208SSatish Balay #define __FUNCT__ "MatGetBlockSize_MPIAIJ" 12968f6be9afSLois Curfman McInnes int MatGetBlockSize_MPIAIJ(Mat A,int *bs) 12975a838052SSatish Balay { 12983a40ed3dSBarry Smith PetscFunctionBegin; 12995a838052SSatish Balay *bs = 1; 13003a40ed3dSBarry Smith PetscFunctionReturn(0); 13015a838052SSatish Balay } 13024a2ae208SSatish Balay #undef __FUNCT__ 13034a2ae208SSatish Balay #define __FUNCT__ "MatSetUnfactored_MPIAIJ" 13048f6be9afSLois Curfman McInnes int MatSetUnfactored_MPIAIJ(Mat A) 1305bb5a7306SBarry Smith { 1306bb5a7306SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 1307bb5a7306SBarry Smith int ierr; 13083a40ed3dSBarry Smith 13093a40ed3dSBarry Smith PetscFunctionBegin; 1310bb5a7306SBarry Smith ierr = MatSetUnfactored(a->A);CHKERRQ(ierr); 13113a40ed3dSBarry Smith PetscFunctionReturn(0); 1312bb5a7306SBarry Smith } 1313bb5a7306SBarry Smith 13144a2ae208SSatish Balay #undef __FUNCT__ 13154a2ae208SSatish Balay #define __FUNCT__ "MatEqual_MPIAIJ" 1316d4bb536fSBarry Smith int MatEqual_MPIAIJ(Mat A,Mat B,PetscTruth *flag) 1317d4bb536fSBarry Smith { 1318d4bb536fSBarry Smith Mat_MPIAIJ *matB = (Mat_MPIAIJ*)B->data,*matA = (Mat_MPIAIJ*)A->data; 1319d4bb536fSBarry Smith Mat a,b,c,d; 1320d4bb536fSBarry Smith PetscTruth flg; 1321d4bb536fSBarry Smith int ierr; 1322d4bb536fSBarry Smith 13233a40ed3dSBarry Smith PetscFunctionBegin; 1324273d9f13SBarry Smith ierr = PetscTypeCompare((PetscObject)B,MATMPIAIJ,&flg);CHKERRQ(ierr); 1325273d9f13SBarry Smith if (!flg) SETERRQ(PETSC_ERR_ARG_INCOMP,"Matrices must be same type"); 1326d4bb536fSBarry Smith a = matA->A; b = matA->B; 1327d4bb536fSBarry Smith c = matB->A; d = matB->B; 1328d4bb536fSBarry Smith 1329d4bb536fSBarry Smith ierr = MatEqual(a,c,&flg);CHKERRQ(ierr); 1330d4bb536fSBarry Smith if (flg == PETSC_TRUE) { 1331d4bb536fSBarry Smith ierr = MatEqual(b,d,&flg);CHKERRQ(ierr); 1332d4bb536fSBarry Smith } 1333ca161407SBarry Smith ierr = MPI_Allreduce(&flg,flag,1,MPI_INT,MPI_LAND,A->comm);CHKERRQ(ierr); 13343a40ed3dSBarry Smith PetscFunctionReturn(0); 1335d4bb536fSBarry Smith } 1336d4bb536fSBarry Smith 13374a2ae208SSatish Balay #undef __FUNCT__ 13384a2ae208SSatish Balay #define __FUNCT__ "MatCopy_MPIAIJ" 1339cb5b572fSBarry Smith int MatCopy_MPIAIJ(Mat A,Mat B,MatStructure str) 1340cb5b572fSBarry Smith { 1341cb5b572fSBarry Smith int ierr; 1342cb5b572fSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 1343cb5b572fSBarry Smith Mat_MPIAIJ *b = (Mat_MPIAIJ *)B->data; 1344273d9f13SBarry Smith PetscTruth flg; 1345cb5b572fSBarry Smith 1346cb5b572fSBarry Smith PetscFunctionBegin; 1347273d9f13SBarry Smith ierr = PetscTypeCompare((PetscObject)B,MATMPIAIJ,&flg);CHKERRQ(ierr); 1348273d9f13SBarry Smith if (str != SAME_NONZERO_PATTERN || !flg) { 1349cb5b572fSBarry Smith /* because of the column compression in the off-processor part of the matrix a->B, 1350cb5b572fSBarry Smith the number of columns in a->B and b->B may be different, hence we cannot call 1351cb5b572fSBarry Smith the MatCopy() directly on the two parts. If need be, we can provide a more 1352cb5b572fSBarry Smith efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices 1353cb5b572fSBarry Smith then copying the submatrices */ 1354cb5b572fSBarry Smith ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr); 1355cb5b572fSBarry Smith } else { 1356cb5b572fSBarry Smith ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr); 1357cb5b572fSBarry Smith ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr); 1358cb5b572fSBarry Smith } 1359cb5b572fSBarry Smith PetscFunctionReturn(0); 1360cb5b572fSBarry Smith } 1361cb5b572fSBarry Smith 13624a2ae208SSatish Balay #undef __FUNCT__ 13634a2ae208SSatish Balay #define __FUNCT__ "MatSetUpPreallocation_MPIAIJ" 1364273d9f13SBarry Smith int MatSetUpPreallocation_MPIAIJ(Mat A) 1365273d9f13SBarry Smith { 1366273d9f13SBarry Smith int ierr; 1367273d9f13SBarry Smith 1368273d9f13SBarry Smith PetscFunctionBegin; 1369273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(A,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr); 1370273d9f13SBarry Smith PetscFunctionReturn(0); 1371273d9f13SBarry Smith } 1372273d9f13SBarry Smith 1373ca44d042SBarry Smith EXTERN int MatDuplicate_MPIAIJ(Mat,MatDuplicateOption,Mat *); 1374ca44d042SBarry Smith EXTERN int MatIncreaseOverlap_MPIAIJ(Mat,int,IS *,int); 1375ca44d042SBarry Smith EXTERN int MatFDColoringCreate_MPIAIJ(Mat,ISColoring,MatFDColoring); 1376ca44d042SBarry Smith EXTERN int MatGetSubMatrices_MPIAIJ (Mat,int,IS *,IS *,MatReuse,Mat **); 1377ca44d042SBarry Smith EXTERN int MatGetSubMatrix_MPIAIJ (Mat,IS,IS,int,MatReuse,Mat *); 137887828ca2SBarry Smith #if !defined(PETSC_USE_COMPLEX) && !defined(PETSC_USE_SINGLE) 1379b9617806SBarry Smith EXTERN int MatLUFactorSymbolic_MPIAIJ_TFS(Mat,IS,IS,MatLUInfo*,Mat*); 1380b9617806SBarry Smith #endif 138100e6dbe6SBarry Smith 1382ac90fabeSBarry Smith #include "petscblaslapack.h" 1383ac90fabeSBarry Smith 1384ac90fabeSBarry Smith #undef __FUNCT__ 1385ac90fabeSBarry Smith #define __FUNCT__ "MatAXPY_MPIAIJ" 1386ac90fabeSBarry Smith int MatAXPY_MPIAIJ(PetscScalar *a,Mat X,Mat Y,MatStructure str) 1387ac90fabeSBarry Smith { 1388ac90fabeSBarry Smith int ierr,one; 1389ac90fabeSBarry Smith Mat_MPIAIJ *xx = (Mat_MPIAIJ *)X->data,*yy = (Mat_MPIAIJ *)Y->data; 1390ac90fabeSBarry Smith Mat_SeqAIJ *x,*y; 1391ac90fabeSBarry Smith 1392ac90fabeSBarry Smith PetscFunctionBegin; 1393ac90fabeSBarry Smith if (str == SAME_NONZERO_PATTERN) { 1394ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->A->data; 1395ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->A->data; 1396ac90fabeSBarry Smith BLaxpy_(&x->nz,a,x->a,&one,y->a,&one); 1397ac90fabeSBarry Smith x = (Mat_SeqAIJ *)xx->B->data; 1398ac90fabeSBarry Smith y = (Mat_SeqAIJ *)yy->B->data; 1399ac90fabeSBarry Smith BLaxpy_(&x->nz,a,x->a,&one,y->a,&one); 1400ac90fabeSBarry Smith } else { 1401ac90fabeSBarry Smith ierr = MatAXPY_Basic(a,X,Y,str);CHKERRQ(ierr); 1402ac90fabeSBarry Smith } 1403ac90fabeSBarry Smith PetscFunctionReturn(0); 1404ac90fabeSBarry Smith } 1405ac90fabeSBarry Smith 14068a729477SBarry Smith /* -------------------------------------------------------------------*/ 1407cda55fadSBarry Smith static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ, 1408cda55fadSBarry Smith MatGetRow_MPIAIJ, 1409cda55fadSBarry Smith MatRestoreRow_MPIAIJ, 1410cda55fadSBarry Smith MatMult_MPIAIJ, 1411cda55fadSBarry Smith MatMultAdd_MPIAIJ, 14127c922b88SBarry Smith MatMultTranspose_MPIAIJ, 14137c922b88SBarry Smith MatMultTransposeAdd_MPIAIJ, 1414cda55fadSBarry Smith 0, 1415cda55fadSBarry Smith 0, 1416cda55fadSBarry Smith 0, 1417cda55fadSBarry Smith 0, 1418cda55fadSBarry Smith 0, 1419cda55fadSBarry Smith 0, 142044a69424SLois Curfman McInnes MatRelax_MPIAIJ, 1421b7c46309SBarry Smith MatTranspose_MPIAIJ, 1422cda55fadSBarry Smith MatGetInfo_MPIAIJ, 1423cda55fadSBarry Smith MatEqual_MPIAIJ, 1424cda55fadSBarry Smith MatGetDiagonal_MPIAIJ, 1425cda55fadSBarry Smith MatDiagonalScale_MPIAIJ, 1426cda55fadSBarry Smith MatNorm_MPIAIJ, 1427cda55fadSBarry Smith MatAssemblyBegin_MPIAIJ, 1428cda55fadSBarry Smith MatAssemblyEnd_MPIAIJ, 14291eb62cbbSBarry Smith 0, 1430cda55fadSBarry Smith MatSetOption_MPIAIJ, 1431cda55fadSBarry Smith MatZeroEntries_MPIAIJ, 1432cda55fadSBarry Smith MatZeroRows_MPIAIJ, 143387828ca2SBarry Smith #if !defined(PETSC_USE_COMPLEX) && !defined(PETSC_USE_SINGLE) 1434b9617806SBarry Smith MatLUFactorSymbolic_MPIAIJ_TFS, 1435b9617806SBarry Smith #else 1436cda55fadSBarry Smith 0, 1437b9617806SBarry Smith #endif 1438cda55fadSBarry Smith 0, 1439cda55fadSBarry Smith 0, 1440cda55fadSBarry Smith 0, 1441273d9f13SBarry Smith MatSetUpPreallocation_MPIAIJ, 1442cda55fadSBarry Smith 0, 1443cda55fadSBarry Smith 0, 1444cda55fadSBarry Smith 0, 1445cda55fadSBarry Smith 0, 14462e8a6d31SBarry Smith MatDuplicate_MPIAIJ, 1447cda55fadSBarry Smith 0, 1448cda55fadSBarry Smith 0, 1449cda55fadSBarry Smith 0, 1450cda55fadSBarry Smith 0, 1451ac90fabeSBarry Smith MatAXPY_MPIAIJ, 1452cda55fadSBarry Smith MatGetSubMatrices_MPIAIJ, 1453cda55fadSBarry Smith MatIncreaseOverlap_MPIAIJ, 1454cda55fadSBarry Smith MatGetValues_MPIAIJ, 1455cb5b572fSBarry Smith MatCopy_MPIAIJ, 1456052efed2SBarry Smith MatPrintHelp_MPIAIJ, 1457cda55fadSBarry Smith MatScale_MPIAIJ, 1458cda55fadSBarry Smith 0, 1459cda55fadSBarry Smith 0, 1460cda55fadSBarry Smith 0, 1461cda55fadSBarry Smith MatGetBlockSize_MPIAIJ, 1462cda55fadSBarry Smith 0, 1463cda55fadSBarry Smith 0, 1464cda55fadSBarry Smith 0, 1465cda55fadSBarry Smith 0, 1466cda55fadSBarry Smith MatFDColoringCreate_MPIAIJ, 1467cda55fadSBarry Smith 0, 