xref: /petsc/src/mat/impls/aij/mpi/mpiaij.c (revision 46f35f0b964b4feba4831f61fb60d65ea3d7f2ca)
18a729477SBarry Smith 
270f55243SBarry Smith #include "src/mat/impls/aij/mpi/mpiaij.h"
3d9942c19SSatish Balay #include "src/inline/spops.h"
48a729477SBarry Smith 
50f5bd95cSBarry Smith /*
60f5bd95cSBarry Smith   Local utility routine that creates a mapping from the global column
79e25ed09SBarry Smith number to the local number in the off-diagonal part of the local
80f5bd95cSBarry Smith storage of the matrix.  When PETSC_USE_CTABLE is used this is scalable at
90f5bd95cSBarry Smith a slightly higher hash table cost; without it it is not scalable (each processor
100f5bd95cSBarry Smith has an order N integer array but is fast to acess.
119e25ed09SBarry Smith */
124a2ae208SSatish Balay #undef __FUNCT__
134a2ae208SSatish Balay #define __FUNCT__ "CreateColmap_MPIAIJ_Private"
14dfbe8321SBarry Smith PetscErrorCode CreateColmap_MPIAIJ_Private(Mat mat)
159e25ed09SBarry Smith {
1644a69424SLois Curfman McInnes   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
176849ba73SBarry Smith   PetscErrorCode ierr;
18b1d57f15SBarry Smith   PetscInt       n = aij->B->n,i;
19dbb450caSBarry Smith 
203a40ed3dSBarry Smith   PetscFunctionBegin;
21aa482453SBarry Smith #if defined (PETSC_USE_CTABLE)
22273d9f13SBarry Smith   ierr = PetscTableCreate(n,&aij->colmap);CHKERRQ(ierr);
23b1fc9764SSatish Balay   for (i=0; i<n; i++){
240f5bd95cSBarry Smith     ierr = PetscTableAdd(aij->colmap,aij->garray[i]+1,i+1);CHKERRQ(ierr);
25b1fc9764SSatish Balay   }
26b1fc9764SSatish Balay #else
27b1d57f15SBarry Smith   ierr = PetscMalloc((mat->N+1)*sizeof(PetscInt),&aij->colmap);CHKERRQ(ierr);
28b1d57f15SBarry Smith   PetscLogObjectMemory(mat,mat->N*sizeof(PetscInt));
29b1d57f15SBarry Smith   ierr = PetscMemzero(aij->colmap,mat->N*sizeof(PetscInt));CHKERRQ(ierr);
30905e6a2fSBarry Smith   for (i=0; i<n; i++) aij->colmap[aij->garray[i]] = i+1;
31b1fc9764SSatish Balay #endif
323a40ed3dSBarry Smith   PetscFunctionReturn(0);
339e25ed09SBarry Smith }
349e25ed09SBarry Smith 
350520107fSSatish Balay #define CHUNKSIZE   15
3630770e4dSSatish Balay #define MatSetValues_SeqAIJ_A_Private(row,col,value,addv) \
370520107fSSatish Balay { \
380520107fSSatish Balay  \
390520107fSSatish Balay     rp   = aj + ai[row] + shift; ap = aa + ai[row] + shift; \
4030770e4dSSatish Balay     rmax = aimax[row]; nrow = ailen[row];  \
41f5e9677aSSatish Balay     col1 = col - shift; \
42f5e9677aSSatish Balay      \
43ba4e3ef2SSatish Balay     low = 0; high = nrow; \
44ba4e3ef2SSatish Balay     while (high-low > 5) { \
45ba4e3ef2SSatish Balay       t = (low+high)/2; \
46ba4e3ef2SSatish Balay       if (rp[t] > col) high = t; \
47ba4e3ef2SSatish Balay       else             low  = t; \
48ba4e3ef2SSatish Balay     } \
492335bdd2SSatish Balay       for (_i=low; _i<high; _i++) { \
50f5e9677aSSatish Balay         if (rp[_i] > col1) break; \
51f5e9677aSSatish Balay         if (rp[_i] == col1) { \
520520107fSSatish Balay           if (addv == ADD_VALUES) ap[_i] += value;   \
530520107fSSatish Balay           else                  ap[_i] = value; \
5430770e4dSSatish Balay           goto a_noinsert; \
550520107fSSatish Balay         } \
560520107fSSatish Balay       }  \
5789280ab3SLois Curfman McInnes       if (nonew == 1) goto a_noinsert; \
5877431f27SBarry Smith       else if (nonew == -1) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", row, col); \
590520107fSSatish Balay       if (nrow >= rmax) { \
600520107fSSatish Balay         /* there is no extra room in row, therefore enlarge */ \
61b1d57f15SBarry Smith         PetscInt    new_nz = ai[am] + CHUNKSIZE,len,*new_i,*new_j; \
6287828ca2SBarry Smith         PetscScalar *new_a; \
630520107fSSatish Balay  \
6477431f27SBarry Smith         if (nonew == -2) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) in the matrix", row, col); \
6589280ab3SLois Curfman McInnes  \
660520107fSSatish Balay         /* malloc new storage space */ \
67b1d57f15SBarry Smith         len     = new_nz*(sizeof(PetscInt)+sizeof(PetscScalar))+(am+1)*sizeof(PetscInt); \
68b0a32e0cSBarry Smith         ierr    = PetscMalloc(len,&new_a);CHKERRQ(ierr); \
69b1d57f15SBarry Smith         new_j   = (PetscInt*)(new_a + new_nz); \
700520107fSSatish Balay         new_i   = new_j + new_nz; \
710520107fSSatish Balay  \
720520107fSSatish Balay         /* copy over old data into new slots */ \
730520107fSSatish Balay         for (ii=0; ii<row+1; ii++) {new_i[ii] = ai[ii];} \
74273d9f13SBarry Smith         for (ii=row+1; ii<am+1; ii++) {new_i[ii] = ai[ii]+CHUNKSIZE;} \
75b1d57f15SBarry Smith         ierr = PetscMemcpy(new_j,aj,(ai[row]+nrow+shift)*sizeof(PetscInt));CHKERRQ(ierr); \
760520107fSSatish Balay         len = (new_nz - CHUNKSIZE - ai[row] - nrow - shift); \
77549d3d68SSatish Balay         ierr = PetscMemcpy(new_j+ai[row]+shift+nrow+CHUNKSIZE,aj+ai[row]+shift+nrow, \
78b1d57f15SBarry Smith                                                            len*sizeof(PetscInt));CHKERRQ(ierr); \
7987828ca2SBarry Smith         ierr = PetscMemcpy(new_a,aa,(ai[row]+nrow+shift)*sizeof(PetscScalar));CHKERRQ(ierr); \
80549d3d68SSatish Balay         ierr = PetscMemcpy(new_a+ai[row]+shift+nrow+CHUNKSIZE,aa+ai[row]+shift+nrow, \
8187828ca2SBarry Smith                                                            len*sizeof(PetscScalar));CHKERRQ(ierr);  \
820520107fSSatish Balay         /* free up old matrix storage */ \
83f5e9677aSSatish Balay  \
84606d414cSSatish Balay         ierr = PetscFree(a->a);CHKERRQ(ierr);  \
85606d414cSSatish Balay         if (!a->singlemalloc) { \
86606d414cSSatish Balay            ierr = PetscFree(a->i);CHKERRQ(ierr); \
87606d414cSSatish Balay            ierr = PetscFree(a->j);CHKERRQ(ierr); \
88606d414cSSatish Balay         } \
890520107fSSatish Balay         aa = a->a = new_a; ai = a->i = new_i; aj = a->j = new_j;  \
907c922b88SBarry Smith         a->singlemalloc = PETSC_TRUE; \
910520107fSSatish Balay  \
920520107fSSatish Balay         rp   = aj + ai[row] + shift; ap = aa + ai[row] + shift; \
9330770e4dSSatish Balay         rmax = aimax[row] = aimax[row] + CHUNKSIZE; \
94b1d57f15SBarry Smith         PetscLogObjectMemory(A,CHUNKSIZE*(sizeof(PetscInt) + sizeof(PetscScalar))); \
950520107fSSatish Balay         a->maxnz += CHUNKSIZE; \
960520107fSSatish Balay         a->reallocs++; \
970520107fSSatish Balay       } \
980520107fSSatish Balay       N = nrow++ - 1; a->nz++; \
990520107fSSatish Balay       /* shift up all the later entries in this row */ \
1000520107fSSatish Balay       for (ii=N; ii>=_i; ii--) { \
1010520107fSSatish Balay         rp[ii+1] = rp[ii]; \
1020520107fSSatish Balay         ap[ii+1] = ap[ii]; \
1030520107fSSatish Balay       } \
104f5e9677aSSatish Balay       rp[_i] = col1;  \
1050520107fSSatish Balay       ap[_i] = value;  \
10630770e4dSSatish Balay       a_noinsert: ; \
1070520107fSSatish Balay       ailen[row] = nrow; \
1080520107fSSatish Balay }
1090a198c4cSBarry Smith 
11030770e4dSSatish Balay #define MatSetValues_SeqAIJ_B_Private(row,col,value,addv) \
11130770e4dSSatish Balay { \
11230770e4dSSatish Balay  \
11330770e4dSSatish Balay     rp   = bj + bi[row] + shift; ap = ba + bi[row] + shift; \
11430770e4dSSatish Balay     rmax = bimax[row]; nrow = bilen[row];  \
11530770e4dSSatish Balay     col1 = col - shift; \
11630770e4dSSatish Balay      \
117ba4e3ef2SSatish Balay     low = 0; high = nrow; \
118ba4e3ef2SSatish Balay     while (high-low > 5) { \
119ba4e3ef2SSatish Balay       t = (low+high)/2; \
120ba4e3ef2SSatish Balay       if (rp[t] > col) high = t; \
121ba4e3ef2SSatish Balay       else             low  = t; \
122ba4e3ef2SSatish Balay     } \
1232335bdd2SSatish Balay        for (_i=low; _i<high; _i++) { \
12430770e4dSSatish Balay         if (rp[_i] > col1) break; \
12530770e4dSSatish Balay         if (rp[_i] == col1) { \
12630770e4dSSatish Balay           if (addv == ADD_VALUES) ap[_i] += value;   \
12730770e4dSSatish Balay           else                  ap[_i] = value; \
12830770e4dSSatish Balay           goto b_noinsert; \
12930770e4dSSatish Balay         } \
13030770e4dSSatish Balay       }  \
13189280ab3SLois Curfman McInnes       if (nonew == 1) goto b_noinsert; \
13277431f27SBarry Smith       else if (nonew == -1) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) into matrix", row, col); \
13330770e4dSSatish Balay       if (nrow >= rmax) { \
13430770e4dSSatish Balay         /* there is no extra room in row, therefore enlarge */ \
135b1d57f15SBarry Smith         PetscInt    new_nz = bi[bm] + CHUNKSIZE,len,*new_i,*new_j; \
13687828ca2SBarry Smith         PetscScalar *new_a; \
13730770e4dSSatish Balay  \
13877431f27SBarry Smith         if (nonew == -2) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Inserting a new nonzero (%D, %D) in the matrix", row, col); \
13989280ab3SLois Curfman McInnes  \
14030770e4dSSatish Balay         /* malloc new storage space */ \
141b1d57f15SBarry Smith         len     = new_nz*(sizeof(PetscInt)+sizeof(PetscScalar))+(bm+1)*sizeof(PetscInt); \
142b0a32e0cSBarry Smith         ierr    = PetscMalloc(len,&new_a);CHKERRQ(ierr); \
143b1d57f15SBarry Smith         new_j   = (PetscInt*)(new_a + new_nz); \
14430770e4dSSatish Balay         new_i   = new_j + new_nz; \
14530770e4dSSatish Balay  \
14630770e4dSSatish Balay         /* copy over old data into new slots */ \
14730770e4dSSatish Balay         for (ii=0; ii<row+1; ii++) {new_i[ii] = bi[ii];} \
148273d9f13SBarry Smith         for (ii=row+1; ii<bm+1; ii++) {new_i[ii] = bi[ii]+CHUNKSIZE;} \
149b1d57f15SBarry Smith         ierr = PetscMemcpy(new_j,bj,(bi[row]+nrow+shift)*sizeof(PetscInt));CHKERRQ(ierr); \
15030770e4dSSatish Balay         len = (new_nz - CHUNKSIZE - bi[row] - nrow - shift); \
151549d3d68SSatish Balay         ierr = PetscMemcpy(new_j+bi[row]+shift+nrow+CHUNKSIZE,bj+bi[row]+shift+nrow, \
152b1d57f15SBarry Smith                                                            len*sizeof(PetscInt));CHKERRQ(ierr); \
15387828ca2SBarry Smith         ierr = PetscMemcpy(new_a,ba,(bi[row]+nrow+shift)*sizeof(PetscScalar));CHKERRQ(ierr); \
154549d3d68SSatish Balay         ierr = PetscMemcpy(new_a+bi[row]+shift+nrow+CHUNKSIZE,ba+bi[row]+shift+nrow, \
15587828ca2SBarry Smith                                                            len*sizeof(PetscScalar));CHKERRQ(ierr);  \
15630770e4dSSatish Balay         /* free up old matrix storage */ \
15730770e4dSSatish Balay  \
158606d414cSSatish Balay         ierr = PetscFree(b->a);CHKERRQ(ierr);  \
159606d414cSSatish Balay         if (!b->singlemalloc) { \
160606d414cSSatish Balay           ierr = PetscFree(b->i);CHKERRQ(ierr); \
161606d414cSSatish Balay           ierr = PetscFree(b->j);CHKERRQ(ierr); \
162606d414cSSatish Balay         } \
16374c639caSSatish Balay         ba = b->a = new_a; bi = b->i = new_i; bj = b->j = new_j;  \
1647c922b88SBarry Smith         b->singlemalloc = PETSC_TRUE; \
16530770e4dSSatish Balay  \
16630770e4dSSatish Balay         rp   = bj + bi[row] + shift; ap = ba + bi[row] + shift; \
16730770e4dSSatish Balay         rmax = bimax[row] = bimax[row] + CHUNKSIZE; \
168b1d57f15SBarry Smith         PetscLogObjectMemory(B,CHUNKSIZE*(sizeof(PetscInt) + sizeof(PetscScalar))); \
16974c639caSSatish Balay         b->maxnz += CHUNKSIZE; \
17074c639caSSatish Balay         b->reallocs++; \
17130770e4dSSatish Balay       } \
17274c639caSSatish Balay       N = nrow++ - 1; b->nz++; \
17330770e4dSSatish Balay       /* shift up all the later entries in this row */ \
17430770e4dSSatish Balay       for (ii=N; ii>=_i; ii--) { \
17530770e4dSSatish Balay         rp[ii+1] = rp[ii]; \
17630770e4dSSatish Balay         ap[ii+1] = ap[ii]; \
17730770e4dSSatish Balay       } \
17830770e4dSSatish Balay       rp[_i] = col1;  \
17930770e4dSSatish Balay       ap[_i] = value;  \
18030770e4dSSatish Balay       b_noinsert: ; \
18130770e4dSSatish Balay       bilen[row] = nrow; \
18230770e4dSSatish Balay }
18330770e4dSSatish Balay 
1844a2ae208SSatish Balay #undef __FUNCT__
1854a2ae208SSatish Balay #define __FUNCT__ "MatSetValues_MPIAIJ"
186b1d57f15SBarry Smith PetscErrorCode MatSetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt im[],PetscInt n,const PetscInt in[],const PetscScalar v[],InsertMode addv)
1878a729477SBarry Smith {
18844a69424SLois Curfman McInnes   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
18987828ca2SBarry Smith   PetscScalar    value;
190dfbe8321SBarry Smith   PetscErrorCode ierr;
19157809a77SBarry Smith   PetscInt       i,j,rstart = aij->rstart,rend = aij->rend;
19257809a77SBarry Smith   PetscInt       cstart = aij->cstart,cend = aij->cend,row,col;
193273d9f13SBarry Smith   PetscTruth     roworiented = aij->roworiented;
1948a729477SBarry Smith 
1950520107fSSatish Balay   /* Some Variables required in the macro */
1964ee7247eSSatish Balay   Mat            A = aij->A;
1974ee7247eSSatish Balay   Mat_SeqAIJ     *a = (Mat_SeqAIJ*)A->data;
19857809a77SBarry Smith   PetscInt       *aimax = a->imax,*ai = a->i,*ailen = a->ilen,*aj = a->j;
19987828ca2SBarry Smith   PetscScalar    *aa = a->a;
200329f5518SBarry Smith   PetscTruth     ignorezeroentries = (((a->ignorezeroentries)&&(addv==ADD_VALUES))?PETSC_TRUE:PETSC_FALSE);
20130770e4dSSatish Balay   Mat            B = aij->B;
20230770e4dSSatish Balay   Mat_SeqAIJ     *b = (Mat_SeqAIJ*)B->data;
20357809a77SBarry Smith   PetscInt       *bimax = b->imax,*bi = b->i,*bilen = b->ilen,*bj = b->j,bm = aij->B->m,am = aij->A->m;
20487828ca2SBarry Smith   PetscScalar    *ba = b->a;
20530770e4dSSatish Balay 
20657809a77SBarry Smith   PetscInt       *rp,ii,nrow,_i,rmax,N,col1,low,high,t;
20757809a77SBarry Smith   PetscInt       nonew = a->nonew,shift=0;
20887828ca2SBarry Smith   PetscScalar    *ap;
2094ee7247eSSatish Balay 
2103a40ed3dSBarry Smith   PetscFunctionBegin;
2118a729477SBarry Smith   for (i=0; i<m; i++) {
2125ef9f2a5SBarry Smith     if (im[i] < 0) continue;
213aa482453SBarry Smith #if defined(PETSC_USE_BOPT_g)
21477431f27SBarry Smith     if (im[i] >= mat->M) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",im[i],mat->M-1);
2150a198c4cSBarry Smith #endif
2164b0e389bSBarry Smith     if (im[i] >= rstart && im[i] < rend) {
2174b0e389bSBarry Smith       row = im[i] - rstart;
2181eb62cbbSBarry Smith       for (j=0; j<n; j++) {
2194b0e389bSBarry Smith         if (in[j] >= cstart && in[j] < cend){
2204b0e389bSBarry Smith           col = in[j] - cstart;
2214b0e389bSBarry Smith           if (roworiented) value = v[i*n+j]; else value = v[i+j*m];
2225b8514ebSBarry Smith           if (ignorezeroentries && value == 0.0) continue;
22330770e4dSSatish Balay           MatSetValues_SeqAIJ_A_Private(row,col,value,addv);
2240520107fSSatish Balay           /* ierr = MatSetValues_SeqAIJ(aij->A,1,&row,1,&col,&value,addv);CHKERRQ(ierr); */
225273d9f13SBarry Smith         } else if (in[j] < 0) continue;
226aa482453SBarry Smith #if defined(PETSC_USE_BOPT_g)
22777431f27SBarry Smith         else if (in[j] >= mat->N) {SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",in[j],mat->N-1);}
2280a198c4cSBarry Smith #endif
2291eb62cbbSBarry Smith         else {
230227d817aSBarry Smith           if (mat->was_assembled) {
231905e6a2fSBarry Smith             if (!aij->colmap) {
232905e6a2fSBarry Smith               ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr);
233905e6a2fSBarry Smith             }
234aa482453SBarry Smith #if defined (PETSC_USE_CTABLE)
2350f5bd95cSBarry Smith             ierr = PetscTableFind(aij->colmap,in[j]+1,&col);CHKERRQ(ierr);
236fa46199cSSatish Balay 	    col--;
237b1fc9764SSatish Balay #else
238905e6a2fSBarry Smith             col = aij->colmap[in[j]] - 1;
239b1fc9764SSatish Balay #endif
240ec8511deSBarry Smith             if (col < 0 && !((Mat_SeqAIJ*)(aij->A->data))->nonew) {
2412493cbb0SBarry Smith               ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr);
2424b0e389bSBarry Smith               col =  in[j];
2439bf004c3SSatish Balay               /* Reinitialize the variables required by MatSetValues_SeqAIJ_B_Private() */
244f9508a3cSSatish Balay               B = aij->B;
245f9508a3cSSatish Balay               b = (Mat_SeqAIJ*)B->data;
246f9508a3cSSatish Balay               bimax = b->imax; bi = b->i; bilen = b->ilen; bj = b->j;
247f9508a3cSSatish Balay               ba = b->a;
248d6dfbf8fSBarry Smith             }
249c48de900SBarry Smith           } else col = in[j];
2504b0e389bSBarry Smith           if (roworiented) value = v[i*n+j]; else value = v[i+j*m];
2515b8514ebSBarry Smith           if (ignorezeroentries && value == 0.0) continue;
25230770e4dSSatish Balay           MatSetValues_SeqAIJ_B_Private(row,col,value,addv);
25330770e4dSSatish Balay           /* ierr = MatSetValues_SeqAIJ(aij->B,1,&row,1,&col,&value,addv);CHKERRQ(ierr); */
2541eb62cbbSBarry Smith         }
2551eb62cbbSBarry Smith       }
2565ef9f2a5SBarry Smith     } else {
25790f02eecSBarry Smith       if (!aij->donotstash) {
258d36fbae8SSatish Balay         if (roworiented) {
2595b8514ebSBarry Smith           if (ignorezeroentries && v[i*n] == 0.0) continue;