1468cda55fadSBarry Smith MatSetUnfactored_MPIAIJ, 1469cda55fadSBarry Smith 0, 1470cda55fadSBarry Smith 0, 1471cda55fadSBarry Smith MatGetSubMatrix_MPIAIJ, 1472e03a110bSBarry Smith MatDestroy_MPIAIJ, 1473e03a110bSBarry Smith MatView_MPIAIJ, 14748a124369SBarry Smith MatGetPetscMaps_Petsc, 1475a2243be0SBarry Smith 0, 1476a2243be0SBarry Smith 0, 1477a2243be0SBarry Smith 0, 1478a2243be0SBarry Smith 0, 1479a2243be0SBarry Smith 0, 1480a2243be0SBarry Smith 0, 1481a2243be0SBarry Smith 0, 1482a2243be0SBarry Smith 0, 1483a2243be0SBarry Smith MatSetColoring_MPIAIJ, 1484779c1a83SBarry Smith MatSetValuesAdic_MPIAIJ, 1485779c1a83SBarry Smith MatSetValuesAdifor_MPIAIJ 1486a2243be0SBarry Smith }; 148736ce4990SBarry Smith 14882e8a6d31SBarry Smith /* ----------------------------------------------------------------------------------------*/ 14892e8a6d31SBarry Smith 1490fb2e594dSBarry Smith EXTERN_C_BEGIN 14914a2ae208SSatish Balay #undef __FUNCT__ 14924a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_MPIAIJ" 14932e8a6d31SBarry Smith int MatStoreValues_MPIAIJ(Mat mat) 14942e8a6d31SBarry Smith { 14952e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 14962e8a6d31SBarry Smith int ierr; 14972e8a6d31SBarry Smith 14982e8a6d31SBarry Smith PetscFunctionBegin; 14992e8a6d31SBarry Smith ierr = MatStoreValues(aij->A);CHKERRQ(ierr); 15002e8a6d31SBarry Smith ierr = MatStoreValues(aij->B);CHKERRQ(ierr); 15012e8a6d31SBarry Smith PetscFunctionReturn(0); 15022e8a6d31SBarry Smith } 1503fb2e594dSBarry Smith EXTERN_C_END 15042e8a6d31SBarry Smith 1505fb2e594dSBarry Smith EXTERN_C_BEGIN 15064a2ae208SSatish Balay #undef __FUNCT__ 15074a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_MPIAIJ" 15082e8a6d31SBarry Smith int MatRetrieveValues_MPIAIJ(Mat mat) 15092e8a6d31SBarry Smith { 15102e8a6d31SBarry Smith Mat_MPIAIJ *aij = (Mat_MPIAIJ *)mat->data; 15112e8a6d31SBarry Smith int ierr; 15122e8a6d31SBarry Smith 15132e8a6d31SBarry Smith PetscFunctionBegin; 15142e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr); 15152e8a6d31SBarry Smith ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr); 15162e8a6d31SBarry Smith PetscFunctionReturn(0); 15172e8a6d31SBarry Smith } 1518fb2e594dSBarry Smith EXTERN_C_END 15198a729477SBarry Smith 1520e090d566SSatish Balay #include "petscpc.h" 152127508adbSBarry Smith EXTERN_C_BEGIN 1522ca44d042SBarry Smith EXTERN int MatGetDiagonalBlock_MPIAIJ(Mat,PetscTruth *,MatReuse,Mat *); 152327508adbSBarry Smith EXTERN_C_END 152427508adbSBarry Smith 1525273d9f13SBarry Smith EXTERN_C_BEGIN 15264a2ae208SSatish Balay #undef __FUNCT__ 15274a2ae208SSatish Balay #define __FUNCT__ "MatCreate_MPIAIJ" 1528273d9f13SBarry Smith int MatCreate_MPIAIJ(Mat B) 15298a729477SBarry Smith { 153044cd7ae7SLois Curfman McInnes Mat_MPIAIJ *b; 1531f1af5d2fSBarry Smith int ierr,i,size; 1532416022c9SBarry Smith 15333a40ed3dSBarry Smith PetscFunctionBegin; 1534273d9f13SBarry Smith ierr = MPI_Comm_size(B->comm,&size);CHKERRQ(ierr); 15351d55c564SBarry Smith 1536b0a32e0cSBarry Smith ierr = PetscNew(Mat_MPIAIJ,&b);CHKERRQ(ierr); 1537b0a32e0cSBarry Smith B->data = (void*)b; 1538549d3d68SSatish Balay ierr = PetscMemzero(b,sizeof(Mat_MPIAIJ));CHKERRQ(ierr); 1539549d3d68SSatish Balay ierr = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 154044cd7ae7SLois Curfman McInnes B->factor = 0; 154144cd7ae7SLois Curfman McInnes B->assembled = PETSC_FALSE; 154290f02eecSBarry Smith B->mapping = 0; 1543d6dfbf8fSBarry Smith 154447794344SBarry Smith B->insertmode = NOT_SET_VALUES; 15459eb4d147SSatish Balay b->size = size; 1546273d9f13SBarry Smith ierr = MPI_Comm_rank(B->comm,&b->rank);CHKERRQ(ierr); 15471eb62cbbSBarry Smith 1548273d9f13SBarry Smith ierr = PetscSplitOwnership(B->comm,&B->m,&B->M);CHKERRQ(ierr); 1549273d9f13SBarry Smith ierr = PetscSplitOwnership(B->comm,&B->n,&B->N);CHKERRQ(ierr); 15501eb62cbbSBarry Smith 1551c7fcc2eaSBarry Smith /* the information in the maps duplicates the information computed below, eventually 1552c7fcc2eaSBarry Smith we should remove the duplicate information that is not contained in the maps */ 15538a124369SBarry Smith ierr = PetscMapCreateMPI(B->comm,B->m,B->M,&B->rmap);CHKERRQ(ierr); 15548a124369SBarry Smith ierr = PetscMapCreateMPI(B->comm,B->n,B->N,&B->cmap);CHKERRQ(ierr); 1555c7fcc2eaSBarry Smith 15561eb62cbbSBarry Smith /* build local table of row and column ownerships */ 1557b0a32e0cSBarry Smith ierr = PetscMalloc(2*(b->size+2)*sizeof(int),&b->rowners);CHKERRQ(ierr); 1558b0a32e0cSBarry Smith PetscLogObjectMemory(B,2*(b->size+2)*sizeof(int)+sizeof(struct _p_Mat)+sizeof(Mat_MPIAIJ)); 1559603f58a4SSatish Balay b->cowners = b->rowners + b->size + 2; 1560273d9f13SBarry Smith ierr = MPI_Allgather(&B->m,1,MPI_INT,b->rowners+1,1,MPI_INT,B->comm);CHKERRQ(ierr); 156144cd7ae7SLois Curfman McInnes b->rowners[0] = 0; 156244cd7ae7SLois Curfman McInnes for (i=2; i<=b->size; i++) { 156344cd7ae7SLois Curfman McInnes b->rowners[i] += b->rowners[i-1]; 15648a729477SBarry Smith } 156544cd7ae7SLois Curfman McInnes b->rstart = b->rowners[b->rank]; 156644cd7ae7SLois Curfman McInnes b->rend = b->rowners[b->rank+1]; 1567273d9f13SBarry Smith ierr = MPI_Allgather(&B->n,1,MPI_INT,b->cowners+1,1,MPI_INT,B->comm);CHKERRQ(ierr); 156844cd7ae7SLois Curfman McInnes b->cowners[0] = 0; 156944cd7ae7SLois Curfman McInnes for (i=2; i<=b->size; i++) { 157044cd7ae7SLois Curfman McInnes b->cowners[i] += b->cowners[i-1]; 15718a729477SBarry Smith } 157244cd7ae7SLois Curfman McInnes b->cstart = b->cowners[b->rank]; 157344cd7ae7SLois Curfman McInnes b->cend = b->cowners[b->rank+1]; 15748a729477SBarry Smith 15751eb62cbbSBarry Smith /* build cache for off array entries formed */ 15767e2c5f70SBarry Smith ierr = MatStashCreate_Private(B->comm,1,&B->stash);CHKERRQ(ierr); 15777c922b88SBarry Smith b->donotstash = PETSC_FALSE; 157844cd7ae7SLois Curfman McInnes b->colmap = 0; 157944cd7ae7SLois Curfman McInnes b->garray = 0; 15807c922b88SBarry Smith b->roworiented = PETSC_TRUE; 15818a729477SBarry Smith 15821eb62cbbSBarry Smith /* stuff used for matrix vector multiply */ 15837c922b88SBarry Smith b->lvec = PETSC_NULL; 15847c922b88SBarry Smith b->Mvctx = PETSC_NULL; 15858a729477SBarry Smith 15867a0afa10SBarry Smith /* stuff for MatGetRow() */ 158744cd7ae7SLois Curfman McInnes b->rowindices = 0; 158844cd7ae7SLois Curfman McInnes b->rowvalues = 0; 158944cd7ae7SLois Curfman McInnes b->getrowactive = PETSC_FALSE; 15901a8d6bc9SBarry Smith 1591f1af5d2fSBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatStoreValues_C", 15922e8a6d31SBarry Smith "MatStoreValues_MPIAIJ", 15930c97f09dSSatish Balay MatStoreValues_MPIAIJ);CHKERRQ(ierr); 1594f1af5d2fSBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatRetrieveValues_C", 15952e8a6d31SBarry Smith "MatRetrieveValues_MPIAIJ", 15960c97f09dSSatish Balay MatRetrieveValues_MPIAIJ);CHKERRQ(ierr); 1597f1af5d2fSBarry Smith ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatGetDiagonalBlock_C", 15985ef9f2a5SBarry Smith "MatGetDiagonalBlock_MPIAIJ", 15990c97f09dSSatish Balay MatGetDiagonalBlock_MPIAIJ);CHKERRQ(ierr); 16009b9367d5SHong Zhang 16013a40ed3dSBarry Smith PetscFunctionReturn(0); 1602d6dfbf8fSBarry Smith } 1603273d9f13SBarry Smith EXTERN_C_END 1604c74985f6SBarry Smith 16054a2ae208SSatish Balay #undef __FUNCT__ 16064a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_MPIAIJ" 16072e8a6d31SBarry Smith int MatDuplicate_MPIAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat) 1608d6dfbf8fSBarry Smith { 1609d6dfbf8fSBarry Smith Mat mat; 1610416022c9SBarry Smith Mat_MPIAIJ *a,*oldmat = (Mat_MPIAIJ*)matin->data; 161116d6aa21SSatish Balay int ierr; 1612d6dfbf8fSBarry Smith 16133a40ed3dSBarry Smith PetscFunctionBegin; 1614416022c9SBarry Smith *newmat = 0; 1615273d9f13SBarry Smith ierr = MatCreate(matin->comm,matin->m,matin->n,matin->M,matin->N,&mat);CHKERRQ(ierr); 1616273d9f13SBarry Smith ierr = MatSetType(mat,MATMPIAIJ);CHKERRQ(ierr); 1617273d9f13SBarry Smith a = (Mat_MPIAIJ*)mat->data; 1618549d3d68SSatish Balay ierr = PetscMemcpy(mat->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr); 1619d6dfbf8fSBarry Smith mat->factor = matin->factor; 1620c456f294SBarry Smith mat->assembled = PETSC_TRUE; 1621e7641de0SSatish Balay mat->insertmode = NOT_SET_VALUES; 1622273d9f13SBarry Smith mat->preallocated = PETSC_TRUE; 1623d6dfbf8fSBarry Smith 1624416022c9SBarry Smith a->rstart = oldmat->rstart; 1625416022c9SBarry Smith a->rend = oldmat->rend; 1626416022c9SBarry Smith a->cstart = oldmat->cstart; 1627416022c9SBarry Smith a->cend = oldmat->cend; 162817699dbbSLois Curfman McInnes a->size = oldmat->size; 