2608798bf22SSatish Balay           ierr = MatStashValuesRow_Private(&mat->stash,im[i],n,in,v+i*n);CHKERRQ(ierr);
261d36fbae8SSatish Balay         } else {
2625b8514ebSBarry Smith           if (ignorezeroentries && v[i] == 0.0) continue;
2638798bf22SSatish Balay           ierr = MatStashValuesCol_Private(&mat->stash,im[i],n,in,v+i,m);CHKERRQ(ierr);
2644b0e389bSBarry Smith         }
2651eb62cbbSBarry Smith       }
2668a729477SBarry Smith     }
26790f02eecSBarry Smith   }
2683a40ed3dSBarry Smith   PetscFunctionReturn(0);
2698a729477SBarry Smith }
2708a729477SBarry Smith 
2714a2ae208SSatish Balay #undef __FUNCT__
2724a2ae208SSatish Balay #define __FUNCT__ "MatGetValues_MPIAIJ"
273b1d57f15SBarry Smith PetscErrorCode MatGetValues_MPIAIJ(Mat mat,PetscInt m,const PetscInt idxm[],PetscInt n,const PetscInt idxn[],PetscScalar v[])
274b49de8d1SLois Curfman McInnes {
275b49de8d1SLois Curfman McInnes   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
276dfbe8321SBarry Smith   PetscErrorCode ierr;
277b1d57f15SBarry Smith   PetscInt       i,j,rstart = aij->rstart,rend = aij->rend;
278b1d57f15SBarry Smith   PetscInt       cstart = aij->cstart,cend = aij->cend,row,col;
279b49de8d1SLois Curfman McInnes 
2803a40ed3dSBarry Smith   PetscFunctionBegin;
281b49de8d1SLois Curfman McInnes   for (i=0; i<m; i++) {
28277431f27SBarry Smith     if (idxm[i] < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative row: %D",idxm[i]);
28377431f27SBarry Smith     if (idxm[i] >= mat->M) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Row too large: row %D max %D",idxm[i],mat->M-1);
284b49de8d1SLois Curfman McInnes     if (idxm[i] >= rstart && idxm[i] < rend) {
285b49de8d1SLois Curfman McInnes       row = idxm[i] - rstart;
286b49de8d1SLois Curfman McInnes       for (j=0; j<n; j++) {
28777431f27SBarry Smith         if (idxn[j] < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"Negative column: %D",idxn[j]);
28877431f27SBarry Smith         if (idxn[j] >= mat->N) SETERRQ2(PETSC_ERR_ARG_OUTOFRANGE,"Column too large: col %D max %D",idxn[j],mat->N-1);
289b49de8d1SLois Curfman McInnes         if (idxn[j] >= cstart && idxn[j] < cend){
290b49de8d1SLois Curfman McInnes           col = idxn[j] - cstart;
291b49de8d1SLois Curfman McInnes           ierr = MatGetValues(aij->A,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr);
292fa852ad4SSatish Balay         } else {
293905e6a2fSBarry Smith           if (!aij->colmap) {
294905e6a2fSBarry Smith             ierr = CreateColmap_MPIAIJ_Private(mat);CHKERRQ(ierr);
295905e6a2fSBarry Smith           }
296aa482453SBarry Smith #if defined (PETSC_USE_CTABLE)
2970f5bd95cSBarry Smith           ierr = PetscTableFind(aij->colmap,idxn[j]+1,&col);CHKERRQ(ierr);
298fa46199cSSatish Balay           col --;
299b1fc9764SSatish Balay #else
300905e6a2fSBarry Smith           col = aij->colmap[idxn[j]] - 1;
301b1fc9764SSatish Balay #endif
302e60e1c95SSatish Balay           if ((col < 0) || (aij->garray[col] != idxn[j])) *(v+i*n+j) = 0.0;
303d9d09a02SSatish Balay           else {
304b49de8d1SLois Curfman McInnes             ierr = MatGetValues(aij->B,1,&row,1,&col,v+i*n+j);CHKERRQ(ierr);
305b49de8d1SLois Curfman McInnes           }
306b49de8d1SLois Curfman McInnes         }
307b49de8d1SLois Curfman McInnes       }
308a8c6a408SBarry Smith     } else {
30929bbc08cSBarry Smith       SETERRQ(PETSC_ERR_SUP,"Only local values currently supported");
310b49de8d1SLois Curfman McInnes     }
311b49de8d1SLois Curfman McInnes   }
3123a40ed3dSBarry Smith   PetscFunctionReturn(0);
313b49de8d1SLois Curfman McInnes }
314bc5ccf88SSatish Balay 
3154a2ae208SSatish Balay #undef __FUNCT__
3164a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyBegin_MPIAIJ"
317dfbe8321SBarry Smith PetscErrorCode MatAssemblyBegin_MPIAIJ(Mat mat,MatAssemblyType mode)
318bc5ccf88SSatish Balay {
319bc5ccf88SSatish Balay   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
320dfbe8321SBarry Smith   PetscErrorCode ierr;
321b1d57f15SBarry Smith   PetscInt       nstash,reallocs;
322bc5ccf88SSatish Balay   InsertMode     addv;
323bc5ccf88SSatish Balay 
324bc5ccf88SSatish Balay   PetscFunctionBegin;
325bc5ccf88SSatish Balay   if (aij->donotstash) {
326bc5ccf88SSatish Balay     PetscFunctionReturn(0);
327bc5ccf88SSatish Balay   }
328bc5ccf88SSatish Balay 
329bc5ccf88SSatish Balay   /* make sure all processors are either in INSERTMODE or ADDMODE */
330bc5ccf88SSatish Balay   ierr = MPI_Allreduce(&mat->insertmode,&addv,1,MPI_INT,MPI_BOR,mat->comm);CHKERRQ(ierr);
331bc5ccf88SSatish Balay   if (addv == (ADD_VALUES|INSERT_VALUES)) {
33229bbc08cSBarry Smith     SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Some processors inserted others added");
333bc5ccf88SSatish Balay   }
334bc5ccf88SSatish Balay   mat->insertmode = addv; /* in case this processor had no cache */
335bc5ccf88SSatish Balay 
3368798bf22SSatish Balay   ierr = MatStashScatterBegin_Private(&mat->stash,aij->rowners);CHKERRQ(ierr);
3378798bf22SSatish Balay   ierr = MatStashGetInfo_Private(&mat->stash,&nstash,&reallocs);CHKERRQ(ierr);
33877431f27SBarry Smith   PetscLogInfo(aij->A,"MatAssemblyBegin_MPIAIJ:Stash has %D entries, uses %D mallocs.\n",nstash,reallocs);
339bc5ccf88SSatish Balay   PetscFunctionReturn(0);
340bc5ccf88SSatish Balay }
341bc5ccf88SSatish Balay 
342bc5ccf88SSatish Balay 
3434a2ae208SSatish Balay #undef __FUNCT__
3444a2ae208SSatish Balay #define __FUNCT__ "MatAssemblyEnd_MPIAIJ"
345dfbe8321SBarry Smith PetscErrorCode MatAssemblyEnd_MPIAIJ(Mat mat,MatAssemblyType mode)
346bc5ccf88SSatish Balay {
347bc5ccf88SSatish Balay   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
34824f910e3SHong Zhang   Mat_SeqAIJ     *a=(Mat_SeqAIJ *)aij->A->data,*b= (Mat_SeqAIJ *)aij->B->data;
3496849ba73SBarry Smith   PetscErrorCode ierr;
350b1d57f15SBarry Smith   PetscMPIInt    n;
351b1d57f15SBarry Smith   PetscInt       i,j,rstart,ncols,flg;
352b1d57f15SBarry Smith   PetscInt       *row,*col,other_disassembled;
35387828ca2SBarry Smith   PetscScalar    *val;
354bc5ccf88SSatish Balay   InsertMode     addv = mat->insertmode;
355bc5ccf88SSatish Balay 
356bc5ccf88SSatish Balay   PetscFunctionBegin;
357bc5ccf88SSatish Balay   if (!aij->donotstash) {
358a2d1c673SSatish Balay     while (1) {
3598798bf22SSatish Balay       ierr = MatStashScatterGetMesg_Private(&mat->stash,&n,&row,&col,&val,&flg);CHKERRQ(ierr);
360a2d1c673SSatish Balay       if (!flg) break;
361a2d1c673SSatish Balay 
362bc5ccf88SSatish Balay       for (i=0; i<n;) {
363bc5ccf88SSatish Balay         /* Now identify the consecutive vals belonging to the same row */
364bc5ccf88SSatish Balay         for (j=i,rstart=row[j]; j<n; j++) { if (row[j] != rstart) break; }
365bc5ccf88SSatish Balay         if (j < n) ncols = j-i;
366bc5ccf88SSatish Balay         else       ncols = n-i;
367bc5ccf88SSatish Balay         /* Now assemble all these values with a single function call */
368bc5ccf88SSatish Balay         ierr = MatSetValues_MPIAIJ(mat,1,row+i,ncols,col+i,val+i,addv);CHKERRQ(ierr);
369bc5ccf88SSatish Balay         i = j;
370bc5ccf88SSatish Balay       }
371bc5ccf88SSatish Balay     }
3728798bf22SSatish Balay     ierr = MatStashScatterEnd_Private(&mat->stash);CHKERRQ(ierr);
373bc5ccf88SSatish Balay   }
374bc5ccf88SSatish Balay 
375*46f35f0bSHong Zhang   a->compressedrow.use = PETSC_FALSE;
376bc5ccf88SSatish Balay   ierr = MatAssemblyBegin(aij->A,mode);CHKERRQ(ierr);
377bc5ccf88SSatish Balay   ierr = MatAssemblyEnd(aij->A,mode);CHKERRQ(ierr);
378bc5ccf88SSatish Balay 
379bc5ccf88SSatish Balay   /* determine if any processor has disassembled, if so we must
380bc5ccf88SSatish Balay      also disassemble ourselfs, in order that we may reassemble. */
381bc5ccf88SSatish Balay   /*
382bc5ccf88SSatish Balay      if nonzero structure of submatrix B cannot change then we know that
383bc5ccf88SSatish Balay      no processor disassembled thus we can skip this stuff
384bc5ccf88SSatish Balay   */
385bc5ccf88SSatish Balay   if (!((Mat_SeqAIJ*)aij->B->data)->nonew)  {
386bc5ccf88SSatish Balay     ierr = MPI_Allreduce(&mat->was_assembled,&other_disassembled,1,MPI_INT,MPI_PROD,mat->comm);CHKERRQ(ierr);
387bc5ccf88SSatish Balay     if (mat->was_assembled && !other_disassembled) {
388bc5ccf88SSatish Balay       ierr = DisAssemble_MPIAIJ(mat);CHKERRQ(ierr);
389f8a12787SBarry Smith       /* reaccess the b because aij->B was changed */
390f8a12787SBarry Smith       b    = (Mat_SeqAIJ *)aij->B->data;
391bc5ccf88SSatish Balay     }
392bc5ccf88SSatish Balay   }
393bc5ccf88SSatish Balay 
394bc5ccf88SSatish Balay   if (!mat->was_assembled && mode == MAT_FINAL_ASSEMBLY) {
395bc5ccf88SSatish Balay     ierr = MatSetUpMultiply_MPIAIJ(mat);CHKERRQ(ierr);
396bc5ccf88SSatish Balay   }
397*46f35f0bSHong Zhang   b->compressedrow.use = PETSC_TRUE;
398bc5ccf88SSatish Balay   ierr = MatAssemblyBegin(aij->B,mode);CHKERRQ(ierr);
399bc5ccf88SSatish Balay   ierr = MatAssemblyEnd(aij->B,mode);CHKERRQ(ierr);
400bc5ccf88SSatish Balay 
401606d414cSSatish Balay   if (aij->rowvalues) {
402606d414cSSatish Balay     ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr);
403606d414cSSatish Balay     aij->rowvalues = 0;
404606d414cSSatish Balay   }
405a30b2313SHong Zhang 
406a30b2313SHong Zhang   /* used by MatAXPY() */
407a30b2313SHong Zhang   a->xtoy = 0; b->xtoy = 0;
408a30b2313SHong Zhang   a->XtoY = 0; b->XtoY = 0;
409a30b2313SHong Zhang 
410bc5ccf88SSatish Balay   PetscFunctionReturn(0);
411bc5ccf88SSatish Balay }
412bc5ccf88SSatish Balay 
4134a2ae208SSatish Balay #undef __FUNCT__
4144a2ae208SSatish Balay #define __FUNCT__ "MatZeroEntries_MPIAIJ"
415dfbe8321SBarry Smith PetscErrorCode MatZeroEntries_MPIAIJ(Mat A)
4161eb62cbbSBarry Smith {
41744a69424SLois Curfman McInnes   Mat_MPIAIJ     *l = (Mat_MPIAIJ*)A->data;
418dfbe8321SBarry Smith   PetscErrorCode ierr;
4193a40ed3dSBarry Smith 
4203a40ed3dSBarry Smith   PetscFunctionBegin;
42178b31e54SBarry Smith   ierr = MatZeroEntries(l->A);CHKERRQ(ierr);
42278b31e54SBarry Smith   ierr = MatZeroEntries(l->B);CHKERRQ(ierr);
4233a40ed3dSBarry Smith   PetscFunctionReturn(0);
4241eb62cbbSBarry Smith }
4251eb62cbbSBarry Smith 
4264a2ae208SSatish Balay #undef __FUNCT__
4274a2ae208SSatish Balay #define __FUNCT__ "MatZeroRows_MPIAIJ"
428dfbe8321SBarry Smith PetscErrorCode MatZeroRows_MPIAIJ(Mat A,IS is,const PetscScalar *diag)
4291eb62cbbSBarry Smith {
43044a69424SLois Curfman McInnes   Mat_MPIAIJ     *l = (Mat_MPIAIJ*)A->data;
4316849ba73SBarry Smith   PetscErrorCode ierr;
432b1d57f15SBarry Smith   PetscMPIInt    size = l->size,imdex,n,rank = l->rank,tag = A->tag;
433b1d57f15SBarry Smith   PetscInt       i,N,*rows,*owners = l->rowners;
434b1d57f15SBarry Smith   PetscInt       *nprocs,j,idx,nsends,row;
435b1d57f15SBarry Smith   PetscInt       nmax,*svalues,*starts,*owner,nrecvs;
436b1d57f15SBarry Smith   PetscInt       *rvalues,count,base,slen,*source;
437b1d57f15SBarry Smith   PetscInt       *lens,*lrows,*values,rstart=l->rstart;
438d6dfbf8fSBarry Smith   MPI_Comm       comm = A->comm;
4391eb62cbbSBarry Smith   MPI_Request    *send_waits,*recv_waits;
4401eb62cbbSBarry Smith   MPI_Status     recv_status,*send_status;
4411eb62cbbSBarry Smith   IS             istmp;
44235d8aa7fSBarry Smith   PetscTruth     found;
4431eb62cbbSBarry Smith 
4443a40ed3dSBarry Smith   PetscFunctionBegin;
445e03a110bSBarry Smith   ierr = ISGetLocalSize(is,&N);CHKERRQ(ierr);
44678b31e54SBarry Smith   ierr = ISGetIndices(is,&rows);CHKERRQ(ierr);
4471eb62cbbSBarry Smith 
4481eb62cbbSBarry Smith   /*  first count number of contributors to each processor */
449b1d57f15SBarry Smith   ierr = PetscMalloc(2*size*sizeof(PetscInt),&nprocs);CHKERRQ(ierr);
450b1d57f15SBarry Smith   ierr   = PetscMemzero(nprocs,2*size*sizeof(PetscInt));CHKERRQ(ierr);
451b1d57f15SBarry Smith   ierr = PetscMalloc((N+1)*sizeof(PetscInt),&owner);CHKERRQ(ierr); /* see note*/
4521eb62cbbSBarry Smith   for (i=0; i<N; i++) {
4531eb62cbbSBarry Smith     idx = rows[i];
45435d8aa7fSBarry Smith     found = PETSC_FALSE;
45517699dbbSLois Curfman McInnes     for (j=0; j<size; j++) {
4561eb62cbbSBarry Smith       if (idx >= owners[j] && idx < owners[j+1]) {
457c1dc657dSBarry Smith         nprocs[2*j]++; nprocs[2*j+1] = 1; owner[i] = j; found = PETSC_TRUE; break;
4581eb62cbbSBarry Smith       }
4591eb62cbbSBarry Smith     }
46029bbc08cSBarry Smith     if (!found) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Index out of range");
4611eb62cbbSBarry Smith   }
462c1dc657dSBarry Smith   nsends = 0;  for (i=0; i<size; i++) { nsends += nprocs[2*i+1];}
4631eb62cbbSBarry Smith 
4641eb62cbbSBarry Smith   /* inform other processors of number of messages and max length*/
465c1dc657dSBarry Smith   ierr = PetscMaxSum(comm,nprocs,&nmax,&nrecvs);CHKERRQ(ierr);
4661eb62cbbSBarry Smith 
4671eb62cbbSBarry Smith   /* post receives:   */
468b1d57f15SBarry Smith   ierr = PetscMalloc((nrecvs+1)*(nmax+1)*sizeof(PetscInt),&rvalues);CHKERRQ(ierr);
469b0a32e0cSBarry Smith   ierr = PetscMalloc((nrecvs+1)*sizeof(MPI_Request),&recv_waits);CHKERRQ(ierr);
4701eb62cbbSBarry Smith   for (i=0; i<nrecvs; i++) {
471b1d57f15SBarry Smith     ierr = MPI_Irecv(rvalues+nmax*i,nmax,MPIU_INT,MPI_ANY_SOURCE,tag,comm,recv_waits+i);CHKERRQ(ierr);
4721eb62cbbSBarry Smith   }
4731eb62cbbSBarry Smith 
4741eb62cbbSBarry Smith   /* do sends:
4751eb62cbbSBarry Smith       1) starts[i] gives the starting index in svalues for stuff going to
4761eb62cbbSBarry Smith          the ith processor
4771eb62cbbSBarry Smith   */
478b1d57f15SBarry Smith   ierr = PetscMalloc((N+1)*sizeof(PetscInt),&svalues);CHKERRQ(ierr);
479b0a32e0cSBarry Smith   ierr = PetscMalloc((nsends+1)*sizeof(MPI_Request),&send_waits);CHKERRQ(ierr);
480b1d57f15SBarry Smith   ierr = PetscMalloc((size+1)*sizeof(PetscInt),&starts);CHKERRQ(ierr);
4811eb62cbbSBarry Smith   starts[0] = 0;
482c1dc657dSBarry Smith   for (i=1; i<size; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];}
4831eb62cbbSBarry Smith   for (i=0; i<N; i++) {
4841eb62cbbSBarry Smith     svalues[starts[owner[i]]++] = rows[i];
4851eb62cbbSBarry Smith   }
4866831982aSBarry Smith   ierr = ISRestoreIndices(is,&rows);CHKERRQ(ierr);
4871eb62cbbSBarry Smith 
4881eb62cbbSBarry Smith   starts[0] = 0;
489c1dc657dSBarry Smith   for (i=1; i<size+1; i++) { starts[i] = starts[i-1] + nprocs[2*i-2];}
4901eb62cbbSBarry Smith   count = 0;
49117699dbbSLois Curfman McInnes   for (i=0; i<size; i++) {
492c1dc657dSBarry Smith     if (nprocs[2*i+1]) {
493b1d57f15SBarry Smith       ierr = MPI_Isend(svalues+starts[i],nprocs[2*i],MPIU_INT,i,tag,comm,send_waits+count++);CHKERRQ(ierr);
4941eb62cbbSBarry Smith     }
4951eb62cbbSBarry Smith   }
496606d414cSSatish Balay   ierr = PetscFree(starts);CHKERRQ(ierr);
4971eb62cbbSBarry Smith 
49817699dbbSLois Curfman McInnes   base = owners[rank];
4991eb62cbbSBarry Smith 
5001eb62cbbSBarry Smith   /*  wait on receives */
501b1d57f15SBarry Smith   ierr   = PetscMalloc(2*(nrecvs+1)*sizeof(PetscInt),&lens);CHKERRQ(ierr);
5021eb62cbbSBarry Smith   source = lens + nrecvs;
5031eb62cbbSBarry Smith   count  = nrecvs; slen = 0;
5041eb62cbbSBarry Smith   while (count) {
505ca161407SBarry Smith     ierr = MPI_Waitany(nrecvs,recv_waits,&imdex,&recv_status);CHKERRQ(ierr);
5061eb62cbbSBarry Smith     /* unpack receives into our local space */
507b1d57f15SBarry Smith     ierr = MPI_Get_count(&recv_status,MPIU_INT,&n);CHKERRQ(ierr);
508d6dfbf8fSBarry Smith     source[imdex]  = recv_status.MPI_SOURCE;
509d6dfbf8fSBarry Smith     lens[imdex]    = n;
5101eb62cbbSBarry Smith     slen          += n;
5111eb62cbbSBarry Smith     count--;
5121eb62cbbSBarry Smith   }
513606d414cSSatish Balay   ierr = PetscFree(recv_waits);CHKERRQ(ierr);
5141eb62cbbSBarry Smith 
5151eb62cbbSBarry Smith   /* move the data into the send scatter */
516b1d57f15SBarry Smith   ierr = PetscMalloc((slen+1)*sizeof(PetscInt),&lrows);CHKERRQ(ierr);
5171eb62cbbSBarry Smith   count = 0;
5181eb62cbbSBarry Smith   for (i=0; i<nrecvs; i++) {
5191eb62cbbSBarry Smith     values = rvalues + i*nmax;
5201eb62cbbSBarry Smith     for (j=0; j<lens[i]; j++) {
5211eb62cbbSBarry Smith       lrows[count++] = values[j] - base;
5221eb62cbbSBarry Smith     }
5231eb62cbbSBarry Smith   }
524606d414cSSatish Balay   ierr = PetscFree(rvalues);CHKERRQ(ierr);
525606d414cSSatish Balay   ierr = PetscFree(lens);CHKERRQ(ierr);
526606d414cSSatish Balay   ierr = PetscFree(owner);CHKERRQ(ierr);
527606d414cSSatish Balay   ierr = PetscFree(nprocs);CHKERRQ(ierr);
5281eb62cbbSBarry Smith 
5291eb62cbbSBarry Smith   /* actually zap the local rows */
530029af93fSBarry Smith   ierr = ISCreateGeneral(PETSC_COMM_SELF,slen,lrows,&istmp);CHKERRQ(ierr);
531b0a32e0cSBarry Smith   PetscLogObjectParent(A,istmp);
5326a5c57faSSatish Balay 
5336eb55b6aSBarry Smith   /*
5346eb55b6aSBarry Smith         Zero the required rows. If the "diagonal block" of the matrix
5356eb55b6aSBarry Smith      is square and the user wishes to set the diagonal we use seperate
5366eb55b6aSBarry Smith      code so that MatSetValues() is not called for each diagonal allocating
5376eb55b6aSBarry Smith      new memory, thus calling lots of mallocs and slowing things down.