162917699dbbSLois Curfman McInnes a->rank = oldmat->rank; 1630e7641de0SSatish Balay a->donotstash = oldmat->donotstash; 1631e7641de0SSatish Balay a->roworiented = oldmat->roworiented; 1632e7641de0SSatish Balay a->rowindices = 0; 1633bcd2baecSBarry Smith a->rowvalues = 0; 1634bcd2baecSBarry Smith a->getrowactive = PETSC_FALSE; 1635d6dfbf8fSBarry Smith 1636549d3d68SSatish Balay ierr = PetscMemcpy(a->rowners,oldmat->rowners,2*(a->size+2)*sizeof(int));CHKERRQ(ierr); 16378798bf22SSatish Balay ierr = MatStashCreate_Private(matin->comm,1,&mat->stash);CHKERRQ(ierr); 16382ee70a88SLois Curfman McInnes if (oldmat->colmap) { 1639aa482453SBarry Smith #if defined (PETSC_USE_CTABLE) 16400f5bd95cSBarry Smith ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr); 1641b1fc9764SSatish Balay #else 1642b0a32e0cSBarry Smith ierr = PetscMalloc((mat->N)*sizeof(int),&a->colmap);CHKERRQ(ierr); 1643b0a32e0cSBarry Smith PetscLogObjectMemory(mat,(mat->N)*sizeof(int)); 1644273d9f13SBarry Smith ierr = PetscMemcpy(a->colmap,oldmat->colmap,(mat->N)*sizeof(int));CHKERRQ(ierr); 1645b1fc9764SSatish Balay #endif 1646416022c9SBarry Smith } else a->colmap = 0; 16473f41c07dSBarry Smith if (oldmat->garray) { 164816d6aa21SSatish Balay int len; 1649273d9f13SBarry Smith len = oldmat->B->n; 1650b0a32e0cSBarry Smith ierr = PetscMalloc((len+1)*sizeof(int),&a->garray);CHKERRQ(ierr); 1651b0a32e0cSBarry Smith PetscLogObjectMemory(mat,len*sizeof(int)); 1652549d3d68SSatish Balay if (len) { ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(int));CHKERRQ(ierr); } 1653416022c9SBarry Smith } else a->garray = 0; 1654d6dfbf8fSBarry Smith 1655416022c9SBarry Smith ierr = VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr); 1656b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->lvec); 1657a56f8943SBarry Smith ierr = VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr); 1658b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->Mvctx); 16592e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr); 1660b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->A); 16612e8a6d31SBarry Smith ierr = MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr); 1662b0a32e0cSBarry Smith PetscLogObjectParent(mat,a->B); 1663b0a32e0cSBarry Smith ierr = PetscFListDuplicate(matin->qlist,&mat->qlist);CHKERRQ(ierr); 16648a729477SBarry Smith *newmat = mat; 16653a40ed3dSBarry Smith PetscFunctionReturn(0); 16668a729477SBarry Smith } 1667416022c9SBarry Smith 1668e090d566SSatish Balay #include "petscsys.h" 1669416022c9SBarry Smith 1670273d9f13SBarry Smith EXTERN_C_BEGIN 16714a2ae208SSatish Balay #undef __FUNCT__ 16724a2ae208SSatish Balay #define __FUNCT__ "MatLoad_MPIAIJ" 1673b0a32e0cSBarry Smith int MatLoad_MPIAIJ(PetscViewer viewer,MatType type,Mat *newmat) 1674416022c9SBarry Smith { 1675d65a2f8fSBarry Smith Mat A; 167687828ca2SBarry Smith PetscScalar *vals,*svals; 167719bcc07fSBarry Smith MPI_Comm comm = ((PetscObject)viewer)->comm; 1678416022c9SBarry Smith MPI_Status status; 16793a40ed3dSBarry Smith int i,nz,ierr,j,rstart,rend,fd; 168017699dbbSLois Curfman McInnes int header[4],rank,size,*rowlengths = 0,M,N,m,*rowners,maxnz,*cols; 1681d65a2f8fSBarry Smith int *ourlens,*sndcounts = 0,*procsnz = 0,*offlens,jj,*mycols,*smycols; 1682b362ba68SBarry Smith int tag = ((PetscObject)viewer)->tag,cend,cstart,n; 1683416022c9SBarry Smith 16843a40ed3dSBarry Smith PetscFunctionBegin; 16851dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 16861dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 168717699dbbSLois Curfman McInnes if (!rank) { 1688b0a32e0cSBarry Smith ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr); 16890752156aSBarry Smith ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr); 1690552e946dSBarry Smith if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object"); 1691d64ed03dSBarry Smith if (header[3] < 0) { 169229bbc08cSBarry Smith SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"Matrix in special format on disk, cannot load as MPIAIJ"); 1693d64ed03dSBarry Smith } 16946c5fab8fSBarry Smith } 16956c5fab8fSBarry Smith 1696ca161407SBarry Smith ierr = MPI_Bcast(header+1,3,MPI_INT,0,comm);CHKERRQ(ierr); 1697416022c9SBarry Smith M = header[1]; N = header[2]; 1698416022c9SBarry Smith /* determine ownership of all rows */ 169917699dbbSLois Curfman McInnes m = M/size + ((M % size) > rank); 1700b0a32e0cSBarry Smith ierr = PetscMalloc((size+2)*sizeof(int),&rowners);CHKERRQ(ierr); 1701ca161407SBarry Smith ierr = MPI_Allgather(&m,1,MPI_INT,rowners+1,1,MPI_INT,comm);CHKERRQ(ierr); 1702416022c9SBarry Smith rowners[0] = 0; 170317699dbbSLois Curfman McInnes for (i=2; i<=size; i++) { 1704416022c9SBarry Smith rowners[i] += rowners[i-1]; 1705416022c9SBarry Smith } 170617699dbbSLois Curfman McInnes rstart = rowners[rank]; 170717699dbbSLois Curfman McInnes rend = rowners[rank+1]; 1708416022c9SBarry Smith 1709416022c9SBarry Smith /* distribute row lengths to all processors */ 1710b0a32e0cSBarry Smith ierr = PetscMalloc(2*(rend-rstart+1)*sizeof(int),&ourlens);CHKERRQ(ierr); 1711416022c9SBarry Smith offlens = ourlens + (rend-rstart); 171217699dbbSLois Curfman McInnes if (!rank) { 1713b0a32e0cSBarry Smith ierr = PetscMalloc(M*sizeof(int),&rowlengths);CHKERRQ(ierr); 17140752156aSBarry Smith ierr = PetscBinaryRead(fd,rowlengths,M,PETSC_INT);CHKERRQ(ierr); 1715b0a32e0cSBarry Smith ierr = PetscMalloc(size*sizeof(int),&sndcounts);CHKERRQ(ierr); 171617699dbbSLois Curfman McInnes for (i=0; i<size; i++) sndcounts[i] = rowners[i+1] - rowners[i]; 1717ca161407SBarry Smith ierr = MPI_Scatterv(rowlengths,sndcounts,rowners,MPI_INT,ourlens,rend-rstart,MPI_INT,0,comm);CHKERRQ(ierr); 1718606d414cSSatish Balay ierr = PetscFree(sndcounts);CHKERRQ(ierr); 17193a40ed3dSBarry Smith } else { 1720ca161407SBarry Smith ierr = MPI_Scatterv(0,0,0,MPI_INT,ourlens,rend-rstart,MPI_INT,0,comm);CHKERRQ(ierr); 1721416022c9SBarry Smith } 1722416022c9SBarry Smith 172317699dbbSLois Curfman McInnes if (!rank) { 1724416022c9SBarry Smith /* calculate the number of nonzeros on each processor */ 1725b0a32e0cSBarry Smith ierr = PetscMalloc(size*sizeof(int),&procsnz);CHKERRQ(ierr); 1726549d3d68SSatish Balay ierr = PetscMemzero(procsnz,size*sizeof(int));CHKERRQ(ierr); 172717699dbbSLois Curfman McInnes for (i=0; i<size; i++) { 1728416022c9SBarry Smith for (j=rowners[i]; j< rowners[i+1]; j++) { 1729416022c9SBarry Smith procsnz[i] += rowlengths[j]; 1730416022c9SBarry Smith } 1731416022c9SBarry Smith } 1732606d414cSSatish Balay ierr = PetscFree(rowlengths);CHKERRQ(ierr); 1733416022c9SBarry Smith 1734416022c9SBarry Smith /* determine max buffer needed and allocate it */ 1735416022c9SBarry Smith maxnz = 0; 173617699dbbSLois Curfman McInnes for (i=0; i<size; i++) { 17370452661fSBarry Smith maxnz = PetscMax(maxnz,procsnz[i]); 1738416022c9SBarry Smith } 1739b0a32e0cSBarry Smith ierr = PetscMalloc(maxnz*sizeof(int),&cols);CHKERRQ(ierr); 1740416022c9SBarry Smith 1741416022c9SBarry Smith /* read in my part of the matrix column indices */ 1742416022c9SBarry Smith nz = procsnz[0]; 1743b0a32e0cSBarry Smith ierr = PetscMalloc(nz*sizeof(int),&mycols);CHKERRQ(ierr); 17440752156aSBarry Smith ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr); 1745d65a2f8fSBarry Smith 1746d65a2f8fSBarry Smith /* read in every one elses and ship off */ 174717699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 1748d65a2f8fSBarry Smith nz = procsnz[i]; 17490752156aSBarry Smith ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr); 1750ca161407SBarry Smith ierr = MPI_Send(cols,nz,MPI_INT,i,tag,comm);CHKERRQ(ierr); 1751d65a2f8fSBarry Smith } 1752606d414cSSatish Balay ierr = PetscFree(cols);CHKERRQ(ierr); 17533a40ed3dSBarry Smith } else { 1754416022c9SBarry Smith /* determine buffer space needed for message */ 1755416022c9SBarry Smith nz = 0; 1756416022c9SBarry Smith for (i=0; i<m; i++) { 1757416022c9SBarry Smith nz += ourlens[i]; 1758416022c9SBarry Smith } 1759b0a32e0cSBarry Smith ierr = PetscMalloc((nz+1)*sizeof(int),&mycols);CHKERRQ(ierr); 1760416022c9SBarry Smith 1761416022c9SBarry Smith /* receive message of column indices*/ 1762ca161407SBarry Smith ierr = MPI_Recv(mycols,nz,MPI_INT,0,tag,comm,&status);CHKERRQ(ierr); 1763ca161407SBarry Smith ierr = MPI_Get_count(&status,MPI_INT,&maxnz);CHKERRQ(ierr); 176429bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 1765416022c9SBarry Smith } 1766416022c9SBarry Smith 1767b362ba68SBarry Smith /* determine column ownership if matrix is not square */ 1768b362ba68SBarry Smith if (N != M) { 1769b362ba68SBarry Smith n = N/size + ((N % size) > rank); 1770b362ba68SBarry Smith ierr = MPI_Scan(&n,&cend,1,MPI_INT,MPI_SUM,comm);CHKERRQ(ierr); 1771b362ba68SBarry Smith cstart = cend - n; 1772b362ba68SBarry Smith } else { 1773b362ba68SBarry Smith cstart = rstart; 1774b362ba68SBarry Smith cend = rend; 1775fb2e594dSBarry Smith n = cend - cstart; 1776b362ba68SBarry Smith } 1777b362ba68SBarry Smith 1778416022c9SBarry Smith /* loop over local rows, determining number of off diagonal entries */ 1779549d3d68SSatish Balay ierr = PetscMemzero(offlens,m*sizeof(int));CHKERRQ(ierr); 1780416022c9SBarry Smith jj = 0; 1781416022c9SBarry Smith for (i=0; i<m; i++) { 1782416022c9SBarry Smith for (j=0; j<ourlens[i]; j++) { 1783b362ba68SBarry Smith if (mycols[jj] < cstart || mycols[jj] >= cend) offlens[i]++; 1784416022c9SBarry Smith jj++; 1785416022c9SBarry Smith } 1786416022c9SBarry Smith } 1787d65a2f8fSBarry Smith 1788d65a2f8fSBarry Smith /* create our matrix */ 1789416022c9SBarry Smith for (i=0; i<m; i++) { 1790416022c9SBarry Smith ourlens[i] -= offlens[i]; 1791416022c9SBarry Smith } 1792b362ba68SBarry Smith ierr = MatCreateMPIAIJ(comm,m,n,M,N,0,ourlens,0,offlens,newmat);CHKERRQ(ierr); 1793d65a2f8fSBarry Smith A = *newmat; 1794fb2e594dSBarry Smith ierr = MatSetOption(A,MAT_COLUMNS_SORTED);CHKERRQ(ierr); 1795d65a2f8fSBarry Smith for (i=0; i<m; i++) { 1796d65a2f8fSBarry Smith ourlens[i] += offlens[i]; 1797d65a2f8fSBarry Smith } 1798416022c9SBarry Smith 179917699dbbSLois Curfman McInnes if (!rank) { 180087828ca2SBarry Smith ierr = PetscMalloc(maxnz*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 1801416022c9SBarry Smith 1802416022c9SBarry Smith /* read in my part of the matrix numerical values */ 1803416022c9SBarry Smith nz = procsnz[0]; 18040752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 1805d65a2f8fSBarry Smith 1806d65a2f8fSBarry Smith /* insert into matrix */ 1807d65a2f8fSBarry Smith jj = rstart; 1808d65a2f8fSBarry Smith smycols = mycols; 1809d65a2f8fSBarry Smith svals = vals; 1810d65a2f8fSBarry Smith for (i=0; i<m; i++) { 1811d65a2f8fSBarry Smith ierr = MatSetValues(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 1812d65a2f8fSBarry Smith smycols += ourlens[i]; 1813d65a2f8fSBarry Smith svals += ourlens[i]; 1814d65a2f8fSBarry Smith jj++; 1815416022c9SBarry Smith } 1816416022c9SBarry Smith 1817d65a2f8fSBarry Smith /* read in other processors and ship out */ 181817699dbbSLois Curfman McInnes for (i=1; i<size; i++) { 1819416022c9SBarry Smith nz = procsnz[i]; 18200752156aSBarry Smith ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr); 1821ca161407SBarry Smith ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,A->tag,comm);CHKERRQ(ierr); 1822416022c9SBarry Smith } 1823606d414cSSatish Balay ierr = PetscFree(procsnz);CHKERRQ(ierr); 18243a40ed3dSBarry Smith } else { 1825d65a2f8fSBarry Smith /* receive numeric values */ 182687828ca2SBarry Smith ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr); 1827416022c9SBarry Smith 1828d65a2f8fSBarry Smith /* receive message of values*/ 1829ca161407SBarry Smith ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,A->tag,comm,&status);CHKERRQ(ierr); 1830ca161407SBarry Smith ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr); 183129bbc08cSBarry Smith if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file"); 1832d65a2f8fSBarry Smith 1833d65a2f8fSBarry Smith /* insert into matrix */ 1834d65a2f8fSBarry Smith jj = rstart; 1835d65a2f8fSBarry Smith smycols = mycols; 1836d65a2f8fSBarry Smith svals = vals; 1837d65a2f8fSBarry Smith for (i=0; i<m; i++) { 1838d65a2f8fSBarry Smith ierr = MatSetValues(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr); 1839d65a2f8fSBarry Smith smycols += ourlens[i]; 1840d65a2f8fSBarry Smith svals += ourlens[i]; 1841d65a2f8fSBarry Smith jj++; 1842d65a2f8fSBarry Smith } 1843d65a2f8fSBarry Smith } 1844606d414cSSatish Balay ierr = PetscFree(ourlens);CHKERRQ(ierr); 1845606d414cSSatish Balay ierr = PetscFree(vals);CHKERRQ(ierr); 1846606d414cSSatish Balay ierr = PetscFree(mycols);CHKERRQ(ierr); 1847606d414cSSatish Balay ierr = PetscFree(rowners);CHKERRQ(ierr); 1848d65a2f8fSBarry Smith 18496d4a8577SBarry Smith ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 18506d4a8577SBarry Smith ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 18513a40ed3dSBarry Smith PetscFunctionReturn(0); 1852416022c9SBarry Smith } 1853273d9f13SBarry Smith EXTERN_C_END 1854a0ff6018SBarry Smith 18554a2ae208SSatish Balay #undef __FUNCT__ 18564a2ae208SSatish Balay #define __FUNCT__ "MatGetSubMatrix_MPIAIJ" 1857a0ff6018SBarry Smith /* 185829da9460SBarry Smith Not great since it makes two copies of the submatrix, first an SeqAIJ 185929da9460SBarry Smith in local and then by concatenating the local matrices the end result. 186029da9460SBarry Smith Writing it directly would be much like MatGetSubMatrices_MPIAIJ() 1861a0ff6018SBarry Smith */ 18627b2a1423SBarry Smith int MatGetSubMatrix_MPIAIJ(Mat mat,IS isrow,IS iscol,int csize,MatReuse call,Mat *newmat) 1863a0ff6018SBarry Smith { 186400e6dbe6SBarry Smith int ierr,i,m,n,rstart,row,rend,nz,*cwork,size,rank,j; 1865ab50ec6bSBarry Smith int *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal; 1866fee21e36SBarry Smith Mat *local,M,Mreuse; 186787828ca2SBarry Smith PetscScalar *vwork,*aa; 186800e6dbe6SBarry Smith MPI_Comm comm = mat->comm; 186900e6dbe6SBarry Smith Mat_SeqAIJ *aij; 18707e2c5f70SBarry Smith 1871a0ff6018SBarry Smith 1872a0ff6018SBarry Smith PetscFunctionBegin; 18731dab6e02SBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 18741dab6e02SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 187500e6dbe6SBarry Smith 1876fee21e36SBarry Smith if (call == MAT_REUSE_MATRIX) { 1877fee21e36SBarry Smith ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject *)&Mreuse);CHKERRQ(ierr); 187829bbc08cSBarry Smith if (!Mreuse) SETERRQ(1,"Submatrix passed in was not used before, cannot reuse"); 1879fee21e36SBarry Smith local = &Mreuse; 1880fee21e36SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_REUSE_MATRIX,&local);CHKERRQ(ierr); 1881fee21e36SBarry Smith } else { 1882a0ff6018SBarry Smith ierr = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&local);CHKERRQ(ierr); 1883fee21e36SBarry Smith Mreuse = *local; 1884606d414cSSatish Balay ierr = PetscFree(local);CHKERRQ(ierr); 1885fee21e36SBarry Smith } 1886a0ff6018SBarry Smith 1887a0ff6018SBarry Smith /* 1888a0ff6018SBarry Smith m - number of local rows 1889a0ff6018SBarry Smith n - number of columns (same on all processors) 1890a0ff6018SBarry Smith rstart - first row in new global matrix generated 1891a0ff6018SBarry Smith */ 1892fee21e36SBarry Smith ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr); 1893a0ff6018SBarry Smith if (call == MAT_INITIAL_MATRIX) { 1894fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 189529bbc08cSBarry Smith if (aij->indexshift) SETERRQ(PETSC_ERR_SUP,"No support for index shifted matrix"); 189600e6dbe6SBarry Smith ii = aij->i; 189700e6dbe6SBarry Smith jj = aij->j; 189800e6dbe6SBarry Smith 1899a0ff6018SBarry Smith /* 190000e6dbe6SBarry Smith Determine the number of non-zeros in the diagonal and off-diagonal 190100e6dbe6SBarry Smith portions of the matrix in order to do correct preallocation 1902a0ff6018SBarry Smith */ 190300e6dbe6SBarry Smith 190400e6dbe6SBarry Smith /* first get start and end of "diagonal" columns */ 19056a6a5d1dSBarry Smith if (csize == PETSC_DECIDE) { 1906ab50ec6bSBarry Smith ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr); 1907ab50ec6bSBarry Smith if (mglobal == n) { /* square matrix */ 1908e2c4fddaSBarry Smith nlocal = m; 19096a6a5d1dSBarry Smith } else { 1910ab50ec6bSBarry Smith nlocal = n/size + ((n % size) > rank); 1911ab50ec6bSBarry Smith } 1912ab50ec6bSBarry Smith } else { 19136a6a5d1dSBarry Smith nlocal = csize; 19146a6a5d1dSBarry Smith } 1915ca161407SBarry Smith ierr = MPI_Scan(&nlocal,&rend,1,MPI_INT,MPI_SUM,comm);CHKERRQ(ierr); 191600e6dbe6SBarry Smith rstart = rend - nlocal; 19176a6a5d1dSBarry Smith if (rank == size - 1 && rend != n) { 191829bbc08cSBarry Smith SETERRQ(1,"Local column sizes do not add up to total number of columns"); 19196a6a5d1dSBarry Smith } 192000e6dbe6SBarry Smith 192100e6dbe6SBarry Smith /* next, compute all the lengths */ 1922b0a32e0cSBarry Smith ierr = PetscMalloc((2*m+1)*sizeof(int),&dlens);CHKERRQ(ierr); 192300e6dbe6SBarry Smith olens = dlens + m; 192400e6dbe6SBarry Smith for (i=0; i<m; i++) { 192500e6dbe6SBarry Smith jend = ii[i+1] - ii[i]; 192600e6dbe6SBarry Smith olen = 0; 192700e6dbe6SBarry Smith dlen = 0; 192800e6dbe6SBarry Smith for (j=0; j<jend; j++) { 192900e6dbe6SBarry Smith if (*jj < rstart || *jj >= rend) olen++; 193000e6dbe6SBarry Smith else dlen++; 193100e6dbe6SBarry Smith jj++; 193200e6dbe6SBarry Smith } 193300e6dbe6SBarry Smith olens[i] = olen; 193400e6dbe6SBarry Smith dlens[i] = dlen; 193500e6dbe6SBarry Smith } 19362d207970SBarry Smith ierr = MatCreateMPIAIJ(comm,m,nlocal,PETSC_DECIDE,n,0,dlens,0,olens,&M);CHKERRQ(ierr); 1937606d414cSSatish Balay ierr = PetscFree(dlens);CHKERRQ(ierr); 1938a0ff6018SBarry Smith } else { 1939a0ff6018SBarry Smith int ml,nl; 1940a0ff6018SBarry Smith 1941a0ff6018SBarry Smith M = *newmat; 1942a0ff6018SBarry Smith ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr); 194329bbc08cSBarry Smith if (ml != m) SETERRQ(PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request"); 1944a0ff6018SBarry Smith ierr = MatZeroEntries(M);CHKERRQ(ierr); 1945c48de900SBarry Smith /* 1946c48de900SBarry Smith The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly, 1947c48de900SBarry Smith rather than the slower MatSetValues(). 