5386eb55b6aSBarry Smith 
5396eb55b6aSBarry Smith        Contributed by: Mathew Knepley
5406eb55b6aSBarry Smith   */
541e2d53e46SBarry Smith   /* must zero l->B before l->A because the (diag) case below may put values into l->B*/
542e2d53e46SBarry Smith   ierr = MatZeroRows(l->B,istmp,0);CHKERRQ(ierr);
5436eb55b6aSBarry Smith   if (diag && (l->A->M == l->A->N)) {
5446eb55b6aSBarry Smith     ierr      = MatZeroRows(l->A,istmp,diag);CHKERRQ(ierr);
545e2d53e46SBarry Smith   } else if (diag) {
546e2d53e46SBarry Smith     ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr);
547fa46199cSSatish Balay     if (((Mat_SeqAIJ*)l->A->data)->nonew) {
54829bbc08cSBarry Smith       SETERRQ(PETSC_ERR_SUP,"MatZeroRows() on rectangular matrices cannot be used with the Mat options\n\
549fa46199cSSatish Balay MAT_NO_NEW_NONZERO_LOCATIONS,MAT_NEW_NONZERO_LOCATION_ERR,MAT_NEW_NONZERO_ALLOCATION_ERR");
5506525c446SSatish Balay     }
551e2d53e46SBarry Smith     for (i = 0; i < slen; i++) {
552e2d53e46SBarry Smith       row  = lrows[i] + rstart;
553e2d53e46SBarry Smith       ierr = MatSetValues(A,1,&row,1,&row,diag,INSERT_VALUES);CHKERRQ(ierr);
554e2d53e46SBarry Smith     }
555e2d53e46SBarry Smith     ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
556e2d53e46SBarry Smith     ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
5576eb55b6aSBarry Smith   } else {
5586a5c57faSSatish Balay     ierr = MatZeroRows(l->A,istmp,0);CHKERRQ(ierr);
5596eb55b6aSBarry Smith   }
56078b31e54SBarry Smith   ierr = ISDestroy(istmp);CHKERRQ(ierr);
561606d414cSSatish Balay   ierr = PetscFree(lrows);CHKERRQ(ierr);
56272dacd9aSBarry Smith 
5631eb62cbbSBarry Smith   /* wait on sends */
5641eb62cbbSBarry Smith   if (nsends) {
565b0a32e0cSBarry Smith     ierr = PetscMalloc(nsends*sizeof(MPI_Status),&send_status);CHKERRQ(ierr);
566ca161407SBarry Smith     ierr = MPI_Waitall(nsends,send_waits,send_status);CHKERRQ(ierr);
567606d414cSSatish Balay     ierr = PetscFree(send_status);CHKERRQ(ierr);
5681eb62cbbSBarry Smith   }
569606d414cSSatish Balay   ierr = PetscFree(send_waits);CHKERRQ(ierr);
570606d414cSSatish Balay   ierr = PetscFree(svalues);CHKERRQ(ierr);
5711eb62cbbSBarry Smith 
5723a40ed3dSBarry Smith   PetscFunctionReturn(0);
5731eb62cbbSBarry Smith }
5741eb62cbbSBarry Smith 
5754a2ae208SSatish Balay #undef __FUNCT__
5764a2ae208SSatish Balay #define __FUNCT__ "MatMult_MPIAIJ"
577dfbe8321SBarry Smith PetscErrorCode MatMult_MPIAIJ(Mat A,Vec xx,Vec yy)
5781eb62cbbSBarry Smith {
579416022c9SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
580dfbe8321SBarry Smith   PetscErrorCode ierr;
581b1d57f15SBarry Smith   PetscInt       nt;
582416022c9SBarry Smith 
5833a40ed3dSBarry Smith   PetscFunctionBegin;
584a2ce50c7SBarry Smith   ierr = VecGetLocalSize(xx,&nt);CHKERRQ(ierr);
585273d9f13SBarry Smith   if (nt != A->n) {
58677431f27SBarry Smith     SETERRQ2(PETSC_ERR_ARG_SIZ,"Incompatible partition of A (%D) and xx (%D)",A->n,nt);
587fbd6ef76SBarry Smith   }
58843a90d84SBarry Smith   ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr);
589f830108cSBarry Smith   ierr = (*a->A->ops->mult)(a->A,xx,yy);CHKERRQ(ierr);
59043a90d84SBarry Smith   ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr);
591f830108cSBarry Smith   ierr = (*a->B->ops->multadd)(a->B,a->lvec,yy,yy);CHKERRQ(ierr);
5923a40ed3dSBarry Smith   PetscFunctionReturn(0);
5931eb62cbbSBarry Smith }
5941eb62cbbSBarry Smith 
5954a2ae208SSatish Balay #undef __FUNCT__
5964a2ae208SSatish Balay #define __FUNCT__ "MatMultAdd_MPIAIJ"
597dfbe8321SBarry Smith PetscErrorCode MatMultAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz)
598da3a660dSBarry Smith {
599416022c9SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
600dfbe8321SBarry Smith   PetscErrorCode ierr;
6013a40ed3dSBarry Smith 
6023a40ed3dSBarry Smith   PetscFunctionBegin;
60343a90d84SBarry Smith   ierr = VecScatterBegin(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr);
604f830108cSBarry Smith   ierr = (*a->A->ops->multadd)(a->A,xx,yy,zz);CHKERRQ(ierr);
60543a90d84SBarry Smith   ierr = VecScatterEnd(xx,a->lvec,INSERT_VALUES,SCATTER_FORWARD,a->Mvctx);CHKERRQ(ierr);
606f830108cSBarry Smith   ierr = (*a->B->ops->multadd)(a->B,a->lvec,zz,zz);CHKERRQ(ierr);
6073a40ed3dSBarry Smith   PetscFunctionReturn(0);
608da3a660dSBarry Smith }
609da3a660dSBarry Smith 
6104a2ae208SSatish Balay #undef __FUNCT__
6114a2ae208SSatish Balay #define __FUNCT__ "MatMultTranspose_MPIAIJ"
612dfbe8321SBarry Smith PetscErrorCode MatMultTranspose_MPIAIJ(Mat A,Vec xx,Vec yy)
613da3a660dSBarry Smith {
614416022c9SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
615dfbe8321SBarry Smith   PetscErrorCode ierr;
616da3a660dSBarry Smith 
6173a40ed3dSBarry Smith   PetscFunctionBegin;
618da3a660dSBarry Smith   /* do nondiagonal part */
6197c922b88SBarry Smith   ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr);
620da3a660dSBarry Smith   /* send it on its way */
621537820f0SBarry Smith   ierr = VecScatterBegin(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr);
622da3a660dSBarry Smith   /* do local part */
6237c922b88SBarry Smith   ierr = (*a->A->ops->multtranspose)(a->A,xx,yy);CHKERRQ(ierr);
624da3a660dSBarry Smith   /* receive remote parts: note this assumes the values are not actually */
625da3a660dSBarry Smith   /* inserted in yy until the next line, which is true for my implementation*/
626da3a660dSBarry Smith   /* but is not perhaps always true. */
627537820f0SBarry Smith   ierr = VecScatterEnd(a->lvec,yy,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr);
6283a40ed3dSBarry Smith   PetscFunctionReturn(0);
629da3a660dSBarry Smith }
630da3a660dSBarry Smith 
631cd0d46ebSvictorle EXTERN_C_BEGIN
632cd0d46ebSvictorle #undef __FUNCT__
6335fbd3699SBarry Smith #define __FUNCT__ "MatIsTranspose_MPIAIJ"
634dfbe8321SBarry Smith PetscErrorCode MatIsTranspose_MPIAIJ(Mat Amat,Mat Bmat,PetscTruth tol,PetscTruth *f)
635cd0d46ebSvictorle {
6364f423910Svictorle   MPI_Comm       comm;
637cd0d46ebSvictorle   Mat_MPIAIJ     *Aij = (Mat_MPIAIJ *) Amat->data, *Bij;
63866501d38Svictorle   Mat            Adia = Aij->A, Bdia, Aoff,Boff,*Aoffs,*Boffs;
639cd0d46ebSvictorle   IS             Me,Notme;
6406849ba73SBarry Smith   PetscErrorCode ierr;
641b1d57f15SBarry Smith   PetscInt       M,N,first,last,*notme,i;
642b1d57f15SBarry Smith   PetscMPIInt    size;
643cd0d46ebSvictorle 
644cd0d46ebSvictorle   PetscFunctionBegin;
64542e5f5b4Svictorle 
64642e5f5b4Svictorle   /* Easy test: symmetric diagonal block */
64766501d38Svictorle   Bij = (Mat_MPIAIJ *) Bmat->data; Bdia = Bij->A;
6485485867bSBarry Smith   ierr = MatIsTranspose(Adia,Bdia,tol,f);CHKERRQ(ierr);
649cd0d46ebSvictorle   if (!*f) PetscFunctionReturn(0);
6504f423910Svictorle   ierr = PetscObjectGetComm((PetscObject)Amat,&comm);CHKERRQ(ierr);
651b1d57f15SBarry Smith   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
652b1d57f15SBarry Smith   if (size == 1) PetscFunctionReturn(0);
65342e5f5b4Svictorle 
65442e5f5b4Svictorle   /* Hard test: off-diagonal block. This takes a MatGetSubMatrix. */
655cd0d46ebSvictorle   ierr = MatGetSize(Amat,&M,&N);CHKERRQ(ierr);
656cd0d46ebSvictorle   ierr = MatGetOwnershipRange(Amat,&first,&last);CHKERRQ(ierr);
657b1d57f15SBarry Smith   ierr = PetscMalloc((N-last+first)*sizeof(PetscInt),&notme);CHKERRQ(ierr);
658cd0d46ebSvictorle   for (i=0; i<first; i++) notme[i] = i;
659cd0d46ebSvictorle   for (i=last; i<M; i++) notme[i-last+first] = i;
660268466fbSBarry Smith   ierr = ISCreateGeneral(MPI_COMM_SELF,N-last+first,notme,&Notme);CHKERRQ(ierr);
661268466fbSBarry Smith   ierr = ISCreateStride(MPI_COMM_SELF,last-first,first,1,&Me);CHKERRQ(ierr);
662268466fbSBarry Smith   ierr = MatGetSubMatrices(Amat,1,&Me,&Notme,MAT_INITIAL_MATRIX,&Aoffs);CHKERRQ(ierr);
66366501d38Svictorle   Aoff = Aoffs[0];
664268466fbSBarry Smith   ierr = MatGetSubMatrices(Bmat,1,&Notme,&Me,MAT_INITIAL_MATRIX,&Boffs);CHKERRQ(ierr);
66566501d38Svictorle   Boff = Boffs[0];
6665485867bSBarry Smith   ierr = MatIsTranspose(Aoff,Boff,tol,f);CHKERRQ(ierr);
66766501d38Svictorle   ierr = MatDestroyMatrices(1,&Aoffs);CHKERRQ(ierr);
66866501d38Svictorle   ierr = MatDestroyMatrices(1,&Boffs);CHKERRQ(ierr);
66942e5f5b4Svictorle   ierr = ISDestroy(Me);CHKERRQ(ierr);
67042e5f5b4Svictorle   ierr = ISDestroy(Notme);CHKERRQ(ierr);
67142e5f5b4Svictorle 
672cd0d46ebSvictorle   PetscFunctionReturn(0);
673cd0d46ebSvictorle }
674cd0d46ebSvictorle EXTERN_C_END
675cd0d46ebSvictorle 
6764a2ae208SSatish Balay #undef __FUNCT__
6774a2ae208SSatish Balay #define __FUNCT__ "MatMultTransposeAdd_MPIAIJ"
678dfbe8321SBarry Smith PetscErrorCode MatMultTransposeAdd_MPIAIJ(Mat A,Vec xx,Vec yy,Vec zz)
679da3a660dSBarry Smith {
680416022c9SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
681dfbe8321SBarry Smith   PetscErrorCode ierr;
682da3a660dSBarry Smith 
6833a40ed3dSBarry Smith   PetscFunctionBegin;
684da3a660dSBarry Smith   /* do nondiagonal part */
6857c922b88SBarry Smith   ierr = (*a->B->ops->multtranspose)(a->B,xx,a->lvec);CHKERRQ(ierr);
686da3a660dSBarry Smith   /* send it on its way */
687537820f0SBarry Smith   ierr = VecScatterBegin(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr);
688da3a660dSBarry Smith   /* do local part */
6897c922b88SBarry Smith   ierr = (*a->A->ops->multtransposeadd)(a->A,xx,yy,zz);CHKERRQ(ierr);
690da3a660dSBarry Smith   /* receive remote parts: note this assumes the values are not actually */
691da3a660dSBarry Smith   /* inserted in yy until the next line, which is true for my implementation*/
692da3a660dSBarry Smith   /* but is not perhaps always true. */
6930a198c4cSBarry Smith   ierr = VecScatterEnd(a->lvec,zz,ADD_VALUES,SCATTER_REVERSE,a->Mvctx);CHKERRQ(ierr);
6943a40ed3dSBarry Smith   PetscFunctionReturn(0);
695da3a660dSBarry Smith }
696da3a660dSBarry Smith 
6971eb62cbbSBarry Smith /*
6981eb62cbbSBarry Smith   This only works correctly for square matrices where the subblock A->A is the
6991eb62cbbSBarry Smith    diagonal block
7001eb62cbbSBarry Smith */
7014a2ae208SSatish Balay #undef __FUNCT__
7024a2ae208SSatish Balay #define __FUNCT__ "MatGetDiagonal_MPIAIJ"
703dfbe8321SBarry Smith PetscErrorCode MatGetDiagonal_MPIAIJ(Mat A,Vec v)
7041eb62cbbSBarry Smith {
705dfbe8321SBarry Smith   PetscErrorCode ierr;
706416022c9SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
7073a40ed3dSBarry Smith 
7083a40ed3dSBarry Smith   PetscFunctionBegin;
709273d9f13SBarry Smith   if (A->M != A->N) SETERRQ(PETSC_ERR_SUP,"Supports only square matrix where A->A is diag block");
7105baf8537SBarry Smith   if (a->rstart != a->cstart || a->rend != a->cend) {
71129bbc08cSBarry Smith     SETERRQ(PETSC_ERR_ARG_SIZ,"row partition must equal col partition");
7123a40ed3dSBarry Smith   }
7133a40ed3dSBarry Smith   ierr = MatGetDiagonal(a->A,v);CHKERRQ(ierr);
7143a40ed3dSBarry Smith   PetscFunctionReturn(0);
7151eb62cbbSBarry Smith }
7161eb62cbbSBarry Smith 
7174a2ae208SSatish Balay #undef __FUNCT__
7184a2ae208SSatish Balay #define __FUNCT__ "MatScale_MPIAIJ"
719dfbe8321SBarry Smith PetscErrorCode MatScale_MPIAIJ(const PetscScalar aa[],Mat A)
720052efed2SBarry Smith {
721052efed2SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
722dfbe8321SBarry Smith   PetscErrorCode ierr;
7233a40ed3dSBarry Smith 
7243a40ed3dSBarry Smith   PetscFunctionBegin;
725052efed2SBarry Smith   ierr = MatScale(aa,a->A);CHKERRQ(ierr);
726052efed2SBarry Smith   ierr = MatScale(aa,a->B);CHKERRQ(ierr);
7273a40ed3dSBarry Smith   PetscFunctionReturn(0);
728052efed2SBarry Smith }
729052efed2SBarry Smith 
7304a2ae208SSatish Balay #undef __FUNCT__
7314a2ae208SSatish Balay #define __FUNCT__ "MatDestroy_MPIAIJ"
732dfbe8321SBarry Smith PetscErrorCode MatDestroy_MPIAIJ(Mat mat)
7331eb62cbbSBarry Smith {
73444a69424SLois Curfman McInnes   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
735dfbe8321SBarry Smith   PetscErrorCode ierr;
73683e2fdc7SBarry Smith 
7373a40ed3dSBarry Smith   PetscFunctionBegin;
738aa482453SBarry Smith #if defined(PETSC_USE_LOG)
73977431f27SBarry Smith   PetscLogObjectState((PetscObject)mat,"Rows=%D, Cols=%D",mat->M,mat->N);
740a5a9c739SBarry Smith #endif
7418798bf22SSatish Balay   ierr = MatStashDestroy_Private(&mat->stash);CHKERRQ(ierr);
742606d414cSSatish Balay   ierr = PetscFree(aij->rowners);CHKERRQ(ierr);
74378b31e54SBarry Smith   ierr = MatDestroy(aij->A);CHKERRQ(ierr);
74478b31e54SBarry Smith   ierr = MatDestroy(aij->B);CHKERRQ(ierr);
745aa482453SBarry Smith #if defined (PETSC_USE_CTABLE)
7460f5bd95cSBarry Smith   if (aij->colmap) {ierr = PetscTableDelete(aij->colmap);CHKERRQ(ierr);}
747b1fc9764SSatish Balay #else
748606d414cSSatish Balay   if (aij->colmap) {ierr = PetscFree(aij->colmap);CHKERRQ(ierr);}
749b1fc9764SSatish Balay #endif
750606d414cSSatish Balay   if (aij->garray) {ierr = PetscFree(aij->garray);CHKERRQ(ierr);}
7517c922b88SBarry Smith   if (aij->lvec)   {ierr = VecDestroy(aij->lvec);CHKERRQ(ierr);}
7527c922b88SBarry Smith   if (aij->Mvctx)  {ierr = VecScatterDestroy(aij->Mvctx);CHKERRQ(ierr);}
753606d414cSSatish Balay   if (aij->rowvalues) {ierr = PetscFree(aij->rowvalues);CHKERRQ(ierr);}
754606d414cSSatish Balay   ierr = PetscFree(aij);CHKERRQ(ierr);
755901853e0SKris Buschelman 
756901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatStoreValues_C","",PETSC_NULL);CHKERRQ(ierr);
757901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatRetrieveValues_C","",PETSC_NULL);CHKERRQ(ierr);
758901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatGetDiagonalBlock_C","",PETSC_NULL);CHKERRQ(ierr);
759901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatIsTranspose_C","",PETSC_NULL);CHKERRQ(ierr);
760901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocation_C","",PETSC_NULL);CHKERRQ(ierr);
761ff69c46cSKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatMPIAIJSetPreallocationCSR_C","",PETSC_NULL);CHKERRQ(ierr);
762901853e0SKris Buschelman   ierr = PetscObjectComposeFunction((PetscObject)mat,"MatDiagonalScaleLocal_C","",PETSC_NULL);CHKERRQ(ierr);
7633a40ed3dSBarry Smith   PetscFunctionReturn(0);
7641eb62cbbSBarry Smith }
765ee50ffe9SBarry Smith 
7664a2ae208SSatish Balay #undef __FUNCT__
7678e2fed03SBarry Smith #define __FUNCT__ "MatView_MPIAIJ_Binary"
768dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_Binary(Mat mat,PetscViewer viewer)
7698e2fed03SBarry Smith {
7708e2fed03SBarry Smith   Mat_MPIAIJ        *aij = (Mat_MPIAIJ*)mat->data;
7718e2fed03SBarry Smith   Mat_SeqAIJ*       A = (Mat_SeqAIJ*)aij->A->data;
7728e2fed03SBarry Smith   Mat_SeqAIJ*       B = (Mat_SeqAIJ*)aij->B->data;
7736849ba73SBarry Smith   PetscErrorCode    ierr;
77432dcc486SBarry Smith   PetscMPIInt       rank,size,tag = ((PetscObject)viewer)->tag;
7756f69ff64SBarry Smith   int               fd;