1948c48de900SBarry Smith */ 1949c48de900SBarry Smith M->was_assembled = PETSC_TRUE; 1950c48de900SBarry Smith M->assembled = PETSC_FALSE; 1951a0ff6018SBarry Smith } 1952a0ff6018SBarry Smith ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr); 1953fee21e36SBarry Smith aij = (Mat_SeqAIJ*)(Mreuse)->data; 195429bbc08cSBarry Smith if (aij->indexshift) SETERRQ(PETSC_ERR_SUP,"No support for index shifted matrix"); 195500e6dbe6SBarry Smith ii = aij->i; 195600e6dbe6SBarry Smith jj = aij->j; 195700e6dbe6SBarry Smith aa = aij->a; 1958a0ff6018SBarry Smith for (i=0; i<m; i++) { 1959a0ff6018SBarry Smith row = rstart + i; 196000e6dbe6SBarry Smith nz = ii[i+1] - ii[i]; 196100e6dbe6SBarry Smith cwork = jj; jj += nz; 196200e6dbe6SBarry Smith vwork = aa; aa += nz; 19638c638d02SBarry Smith ierr = MatSetValues_MPIAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr); 1964a0ff6018SBarry Smith } 1965a0ff6018SBarry Smith 1966a0ff6018SBarry Smith ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1967a0ff6018SBarry Smith ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 1968a0ff6018SBarry Smith *newmat = M; 1969fee21e36SBarry Smith 1970fee21e36SBarry Smith /* save submatrix used in processor for next request */ 1971fee21e36SBarry Smith if (call == MAT_INITIAL_MATRIX) { 1972fee21e36SBarry Smith ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr); 1973fee21e36SBarry Smith ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr); 1974fee21e36SBarry Smith } 1975fee21e36SBarry Smith 1976a0ff6018SBarry Smith PetscFunctionReturn(0); 1977a0ff6018SBarry Smith } 1978273d9f13SBarry Smith 19794a2ae208SSatish Balay #undef __FUNCT__ 19804a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJSetPreallocation" 1981273d9f13SBarry Smith /*@C 1982273d9f13SBarry Smith MatMPIAIJSetPreallocation - Creates a sparse parallel matrix in AIJ format 1983273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 1984273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 1985273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 1986273d9f13SBarry Smith performance can be increased by more than a factor of 50. 1987273d9f13SBarry Smith 1988273d9f13SBarry Smith Collective on MPI_Comm 1989273d9f13SBarry Smith 1990273d9f13SBarry Smith Input Parameters: 1991273d9f13SBarry Smith + A - the matrix 1992273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 1993273d9f13SBarry Smith (same value is used for all local rows) 1994273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 1995273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 1996273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 1997273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 1998273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 1999273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2000273d9f13SBarry Smith submatrix (same value is used for all local rows). 2001273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2002273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2003273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2004273d9f13SBarry Smith structure. The size of this array is equal to the number 2005273d9f13SBarry Smith of local rows, i.e 'm'. 2006273d9f13SBarry Smith 2007273d9f13SBarry Smith The AIJ format (also called the Yale sparse matrix format or 2008273d9f13SBarry Smith compressed row storage), is fully compatible with standard Fortran 77 2009273d9f13SBarry Smith storage. That is, the stored row and column indices can begin at 2010273d9f13SBarry Smith either one (as in Fortran) or zero. See the users manual for details. 2011273d9f13SBarry Smith 2012273d9f13SBarry Smith The user MUST specify either the local or global matrix dimensions 2013273d9f13SBarry Smith (possibly both). 2014273d9f13SBarry Smith 2015273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2016273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2017273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2018273d9f13SBarry Smith 2019273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2020273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2021273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2022273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2023273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2024273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2025273d9f13SBarry Smith 2026273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2027273d9f13SBarry Smith 2028273d9f13SBarry Smith By default, this format uses inodes (identical nodes) when possible. 2029273d9f13SBarry Smith We search for consecutive rows with the same nonzero structure, thereby 2030273d9f13SBarry Smith reusing matrix information to achieve increased efficiency. 2031273d9f13SBarry Smith 2032273d9f13SBarry Smith Options Database Keys: 2033273d9f13SBarry Smith + -mat_aij_no_inode - Do not use inodes 2034273d9f13SBarry Smith . -mat_aij_inode_limit <limit> - Sets inode limit (max limit=5) 2035273d9f13SBarry Smith - -mat_aij_oneindex - Internally use indexing starting at 1 2036273d9f13SBarry Smith rather than 0. Note that when calling MatSetValues(), 2037273d9f13SBarry Smith the user still MUST index entries starting at 0! 2038273d9f13SBarry Smith 2039273d9f13SBarry Smith Example usage: 2040273d9f13SBarry Smith 2041273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2042273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2043273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2044273d9f13SBarry Smith as follows: 2045273d9f13SBarry Smith 2046273d9f13SBarry Smith .vb 2047273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2048273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2049273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2050273d9f13SBarry Smith ------------------------------------- 2051273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2052273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2053273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2054273d9f13SBarry Smith ------------------------------------- 2055273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2056273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2057273d9f13SBarry Smith .ve 2058273d9f13SBarry Smith 2059273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2060273d9f13SBarry Smith 2061273d9f13SBarry Smith .vb 2062273d9f13SBarry Smith A B C 2063273d9f13SBarry Smith D E F 2064273d9f13SBarry Smith G H I 2065273d9f13SBarry Smith .ve 2066273d9f13SBarry Smith 2067273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2068273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2069273d9f13SBarry Smith 2070273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2071273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2072273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2073273d9f13SBarry Smith 2074273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2075273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2076273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2077273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2078273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2079273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2080273d9f13SBarry Smith 2081273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2082273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2083273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2084273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2085273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2086273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2087273d9f13SBarry Smith .vb 2088273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2089273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2090273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2091273d9f13SBarry Smith .ve 2092273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2093273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2094273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2095273d9f13SBarry Smith 34 values. 2096273d9f13SBarry Smith 2097273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2098273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2099273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2100273d9f13SBarry Smith .vb 2101273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2102273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2103273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2104273d9f13SBarry Smith .ve 2105273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2106273d9f13SBarry Smith hence pre-allocation is perfect. 2107273d9f13SBarry Smith 2108273d9f13SBarry Smith Level: intermediate 2109273d9f13SBarry Smith 2110273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2111273d9f13SBarry Smith 2112273d9f13SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues() 2113273d9f13SBarry Smith @*/ 2114273d9f13SBarry Smith int MatMPIAIJSetPreallocation(Mat B,int d_nz,int *d_nnz,int o_nz,int *o_nnz) 2115273d9f13SBarry Smith { 2116273d9f13SBarry Smith Mat_MPIAIJ *b; 2117273d9f13SBarry Smith int ierr,i; 2118273d9f13SBarry Smith PetscTruth flg2; 2119273d9f13SBarry Smith 2120273d9f13SBarry Smith PetscFunctionBegin; 2121273d9f13SBarry Smith ierr = PetscTypeCompare((PetscObject)B,MATMPIAIJ,&flg2);CHKERRQ(ierr); 2122273d9f13SBarry Smith if (!flg2) PetscFunctionReturn(0); 2123273d9f13SBarry Smith B->preallocated = PETSC_TRUE; 2124435da068SBarry Smith if (d_nz == PETSC_DEFAULT || d_nz == PETSC_DECIDE) d_nz = 5; 2125435da068SBarry Smith if (o_nz == PETSC_DEFAULT || o_nz == PETSC_DECIDE) o_nz = 2; 2126435da068SBarry Smith if (d_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"d_nz cannot be less than 0: value %d",d_nz); 2127435da068SBarry Smith if (o_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"o_nz cannot be less than 0: value %d",o_nz); 2128273d9f13SBarry Smith if (d_nnz) { 2129273d9f13SBarry Smith for (i=0; i<B->m; i++) { 2130273d9f13SBarry 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]); 2131273d9f13SBarry Smith } 2132273d9f13SBarry Smith } 2133273d9f13SBarry Smith if (o_nnz) { 2134273d9f13SBarry Smith for (i=0; i<B->m; i++) { 2135273d9f13SBarry 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]); 2136273d9f13SBarry Smith } 2137273d9f13SBarry Smith } 2138273d9f13SBarry Smith b = (Mat_MPIAIJ*)B->data; 2139273d9f13SBarry Smith 2140273d9f13SBarry Smith ierr = MatCreateSeqAIJ(PETSC_COMM_SELF,B->m,B->n,d_nz,d_nnz,&b->A);CHKERRQ(ierr); 2141b0a32e0cSBarry Smith PetscLogObjectParent(B,b->A); 2142273d9f13SBarry Smith ierr = MatCreateSeqAIJ(PETSC_COMM_SELF,B->m,B->N,o_nz,o_nnz,&b->B);CHKERRQ(ierr); 2143b0a32e0cSBarry Smith PetscLogObjectParent(B,b->B); 2144273d9f13SBarry Smith 2145273d9f13SBarry Smith PetscFunctionReturn(0); 2146273d9f13SBarry Smith } 2147273d9f13SBarry Smith 21484a2ae208SSatish Balay #undef __FUNCT__ 21494a2ae208SSatish Balay #define __FUNCT__ "MatCreateMPIAIJ" 2150273d9f13SBarry Smith /*@C 2151273d9f13SBarry Smith MatCreateMPIAIJ - Creates a sparse parallel matrix in AIJ format 2152273d9f13SBarry Smith (the default parallel PETSc format). For good matrix assembly performance 2153273d9f13SBarry Smith the user should preallocate the matrix storage by setting the parameters 2154273d9f13SBarry Smith d_nz (or d_nnz) and o_nz (or o_nnz). By setting these parameters accurately, 2155273d9f13SBarry Smith performance can be increased by more than a factor of 50. 2156273d9f13SBarry Smith 2157273d9f13SBarry Smith Collective on MPI_Comm 2158273d9f13SBarry Smith 2159273d9f13SBarry Smith Input Parameters: 2160273d9f13SBarry Smith + comm - MPI communicator 2161273d9f13SBarry Smith . m - number of local rows (or PETSC_DECIDE to have calculated if M is given) 2162273d9f13SBarry Smith This value should be the same as the local size used in creating the 2163273d9f13SBarry Smith y vector for the matrix-vector product y = Ax. 2164273d9f13SBarry Smith . n - This value should be the same as the local size used in creating the 2165273d9f13SBarry Smith x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have 2166273d9f13SBarry Smith calculated if N is given) For square matrices n is almost always m. 2167273d9f13SBarry Smith . M - number of global rows (or PETSC_DETERMINE to have calculated if m is given) 2168273d9f13SBarry Smith . N - number of global columns (or PETSC_DETERMINE to have calculated if n is given) 2169273d9f13SBarry Smith . d_nz - number of nonzeros per row in DIAGONAL portion of local submatrix 2170273d9f13SBarry Smith (same value is used for all local rows) 2171273d9f13SBarry Smith . d_nnz - array containing the number of nonzeros in the various rows of the 2172273d9f13SBarry Smith DIAGONAL portion of the local submatrix (possibly different for each row) 2173273d9f13SBarry Smith or PETSC_NULL, if d_nz is used to specify the nonzero structure. 2174273d9f13SBarry Smith The size of this array is equal to the number of local rows, i.e 'm'. 2175273d9f13SBarry Smith You must leave room for the diagonal entry even if it is zero. 2176273d9f13SBarry Smith . o_nz - number of nonzeros per row in the OFF-DIAGONAL portion of local 2177273d9f13SBarry Smith submatrix (same value is used for all local rows). 2178273d9f13SBarry Smith - o_nnz - array containing the number of nonzeros in the various rows of the 2179273d9f13SBarry Smith OFF-DIAGONAL portion of the local submatrix (possibly different for 2180273d9f13SBarry Smith each row) or PETSC_NULL, if o_nz is used to specify the nonzero 2181273d9f13SBarry Smith structure. The size of this array is equal to the number 2182273d9f13SBarry Smith of local rows, i.e 'm'. 2183273d9f13SBarry Smith 2184273d9f13SBarry Smith Output Parameter: 2185273d9f13SBarry Smith . A - the matrix 2186273d9f13SBarry Smith 2187273d9f13SBarry Smith Notes: 2188273d9f13SBarry Smith m,n,M,N parameters specify the size of the matrix, and its partitioning across 2189273d9f13SBarry Smith processors, while d_nz,d_nnz,o_nz,o_nnz parameters specify the approximate 2190273d9f13SBarry Smith storage requirements for this matrix. 2191273d9f13SBarry Smith 2192273d9f13SBarry Smith If PETSC_DECIDE or PETSC_DETERMINE is used for a particular argument on one 2193273d9f13SBarry Smith processor than it must be used on all processors that share the object for 2194273d9f13SBarry Smith that argument. 2195273d9f13SBarry Smith 2196273d9f13SBarry Smith The AIJ format (also called the Yale sparse matrix format or 2197273d9f13SBarry Smith compressed row storage), is fully compatible with standard Fortran 77 2198273d9f13SBarry Smith storage. That is, the stored row and column indices can begin at 2199273d9f13SBarry Smith either one (as in Fortran) or zero. See the users manual for details. 2200273d9f13SBarry Smith 2201273d9f13SBarry Smith The user MUST specify either the local or global matrix dimensions 2202273d9f13SBarry Smith (possibly both). 2203273d9f13SBarry Smith 2204273d9f13SBarry Smith The parallel matrix is partitioned such that the first m0 rows belong to 2205273d9f13SBarry Smith process 0, the next m1 rows belong to process 1, the next m2 rows belong 2206273d9f13SBarry Smith to process 2 etc.. where m0,m1,m2... are the input parameter 'm'. 2207273d9f13SBarry Smith 2208273d9f13SBarry Smith The DIAGONAL portion of the local submatrix of a processor can be defined 2209273d9f13SBarry Smith as the submatrix which is obtained by extraction the part corresponding 2210273d9f13SBarry Smith to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the 2211273d9f13SBarry Smith first row that belongs to the processor, and r2 is the last row belonging 2212273d9f13SBarry Smith to the this processor. This is a square mxm matrix. The remaining portion 2213273d9f13SBarry Smith of the local submatrix (mxN) constitute the OFF-DIAGONAL portion. 2214273d9f13SBarry Smith 2215273d9f13SBarry Smith If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored. 2216273d9f13SBarry Smith 2217273d9f13SBarry Smith By default, this format uses inodes (identical nodes) when possible. 2218273d9f13SBarry Smith We search for consecutive rows with the same nonzero structure, thereby 2219273d9f13SBarry Smith reusing matrix information to achieve increased efficiency. 