7766f69ff64SBarry Smith   PetscInt          nz,header[4],*row_lengths,*range,rlen,i;
7776f69ff64SBarry Smith   PetscInt          nzmax,*column_indices,j,k,col,*garray = aij->garray,cnt,cstart = aij->cstart,rnz;
7788e2fed03SBarry Smith   PetscScalar       *column_values;
7798e2fed03SBarry Smith 
7808e2fed03SBarry Smith   PetscFunctionBegin;
7818e2fed03SBarry Smith   ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr);
7828e2fed03SBarry Smith   ierr = MPI_Comm_size(mat->comm,&size);CHKERRQ(ierr);
7838e2fed03SBarry Smith   nz   = A->nz + B->nz;
784958c9bccSBarry Smith   if (!rank) {
7858e2fed03SBarry Smith     header[0] = MAT_FILE_COOKIE;
7868e2fed03SBarry Smith     header[1] = mat->M;
7878e2fed03SBarry Smith     header[2] = mat->N;
788b1d57f15SBarry Smith     ierr = MPI_Reduce(&nz,&header[3],1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr);
7898e2fed03SBarry Smith     ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr);
7906f69ff64SBarry Smith     ierr = PetscBinaryWrite(fd,header,4,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr);
7918e2fed03SBarry Smith     /* get largest number of rows any processor has */
7928e2fed03SBarry Smith     rlen = mat->m;
7938e2fed03SBarry Smith     ierr = PetscMapGetGlobalRange(mat->rmap,&range);CHKERRQ(ierr);
7948e2fed03SBarry Smith     for (i=1; i<size; i++) {
7958e2fed03SBarry Smith       rlen = PetscMax(rlen,range[i+1] - range[i]);
7968e2fed03SBarry Smith     }
7978e2fed03SBarry Smith   } else {
798b1d57f15SBarry Smith     ierr = MPI_Reduce(&nz,0,1,MPIU_INT,MPI_SUM,0,mat->comm);CHKERRQ(ierr);
7998e2fed03SBarry Smith     rlen = mat->m;
8008e2fed03SBarry Smith   }
8018e2fed03SBarry Smith 
8028e2fed03SBarry Smith   /* load up the local row counts */
803b1d57f15SBarry Smith   ierr = PetscMalloc((rlen+1)*sizeof(PetscInt),&row_lengths);CHKERRQ(ierr);
8048e2fed03SBarry Smith   for (i=0; i<mat->m; i++) {
8058e2fed03SBarry Smith     row_lengths[i] = A->i[i+1] - A->i[i] + B->i[i+1] - B->i[i];
8068e2fed03SBarry Smith   }
8078e2fed03SBarry Smith 
8088e2fed03SBarry Smith   /* store the row lengths to the file */
809958c9bccSBarry Smith   if (!rank) {
8108e2fed03SBarry Smith     MPI_Status status;
8116f69ff64SBarry Smith     ierr = PetscBinaryWrite(fd,row_lengths,mat->m,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr);
8128e2fed03SBarry Smith     for (i=1; i<size; i++) {
8138e2fed03SBarry Smith       rlen = range[i+1] - range[i];
814b1d57f15SBarry Smith       ierr = MPI_Recv(row_lengths,rlen,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr);
8156f69ff64SBarry Smith       ierr = PetscBinaryWrite(fd,row_lengths,rlen,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr);
8168e2fed03SBarry Smith     }
8178e2fed03SBarry Smith   } else {
818b1d57f15SBarry Smith     ierr = MPI_Send(row_lengths,mat->m,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr);
8198e2fed03SBarry Smith   }
8208e2fed03SBarry Smith   ierr = PetscFree(row_lengths);CHKERRQ(ierr);
8218e2fed03SBarry Smith 
8228e2fed03SBarry Smith   /* load up the local column indices */
8238e2fed03SBarry Smith   nzmax = nz; /* )th processor needs space a largest processor needs */
824b1d57f15SBarry Smith   ierr = MPI_Reduce(&nz,&nzmax,1,MPIU_INT,MPI_MAX,0,mat->comm);CHKERRQ(ierr);
825b1d57f15SBarry Smith   ierr = PetscMalloc((nzmax+1)*sizeof(PetscInt),&column_indices);CHKERRQ(ierr);
8268e2fed03SBarry Smith   cnt  = 0;
8278e2fed03SBarry Smith   for (i=0; i<mat->m; i++) {
8288e2fed03SBarry Smith     for (j=B->i[i]; j<B->i[i+1]; j++) {
8298e2fed03SBarry Smith       if ( (col = garray[B->j[j]]) > cstart) break;
8308e2fed03SBarry Smith       column_indices[cnt++] = col;
8318e2fed03SBarry Smith     }
8328e2fed03SBarry Smith     for (k=A->i[i]; k<A->i[i+1]; k++) {
8338e2fed03SBarry Smith       column_indices[cnt++] = A->j[k] + cstart;
8348e2fed03SBarry Smith     }
8358e2fed03SBarry Smith     for (; j<B->i[i+1]; j++) {
8368e2fed03SBarry Smith       column_indices[cnt++] = garray[B->j[j]];
8378e2fed03SBarry Smith     }
8388e2fed03SBarry Smith   }
83977431f27SBarry Smith   if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz);
8408e2fed03SBarry Smith 
8418e2fed03SBarry Smith   /* store the column indices to the file */
842958c9bccSBarry Smith   if (!rank) {
8438e2fed03SBarry Smith     MPI_Status status;
8446f69ff64SBarry Smith     ierr = PetscBinaryWrite(fd,column_indices,nz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr);
8458e2fed03SBarry Smith     for (i=1; i<size; i++) {
846b1d57f15SBarry Smith       ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr);
84777431f27SBarry Smith       if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax);
848b1d57f15SBarry Smith       ierr = MPI_Recv(column_indices,rnz,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr);
8496f69ff64SBarry Smith       ierr = PetscBinaryWrite(fd,column_indices,rnz,PETSC_INT,PETSC_TRUE);CHKERRQ(ierr);
8508e2fed03SBarry Smith     }
8518e2fed03SBarry Smith   } else {
852b1d57f15SBarry Smith     ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr);
853b1d57f15SBarry Smith     ierr = MPI_Send(column_indices,nz,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr);
8548e2fed03SBarry Smith   }
8558e2fed03SBarry Smith   ierr = PetscFree(column_indices);CHKERRQ(ierr);
8568e2fed03SBarry Smith 
8578e2fed03SBarry Smith   /* load up the local column values */
8588e2fed03SBarry Smith   ierr = PetscMalloc((nzmax+1)*sizeof(PetscScalar),&column_values);CHKERRQ(ierr);
8598e2fed03SBarry Smith   cnt  = 0;
8608e2fed03SBarry Smith   for (i=0; i<mat->m; i++) {
8618e2fed03SBarry Smith     for (j=B->i[i]; j<B->i[i+1]; j++) {
8628e2fed03SBarry Smith       if ( garray[B->j[j]] > cstart) break;
8638e2fed03SBarry Smith       column_values[cnt++] = B->a[j];
8648e2fed03SBarry Smith     }
8658e2fed03SBarry Smith     for (k=A->i[i]; k<A->i[i+1]; k++) {
8668e2fed03SBarry Smith       column_values[cnt++] = A->a[k];
8678e2fed03SBarry Smith     }
8688e2fed03SBarry Smith     for (; j<B->i[i+1]; j++) {
8698e2fed03SBarry Smith       column_values[cnt++] = B->a[j];
8708e2fed03SBarry Smith     }
8718e2fed03SBarry Smith   }
87277431f27SBarry Smith   if (cnt != A->nz + B->nz) SETERRQ2(PETSC_ERR_PLIB,"Internal PETSc error: cnt = %D nz = %D",cnt,A->nz+B->nz);
8738e2fed03SBarry Smith 
8748e2fed03SBarry Smith   /* store the column values to the file */
875958c9bccSBarry Smith   if (!rank) {
8768e2fed03SBarry Smith     MPI_Status status;
8776f69ff64SBarry Smith     ierr = PetscBinaryWrite(fd,column_values,nz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr);
8788e2fed03SBarry Smith     for (i=1; i<size; i++) {
879b1d57f15SBarry Smith       ierr = MPI_Recv(&rnz,1,MPIU_INT,i,tag,mat->comm,&status);CHKERRQ(ierr);
88077431f27SBarry Smith       if (rnz > nzmax) SETERRQ2(PETSC_ERR_LIB,"Internal PETSc error: nz = %D nzmax = %D",nz,nzmax);
881b021249fSBarry Smith       ierr = MPI_Recv(column_values,rnz,MPIU_SCALAR,i,tag,mat->comm,&status);CHKERRQ(ierr);
8826f69ff64SBarry Smith       ierr = PetscBinaryWrite(fd,column_values,rnz,PETSC_SCALAR,PETSC_TRUE);CHKERRQ(ierr);
8838e2fed03SBarry Smith     }
8848e2fed03SBarry Smith   } else {
885b1d57f15SBarry Smith     ierr = MPI_Send(&nz,1,MPIU_INT,0,tag,mat->comm);CHKERRQ(ierr);
8868e2fed03SBarry Smith     ierr = MPI_Send(column_values,nz,MPIU_SCALAR,0,tag,mat->comm);CHKERRQ(ierr);
8878e2fed03SBarry Smith   }
8888e2fed03SBarry Smith   ierr = PetscFree(column_values);CHKERRQ(ierr);
8898e2fed03SBarry Smith   PetscFunctionReturn(0);
8908e2fed03SBarry Smith }
8918e2fed03SBarry Smith 
8928e2fed03SBarry Smith #undef __FUNCT__
8934a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ_ASCIIorDraworSocket"
894dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ_ASCIIorDraworSocket(Mat mat,PetscViewer viewer)
895416022c9SBarry Smith {
89644a69424SLois Curfman McInnes   Mat_MPIAIJ        *aij = (Mat_MPIAIJ*)mat->data;
897dfbe8321SBarry Smith   PetscErrorCode    ierr;
89832dcc486SBarry Smith   PetscMPIInt       rank = aij->rank,size = aij->size;
89932077d6dSBarry Smith   PetscTruth        isdraw,iascii,flg,isbinary;
900b0a32e0cSBarry Smith   PetscViewer       sviewer;
901f3ef73ceSBarry Smith   PetscViewerFormat format;
902416022c9SBarry Smith 
9033a40ed3dSBarry Smith   PetscFunctionBegin;
904fb9695e5SSatish Balay   ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr);
90532077d6dSBarry Smith   ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr);
9068e2fed03SBarry Smith   ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr);
90732077d6dSBarry Smith   if (iascii) {
908b0a32e0cSBarry Smith     ierr = PetscViewerGetFormat(viewer,&format);CHKERRQ(ierr);
909456192e2SBarry Smith     if (format == PETSC_VIEWER_ASCII_INFO_DETAIL) {
9104e220ebcSLois Curfman McInnes       MatInfo info;
9111dab6e02SBarry Smith       ierr = MPI_Comm_rank(mat->comm,&rank);CHKERRQ(ierr);
912888f2ed8SSatish Balay       ierr = MatGetInfo(mat,MAT_LOCAL,&info);CHKERRQ(ierr);
913b0a32e0cSBarry Smith       ierr = PetscOptionsHasName(PETSC_NULL,"-mat_aij_no_inode",&flg);CHKERRQ(ierr);
9146831982aSBarry Smith       if (flg) {
91577431f27SBarry Smith         ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, not using I-node routines\n",
91677431f27SBarry Smith 					      rank,mat->m,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr);
9176831982aSBarry Smith       } else {
91877431f27SBarry Smith         ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] Local rows %D nz %D nz alloced %D mem %D, using I-node routines\n",
91977431f27SBarry Smith 		    rank,mat->m,(PetscInt)info.nz_used,(PetscInt)info.nz_allocated,(PetscInt)info.memory);CHKERRQ(ierr);
9206831982aSBarry Smith       }
921888f2ed8SSatish Balay       ierr = MatGetInfo(aij->A,MAT_LOCAL,&info);CHKERRQ(ierr);
92277431f27SBarry Smith       ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] on-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr);
923888f2ed8SSatish Balay       ierr = MatGetInfo(aij->B,MAT_LOCAL,&info);CHKERRQ(ierr);
92477431f27SBarry Smith       ierr = PetscViewerASCIISynchronizedPrintf(viewer,"[%d] off-diagonal part: nz %D \n",rank,(PetscInt)info.nz_used);CHKERRQ(ierr);
925b0a32e0cSBarry Smith       ierr = PetscViewerFlush(viewer);CHKERRQ(ierr);
926a40aa06bSLois Curfman McInnes       ierr = VecScatterView(aij->Mvctx,viewer);CHKERRQ(ierr);
9273a40ed3dSBarry Smith       PetscFunctionReturn(0);
928fb9695e5SSatish Balay     } else if (format == PETSC_VIEWER_ASCII_INFO) {
9293a40ed3dSBarry Smith       PetscFunctionReturn(0);
9304aedb280SBarry Smith     } else if (format == PETSC_VIEWER_ASCII_FACTOR_INFO) {
9314aedb280SBarry Smith       PetscFunctionReturn(0);
93208480c60SBarry Smith     }
9338e2fed03SBarry Smith   } else if (isbinary) {
9348e2fed03SBarry Smith     if (size == 1) {
9358e2fed03SBarry Smith       ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr);
9368e2fed03SBarry Smith       ierr = MatView(aij->A,viewer);CHKERRQ(ierr);
9378e2fed03SBarry Smith     } else {
9388e2fed03SBarry Smith       ierr = MatView_MPIAIJ_Binary(mat,viewer);CHKERRQ(ierr);
9398e2fed03SBarry Smith     }
9408e2fed03SBarry Smith     PetscFunctionReturn(0);
9410f5bd95cSBarry Smith   } else if (isdraw) {
942b0a32e0cSBarry Smith     PetscDraw  draw;
94319bcc07fSBarry Smith     PetscTruth isnull;
944b0a32e0cSBarry Smith     ierr = PetscViewerDrawGetDraw(viewer,0,&draw);CHKERRQ(ierr);
945b0a32e0cSBarry Smith     ierr = PetscDrawIsNull(draw,&isnull);CHKERRQ(ierr); if (isnull) PetscFunctionReturn(0);
94619bcc07fSBarry Smith   }
94719bcc07fSBarry Smith 
94817699dbbSLois Curfman McInnes   if (size == 1) {
949e36acaf3SBarry Smith     ierr = PetscObjectSetName((PetscObject)aij->A,mat->name);CHKERRQ(ierr);
95078b31e54SBarry Smith     ierr = MatView(aij->A,viewer);CHKERRQ(ierr);
9513a40ed3dSBarry Smith   } else {
95295373324SBarry Smith     /* assemble the entire matrix onto first processor. */
95395373324SBarry Smith     Mat         A;
954ec8511deSBarry Smith     Mat_SeqAIJ  *Aloc;
955b1d57f15SBarry Smith     PetscInt    M = mat->M,N = mat->N,m,*ai,*aj,row,*cols,i,*ct;
95687828ca2SBarry Smith     PetscScalar *a;
9572ee70a88SLois Curfman McInnes 
95817699dbbSLois Curfman McInnes     if (!rank) {
959f204ca49SKris Buschelman       ierr = MatCreate(mat->comm,M,N,M,N,&A);CHKERRQ(ierr);
9603a40ed3dSBarry Smith     } else {
961f204ca49SKris Buschelman       ierr = MatCreate(mat->comm,0,0,M,N,&A);CHKERRQ(ierr);
96295373324SBarry Smith     }
963f204ca49SKris Buschelman     /* This is just a temporary matrix, so explicitly using MATMPIAIJ is probably best */
964f204ca49SKris Buschelman     ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr);
965f204ca49SKris Buschelman     ierr = MatMPIAIJSetPreallocation(A,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr);
966b0a32e0cSBarry Smith     PetscLogObjectParent(mat,A);
967416022c9SBarry Smith 
96895373324SBarry Smith     /* copy over the A part */
969ec8511deSBarry Smith     Aloc = (Mat_SeqAIJ*)aij->A->data;
970273d9f13SBarry Smith     m = aij->A->m; ai = Aloc->i; aj = Aloc->j; a = Aloc->a;
97195373324SBarry Smith     row = aij->rstart;
972bfec09a0SHong Zhang     for (i=0; i<ai[m]; i++) {aj[i] += aij->cstart ;}
97395373324SBarry Smith     for (i=0; i<m; i++) {
974416022c9SBarry Smith       ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],aj,a,INSERT_VALUES);CHKERRQ(ierr);
97595373324SBarry Smith       row++; a += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i];
97695373324SBarry Smith     }
9772ee70a88SLois Curfman McInnes     aj = Aloc->j;
978bfec09a0SHong Zhang     for (i=0; i<ai[m]; i++) {aj[i] -= aij->cstart;}
97995373324SBarry Smith 
98095373324SBarry Smith     /* copy over the B part */
981ec8511deSBarry Smith     Aloc = (Mat_SeqAIJ*)aij->B->data;
982273d9f13SBarry Smith     m    = aij->B->m;  ai = Aloc->i; aj = Aloc->j; a = Aloc->a;
98395373324SBarry Smith     row  = aij->rstart;
984b1d57f15SBarry Smith     ierr = PetscMalloc((ai[m]+1)*sizeof(PetscInt),&cols);CHKERRQ(ierr);
985b0a32e0cSBarry Smith     ct   = cols;
986bfec09a0SHong Zhang     for (i=0; i<ai[m]; i++) {cols[i] = aij->garray[aj[i]];}
98795373324SBarry Smith     for (i=0; i<m; i++) {
988416022c9SBarry Smith       ierr = MatSetValues(A,1,&row,ai[i+1]-ai[i],cols,a,INSERT_VALUES);CHKERRQ(ierr);
98995373324SBarry Smith       row++; a += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i];
99095373324SBarry Smith     }
991606d414cSSatish Balay     ierr = PetscFree(ct);CHKERRQ(ierr);
9926d4a8577SBarry Smith     ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
9936d4a8577SBarry Smith     ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
99455843e3eSBarry Smith     /*
99555843e3eSBarry Smith        Everyone has to call to draw the matrix since the graphics waits are