2220273d9f13SBarry Smith 2221273d9f13SBarry Smith Options Database Keys: 2222273d9f13SBarry Smith + -mat_aij_no_inode - Do not use inodes 2223273d9f13SBarry Smith . -mat_aij_inode_limit <limit> - Sets inode limit (max limit=5) 2224273d9f13SBarry Smith - -mat_aij_oneindex - Internally use indexing starting at 1 2225273d9f13SBarry Smith rather than 0. Note that when calling MatSetValues(), 2226273d9f13SBarry Smith the user still MUST index entries starting at 0! 2227273d9f13SBarry Smith 2228273d9f13SBarry Smith 2229273d9f13SBarry Smith Example usage: 2230273d9f13SBarry Smith 2231273d9f13SBarry Smith Consider the following 8x8 matrix with 34 non-zero values, that is 2232273d9f13SBarry Smith assembled across 3 processors. Lets assume that proc0 owns 3 rows, 2233273d9f13SBarry Smith proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown 2234273d9f13SBarry Smith as follows: 2235273d9f13SBarry Smith 2236273d9f13SBarry Smith .vb 2237273d9f13SBarry Smith 1 2 0 | 0 3 0 | 0 4 2238273d9f13SBarry Smith Proc0 0 5 6 | 7 0 0 | 8 0 2239273d9f13SBarry Smith 9 0 10 | 11 0 0 | 12 0 2240273d9f13SBarry Smith ------------------------------------- 2241273d9f13SBarry Smith 13 0 14 | 15 16 17 | 0 0 2242273d9f13SBarry Smith Proc1 0 18 0 | 19 20 21 | 0 0 2243273d9f13SBarry Smith 0 0 0 | 22 23 0 | 24 0 2244273d9f13SBarry Smith ------------------------------------- 2245273d9f13SBarry Smith Proc2 25 26 27 | 0 0 28 | 29 0 2246273d9f13SBarry Smith 30 0 0 | 31 32 33 | 0 34 2247273d9f13SBarry Smith .ve 2248273d9f13SBarry Smith 2249273d9f13SBarry Smith This can be represented as a collection of submatrices as: 2250273d9f13SBarry Smith 2251273d9f13SBarry Smith .vb 2252273d9f13SBarry Smith A B C 2253273d9f13SBarry Smith D E F 2254273d9f13SBarry Smith G H I 2255273d9f13SBarry Smith .ve 2256273d9f13SBarry Smith 2257273d9f13SBarry Smith Where the submatrices A,B,C are owned by proc0, D,E,F are 2258273d9f13SBarry Smith owned by proc1, G,H,I are owned by proc2. 2259273d9f13SBarry Smith 2260273d9f13SBarry Smith The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2261273d9f13SBarry Smith The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively. 2262273d9f13SBarry Smith The 'M','N' parameters are 8,8, and have the same values on all procs. 2263273d9f13SBarry Smith 2264273d9f13SBarry Smith The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are 2265273d9f13SBarry Smith submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices 2266273d9f13SBarry Smith corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively. 2267273d9f13SBarry Smith Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL 2268273d9f13SBarry Smith part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ 2269273d9f13SBarry Smith matrix, ans [DF] as another SeqAIJ matrix. 2270273d9f13SBarry Smith 2271273d9f13SBarry Smith When d_nz, o_nz parameters are specified, d_nz storage elements are 2272273d9f13SBarry Smith allocated for every row of the local diagonal submatrix, and o_nz 2273273d9f13SBarry Smith storage locations are allocated for every row of the OFF-DIAGONAL submat. 2274273d9f13SBarry Smith One way to choose d_nz and o_nz is to use the max nonzerors per local 2275273d9f13SBarry Smith rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices. 2276273d9f13SBarry Smith In this case, the values of d_nz,o_nz are: 2277273d9f13SBarry Smith .vb 2278273d9f13SBarry Smith proc0 : dnz = 2, o_nz = 2 2279273d9f13SBarry Smith proc1 : dnz = 3, o_nz = 2 2280273d9f13SBarry Smith proc2 : dnz = 1, o_nz = 4 2281273d9f13SBarry Smith .ve 2282273d9f13SBarry Smith We are allocating m*(d_nz+o_nz) storage locations for every proc. This 2283273d9f13SBarry Smith translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10 2284273d9f13SBarry Smith for proc3. i.e we are using 12+15+10=37 storage locations to store 2285273d9f13SBarry Smith 34 values. 2286273d9f13SBarry Smith 2287273d9f13SBarry Smith When d_nnz, o_nnz parameters are specified, the storage is specified 2288273d9f13SBarry Smith for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices. 2289273d9f13SBarry Smith In the above case the values for d_nnz,o_nnz are: 2290273d9f13SBarry Smith .vb 2291273d9f13SBarry Smith proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2] 2292273d9f13SBarry Smith proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1] 2293273d9f13SBarry Smith proc2: d_nnz = [1,1] and o_nnz = [4,4] 2294273d9f13SBarry Smith .ve 2295273d9f13SBarry Smith Here the space allocated is sum of all the above values i.e 34, and 2296273d9f13SBarry Smith hence pre-allocation is perfect. 2297273d9f13SBarry Smith 2298273d9f13SBarry Smith Level: intermediate 2299273d9f13SBarry Smith 2300273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel 2301273d9f13SBarry Smith 2302273d9f13SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues() 2303273d9f13SBarry Smith @*/ 2304273d9f13SBarry Smith int MatCreateMPIAIJ(MPI_Comm comm,int m,int n,int M,int N,int d_nz,int *d_nnz,int o_nz,int *o_nnz,Mat *A) 2305273d9f13SBarry Smith { 2306273d9f13SBarry Smith int ierr,size; 2307273d9f13SBarry Smith 2308273d9f13SBarry Smith PetscFunctionBegin; 2309273d9f13SBarry Smith ierr = MatCreate(comm,m,n,M,N,A);CHKERRQ(ierr); 2310273d9f13SBarry Smith ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr); 2311273d9f13SBarry Smith if (size > 1) { 2312273d9f13SBarry Smith ierr = MatSetType(*A,MATMPIAIJ);CHKERRQ(ierr); 2313273d9f13SBarry Smith ierr = MatMPIAIJSetPreallocation(*A,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr); 2314273d9f13SBarry Smith } else { 2315273d9f13SBarry Smith ierr = MatSetType(*A,MATSEQAIJ);CHKERRQ(ierr); 2316273d9f13SBarry Smith ierr = MatSeqAIJSetPreallocation(*A,d_nz,d_nnz);CHKERRQ(ierr); 2317273d9f13SBarry Smith } 2318273d9f13SBarry Smith PetscFunctionReturn(0); 2319273d9f13SBarry Smith } 2320195d93cdSBarry Smith 23214a2ae208SSatish Balay #undef __FUNCT__ 23224a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJGetSeqAIJ" 2323195d93cdSBarry Smith int MatMPIAIJGetSeqAIJ(Mat A,Mat *Ad,Mat *Ao,int **colmap) 2324195d93cdSBarry Smith { 2325195d93cdSBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data; 2326195d93cdSBarry Smith PetscFunctionBegin; 2327195d93cdSBarry Smith *Ad = a->A; 2328195d93cdSBarry Smith *Ao = a->B; 2329195d93cdSBarry Smith *colmap = a->garray; 2330195d93cdSBarry Smith PetscFunctionReturn(0); 2331195d93cdSBarry Smith } 2332a2243be0SBarry Smith 2333a2243be0SBarry Smith #undef __FUNCT__ 2334a2243be0SBarry Smith #define __FUNCT__ "MatSetColoring_MPIAIJ" 2335a2243be0SBarry Smith int MatSetColoring_MPIAIJ(Mat A,ISColoring coloring) 2336a2243be0SBarry Smith { 2337a2243be0SBarry Smith int ierr; 2338a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2339a2243be0SBarry Smith 2340a2243be0SBarry Smith PetscFunctionBegin; 2341a2243be0SBarry Smith if (coloring->ctype == IS_COLORING_LOCAL) { 2342a2243be0SBarry Smith int *allcolors,*colors,i; 2343a2243be0SBarry Smith ISColoring ocoloring; 2344a2243be0SBarry Smith 2345a2243be0SBarry Smith /* set coloring for diagonal portion */ 2346a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,coloring);CHKERRQ(ierr); 2347a2243be0SBarry Smith 2348a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 2349a2243be0SBarry Smith ierr = ISAllGatherIndices(A->comm,coloring->n,coloring->colors,PETSC_NULL,&allcolors);CHKERRQ(ierr); 2350a2243be0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(int),&colors);CHKERRQ(ierr); 2351a2243be0SBarry Smith for (i=0; i<a->B->n; i++) { 2352a2243be0SBarry Smith colors[i] = allcolors[a->garray[i]]; 2353a2243be0SBarry Smith } 2354a2243be0SBarry Smith ierr = PetscFree(allcolors);CHKERRQ(ierr); 2355a2243be0SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr); 2356a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2357a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2358a2243be0SBarry Smith } else if (coloring->ctype == IS_COLORING_GHOSTED) { 2359a2243be0SBarry Smith int *colors,i,*larray; 2360a2243be0SBarry Smith ISColoring ocoloring; 2361a2243be0SBarry Smith 2362a2243be0SBarry Smith /* set coloring for diagonal portion */ 2363a2243be0SBarry Smith ierr = PetscMalloc((a->A->n+1)*sizeof(int),&larray);CHKERRQ(ierr); 2364a2243be0SBarry Smith for (i=0; i<a->A->n; i++) { 2365a2243be0SBarry Smith larray[i] = i + a->cstart; 2366a2243be0SBarry Smith } 2367a2243be0SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->A->n,larray,PETSC_NULL,larray);CHKERRQ(ierr); 2368a2243be0SBarry Smith ierr = PetscMalloc((a->A->n+1)*sizeof(int),&colors);CHKERRQ(ierr); 2369a2243be0SBarry