996b0a32e0cSBarry Smith        synchronized across all processors that share the PetscDraw object
99755843e3eSBarry Smith     */
998b0a32e0cSBarry Smith     ierr = PetscViewerGetSingleton(viewer,&sviewer);CHKERRQ(ierr);
999e03a110bSBarry Smith     if (!rank) {
1000e36acaf3SBarry Smith       ierr = PetscObjectSetName((PetscObject)((Mat_MPIAIJ*)(A->data))->A,mat->name);CHKERRQ(ierr);
10016831982aSBarry Smith       ierr = MatView(((Mat_MPIAIJ*)(A->data))->A,sviewer);CHKERRQ(ierr);
100295373324SBarry Smith     }
1003b0a32e0cSBarry Smith     ierr = PetscViewerRestoreSingleton(viewer,&sviewer);CHKERRQ(ierr);
100478b31e54SBarry Smith     ierr = MatDestroy(A);CHKERRQ(ierr);
100595373324SBarry Smith   }
10063a40ed3dSBarry Smith   PetscFunctionReturn(0);
10071eb62cbbSBarry Smith }
10081eb62cbbSBarry Smith 
10094a2ae208SSatish Balay #undef __FUNCT__
10104a2ae208SSatish Balay #define __FUNCT__ "MatView_MPIAIJ"
1011dfbe8321SBarry Smith PetscErrorCode MatView_MPIAIJ(Mat mat,PetscViewer viewer)
1012416022c9SBarry Smith {
1013dfbe8321SBarry Smith   PetscErrorCode ierr;
101432077d6dSBarry Smith   PetscTruth     iascii,isdraw,issocket,isbinary;
1015416022c9SBarry Smith 
10163a40ed3dSBarry Smith   PetscFunctionBegin;
101732077d6dSBarry Smith   ierr  = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_ASCII,&iascii);CHKERRQ(ierr);
1018fb9695e5SSatish Balay   ierr  = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_DRAW,&isdraw);CHKERRQ(ierr);
1019fb9695e5SSatish Balay   ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_BINARY,&isbinary);CHKERRQ(ierr);
1020b0a32e0cSBarry Smith   ierr = PetscTypeCompare((PetscObject)viewer,PETSC_VIEWER_SOCKET,&issocket);CHKERRQ(ierr);
102132077d6dSBarry Smith   if (iascii || isdraw || isbinary || issocket) {
10227b2a1423SBarry Smith     ierr = MatView_MPIAIJ_ASCIIorDraworSocket(mat,viewer);CHKERRQ(ierr);
10235cd90555SBarry Smith   } else {
102479a5c55eSBarry Smith     SETERRQ1(PETSC_ERR_SUP,"Viewer type %s not supported by MPIAIJ matrices",((PetscObject)viewer)->type_name);
1025416022c9SBarry Smith   }
10263a40ed3dSBarry Smith   PetscFunctionReturn(0);
1027416022c9SBarry Smith }
1028416022c9SBarry Smith 
10291eb62cbbSBarry Smith 
1030c14dc6b6SHong Zhang 
10314a2ae208SSatish Balay #undef __FUNCT__
10324a2ae208SSatish Balay #define __FUNCT__ "MatRelax_MPIAIJ"
1033b1d57f15SBarry Smith PetscErrorCode MatRelax_MPIAIJ(Mat matin,Vec bb,PetscReal omega,MatSORType flag,PetscReal fshift,PetscInt its,PetscInt lits,Vec xx)
10348a729477SBarry Smith {
103544a69424SLois Curfman McInnes   Mat_MPIAIJ     *mat = (Mat_MPIAIJ*)matin->data;
1036dfbe8321SBarry Smith   PetscErrorCode ierr;
1037c14dc6b6SHong Zhang   Vec            bb1;
1038a6c309e7SHong Zhang   PetscScalar    mone=-1.0;
10398a729477SBarry Smith 
10403a40ed3dSBarry Smith   PetscFunctionBegin;
104177431f27SBarry Smith   if (its <= 0 || lits <= 0) SETERRQ2(PETSC_ERR_ARG_WRONG,"Relaxation requires global its %D and local its %D both positive",its,lits);
1042c14dc6b6SHong Zhang 
1043c14dc6b6SHong Zhang   ierr = VecDuplicate(bb,&bb1);CHKERRQ(ierr);
10442798e883SHong Zhang 
1045c16cb8f2SBarry Smith   if ((flag & SOR_LOCAL_SYMMETRIC_SWEEP) == SOR_LOCAL_SYMMETRIC_SWEEP){
1046da3a660dSBarry Smith     if (flag & SOR_ZERO_INITIAL_GUESS) {
1047bd3bf7d3SHong Zhang       ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,lits,xx);CHKERRQ(ierr);
10482798e883SHong Zhang       its--;
1049da3a660dSBarry Smith     }
10502798e883SHong Zhang 
10512798e883SHong Zhang     while (its--) {
10523a40ed3dSBarry Smith       ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr);
10533a40ed3dSBarry Smith       ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr);
10542798e883SHong Zhang 
1055c14dc6b6SHong Zhang       /* update rhs: bb1 = bb - B*x */
1056c14dc6b6SHong Zhang       ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr);
1057c14dc6b6SHong Zhang       ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr);
10582798e883SHong Zhang 
1059c14dc6b6SHong Zhang       /* local sweep */
1060bd3bf7d3SHong Zhang       ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_SYMMETRIC_SWEEP,fshift,lits,lits,xx);
1061c14dc6b6SHong Zhang       CHKERRQ(ierr);
10622798e883SHong Zhang     }
10633a40ed3dSBarry Smith   } else if (flag & SOR_LOCAL_FORWARD_SWEEP){
1064da3a660dSBarry Smith     if (flag & SOR_ZERO_INITIAL_GUESS) {
1065c14dc6b6SHong Zhang       ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr);
10662798e883SHong Zhang       its--;
1067da3a660dSBarry Smith     }
10682798e883SHong Zhang     while (its--) {
10693a40ed3dSBarry Smith       ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr);
10703a40ed3dSBarry Smith       ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr);
10712798e883SHong Zhang 
1072c14dc6b6SHong Zhang       /* update rhs: bb1 = bb - B*x */
1073c14dc6b6SHong Zhang       ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr);
1074c14dc6b6SHong Zhang       ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr);
1075c14dc6b6SHong Zhang 
1076c14dc6b6SHong Zhang       /* local sweep */
1077a6c309e7SHong Zhang       ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_FORWARD_SWEEP,fshift,lits,PETSC_NULL,xx);
1078c14dc6b6SHong Zhang       CHKERRQ(ierr);
10792798e883SHong Zhang     }
10803a40ed3dSBarry Smith   } else if (flag & SOR_LOCAL_BACKWARD_SWEEP){
1081da3a660dSBarry Smith     if (flag & SOR_ZERO_INITIAL_GUESS) {
1082c14dc6b6SHong Zhang       ierr = (*mat->A->ops->relax)(mat->A,bb,omega,flag,fshift,lits,PETSC_NULL,xx);CHKERRQ(ierr);
10832798e883SHong Zhang       its--;
1084da3a660dSBarry Smith     }
10852798e883SHong Zhang     while (its--) {
10862e8a6d31SBarry Smith       ierr = VecScatterBegin(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr);
10872e8a6d31SBarry Smith       ierr = VecScatterEnd(xx,mat->lvec,INSERT_VALUES,SCATTER_FORWARD,mat->Mvctx);CHKERRQ(ierr);
10882798e883SHong Zhang 
1089c14dc6b6SHong Zhang       /* update rhs: bb1 = bb - B*x */
1090c14dc6b6SHong Zhang       ierr = VecScale(&mone,mat->lvec);CHKERRQ(ierr);
1091c14dc6b6SHong Zhang       ierr = (*mat->B->ops->multadd)(mat->B,mat->lvec,bb,bb1);CHKERRQ(ierr);
10922798e883SHong Zhang 
1093c14dc6b6SHong Zhang       /* local sweep */
1094a6c309e7SHong Zhang       ierr = (*mat->A->ops->relax)(mat->A,bb1,omega,SOR_BACKWARD_SWEEP,fshift,lits,PETSC_NULL,xx);
1095c14dc6b6SHong Zhang       CHKERRQ(ierr);
10962798e883SHong Zhang     }
10973a40ed3dSBarry Smith   } else {
109829bbc08cSBarry Smith     SETERRQ(PETSC_ERR_SUP,"Parallel SOR not supported");
1099c16cb8f2SBarry Smith   }
1100c14dc6b6SHong Zhang 
1101c14dc6b6SHong Zhang   ierr = VecDestroy(bb1);CHKERRQ(ierr);
11023a40ed3dSBarry Smith   PetscFunctionReturn(0);
11038a729477SBarry Smith }
1104a66be287SLois Curfman McInnes 
11054a2ae208SSatish Balay #undef __FUNCT__
11064a2ae208SSatish Balay #define __FUNCT__ "MatGetInfo_MPIAIJ"
1107dfbe8321SBarry Smith PetscErrorCode MatGetInfo_MPIAIJ(Mat matin,MatInfoType flag,MatInfo *info)
1108a66be287SLois Curfman McInnes {
1109a66be287SLois Curfman McInnes   Mat_MPIAIJ     *mat = (Mat_MPIAIJ*)matin->data;
1110a66be287SLois Curfman McInnes   Mat            A = mat->A,B = mat->B;
1111dfbe8321SBarry Smith   PetscErrorCode ierr;
1112329f5518SBarry Smith   PetscReal      isend[5],irecv[5];
1113a66be287SLois Curfman McInnes 
11143a40ed3dSBarry Smith   PetscFunctionBegin;
11154e220ebcSLois Curfman McInnes   info->block_size     = 1.0;
11164e220ebcSLois Curfman McInnes   ierr = MatGetInfo(A,MAT_LOCAL,info);CHKERRQ(ierr);
11174e220ebcSLois Curfman McInnes   isend[0] = info->nz_used; isend[1] = info->nz_allocated; isend[2] = info->nz_unneeded;
11184e220ebcSLois Curfman McInnes   isend[3] = info->memory;  isend[4] = info->mallocs;
11194e220ebcSLois Curfman McInnes   ierr = MatGetInfo(B,MAT_LOCAL,info);CHKERRQ(ierr);
11204e220ebcSLois Curfman McInnes   isend[0] += info->nz_used; isend[1] += info->nz_allocated; isend[2] += info->nz_unneeded;
11214e220ebcSLois Curfman McInnes   isend[3] += info->memory;  isend[4] += info->mallocs;
1122a66be287SLois Curfman McInnes   if (flag == MAT_LOCAL) {
11234e220ebcSLois Curfman McInnes     info->nz_used      = isend[0];
11244e220ebcSLois Curfman McInnes     info->nz_allocated = isend[1];
11254e220ebcSLois Curfman McInnes     info->nz_unneeded  = isend[2];
11264e220ebcSLois Curfman McInnes     info->memory       = isend[3];
11274e220ebcSLois Curfman McInnes     info->mallocs      = isend[4];
1128a66be287SLois Curfman McInnes   } else if (flag == MAT_GLOBAL_MAX) {
1129d7d1e502SBarry Smith     ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_MAX,matin->comm);CHKERRQ(ierr);
11304e220ebcSLois Curfman McInnes     info->nz_used      = irecv[0];
11314e220ebcSLois Curfman McInnes     info->nz_allocated = irecv[1];
11324e220ebcSLois Curfman McInnes     info->nz_unneeded  = irecv[2];
11334e220ebcSLois Curfman McInnes     info->memory       = irecv[3];
11344e220ebcSLois Curfman McInnes     info->mallocs      = irecv[4];
1135a66be287SLois Curfman McInnes   } else if (flag == MAT_GLOBAL_SUM) {
1136d7d1e502SBarry Smith     ierr = MPI_Allreduce(isend,irecv,5,MPIU_REAL,MPI_SUM,matin->comm);CHKERRQ(ierr);
11374e220ebcSLois Curfman McInnes     info->nz_used      = irecv[0];
11384e220ebcSLois Curfman McInnes     info->nz_allocated = irecv[1];
11394e220ebcSLois Curfman McInnes     info->nz_unneeded  = irecv[2];
11404e220ebcSLois Curfman McInnes     info->memory       = irecv[3];
11414e220ebcSLois Curfman McInnes     info->mallocs      = irecv[4];
1142a66be287SLois Curfman McInnes   }
11434e220ebcSLois Curfman McInnes   info->fill_ratio_given  = 0; /* no parallel LU/ILU/Cholesky */
11444e220ebcSLois Curfman McInnes   info->fill_ratio_needed = 0;
11454e220ebcSLois Curfman McInnes   info->factor_mallocs    = 0;
1146273d9f13SBarry Smith   info->rows_global       = (double)matin->M;
1147273d9f13SBarry Smith   info->columns_global    = (double)matin->N;
1148273d9f13SBarry Smith   info->rows_local        = (double)matin->m;
1149273d9f13SBarry Smith   info->columns_local     = (double)matin->N;
11504e220ebcSLois Curfman McInnes 
11513a40ed3dSBarry Smith   PetscFunctionReturn(0);
1152a66be287SLois Curfman McInnes }
1153a66be287SLois Curfman McInnes 
11544a2ae208SSatish Balay #undef __FUNCT__
11554a2ae208SSatish Balay #define __FUNCT__ "MatSetOption_MPIAIJ"
1156dfbe8321SBarry Smith PetscErrorCode MatSetOption_MPIAIJ(Mat A,MatOption op)
1157c74985f6SBarry Smith {
1158c0bbcb79SLois Curfman McInnes   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
1159dfbe8321SBarry Smith   PetscErrorCode ierr;
1160c74985f6SBarry Smith 
11613a40ed3dSBarry Smith   PetscFunctionBegin;
116212c028f9SKris Buschelman   switch (op) {
116312c028f9SKris Buschelman   case MAT_NO_NEW_NONZERO_LOCATIONS:
116412c028f9SKris Buschelman   case MAT_YES_NEW_NONZERO_LOCATIONS:
116512c028f9SKris Buschelman   case MAT_COLUMNS_UNSORTED:
116612c028f9SKris Buschelman   case MAT_COLUMNS_SORTED:
116712c028f9SKris Buschelman   case MAT_NEW_NONZERO_ALLOCATION_ERR:
116812c028f9SKris Buschelman   case MAT_KEEP_ZEROED_ROWS:
116912c028f9SKris Buschelman   case MAT_NEW_NONZERO_LOCATION_ERR:
117012c028f9SKris Buschelman   case MAT_USE_INODES:
117112c028f9SKris Buschelman   case MAT_DO_NOT_USE_INODES:
117212c028f9SKris Buschelman   case MAT_IGNORE_ZERO_ENTRIES:
11731dee9f54SBarry Smith     ierr = MatSetOption(a->A,op);CHKERRQ(ierr);
11741dee9f54SBarry Smith     ierr = MatSetOption(a->B,op);CHKERRQ(ierr);
117512c028f9SKris Buschelman     break;
117612c028f9SKris Buschelman   case MAT_ROW_ORIENTED:
11777c922b88SBarry Smith     a->roworiented = PETSC_TRUE;
11781dee9f54SBarry Smith     ierr = MatSetOption(a->A,op);CHKERRQ(ierr);
11791dee9f54SBarry Smith     ierr = MatSetOption(a->B,op);CHKERRQ(ierr);
118012c028f9SKris Buschelman     break;
118112c028f9SKris Buschelman   case MAT_ROWS_SORTED:
118212c028f9SKris Buschelman   case MAT_ROWS_UNSORTED:
118312c028f9SKris Buschelman   case MAT_YES_NEW_DIAGONALS:
1184b0a32e0cSBarry Smith     PetscLogInfo(A,"MatSetOption_MPIAIJ:Option ignored\n");
118512c028f9SKris Buschelman     break;
118612c028f9SKris Buschelman   case MAT_COLUMN_ORIENTED:
11877c922b88SBarry Smith     a->roworiented = PETSC_FALSE;
11881dee9f54SBarry Smith     ierr = MatSetOption(a->A,op);CHKERRQ(ierr);
11891dee9f54SBarry Smith     ierr = MatSetOption(a->B,op);CHKERRQ(ierr);
119012c028f9SKris Buschelman     break;
119112c028f9SKris Buschelman   case MAT_IGNORE_OFF_PROC_ENTRIES:
11927c922b88SBarry Smith     a->donotstash = PETSC_TRUE;
119312c028f9SKris Buschelman     break;
119412c028f9SKris Buschelman   case MAT_NO_NEW_DIAGONALS:
119529bbc08cSBarry Smith     SETERRQ(PETSC_ERR_SUP,"MAT_NO_NEW_DIAGONALS");
119677e54ba9SKris Buschelman   case MAT_SYMMETRIC:
119777e54ba9SKris Buschelman   case MAT_STRUCTURALLY_SYMMETRIC:
1198bf108f30SBarry Smith   case MAT_HERMITIAN:
1199bf108f30SBarry Smith   case MAT_SYMMETRY_ETERNAL:
1200bf108f30SBarry Smith     ierr = MatSetOption(a->A,op);CHKERRQ(ierr);
1201bf108f30SBarry Smith     break;
12029a4540c5SBarry Smith   case MAT_NOT_SYMMETRIC:
12039a4540c5SBarry Smith   case MAT_NOT_STRUCTURALLY_SYMMETRIC:
12049a4540c5SBarry Smith   case MAT_NOT_HERMITIAN:
12059a4540c5SBarry Smith   case MAT_NOT_SYMMETRY_ETERNAL:
120677e54ba9SKris Buschelman     break;
120712c028f9SKris Buschelman   default:
120829bbc08cSBarry Smith     SETERRQ(PETSC_ERR_SUP,"unknown option");
12093a40ed3dSBarry Smith   }
12103a40ed3dSBarry Smith   PetscFunctionReturn(0);
1211c74985f6SBarry Smith }
1212c74985f6SBarry Smith 
12134a2ae208SSatish Balay #undef __FUNCT__
12144a2ae208SSatish Balay #define __FUNCT__ "MatGetRow_MPIAIJ"
1215b1d57f15SBarry Smith PetscErrorCode MatGetRow_MPIAIJ(Mat matin,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v)
121639e00950SLois Curfman McInnes {
1217154123eaSLois Curfman McInnes   Mat_MPIAIJ     *mat = (Mat_MPIAIJ*)matin->data;
121887828ca2SBarry Smith   PetscScalar    *vworkA,*vworkB,**pvA,**pvB,*v_p;
12196849ba73SBarry Smith   PetscErrorCode ierr;
1220b1d57f15SBarry Smith   PetscInt       i,*cworkA,*cworkB,**pcA,**pcB,cstart = mat->cstart;
1221b1d57f15SBarry Smith   PetscInt       nztot,nzA,nzB,lrow,rstart = mat->rstart,rend = mat->rend;
1222b1d57f15SBarry Smith   PetscInt       *cmap,*idx_p;
122339e00950SLois Curfman McInnes 
12243a40ed3dSBarry Smith   PetscFunctionBegin;
122529bbc08cSBarry Smith   if (mat->getrowactive == PETSC_TRUE) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Already active");
12267a0afa10SBarry Smith   mat->getrowactive = PETSC_TRUE;
12277a0afa10SBarry Smith 
122870f0671dSBarry Smith   if (!mat->rowvalues && (idx || v)) {
12297a0afa10SBarry Smith     /*
12307a0afa10SBarry Smith         allocate enough space to hold information from the longest row.
12317a0afa10SBarry Smith     */
12327a0afa10SBarry Smith     Mat_SeqAIJ *Aa = (Mat_SeqAIJ*)mat->A->data,*Ba = (Mat_SeqAIJ*)mat->B->data;
1233b1d57f15SBarry Smith     PetscInt     max = 1,tmp;
1234273d9f13SBarry Smith     for (i=0; i<matin->m; i++) {
12357a0afa10SBarry Smith       tmp = Aa->i[i+1] - Aa->i[i] + Ba->i[i+1] - Ba->i[i];
12367a0afa10SBarry Smith       if (max < tmp) { max = tmp; }
12377a0afa10SBarry Smith     }
1238b1d57f15SBarry Smith     ierr = PetscMalloc(max*(sizeof(PetscInt)+sizeof(PetscScalar)),&mat->rowvalues);CHKERRQ(ierr);
1239b1d57f15SBarry Smith     mat->rowindices = (PetscInt*)(mat->rowvalues + max);
12407a0afa10SBarry Smith   }
12417a0afa10SBarry Smith 
124229bbc08cSBarry Smith   if (row < rstart || row >= rend) SETERRQ(PETSC_ERR_ARG_OUTOFRANGE,"Only local rows")
1243abc0e9e4SLois Curfman McInnes   lrow = row - rstart;
124439e00950SLois Curfman McInnes 
1245154123eaSLois Curfman McInnes   pvA = &vworkA; pcA = &cworkA; pvB = &vworkB; pcB = &cworkB;
1246154123eaSLois Curfman McInnes   if (!v)   {pvA = 0; pvB = 0;}
1247154123eaSLois Curfman McInnes   if (!idx) {pcA = 0; if (!v) pcB = 0;}
1248f830108cSBarry Smith   ierr = (*mat->A->ops->getrow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr);
1249f830108cSBarry Smith   ierr = (*mat->B->ops->getrow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr);
1250154123eaSLois Curfman McInnes   nztot = nzA + nzB;
1251154123eaSLois Curfman McInnes 
125270f0671dSBarry Smith   cmap  = mat->garray;
1253154123eaSLois Curfman McInnes   if (v  || idx) {
1254154123eaSLois Curfman McInnes     if (nztot) {
1255154123eaSLois Curfman McInnes       /* Sort by increasing column numbers, assuming A and B already sorted */
1256b1d57f15SBarry Smith       PetscInt imark = -1;
1257154123eaSLois Curfman McInnes       if (v) {
125870f0671dSBarry Smith         *v = v_p = mat->rowvalues;
125939e00950SLois Curfman McInnes         for (i=0; i<nzB; i++) {
126070f0671dSBarry Smith           if (cmap[cworkB[i]] < cstart)   v_p[i] = vworkB[i];
1261154123eaSLois Curfman McInnes           else break;
1262154123eaSLois Curfman McInnes         }
1263154123eaSLois Curfman McInnes         imark = i;
126470f0671dSBarry Smith         for (i=0; i<nzA; i++)     v_p[imark+i] = vworkA[i];
126570f0671dSBarry Smith         for (i=imark; i<nzB; i++) v_p[nzA+i]   = vworkB[i];
1266154123eaSLois Curfman McInnes       }
1267154123eaSLois Curfman McInnes       if (idx) {
126870f0671dSBarry Smith         *idx = idx_p = mat->rowindices;
126970f0671dSBarry Smith         if (imark > -1) {
127070f0671dSBarry Smith           for (i=0; i<imark; i++) {
127170f0671dSBarry Smith             idx_p[i] = cmap[cworkB[i]];
127270f0671dSBarry Smith           }
127370f0671dSBarry Smith         } else {
1274154123eaSLois Curfman McInnes           for (i=0; i<nzB; i++) {
127570f0671dSBarry Smith             if (cmap[cworkB[i]] < cstart)   idx_p[i] = cmap[cworkB[i]];
1276154123eaSLois Curfman McInnes             else break;
1277154123eaSLois Curfman McInnes           }
1278154123eaSLois Curfman McInnes           imark = i;
127970f0671dSBarry Smith         }
128070f0671dSBarry Smith         for (i=0; i<nzA; i++)     idx_p[imark+i] = cstart + cworkA[i];
128170f0671dSBarry Smith         for (i=imark; i<nzB; i++) idx_p[nzA+i]   = cmap[cworkB[i]];
128239e00950SLois Curfman McInnes       }
12833f97c4b0SBarry Smith     } else {
12841ca473b0SSatish Balay       if (idx) *idx = 0;
12851ca473b0SSatish Balay       if (v)   *v   = 0;
12861ca473b0SSatish Balay     }
1287154123eaSLois Curfman McInnes   }
128839e00950SLois Curfman McInnes   *nz = nztot;
1289f830108cSBarry Smith   ierr = (*mat->A->ops->restorerow)(mat->A,lrow,&nzA,pcA,pvA);CHKERRQ(ierr);
1290f830108cSBarry Smith   ierr = (*mat->B->ops->restorerow)(mat->B,lrow,&nzB,pcB,pvB);CHKERRQ(ierr);
12913a40ed3dSBarry Smith   PetscFunctionReturn(0);
129239e00950SLois Curfman McInnes }
129339e00950SLois Curfman McInnes 
12944a2ae208SSatish Balay #undef __FUNCT__
12954a2ae208SSatish Balay #define __FUNCT__ "MatRestoreRow_MPIAIJ"
1296b1d57f15SBarry Smith PetscErrorCode MatRestoreRow_MPIAIJ(Mat mat,PetscInt row,PetscInt *nz,PetscInt **idx,PetscScalar **v)
129739e00950SLois Curfman McInnes {
12987a0afa10SBarry Smith   Mat_MPIAIJ *aij = (Mat_MPIAIJ*)mat->data;
12993a40ed3dSBarry Smith 
13003a40ed3dSBarry Smith   PetscFunctionBegin;
13017a0afa10SBarry Smith   if (aij->getrowactive == PETSC_FALSE) {
130229bbc08cSBarry Smith     SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"MatGetRow not called");
13037a0afa10SBarry Smith   }
13047a0afa10SBarry Smith   aij->getrowactive = PETSC_FALSE;
13053a40ed3dSBarry Smith   PetscFunctionReturn(0);
130639e00950SLois Curfman McInnes }
130739e00950SLois Curfman McInnes 
13084a2ae208SSatish Balay #undef __FUNCT__
13094a2ae208SSatish Balay #define __FUNCT__ "MatNorm_MPIAIJ"
1310dfbe8321SBarry Smith PetscErrorCode MatNorm_MPIAIJ(Mat mat,NormType type,PetscReal *norm)
1311855ac2c5SLois Curfman McInnes {
1312855ac2c5SLois Curfman McInnes   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
1313ec8511deSBarry Smith   Mat_SeqAIJ     *amat = (Mat_SeqAIJ*)aij->A->data,*bmat = (Mat_SeqAIJ*)aij->B->data;
1314dfbe8321SBarry Smith   PetscErrorCode ierr;
1315b1d57f15SBarry Smith   PetscInt       i,j,cstart = aij->cstart;
1316329f5518SBarry Smith   PetscReal      sum = 0.0;
131787828ca2SBarry Smith   PetscScalar    *v;
131804ca555eSLois Curfman McInnes 
13193a40ed3dSBarry Smith   PetscFunctionBegin;
132017699dbbSLois Curfman McInnes   if (aij->size == 1) {
132114183eadSLois Curfman McInnes     ierr =  MatNorm(aij->A,type,norm);CHKERRQ(ierr);
132237fa93a5SLois Curfman McInnes   } else {
132304ca555eSLois Curfman McInnes     if (type == NORM_FROBENIUS) {
132404ca555eSLois Curfman McInnes       v = amat->a;
132504ca555eSLois Curfman McInnes       for (i=0; i<amat->nz; i++) {
1326aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX)
1327329f5518SBarry Smith         sum += PetscRealPart(PetscConj(*v)*(*v)); v++;
132804ca555eSLois Curfman McInnes #else
132904ca555eSLois Curfman McInnes         sum += (*v)*(*v); v++;
133004ca555eSLois Curfman McInnes #endif
133104ca555eSLois Curfman McInnes       }
133204ca555eSLois Curfman McInnes       v = bmat->a;
133304ca555eSLois Curfman McInnes       for (i=0; i<bmat->nz; i++) {
1334aa482453SBarry Smith #if defined(PETSC_USE_COMPLEX)
1335329f5518SBarry Smith         sum += PetscRealPart(PetscConj(*v)*(*v)); v++;
133604ca555eSLois Curfman McInnes #else
133704ca555eSLois Curfman McInnes         sum += (*v)*(*v); v++;
133804ca555eSLois Curfman McInnes #endif
133904ca555eSLois Curfman McInnes       }
1340d7d1e502SBarry Smith       ierr = MPI_Allreduce(&sum,norm,1,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr);
134104ca555eSLois Curfman McInnes       *norm = sqrt(*norm);
13423a40ed3dSBarry Smith     } else if (type == NORM_1) { /* max column norm */
1343329f5518SBarry Smith       PetscReal *tmp,*tmp2;
1344b1d57f15SBarry Smith       PetscInt    *jj,*garray = aij->garray;
1345b0a32e0cSBarry Smith       ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp);CHKERRQ(ierr);
1346b0a32e0cSBarry Smith       ierr = PetscMalloc((mat->N+1)*sizeof(PetscReal),&tmp2);CHKERRQ(ierr);
1347273d9f13SBarry Smith       ierr = PetscMemzero(tmp,mat->N*sizeof(PetscReal));CHKERRQ(ierr);
134804ca555eSLois Curfman McInnes       *norm = 0.0;
134904ca555eSLois Curfman McInnes       v = amat->a; jj = amat->j;
135004ca555eSLois Curfman McInnes       for (j=0; j<amat->nz; j++) {
1351bfec09a0SHong Zhang         tmp[cstart + *jj++ ] += PetscAbsScalar(*v);  v++;
135204ca555eSLois Curfman McInnes       }
135304ca555eSLois Curfman McInnes       v = bmat->a; jj = bmat->j;
135404ca555eSLois Curfman McInnes       for (j=0; j<bmat->nz; j++) {
1355bfec09a0SHong Zhang         tmp[garray[*jj++]] += PetscAbsScalar(*v); v++;
135604ca555eSLois Curfman McInnes       }
1357d7d1e502SBarry Smith       ierr = MPI_Allreduce(tmp,tmp2,mat->N,MPIU_REAL,MPI_SUM,mat->comm);CHKERRQ(ierr);
1358273d9f13SBarry Smith       for (j=0; j<mat->N; j++) {
135904ca555eSLois Curfman McInnes         if (tmp2[j] > *norm) *norm = tmp2[j];
136004ca555eSLois Curfman McInnes       }
1361606d414cSSatish Balay       ierr = PetscFree(tmp);CHKERRQ(ierr);
1362606d414cSSatish Balay       ierr = PetscFree(tmp2);CHKERRQ(ierr);
13633a40ed3dSBarry Smith     } else if (type == NORM_INFINITY) { /* max row norm */
1364329f5518SBarry Smith       PetscReal ntemp = 0.0;
1365273d9f13SBarry Smith       for (j=0; j<aij->A->m; j++) {
1366bfec09a0SHong Zhang         v = amat->a + amat->i[j];
136704ca555eSLois Curfman McInnes         sum = 0.0;
136804ca555eSLois Curfman McInnes         for (i=0; i<amat->i[j+1]-amat->i[j]; i++) {
1369cddf8d76SBarry Smith           sum += PetscAbsScalar(*v); v++;
137004ca555eSLois Curfman McInnes         }
1371bfec09a0SHong Zhang         v = bmat->a + bmat->i[j];
137204ca555eSLois Curfman McInnes         for (i=0; i<bmat->i[j+1]-bmat->i[j]; i++) {
1373cddf8d76SBarry Smith           sum += PetscAbsScalar(*v); v++;
137404ca555eSLois Curfman McInnes         }
1375515d9167SLois Curfman McInnes         if (sum > ntemp) ntemp = sum;
137604ca555eSLois Curfman McInnes       }
1377d7d1e502SBarry Smith       ierr = MPI_Allreduce(&ntemp,norm,1,MPIU_REAL,MPI_MAX,mat->comm);CHKERRQ(ierr);
1378ca161407SBarry Smith     } else {
137929bbc08cSBarry Smith       SETERRQ(PETSC_ERR_SUP,"No support for two norm");
138004ca555eSLois Curfman McInnes     }
138137fa93a5SLois Curfman McInnes   }
13823a40ed3dSBarry Smith   PetscFunctionReturn(0);
1383855ac2c5SLois Curfman McInnes }
1384855ac2c5SLois Curfman McInnes 
13854a2ae208SSatish Balay #undef __FUNCT__
13864a2ae208SSatish Balay #define __FUNCT__ "MatTranspose_MPIAIJ"
1387dfbe8321SBarry Smith PetscErrorCode MatTranspose_MPIAIJ(Mat A,Mat *matout)
1388b7c46309SBarry Smith {
1389b7c46309SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
1390dbb450caSBarry Smith   Mat_SeqAIJ     *Aloc = (Mat_SeqAIJ*)a->A->data;
1391dfbe8321SBarry Smith   PetscErrorCode ierr;
1392b1d57f15SBarry Smith   PetscInt       M = A->M,N = A->N,m,*ai,*aj,row,*cols,i,*ct;
13933a40ed3dSBarry Smith   Mat            B;
139487828ca2SBarry Smith   PetscScalar    *array;
1395b7c46309SBarry Smith 
13963a40ed3dSBarry Smith   PetscFunctionBegin;
13977c922b88SBarry Smith   if (!matout && M != N) {
139829bbc08cSBarry Smith     SETERRQ(PETSC_ERR_ARG_SIZ,"Square matrix only for in-place");
1399d4bb536fSBarry Smith   }
1400d4bb536fSBarry Smith 
1401f204ca49SKris Buschelman   ierr = MatCreate(A->comm,A->n,A->m,N,M,&B);CHKERRQ(ierr);
1402f204ca49SKris Buschelman   ierr = MatSetType(B,A->type_name);CHKERRQ(ierr);
1403f204ca49SKris Buschelman   ierr = MatMPIAIJSetPreallocation(B,0,PETSC_NULL,0,PETSC_NULL);CHKERRQ(ierr);
1404b7c46309SBarry Smith 
1405b7c46309SBarry Smith   /* copy over the A part */
1406ec8511deSBarry Smith   Aloc = (Mat_SeqAIJ*)a->A->data;
1407273d9f13SBarry Smith   m = a->A->m; ai = Aloc->i; aj = Aloc->j; array = Aloc->a;
1408b7c46309SBarry Smith   row = a->rstart;
1409bfec09a0SHong Zhang   for (i=0; i<ai[m]; i++) {aj[i] += a->cstart ;}
1410b7c46309SBarry Smith   for (i=0; i<m; i++) {
1411416022c9SBarry Smith     ierr = MatSetValues(B,ai[i+1]-ai[i],aj,1,&row,array,INSERT_VALUES);CHKERRQ(ierr);
1412b7c46309SBarry Smith     row++; array += ai[i+1]-ai[i]; aj += ai[i+1]-ai[i];
1413b7c46309SBarry Smith   }
1414b7c46309SBarry Smith   aj = Aloc->j;
1415bfec09a0SHong Zhang   for (i=0; i<ai[m]; i++) {aj[i] -= a->cstart ;}
1416b7c46309SBarry Smith 
1417b7c46309SBarry Smith   /* copy over the B part */
1418ec8511deSBarry Smith   Aloc = (Mat_SeqAIJ*)a->B->data;
1419273d9f13SBarry Smith   m = a->B->m;  ai = Aloc->i; aj = Aloc->j; array = Aloc->a;
1420b7c46309SBarry Smith   row  = a->rstart;
1421b1d57f15SBarry Smith   ierr = PetscMalloc((1+ai[m])*sizeof(PetscInt),&cols);CHKERRQ(ierr);
1422b0a32e0cSBarry Smith   ct   = cols;
1423bfec09a0SHong Zhang   for (i=0; i<ai[m]; i++) {cols[i] = a->garray[aj[i]];}
1424b7c46309SBarry Smith   for (i=0; i<m; i++) {
1425416022c9SBarry Smith     ierr = MatSetValues(B,ai[i+1]-ai[i],cols,1,&row,array,INSERT_VALUES);CHKERRQ(ierr);
1426b7c46309SBarry Smith     row++; array += ai[i+1]-ai[i]; cols += ai[i+1]-ai[i];
1427b7c46309SBarry Smith   }
1428606d414cSSatish Balay   ierr = PetscFree(ct);CHKERRQ(ierr);
14296d4a8577SBarry Smith   ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
14306d4a8577SBarry Smith   ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
14317c922b88SBarry Smith   if (matout) {
14320de55854SLois Curfman McInnes     *matout = B;
14330de55854SLois Curfman McInnes   } else {
1434273d9f13SBarry Smith     ierr = MatHeaderCopy(A,B);CHKERRQ(ierr);
14350de55854SLois Curfman McInnes   }
14363a40ed3dSBarry Smith   PetscFunctionReturn(0);
1437b7c46309SBarry Smith }
1438b7c46309SBarry Smith 
14394a2ae208SSatish Balay #undef __FUNCT__
14404a2ae208SSatish Balay #define __FUNCT__ "MatDiagonalScale_MPIAIJ"
1441dfbe8321SBarry Smith PetscErrorCode MatDiagonalScale_MPIAIJ(Mat mat,Vec ll,Vec rr)
1442a008b906SSatish Balay {
14434b967eb1SSatish Balay   Mat_MPIAIJ     *aij = (Mat_MPIAIJ*)mat->data;
14444b967eb1SSatish Balay   Mat            a = aij->A,b = aij->B;
1445dfbe8321SBarry Smith   PetscErrorCode ierr;
1446b1d57f15SBarry Smith   PetscInt       s1,s2,s3;
1447a008b906SSatish Balay 
14483a40ed3dSBarry Smith   PetscFunctionBegin;
14494b967eb1SSatish Balay   ierr = MatGetLocalSize(mat,&s2,&s3);CHKERRQ(ierr);
14504b967eb1SSatish Balay   if (rr) {
1451e1311b90SBarry Smith     ierr = VecGetLocalSize(rr,&s1);CHKERRQ(ierr);
145229bbc08cSBarry Smith     if (s1!=s3) SETERRQ(PETSC_ERR_ARG_SIZ,"right vector non-conforming local size");
14534b967eb1SSatish Balay     /* Overlap communication with computation. */
145443a90d84SBarry Smith     ierr = VecScatterBegin(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr);
1455a008b906SSatish Balay   }
14564b967eb1SSatish Balay   if (ll) {
1457e1311b90SBarry Smith     ierr = VecGetLocalSize(ll,&s1);CHKERRQ(ierr);
145829bbc08cSBarry Smith     if (s1!=s2) SETERRQ(PETSC_ERR_ARG_SIZ,"left vector non-conforming local size");
1459f830108cSBarry Smith     ierr = (*b->ops->diagonalscale)(b,ll,0);CHKERRQ(ierr);
14604b967eb1SSatish Balay   }
14614b967eb1SSatish Balay   /* scale  the diagonal block */
1462f830108cSBarry Smith   ierr = (*a->ops->diagonalscale)(a,ll,rr);CHKERRQ(ierr);
14634b967eb1SSatish Balay 
14644b967eb1SSatish Balay   if (rr) {
14654b967eb1SSatish Balay     /* Do a scatter end and then right scale the off-diagonal block */
146643a90d84SBarry Smith     ierr = VecScatterEnd(rr,aij->lvec,INSERT_VALUES,SCATTER_FORWARD,aij->Mvctx);CHKERRQ(ierr);
1467f830108cSBarry Smith     ierr = (*b->ops->diagonalscale)(b,0,aij->lvec);CHKERRQ(ierr);
14684b967eb1SSatish Balay   }
14694b967eb1SSatish Balay 
14703a40ed3dSBarry Smith   PetscFunctionReturn(0);
1471a008b906SSatish Balay }
1472a008b906SSatish Balay 
1473a008b906SSatish Balay 
14744a2ae208SSatish Balay #undef __FUNCT__
14754a2ae208SSatish Balay #define __FUNCT__ "MatPrintHelp_MPIAIJ"
1476dfbe8321SBarry Smith PetscErrorCode MatPrintHelp_MPIAIJ(Mat A)
1477682d7d0cSBarry Smith {
1478682d7d0cSBarry Smith   Mat_MPIAIJ     *a   = (Mat_MPIAIJ*)A->data;
1479dfbe8321SBarry Smith   PetscErrorCode ierr;
1480682d7d0cSBarry Smith 
14813a40ed3dSBarry Smith   PetscFunctionBegin;
14823a40ed3dSBarry Smith   if (!a->rank) {
14833a40ed3dSBarry Smith     ierr = MatPrintHelp_SeqAIJ(a->A);CHKERRQ(ierr);
14843a40ed3dSBarry Smith   }
14853a40ed3dSBarry Smith   PetscFunctionReturn(0);
1486682d7d0cSBarry Smith }
1487682d7d0cSBarry Smith 
14884a2ae208SSatish Balay #undef __FUNCT__
1489521d7252SBarry Smith #define __FUNCT__ "MatSetBlockSize_MPIAIJ"