Smith for (i=0; i<a->A->n; i++) { 2370a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2371a2243be0SBarry Smith } 2372a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 237312c595b3SBarry Smith ierr = ISColoringCreate(PETSC_COMM_SELF,a->A->n,colors,&ocoloring);CHKERRQ(ierr); 2374a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->A,ocoloring);CHKERRQ(ierr); 2375a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2376a2243be0SBarry Smith 2377a2243be0SBarry Smith /* set coloring for off-diagonal portion */ 2378a2243be0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(int),&larray);CHKERRQ(ierr); 2379a2243be0SBarry Smith ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->B->n,a->garray,PETSC_NULL,larray);CHKERRQ(ierr); 2380a2243be0SBarry Smith ierr = PetscMalloc((a->B->n+1)*sizeof(int),&colors);CHKERRQ(ierr); 2381a2243be0SBarry Smith for (i=0; i<a->B->n; i++) { 2382a2243be0SBarry Smith colors[i] = coloring->colors[larray[i]]; 2383a2243be0SBarry Smith } 2384a2243be0SBarry Smith ierr = PetscFree(larray);CHKERRQ(ierr); 2385a2243be0SBarry Smith ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr); 2386a2243be0SBarry Smith ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr); 2387a2243be0SBarry Smith ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr); 2388a2243be0SBarry Smith } else { 2389a2243be0SBarry Smith SETERRQ1(1,"No support ISColoringType %d",coloring->ctype); 2390a2243be0SBarry Smith } 2391a2243be0SBarry Smith 2392a2243be0SBarry Smith PetscFunctionReturn(0); 2393a2243be0SBarry Smith } 2394a2243be0SBarry Smith 2395a2243be0SBarry Smith #undef __FUNCT__ 2396779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdic_MPIAIJ" 2397779c1a83SBarry Smith int MatSetValuesAdic_MPIAIJ(Mat A,void *advalues) 2398a2243be0SBarry Smith { 2399a2243be0SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2400a2243be0SBarry Smith int ierr; 2401a2243be0SBarry Smith 2402a2243be0SBarry Smith PetscFunctionBegin; 2403779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->A,advalues);CHKERRQ(ierr); 2404779c1a83SBarry Smith ierr = MatSetValuesAdic_SeqAIJ(a->B,advalues);CHKERRQ(ierr); 2405779c1a83SBarry Smith PetscFunctionReturn(0); 2406779c1a83SBarry Smith } 2407779c1a83SBarry Smith 2408779c1a83SBarry Smith #undef __FUNCT__ 2409779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdifor_MPIAIJ" 2410779c1a83SBarry Smith int MatSetValuesAdifor_MPIAIJ(Mat A,int nl,void *advalues) 2411779c1a83SBarry Smith { 2412779c1a83SBarry Smith Mat_MPIAIJ *a = (Mat_MPIAIJ*)A->data; 2413779c1a83SBarry Smith int ierr; 2414779c1a83SBarry Smith 2415779c1a83SBarry Smith PetscFunctionBegin; 2416779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->A,nl,advalues);CHKERRQ(ierr); 2417779c1a83SBarry Smith ierr = MatSetValuesAdifor_SeqAIJ(a->B,nl,advalues);CHKERRQ(ierr); 2418a2243be0SBarry Smith PetscFunctionReturn(0); 2419a2243be0SBarry Smith } 2420c5d6d63eSBarry Smith 2421c5d6d63eSBarry Smith #undef __FUNCT__ 2422c5d6d63eSBarry Smith #define __FUNCT__ "MatFileMerge" 2423c5d6d63eSBarry Smith /*@C 2424c5d6d63eSBarry Smith MatFileMerge - Saves a single large PETSc matrix by reading in 2425c5d6d63eSBarry Smith sequential matrices from each processor and concatinating them 2426c5d6d63eSBarry Smith together. 2427c5d6d63eSBarry Smith 2428c5d6d63eSBarry Smith Collective on MPI_Comm 2429c5d6d63eSBarry Smith 2430c5d6d63eSBarry Smith Input Parameters: 2431c5d6d63eSBarry Smith + comm - the communicators the individual files are on 2432c5d6d63eSBarry Smith . infile - name of input file 2433c5d6d63eSBarry Smith - outfile - name of output file 2434c5d6d63eSBarry Smith 24357e25d530SSatish Balay Level: advanced 24367e25d530SSatish Balay 2437c5d6d63eSBarry Smith Notes: The number of columns of the matrix in EACH of the seperate files 2438c5d6d63eSBarry Smith MUST be the same. 2439c5d6d63eSBarry Smith 2440c5d6d63eSBarry Smith The true name of the input files on each processor is obtained by 2441c5d6d63eSBarry Smith appending .rank onto the infile string; where rank is 0 up to one less 2442c5d6d63eSBarry Smith then the number of processors 2443c5d6d63eSBarry Smith @*/ 2444c5d6d63eSBarry Smith int MatFileMerge(MPI_Comm comm,char *infile,char *outfile) 2445c5d6d63eSBarry Smith { 2446c5d6d63eSBarry Smith int ierr,rank,len,m,n,i,rstart,*indx,nnz,I; 2447c5d6d63eSBarry Smith PetscViewer in,out; 2448c5d6d63eSBarry Smith char *name; 2449c5d6d63eSBarry Smith Mat A,B; 2450c5d6d63eSBarry Smith PetscScalar *values; 2451c5d6d63eSBarry Smith 2452c5d6d63eSBarry Smith PetscFunctionBegin; 2453c5d6d63eSBarry Smith ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr); 2454c5d6d63eSBarry Smith ierr = PetscStrlen(infile,&len);CHKERRQ(ierr); 2455c5d6d63eSBarry Smith ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr); 2456c5d6d63eSBarry Smith sprintf(name,"%s.%d",infile,rank); 2457c5d6d63eSBarry Smith ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,PETSC_BINARY_RDONLY,&in);CHKERRQ(ierr); 2458c5d6d63eSBarry Smith ierr = PetscFree(name); 2459c5d6d63eSBarry Smith ierr = MatLoad(in,MATSEQAIJ,&A);CHKERRQ(ierr); 2460c5d6d63eSBarry Smith ierr = PetscViewerDestroy(in);CHKERRQ(ierr); 2461c5d6d63eSBarry Smith 2462c5d6d63eSBarry Smith ierr = MatGetSize(A,&m,&n);CHKERRQ(ierr); 2463c5d6d63eSBarry Smith ierr = MatCreateMPIAIJ(comm,m,PETSC_DECIDE,PETSC_DETERMINE,n,0,0,0,0,&B);CHKERRQ(ierr); 2464c5d6d63eSBarry Smith ierr = MatGetOwnershipRange(B,&rstart,0);CHKERRQ(ierr); 2465c5d6d63eSBarry Smith for (i=0;i<m;i++) { 2466c5d6d63eSBarry Smith ierr = MatGetRow(A,i,&nnz,&indx,&values);CHKERRQ(ierr); 2467c5d6d63eSBarry Smith I = i + rstart; 2468c5d6d63eSBarry Smith ierr = MatSetValues(B,1,&I,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 2469c5d6d63eSBarry Smith ierr = MatRestoreRow(A,i,&nnz,&indx,&values);CHKERRQ(ierr); 2470c5d6d63eSBarry Smith } 2471c5d6d63eSBarry Smith ierr = MatDestroy(A);CHKERRQ(ierr); 2472c5d6d63eSBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2473c5d6d63eSBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2474c5d6d63eSBarry Smith 2475c5d6d63eSBarry Smith ierr = PetscViewerBinaryOpen(comm,outfile,PETSC_BINARY_CREATE,&out);CHKERRQ(ierr); 2476c5d6d63eSBarry Smith ierr = MatView(B,out);CHKERRQ(ierr); 2477c5d6d63eSBarry Smith ierr = PetscViewerDestroy(out);CHKERRQ(ierr); 2478c5d6d63eSBarry Smith ierr = MatDestroy(B);CHKERRQ(ierr); 2479c5d6d63eSBarry Smith PetscFunctionReturn(0); 2480c5d6d63eSBarry Smith } 2481c5d6d63eSBarry Smith 2482c5d6d63eSBarry Smith #undef __FUNCT__ 2483c5d6d63eSBarry Smith #define __FUNCT__ "MatFileSplit" 2484c5d6d63eSBarry Smith int MatFileSplit(Mat A,char *outfile) 2485c5d6d63eSBarry Smith { 2486c5d6d63eSBarry Smith int ierr,rank,len,m,N,i,rstart,*indx,nnz; 2487c5d6d63eSBarry Smith PetscViewer out; 2488c5d6d63eSBarry Smith char *name; 2489c5d6d63eSBarry Smith Mat B; 2490c5d6d63eSBarry Smith PetscScalar *values; 2491c5d6d63eSBarry Smith 2492c5d6d63eSBarry Smith PetscFunctionBegin; 2493c5d6d63eSBarry Smith 2494c5d6d63eSBarry Smith ierr = MatGetLocalSize(A,&m,0);CHKERRQ(ierr); 2495c5d6d63eSBarry Smith ierr = MatGetSize(A,0,&N);CHKERRQ(ierr); 2496c5d6d63eSBarry Smith ierr = MatCreateSeqAIJ(PETSC_COMM_SELF,m,N,0,0,&B);CHKERRQ(ierr); 2497c5d6d63eSBarry Smith ierr = MatGetOwnershipRange(A,&rstart,0);CHKERRQ(ierr); 2498c5d6d63eSBarry Smith for (i=0;i<m;i++) { 2499c5d6d63eSBarry Smith ierr = MatGetRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 2500c5d6d63eSBarry Smith ierr = MatSetValues(B,1,&i,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr); 2501c5d6d63eSBarry Smith ierr = MatRestoreRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr); 2502c5d6d63eSBarry Smith } 2503c5d6d63eSBarry Smith ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2504c5d6d63eSBarry Smith ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr); 2505c5d6d63eSBarry Smith 2506c5d6d63eSBarry Smith ierr = MPI_Comm_rank(A->comm,&rank);CHKERRQ(ierr); 2507c5d6d63eSBarry Smith ierr = PetscStrlen(outfile,&len);CHKERRQ(ierr); 2508c5d6d63eSBarry Smith ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr); 2509c5d6d63eSBarry Smith sprintf(name,"%s.%d",outfile,rank); 2510c5d6d63eSBarry Smith ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,PETSC_BINARY_CREATE,&out);CHKERRQ(ierr); 2511c5d6d63eSBarry Smith ierr = PetscFree(name); 2512c5d6d63eSBarry Smith ierr = MatView(B,out);CHKERRQ(ierr); 2513c5d6d63eSBarry Smith ierr = PetscViewerDestroy(out);CHKERRQ(ierr); 2514c5d6d63eSBarry Smith ierr = MatDestroy(B);CHKERRQ(ierr); 2515c5d6d63eSBarry Smith PetscFunctionReturn(0); 2516c5d6d63eSBarry Smith } 2517