1490521d7252SBarry Smith PetscErrorCode MatSetBlockSize_MPIAIJ(Mat A,PetscInt bs)
14915a838052SSatish Balay {
1492521d7252SBarry Smith   Mat_MPIAIJ     *a   = (Mat_MPIAIJ*)A->data;
1493521d7252SBarry Smith   PetscErrorCode ierr;
1494521d7252SBarry Smith 
14953a40ed3dSBarry Smith   PetscFunctionBegin;
1496521d7252SBarry Smith   ierr = MatSetBlockSize(a->A,bs);CHKERRQ(ierr);
1497521d7252SBarry Smith   ierr = MatSetBlockSize(a->B,bs);CHKERRQ(ierr);
14983a40ed3dSBarry Smith   PetscFunctionReturn(0);
14995a838052SSatish Balay }
15004a2ae208SSatish Balay #undef __FUNCT__
15014a2ae208SSatish Balay #define __FUNCT__ "MatSetUnfactored_MPIAIJ"
1502dfbe8321SBarry Smith PetscErrorCode MatSetUnfactored_MPIAIJ(Mat A)
1503bb5a7306SBarry Smith {
1504bb5a7306SBarry Smith   Mat_MPIAIJ     *a   = (Mat_MPIAIJ*)A->data;
1505dfbe8321SBarry Smith   PetscErrorCode ierr;
15063a40ed3dSBarry Smith 
15073a40ed3dSBarry Smith   PetscFunctionBegin;
1508bb5a7306SBarry Smith   ierr = MatSetUnfactored(a->A);CHKERRQ(ierr);
15093a40ed3dSBarry Smith   PetscFunctionReturn(0);
1510bb5a7306SBarry Smith }
1511bb5a7306SBarry Smith 
15124a2ae208SSatish Balay #undef __FUNCT__
15134a2ae208SSatish Balay #define __FUNCT__ "MatEqual_MPIAIJ"
1514dfbe8321SBarry Smith PetscErrorCode MatEqual_MPIAIJ(Mat A,Mat B,PetscTruth *flag)
1515d4bb536fSBarry Smith {
1516d4bb536fSBarry Smith   Mat_MPIAIJ     *matB = (Mat_MPIAIJ*)B->data,*matA = (Mat_MPIAIJ*)A->data;
1517d4bb536fSBarry Smith   Mat            a,b,c,d;
1518d4bb536fSBarry Smith   PetscTruth     flg;
1519dfbe8321SBarry Smith   PetscErrorCode ierr;
1520d4bb536fSBarry Smith 
15213a40ed3dSBarry Smith   PetscFunctionBegin;
1522d4bb536fSBarry Smith   a = matA->A; b = matA->B;
1523d4bb536fSBarry Smith   c = matB->A; d = matB->B;
1524d4bb536fSBarry Smith 
1525d4bb536fSBarry Smith   ierr = MatEqual(a,c,&flg);CHKERRQ(ierr);
1526d4bb536fSBarry Smith   if (flg == PETSC_TRUE) {
1527d4bb536fSBarry Smith     ierr = MatEqual(b,d,&flg);CHKERRQ(ierr);
1528d4bb536fSBarry Smith   }
1529ca161407SBarry Smith   ierr = MPI_Allreduce(&flg,flag,1,MPI_INT,MPI_LAND,A->comm);CHKERRQ(ierr);
15303a40ed3dSBarry Smith   PetscFunctionReturn(0);
1531d4bb536fSBarry Smith }
1532d4bb536fSBarry Smith 
15334a2ae208SSatish Balay #undef __FUNCT__
15344a2ae208SSatish Balay #define __FUNCT__ "MatCopy_MPIAIJ"
1535dfbe8321SBarry Smith PetscErrorCode MatCopy_MPIAIJ(Mat A,Mat B,MatStructure str)
1536cb5b572fSBarry Smith {
1537dfbe8321SBarry Smith   PetscErrorCode ierr;
1538cb5b572fSBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ *)A->data;
1539cb5b572fSBarry Smith   Mat_MPIAIJ     *b = (Mat_MPIAIJ *)B->data;
1540cb5b572fSBarry Smith 
1541cb5b572fSBarry Smith   PetscFunctionBegin;
154233f4a19fSKris Buschelman   /* If the two matrices don't have the same copy implementation, they aren't compatible for fast copy. */
154333f4a19fSKris Buschelman   if ((str != SAME_NONZERO_PATTERN) || (A->ops->copy != B->ops->copy)) {
1544cb5b572fSBarry Smith     /* because of the column compression in the off-processor part of the matrix a->B,
1545cb5b572fSBarry Smith        the number of columns in a->B and b->B may be different, hence we cannot call
1546cb5b572fSBarry Smith        the MatCopy() directly on the two parts. If need be, we can provide a more
1547cb5b572fSBarry Smith        efficient copy than the MatCopy_Basic() by first uncompressing the a->B matrices
1548cb5b572fSBarry Smith        then copying the submatrices */
1549cb5b572fSBarry Smith     ierr = MatCopy_Basic(A,B,str);CHKERRQ(ierr);
1550cb5b572fSBarry Smith   } else {
1551cb5b572fSBarry Smith     ierr = MatCopy(a->A,b->A,str);CHKERRQ(ierr);
1552cb5b572fSBarry Smith     ierr = MatCopy(a->B,b->B,str);CHKERRQ(ierr);
1553cb5b572fSBarry Smith   }
1554cb5b572fSBarry Smith   PetscFunctionReturn(0);
1555cb5b572fSBarry Smith }
1556cb5b572fSBarry Smith 
15574a2ae208SSatish Balay #undef __FUNCT__
15584a2ae208SSatish Balay #define __FUNCT__ "MatSetUpPreallocation_MPIAIJ"
1559dfbe8321SBarry Smith PetscErrorCode MatSetUpPreallocation_MPIAIJ(Mat A)
1560273d9f13SBarry Smith {
1561dfbe8321SBarry Smith   PetscErrorCode ierr;
1562273d9f13SBarry Smith 
1563273d9f13SBarry Smith   PetscFunctionBegin;
1564273d9f13SBarry Smith   ierr =  MatMPIAIJSetPreallocation(A,PETSC_DEFAULT,0,PETSC_DEFAULT,0);CHKERRQ(ierr);
1565273d9f13SBarry Smith   PetscFunctionReturn(0);
1566273d9f13SBarry Smith }
1567273d9f13SBarry Smith 
1568ac90fabeSBarry Smith #include "petscblaslapack.h"
1569ac90fabeSBarry Smith #undef __FUNCT__
1570ac90fabeSBarry Smith #define __FUNCT__ "MatAXPY_MPIAIJ"
1571dfbe8321SBarry Smith PetscErrorCode MatAXPY_MPIAIJ(const PetscScalar a[],Mat X,Mat Y,MatStructure str)
1572ac90fabeSBarry Smith {
1573dfbe8321SBarry Smith   PetscErrorCode ierr;
1574b1d57f15SBarry Smith   PetscInt       i;
1575ac90fabeSBarry Smith   Mat_MPIAIJ     *xx = (Mat_MPIAIJ *)X->data,*yy = (Mat_MPIAIJ *)Y->data;
15764ce68768SBarry Smith   PetscBLASInt   bnz,one=1;
1577ac90fabeSBarry Smith   Mat_SeqAIJ     *x,*y;
1578ac90fabeSBarry Smith 
1579ac90fabeSBarry Smith   PetscFunctionBegin;
1580ac90fabeSBarry Smith   if (str == SAME_NONZERO_PATTERN) {
1581ac90fabeSBarry Smith     x = (Mat_SeqAIJ *)xx->A->data;
1582ac90fabeSBarry Smith     y = (Mat_SeqAIJ *)yy->A->data;
15834ce68768SBarry Smith     bnz = (PetscBLASInt)x->nz;
15844ce68768SBarry Smith     BLaxpy_(&bnz,(PetscScalar*)a,x->a,&one,y->a,&one);
1585ac90fabeSBarry Smith     x = (Mat_SeqAIJ *)xx->B->data;
1586ac90fabeSBarry Smith     y = (Mat_SeqAIJ *)yy->B->data;
15874ce68768SBarry Smith     bnz = (PetscBLASInt)x->nz;
15884ce68768SBarry Smith     BLaxpy_(&bnz,(PetscScalar*)a,x->a,&one,y->a,&one);
1589a30b2313SHong Zhang   } else if (str == SUBSET_NONZERO_PATTERN) {
1590c537a176SHong Zhang     ierr = MatAXPY_SeqAIJ(a,xx->A,yy->A,str);CHKERRQ(ierr);
1591c537a176SHong Zhang 
1592c537a176SHong Zhang     x = (Mat_SeqAIJ *)xx->B->data;
1593a30b2313SHong Zhang     y = (Mat_SeqAIJ *)yy->B->data;
1594a30b2313SHong Zhang     if (y->xtoy && y->XtoY != xx->B) {
1595a30b2313SHong Zhang       ierr = PetscFree(y->xtoy);CHKERRQ(ierr);
1596a30b2313SHong Zhang       ierr = MatDestroy(y->XtoY);CHKERRQ(ierr);
1597c537a176SHong Zhang     }
1598a30b2313SHong Zhang     if (!y->xtoy) { /* get xtoy */
159924f910e3SHong Zhang       ierr = MatAXPYGetxtoy_Private(xx->B->m,x->i,x->j,xx->garray,y->i,y->j,yy->garray,&y->xtoy);CHKERRQ(ierr);
1600a30b2313SHong Zhang       y->XtoY = xx->B;
1601c537a176SHong Zhang     }
1602a30b2313SHong Zhang     for (i=0; i<x->nz; i++) y->a[y->xtoy[i]] += (*a)*(x->a[i]);
1603ac90fabeSBarry Smith   } else {
1604ac90fabeSBarry Smith     ierr = MatAXPY_Basic(a,X,Y,str);CHKERRQ(ierr);
1605ac90fabeSBarry Smith   }
1606ac90fabeSBarry Smith   PetscFunctionReturn(0);
1607ac90fabeSBarry Smith }
1608ac90fabeSBarry Smith 
16098a729477SBarry Smith /* -------------------------------------------------------------------*/
1610cda55fadSBarry Smith static struct _MatOps MatOps_Values = {MatSetValues_MPIAIJ,
1611cda55fadSBarry Smith        MatGetRow_MPIAIJ,
1612cda55fadSBarry Smith        MatRestoreRow_MPIAIJ,
1613cda55fadSBarry Smith        MatMult_MPIAIJ,
161497304618SKris Buschelman /* 4*/ MatMultAdd_MPIAIJ,
16157c922b88SBarry Smith        MatMultTranspose_MPIAIJ,
16167c922b88SBarry Smith        MatMultTransposeAdd_MPIAIJ,
1617cda55fadSBarry Smith        0,
1618cda55fadSBarry Smith        0,
1619cda55fadSBarry Smith        0,
162097304618SKris Buschelman /*10*/ 0,
1621cda55fadSBarry Smith        0,
1622cda55fadSBarry Smith        0,
162344a69424SLois Curfman McInnes        MatRelax_MPIAIJ,
1624b7c46309SBarry Smith        MatTranspose_MPIAIJ,
162597304618SKris Buschelman /*15*/ MatGetInfo_MPIAIJ,
1626cda55fadSBarry Smith        MatEqual_MPIAIJ,
1627cda55fadSBarry Smith        MatGetDiagonal_MPIAIJ,
1628cda55fadSBarry Smith        MatDiagonalScale_MPIAIJ,
1629cda55fadSBarry Smith        MatNorm_MPIAIJ,
163097304618SKris Buschelman /*20*/ MatAssemblyBegin_MPIAIJ,
1631cda55fadSBarry Smith        MatAssemblyEnd_MPIAIJ,
16321eb62cbbSBarry Smith        0,
1633cda55fadSBarry Smith        MatSetOption_MPIAIJ,
1634cda55fadSBarry Smith        MatZeroEntries_MPIAIJ,
163597304618SKris Buschelman /*25*/ MatZeroRows_MPIAIJ,
1636cda55fadSBarry Smith        0,
1637cda55fadSBarry Smith        0,
1638cda55fadSBarry Smith        0,
1639cda55fadSBarry Smith        0,
164097304618SKris Buschelman /*30*/ MatSetUpPreallocation_MPIAIJ,
1641cda55fadSBarry Smith        0,
1642cda55fadSBarry Smith        0,
1643cda55fadSBarry Smith        0,
1644cda55fadSBarry Smith        0,
164597304618SKris Buschelman /*35*/ MatDuplicate_MPIAIJ,
1646cda55fadSBarry Smith        0,
1647cda55fadSBarry Smith        0,
1648cda55fadSBarry Smith        0,
1649cda55fadSBarry Smith        0,
165097304618SKris Buschelman /*40*/ MatAXPY_MPIAIJ,
1651cda55fadSBarry Smith        MatGetSubMatrices_MPIAIJ,
1652cda55fadSBarry Smith        MatIncreaseOverlap_MPIAIJ,
1653cda55fadSBarry Smith        MatGetValues_MPIAIJ,
1654cb5b572fSBarry Smith        MatCopy_MPIAIJ,
165597304618SKris Buschelman /*45*/ MatPrintHelp_MPIAIJ,
1656cda55fadSBarry Smith        MatScale_MPIAIJ,
1657cda55fadSBarry Smith        0,
1658cda55fadSBarry Smith        0,
1659cda55fadSBarry Smith        0,
1660521d7252SBarry Smith /*50*/ MatSetBlockSize_MPIAIJ,
1661cda55fadSBarry Smith        0,
1662cda55fadSBarry Smith        0,
1663cda55fadSBarry Smith        0,
1664cda55fadSBarry Smith        0,
166597304618SKris Buschelman /*55*/ MatFDColoringCreate_MPIAIJ,
1666cda55fadSBarry Smith        0,
1667cda55fadSBarry Smith        MatSetUnfactored_MPIAIJ,
1668cda55fadSBarry Smith        0,
1669cda55fadSBarry Smith        0,
167097304618SKris Buschelman /*60*/ MatGetSubMatrix_MPIAIJ,
1671e03a110bSBarry Smith        MatDestroy_MPIAIJ,
1672e03a110bSBarry Smith        MatView_MPIAIJ,
16738a124369SBarry Smith        MatGetPetscMaps_Petsc,
1674a2243be0SBarry Smith        0,
167597304618SKris Buschelman /*65*/ 0,
1676a2243be0SBarry Smith        0,
1677a2243be0SBarry Smith        0,
1678a2243be0SBarry Smith        0,
1679a2243be0SBarry Smith        0,
168097304618SKris Buschelman /*70*/ 0,
1681a2243be0SBarry Smith        0,
1682a2243be0SBarry Smith        MatSetColoring_MPIAIJ,
1683779c1a83SBarry Smith        MatSetValuesAdic_MPIAIJ,
168497304618SKris Buschelman        MatSetValuesAdifor_MPIAIJ,
168597304618SKris Buschelman /*75*/ 0,
168697304618SKris Buschelman        0,
168797304618SKris Buschelman        0,
168897304618SKris Buschelman        0,
168997304618SKris Buschelman        0,
169097304618SKris Buschelman /*80*/ 0,
169197304618SKris Buschelman        0,
169297304618SKris Buschelman        0,
169397304618SKris Buschelman        0,
169441acf15aSKris Buschelman /*84*/ MatLoad_MPIAIJ,
16956284ec50SHong Zhang        0,
16966284ec50SHong Zhang        0,
16976284ec50SHong Zhang        0,
16986284ec50SHong Zhang        0,
1699865e5f61SKris Buschelman        0,
1700865e5f61SKris Buschelman /*90*/ MatMatMult_MPIAIJ_MPIAIJ,
170126be0446SHong Zhang        MatMatMultSymbolic_MPIAIJ_MPIAIJ,
170226be0446SHong Zhang        MatMatMultNumeric_MPIAIJ_MPIAIJ,
1703ff134f7aSHong Zhang        MatPtAP_MPIAIJ_MPIAIJ,
1704865e5f61SKris Buschelman        MatPtAPSymbolic_MPIAIJ_MPIAIJ,
1705865e5f61SKris Buschelman /*95*/ MatPtAPNumeric_MPIAIJ_MPIAIJ,
1706865e5f61SKris Buschelman        0,
1707865e5f61SKris Buschelman        0,
1708865e5f61SKris Buschelman        0};
170936ce4990SBarry Smith 
17102e8a6d31SBarry Smith /* ----------------------------------------------------------------------------------------*/
17112e8a6d31SBarry Smith 
1712fb2e594dSBarry Smith EXTERN_C_BEGIN
17134a2ae208SSatish Balay #undef __FUNCT__
17144a2ae208SSatish Balay #define __FUNCT__ "MatStoreValues_MPIAIJ"
1715dfbe8321SBarry Smith PetscErrorCode MatStoreValues_MPIAIJ(Mat mat)
17162e8a6d31SBarry Smith {
17172e8a6d31SBarry Smith   Mat_MPIAIJ     *aij = (Mat_MPIAIJ *)mat->data;
1718dfbe8321SBarry Smith   PetscErrorCode ierr;
17192e8a6d31SBarry Smith 
17202e8a6d31SBarry Smith   PetscFunctionBegin;
17212e8a6d31SBarry Smith   ierr = MatStoreValues(aij->A);CHKERRQ(ierr);
17222e8a6d31SBarry Smith   ierr = MatStoreValues(aij->B);CHKERRQ(ierr);
17232e8a6d31SBarry Smith   PetscFunctionReturn(0);
17242e8a6d31SBarry Smith }
1725fb2e594dSBarry Smith EXTERN_C_END
17262e8a6d31SBarry Smith 
1727fb2e594dSBarry Smith EXTERN_C_BEGIN
17284a2ae208SSatish Balay #undef __FUNCT__
17294a2ae208SSatish Balay #define __FUNCT__ "MatRetrieveValues_MPIAIJ"
1730dfbe8321SBarry Smith PetscErrorCode MatRetrieveValues_MPIAIJ(Mat mat)
17312e8a6d31SBarry Smith {
17322e8a6d31SBarry Smith   Mat_MPIAIJ     *aij = (Mat_MPIAIJ *)mat->data;
1733dfbe8321SBarry Smith   PetscErrorCode ierr;
17342e8a6d31SBarry Smith 
17352e8a6d31SBarry Smith   PetscFunctionBegin;
17362e8a6d31SBarry Smith   ierr = MatRetrieveValues(aij->A);CHKERRQ(ierr);
17372e8a6d31SBarry Smith   ierr = MatRetrieveValues(aij->B);CHKERRQ(ierr);
17382e8a6d31SBarry Smith   PetscFunctionReturn(0);
17392e8a6d31SBarry Smith }
1740fb2e594dSBarry Smith EXTERN_C_END
17418a729477SBarry Smith 
1742e090d566SSatish Balay #include "petscpc.h"
174327508adbSBarry Smith EXTERN_C_BEGIN
17444a2ae208SSatish Balay #undef __FUNCT__
1745a23d5eceSKris Buschelman #define __FUNCT__ "MatMPIAIJSetPreallocation_MPIAIJ"
1746b1d57f15SBarry Smith PetscErrorCode MatMPIAIJSetPreallocation_MPIAIJ(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[])
1747a23d5eceSKris Buschelman {
1748a23d5eceSKris Buschelman   Mat_MPIAIJ     *b;
1749dfbe8321SBarry Smith   PetscErrorCode ierr;
1750b1d57f15SBarry Smith   PetscInt       i;
1751a23d5eceSKris Buschelman 
1752a23d5eceSKris Buschelman   PetscFunctionBegin;
1753a23d5eceSKris Buschelman   B->preallocated = PETSC_TRUE;
1754a23d5eceSKris Buschelman   if (d_nz == PETSC_DEFAULT || d_nz == PETSC_DECIDE) d_nz = 5;
1755a23d5eceSKris Buschelman   if (o_nz == PETSC_DEFAULT || o_nz == PETSC_DECIDE) o_nz = 2;
175677431f27SBarry Smith   if (d_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"d_nz cannot be less than 0: value %D",d_nz);
175777431f27SBarry Smith   if (o_nz < 0) SETERRQ1(PETSC_ERR_ARG_OUTOFRANGE,"o_nz cannot be less than 0: value %D",o_nz);
1758a23d5eceSKris Buschelman   if (d_nnz) {
1759a23d5eceSKris Buschelman     for (i=0; i<B->m; i++) {
176077431f27SBarry 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]);
1761a23d5eceSKris Buschelman     }
1762a23d5eceSKris Buschelman   }
1763a23d5eceSKris Buschelman   if (o_nnz) {
1764a23d5eceSKris Buschelman     for (i=0; i<B->m; i++) {
176577431f27SBarry 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]);
1766a23d5eceSKris Buschelman     }
1767a23d5eceSKris Buschelman   }
1768a23d5eceSKris Buschelman   b = (Mat_MPIAIJ*)B->data;
1769c60e587dSKris Buschelman   ierr = MatSeqAIJSetPreallocation(b->A,d_nz,d_nnz);CHKERRQ(ierr);
1770c60e587dSKris Buschelman   ierr = MatSeqAIJSetPreallocation(b->B,o_nz,o_nnz);CHKERRQ(ierr);
1771a23d5eceSKris Buschelman 
1772a23d5eceSKris Buschelman   PetscFunctionReturn(0);
1773a23d5eceSKris Buschelman }
1774a23d5eceSKris Buschelman EXTERN_C_END
1775a23d5eceSKris Buschelman 
17760bad9183SKris Buschelman /*MC
1777002d173eSKris Buschelman    MATAIJ - MATAIJ = "aij" - A matrix type to be used for sparse matrices.
1778209238afSKris Buschelman 
1779209238afSKris Buschelman    This matrix type is identical to MATSEQAIJ when constructed with a single process communicator,
178030e3259aSHong Zhang    and MATMPIAIJ otherwise.  As a result, for single process communicators,
178130e3259aSHong Zhang   MatSeqAIJSetPreallocation is supported, and similarly MatMPIAIJSetPreallocation is supported
178230e3259aSHong Zhang   for communicators controlling multiple processes.  It is recommended that you call both of
178330e3259aSHong Zhang   the above preallocation routines for simplicity.
1784209238afSKris Buschelman 
1785209238afSKris Buschelman    Options Database Keys:
1786209238afSKris Buschelman . -mat_type aij - sets the matrix type to "aij" during a call to MatSetFromOptions()
1787209238afSKris Buschelman 
1788209238afSKris Buschelman   Level: beginner
1789209238afSKris Buschelman 
1790209238afSKris Buschelman .seealso: MatCreateMPIAIJ,MATSEQAIJ,MATMPIAIJ
1791209238afSKris Buschelman M*/
1792209238afSKris Buschelman 
1793209238afSKris Buschelman EXTERN_C_BEGIN
1794209238afSKris Buschelman #undef __FUNCT__
1795209238afSKris Buschelman #define __FUNCT__ "MatCreate_AIJ"
1796dfbe8321SBarry Smith PetscErrorCode MatCreate_AIJ(Mat A)
1797dfbe8321SBarry Smith {
17986849ba73SBarry Smith   PetscErrorCode ierr;
1799b1d57f15SBarry Smith   PetscMPIInt    size;
1800209238afSKris Buschelman 
1801209238afSKris Buschelman   PetscFunctionBegin;
1802209238afSKris Buschelman   ierr = PetscObjectChangeTypeName((PetscObject)A,MATAIJ);CHKERRQ(ierr);
1803209238afSKris Buschelman   ierr = MPI_Comm_size(A->comm,&size);CHKERRQ(ierr);
1804209238afSKris Buschelman   if (size == 1) {
1805209238afSKris Buschelman     ierr = MatSetType(A,MATSEQAIJ);CHKERRQ(ierr);
1806209238afSKris Buschelman   } else {
1807209238afSKris Buschelman     ierr = MatSetType(A,MATMPIAIJ);CHKERRQ(ierr);
1808209238afSKris Buschelman   }
1809209238afSKris Buschelman   PetscFunctionReturn(0);
1810209238afSKris Buschelman }
1811209238afSKris Buschelman EXTERN_C_END
1812209238afSKris Buschelman 
18134a2ae208SSatish Balay #undef __FUNCT__
18144a2ae208SSatish Balay #define __FUNCT__ "MatDuplicate_MPIAIJ"
1815dfbe8321SBarry Smith PetscErrorCode MatDuplicate_MPIAIJ(Mat matin,MatDuplicateOption cpvalues,Mat *newmat)
1816d6dfbf8fSBarry Smith {
1817d6dfbf8fSBarry Smith   Mat            mat;
1818416022c9SBarry Smith   Mat_MPIAIJ     *a,*oldmat = (Mat_MPIAIJ*)matin->data;
1819dfbe8321SBarry Smith   PetscErrorCode ierr;
1820d6dfbf8fSBarry Smith 
18213a40ed3dSBarry Smith   PetscFunctionBegin;
1822416022c9SBarry Smith   *newmat       = 0;
1823273d9f13SBarry Smith   ierr = MatCreate(matin->comm,matin->m,matin->n,matin->M,matin->N,&mat);CHKERRQ(ierr);
1824be5d1d56SKris Buschelman   ierr = MatSetType(mat,matin->type_name);CHKERRQ(ierr);
18251d5dac46SHong Zhang   ierr = PetscMemcpy(mat->ops,matin->ops,sizeof(struct _MatOps));CHKERRQ(ierr);
1826273d9f13SBarry Smith   a    = (Mat_MPIAIJ*)mat->data;
1827e1b6402fSHong Zhang 
1828d6dfbf8fSBarry Smith   mat->factor       = matin->factor;
1829521d7252SBarry Smith   mat->bs           = matin->bs;
1830c456f294SBarry Smith   mat->assembled    = PETSC_TRUE;
1831e7641de0SSatish Balay   mat->insertmode   = NOT_SET_VALUES;
1832273d9f13SBarry Smith   mat->preallocated = PETSC_TRUE;
1833d6dfbf8fSBarry Smith 
1834416022c9SBarry Smith   a->rstart       = oldmat->rstart;
1835416022c9SBarry Smith   a->rend         = oldmat->rend;
1836416022c9SBarry Smith   a->cstart       = oldmat->cstart;
1837416022c9SBarry Smith   a->cend         = oldmat->cend;
183817699dbbSLois Curfman McInnes   a->size         = oldmat->size;
183917699dbbSLois Curfman McInnes   a->rank         = oldmat->rank;
1840e7641de0SSatish Balay   a->donotstash   = oldmat->donotstash;
1841e7641de0SSatish Balay   a->roworiented  = oldmat->roworiented;
1842e7641de0SSatish Balay   a->rowindices   = 0;
1843bcd2baecSBarry Smith   a->rowvalues    = 0;
1844bcd2baecSBarry Smith   a->getrowactive = PETSC_FALSE;
1845d6dfbf8fSBarry Smith 
1846b1d57f15SBarry Smith   ierr       = PetscMemcpy(a->rowners,oldmat->rowners,2*(a->size+2)*sizeof(PetscInt));CHKERRQ(ierr);
18478798bf22SSatish Balay   ierr       = MatStashCreate_Private(matin->comm,1,&mat->stash);CHKERRQ(ierr);
18482ee70a88SLois Curfman McInnes   if (oldmat->colmap) {
1849aa482453SBarry Smith #if defined (PETSC_USE_CTABLE)
18500f5bd95cSBarry Smith     ierr = PetscTableCreateCopy(oldmat->colmap,&a->colmap);CHKERRQ(ierr);
1851b1fc9764SSatish Balay #else
1852b1d57f15SBarry Smith     ierr = PetscMalloc((mat->N)*sizeof(PetscInt),&a->colmap);CHKERRQ(ierr);
1853b1d57f15SBarry Smith     PetscLogObjectMemory(mat,(mat->N)*sizeof(PetscInt));
1854b1d57f15SBarry Smith     ierr      = PetscMemcpy(a->colmap,oldmat->colmap,(mat->N)*sizeof(PetscInt));CHKERRQ(ierr);
1855b1fc9764SSatish Balay #endif
1856416022c9SBarry Smith   } else a->colmap = 0;
18573f41c07dSBarry Smith   if (oldmat->garray) {
1858b1d57f15SBarry Smith     PetscInt len;
1859273d9f13SBarry Smith     len  = oldmat->B->n;
1860b1d57f15SBarry Smith     ierr = PetscMalloc((len+1)*sizeof(PetscInt),&a->garray);CHKERRQ(ierr);
1861b1d57f15SBarry Smith     PetscLogObjectMemory(mat,len*sizeof(PetscInt));
1862b1d57f15SBarry Smith     if (len) { ierr = PetscMemcpy(a->garray,oldmat->garray,len*sizeof(PetscInt));CHKERRQ(ierr); }
1863416022c9SBarry Smith   } else a->garray = 0;
1864d6dfbf8fSBarry Smith 
1865416022c9SBarry Smith   ierr =  VecDuplicate(oldmat->lvec,&a->lvec);CHKERRQ(ierr);
1866b0a32e0cSBarry Smith   PetscLogObjectParent(mat,a->lvec);
1867a56f8943SBarry Smith   ierr =  VecScatterCopy(oldmat->Mvctx,&a->Mvctx);CHKERRQ(ierr);
1868b0a32e0cSBarry Smith   PetscLogObjectParent(mat,a->Mvctx);
18694efcb820SBarry Smith   ierr =  MatDestroy(a->A);CHKERRQ(ierr);
18702e8a6d31SBarry Smith   ierr =  MatDuplicate(oldmat->A,cpvalues,&a->A);CHKERRQ(ierr);
1871b0a32e0cSBarry Smith   PetscLogObjectParent(mat,a->A);
18724efcb820SBarry Smith   ierr =  MatDestroy(a->B);CHKERRQ(ierr);
18732e8a6d31SBarry Smith   ierr =  MatDuplicate(oldmat->B,cpvalues,&a->B);CHKERRQ(ierr);
1874b0a32e0cSBarry Smith   PetscLogObjectParent(mat,a->B);
1875b0a32e0cSBarry Smith   ierr = PetscFListDuplicate(matin->qlist,&mat->qlist);CHKERRQ(ierr);
18768a729477SBarry Smith   *newmat = mat;
18773a40ed3dSBarry Smith   PetscFunctionReturn(0);
18788a729477SBarry Smith }
1879416022c9SBarry Smith 
1880e090d566SSatish Balay #include "petscsys.h"
1881416022c9SBarry Smith 
18824a2ae208SSatish Balay #undef __FUNCT__
18834a2ae208SSatish Balay #define __FUNCT__ "MatLoad_MPIAIJ"
1884dfbe8321SBarry Smith PetscErrorCode MatLoad_MPIAIJ(PetscViewer viewer,const MatType type,Mat *newmat)
1885416022c9SBarry Smith {
1886d65a2f8fSBarry Smith   Mat            A;
188787828ca2SBarry Smith   PetscScalar    *vals,*svals;
188819bcc07fSBarry Smith   MPI_Comm       comm = ((PetscObject)viewer)->comm;
1889416022c9SBarry Smith   MPI_Status     status;
18906849ba73SBarry Smith   PetscErrorCode ierr;
1891dc231df0SBarry Smith   PetscMPIInt    rank,size,tag = ((PetscObject)viewer)->tag,maxnz;
1892b1d57f15SBarry Smith   PetscInt       i,nz,j,rstart,rend;
1893b1d57f15SBarry Smith   PetscInt       header[4],*rowlengths = 0,M,N,m,*cols;
1894b1d57f15SBarry Smith   PetscInt       *ourlens,*procsnz = 0,*offlens,jj,*mycols,*smycols;
1895dc231df0SBarry Smith   PetscInt       cend,cstart,n,*rowners;
1896b1d57f15SBarry Smith   int            fd;
1897416022c9SBarry Smith 
18983a40ed3dSBarry Smith   PetscFunctionBegin;
18991dab6e02SBarry Smith   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
19001dab6e02SBarry Smith   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
190117699dbbSLois Curfman McInnes   if (!rank) {
1902b0a32e0cSBarry Smith     ierr = PetscViewerBinaryGetDescriptor(viewer,&fd);CHKERRQ(ierr);
19030752156aSBarry Smith     ierr = PetscBinaryRead(fd,(char *)header,4,PETSC_INT);CHKERRQ(ierr);
1904552e946dSBarry Smith     if (header[0] != MAT_FILE_COOKIE) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"not matrix object");
19056c5fab8fSBarry Smith   }
19066c5fab8fSBarry Smith 
1907b1d57f15SBarry Smith   ierr = MPI_Bcast(header+1,3,MPIU_INT,0,comm);CHKERRQ(ierr);
1908416022c9SBarry Smith   M = header[1]; N = header[2];
1909416022c9SBarry Smith   /* determine ownership of all rows */
191029cdbbc8SSatish Balay   m    = M/size + ((M % size) > rank);
1911dc231df0SBarry Smith   ierr = PetscMalloc((size+1)*sizeof(PetscInt),&rowners);CHKERRQ(ierr);
1912dc231df0SBarry Smith   ierr = MPI_Allgather(&m,1,MPIU_INT,rowners+1,1,MPIU_INT,comm);CHKERRQ(ierr);
1913416022c9SBarry Smith   rowners[0] = 0;
191417699dbbSLois Curfman McInnes   for (i=2; i<=size; i++) {
1915416022c9SBarry Smith     rowners[i] += rowners[i-1];
1916416022c9SBarry Smith   }
191717699dbbSLois Curfman McInnes   rstart = rowners[rank];
191817699dbbSLois Curfman McInnes   rend   = rowners[rank+1];
1919416022c9SBarry Smith 
1920416022c9SBarry Smith   /* distribute row lengths to all processors */
1921dc231df0SBarry Smith   ierr    = PetscMalloc2(m,PetscInt,&ourlens,m,PetscInt,&offlens);CHKERRQ(ierr);
192217699dbbSLois Curfman McInnes   if (!rank) {
1923dc231df0SBarry Smith     ierr = PetscBinaryRead(fd,ourlens,m,PETSC_INT);CHKERRQ(ierr);
1924dc231df0SBarry Smith     ierr = PetscMalloc(m*sizeof(PetscInt),&rowlengths);CHKERRQ(ierr);
1925b1d57f15SBarry Smith     ierr = PetscMalloc(size*sizeof(PetscInt),&procsnz);CHKERRQ(ierr);
1926b1d57f15SBarry Smith     ierr = PetscMemzero(procsnz,size*sizeof(PetscInt));CHKERRQ(ierr);
1927dc231df0SBarry Smith     for (j=0; j<m; j++) {
1928dc231df0SBarry Smith       procsnz[0] += ourlens[j];
1929dc231df0SBarry Smith     }
1930dc231df0SBarry Smith     for (i=1; i<size; i++) {
1931dc231df0SBarry Smith       ierr = PetscBinaryRead(fd,rowlengths,rowners[i+1]-rowners[i],PETSC_INT);CHKERRQ(ierr);
1932dc231df0SBarry Smith       /* calculate the number of nonzeros on each processor */
1933dc231df0SBarry Smith       for (j=0; j<rowners[i+1]-rowners[i]; j++) {
1934416022c9SBarry Smith         procsnz[i] += rowlengths[j];
1935416022c9SBarry Smith       }
1936dc231df0SBarry Smith       ierr = MPI_Send(rowlengths,rowners[i+1]-rowners[i],MPIU_INT,i,tag,comm);CHKERRQ(ierr);
1937416022c9SBarry Smith     }
1938606d414cSSatish Balay     ierr = PetscFree(rowlengths);CHKERRQ(ierr);
1939dc231df0SBarry Smith   } else {
1940dc231df0SBarry Smith     ierr = MPI_Recv(ourlens,m,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr);
1941dc231df0SBarry Smith   }
1942416022c9SBarry Smith 
1943dc231df0SBarry Smith   if (!rank) {
1944416022c9SBarry Smith     /* determine max buffer needed and allocate it */
1945416022c9SBarry Smith     maxnz = 0;
19468a8e0b3aSBarry Smith     for (i=0; i<size; i++) {
19470452661fSBarry Smith       maxnz = PetscMax(maxnz,procsnz[i]);
1948416022c9SBarry Smith     }
1949b1d57f15SBarry Smith     ierr = PetscMalloc(maxnz*sizeof(PetscInt),&cols);CHKERRQ(ierr);
1950416022c9SBarry Smith 
1951416022c9SBarry Smith     /* read in my part of the matrix column indices  */
1952416022c9SBarry Smith     nz   = procsnz[0];
1953b1d57f15SBarry Smith     ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr);
19540752156aSBarry Smith     ierr = PetscBinaryRead(fd,mycols,nz,PETSC_INT);CHKERRQ(ierr);
1955d65a2f8fSBarry Smith 
1956d65a2f8fSBarry Smith     /* read in every one elses and ship off */
195717699dbbSLois Curfman McInnes     for (i=1; i<size; i++) {
1958d65a2f8fSBarry Smith       nz   = procsnz[i];
19590752156aSBarry Smith       ierr = PetscBinaryRead(fd,cols,nz,PETSC_INT);CHKERRQ(ierr);
1960b1d57f15SBarry Smith       ierr = MPI_Send(cols,nz,MPIU_INT,i,tag,comm);CHKERRQ(ierr);
1961d65a2f8fSBarry Smith     }
1962606d414cSSatish Balay     ierr = PetscFree(cols);CHKERRQ(ierr);
19633a40ed3dSBarry Smith   } else {
1964416022c9SBarry Smith     /* determine buffer space needed for message */
1965416022c9SBarry Smith     nz = 0;
1966416022c9SBarry Smith     for (i=0; i<m; i++) {
1967416022c9SBarry Smith       nz += ourlens[i];
1968416022c9SBarry Smith     }
1969dc231df0SBarry Smith     ierr = PetscMalloc(nz*sizeof(PetscInt),&mycols);CHKERRQ(ierr);
1970416022c9SBarry Smith 
1971416022c9SBarry Smith     /* receive message of column indices*/
1972b1d57f15SBarry Smith     ierr = MPI_Recv(mycols,nz,MPIU_INT,0,tag,comm,&status);CHKERRQ(ierr);
1973b1d57f15SBarry Smith     ierr = MPI_Get_count(&status,MPIU_INT,&maxnz);CHKERRQ(ierr);
197429bbc08cSBarry Smith     if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file");
1975416022c9SBarry Smith   }
1976416022c9SBarry Smith 
1977b362ba68SBarry Smith   /* determine column ownership if matrix is not square */
1978b362ba68SBarry Smith   if (N != M) {
1979b362ba68SBarry Smith     n      = N/size + ((N % size) > rank);
1980b1d57f15SBarry Smith     ierr   = MPI_Scan(&n,&cend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr);
1981b362ba68SBarry Smith     cstart = cend - n;
1982b362ba68SBarry Smith   } else {
1983b362ba68SBarry Smith     cstart = rstart;
1984b362ba68SBarry Smith     cend   = rend;
1985fb2e594dSBarry Smith     n      = cend - cstart;
1986b362ba68SBarry Smith   }
1987b362ba68SBarry Smith 
1988416022c9SBarry Smith   /* loop over local rows, determining number of off diagonal entries */
1989b1d57f15SBarry Smith   ierr = PetscMemzero(offlens,m*sizeof(PetscInt));CHKERRQ(ierr);
1990416022c9SBarry Smith   jj = 0;
1991416022c9SBarry Smith   for (i=0; i<m; i++) {
1992416022c9SBarry Smith     for (j=0; j<ourlens[i]; j++) {
1993b362ba68SBarry Smith       if (mycols[jj] < cstart || mycols[jj] >= cend) offlens[i]++;
1994416022c9SBarry Smith       jj++;
1995416022c9SBarry Smith     }
1996416022c9SBarry Smith   }
1997d65a2f8fSBarry Smith 
1998d65a2f8fSBarry Smith   /* create our matrix */
1999416022c9SBarry Smith   for (i=0; i<m; i++) {
2000416022c9SBarry Smith     ourlens[i] -= offlens[i];
2001416022c9SBarry Smith   }
2002d10c748bSKris Buschelman   ierr = MatCreate(comm,m,n,M,N,&A);CHKERRQ(ierr);
2003d10c748bSKris Buschelman   ierr = MatSetType(A,type);CHKERRQ(ierr);
2004d10c748bSKris Buschelman   ierr = MatMPIAIJSetPreallocation(A,0,ourlens,0,offlens);CHKERRQ(ierr);
2005d10c748bSKris Buschelman 
2006fb2e594dSBarry Smith   ierr = MatSetOption(A,MAT_COLUMNS_SORTED);CHKERRQ(ierr);
2007d65a2f8fSBarry Smith   for (i=0; i<m; i++) {
2008d65a2f8fSBarry Smith     ourlens[i] += offlens[i];
2009d65a2f8fSBarry Smith   }
2010416022c9SBarry Smith 
201117699dbbSLois Curfman McInnes   if (!rank) {
2012906b51c7SHong Zhang     ierr = PetscMalloc((maxnz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr);
2013416022c9SBarry Smith 
2014416022c9SBarry Smith     /* read in my part of the matrix numerical values  */
2015416022c9SBarry Smith     nz   = procsnz[0];
20160752156aSBarry Smith     ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr);
2017d65a2f8fSBarry Smith 
2018d65a2f8fSBarry Smith     /* insert into matrix */
2019d65a2f8fSBarry Smith     jj      = rstart;
2020d65a2f8fSBarry Smith     smycols = mycols;
2021d65a2f8fSBarry Smith     svals   = vals;
2022d65a2f8fSBarry Smith     for (i=0; i<m; i++) {
2023dc231df0SBarry Smith       ierr = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr);
2024d65a2f8fSBarry Smith       smycols += ourlens[i];
2025d65a2f8fSBarry Smith       svals   += ourlens[i];
2026d65a2f8fSBarry Smith       jj++;
2027416022c9SBarry Smith     }
2028416022c9SBarry Smith 
2029d65a2f8fSBarry Smith     /* read in other processors and ship out */
203017699dbbSLois Curfman McInnes     for (i=1; i<size; i++) {
2031416022c9SBarry Smith       nz   = procsnz[i];
20320752156aSBarry Smith       ierr = PetscBinaryRead(fd,vals,nz,PETSC_SCALAR);CHKERRQ(ierr);
2033ca161407SBarry Smith       ierr = MPI_Send(vals,nz,MPIU_SCALAR,i,A->tag,comm);CHKERRQ(ierr);
2034416022c9SBarry Smith     }
2035606d414cSSatish Balay     ierr = PetscFree(procsnz);CHKERRQ(ierr);
20363a40ed3dSBarry Smith   } else {
2037d65a2f8fSBarry Smith     /* receive numeric values */
203887828ca2SBarry Smith     ierr = PetscMalloc((nz+1)*sizeof(PetscScalar),&vals);CHKERRQ(ierr);
2039416022c9SBarry Smith 
2040d65a2f8fSBarry Smith     /* receive message of values*/
2041ca161407SBarry Smith     ierr = MPI_Recv(vals,nz,MPIU_SCALAR,0,A->tag,comm,&status);CHKERRQ(ierr);
2042ca161407SBarry Smith     ierr = MPI_Get_count(&status,MPIU_SCALAR,&maxnz);CHKERRQ(ierr);
204329bbc08cSBarry Smith     if (maxnz != nz) SETERRQ(PETSC_ERR_FILE_UNEXPECTED,"something is wrong with file");
2044d65a2f8fSBarry Smith 
2045d65a2f8fSBarry Smith     /* insert into matrix */
2046d65a2f8fSBarry Smith     jj      = rstart;
2047d65a2f8fSBarry Smith     smycols = mycols;
2048d65a2f8fSBarry Smith     svals   = vals;
2049d65a2f8fSBarry Smith     for (i=0; i<m; i++) {
2050dc231df0SBarry Smith       ierr     = MatSetValues_MPIAIJ(A,1,&jj,ourlens[i],smycols,svals,INSERT_VALUES);CHKERRQ(ierr);
2051d65a2f8fSBarry Smith       smycols += ourlens[i];
2052d65a2f8fSBarry Smith       svals   += ourlens[i];
2053d65a2f8fSBarry Smith       jj++;
2054d65a2f8fSBarry Smith     }
2055d65a2f8fSBarry Smith   }
2056dc231df0SBarry Smith   ierr = PetscFree2(ourlens,offlens);CHKERRQ(ierr);
2057606d414cSSatish Balay   ierr = PetscFree(vals);CHKERRQ(ierr);
2058606d414cSSatish Balay   ierr = PetscFree(mycols);CHKERRQ(ierr);
2059606d414cSSatish Balay   ierr = PetscFree(rowners);CHKERRQ(ierr);
2060d65a2f8fSBarry Smith 
20616d4a8577SBarry Smith   ierr = MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
20626d4a8577SBarry Smith   ierr = MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2063d10c748bSKris Buschelman   *newmat = A;
20643a40ed3dSBarry Smith   PetscFunctionReturn(0);
2065416022c9SBarry Smith }
2066a0ff6018SBarry Smith 
20674a2ae208SSatish Balay #undef __FUNCT__
20684a2ae208SSatish Balay #define __FUNCT__ "MatGetSubMatrix_MPIAIJ"
2069a0ff6018SBarry Smith /*
207029da9460SBarry Smith     Not great since it makes two copies of the submatrix, first an SeqAIJ
207129da9460SBarry Smith   in local and then by concatenating the local matrices the end result.
207229da9460SBarry Smith   Writing it directly would be much like MatGetSubMatrices_MPIAIJ()
2073a0ff6018SBarry Smith */
2074b1d57f15SBarry Smith PetscErrorCode MatGetSubMatrix_MPIAIJ(Mat mat,IS isrow,IS iscol,PetscInt csize,MatReuse call,Mat *newmat)
2075a0ff6018SBarry Smith {
2076dfbe8321SBarry Smith   PetscErrorCode ierr;
207732dcc486SBarry Smith   PetscMPIInt    rank,size;
2078b1d57f15SBarry Smith   PetscInt       i,m,n,rstart,row,rend,nz,*cwork,j;
2079b1d57f15SBarry Smith   PetscInt       *ii,*jj,nlocal,*dlens,*olens,dlen,olen,jend,mglobal;
2080fee21e36SBarry Smith   Mat            *local,M,Mreuse;
208187828ca2SBarry Smith   PetscScalar    *vwork,*aa;
208200e6dbe6SBarry Smith   MPI_Comm       comm = mat->comm;
208300e6dbe6SBarry Smith   Mat_SeqAIJ     *aij;
20847e2c5f70SBarry Smith 
2085a0ff6018SBarry Smith 
2086a0ff6018SBarry Smith   PetscFunctionBegin;
20871dab6e02SBarry Smith   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
20881dab6e02SBarry Smith   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
208900e6dbe6SBarry Smith 
2090fee21e36SBarry Smith   if (call ==  MAT_REUSE_MATRIX) {
2091fee21e36SBarry Smith     ierr = PetscObjectQuery((PetscObject)*newmat,"SubMatrix",(PetscObject *)&Mreuse);CHKERRQ(ierr);
2092e005ede5SBarry Smith     if (!Mreuse) SETERRQ(PETSC_ERR_ARG_WRONGSTATE,"Submatrix passed in was not used before, cannot reuse");
2093fee21e36SBarry Smith     local = &Mreuse;
2094fee21e36SBarry Smith     ierr  = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_REUSE_MATRIX,&local);CHKERRQ(ierr);
2095fee21e36SBarry Smith   } else {
2096a0ff6018SBarry Smith     ierr   = MatGetSubMatrices(mat,1,&isrow,&iscol,MAT_INITIAL_MATRIX,&local);CHKERRQ(ierr);
2097fee21e36SBarry Smith     Mreuse = *local;
2098606d414cSSatish Balay     ierr   = PetscFree(local);CHKERRQ(ierr);
2099fee21e36SBarry Smith   }
2100a0ff6018SBarry Smith 
2101a0ff6018SBarry Smith   /*
2102a0ff6018SBarry Smith       m - number of local rows
2103a0ff6018SBarry Smith       n - number of columns (same on all processors)
2104a0ff6018SBarry Smith       rstart - first row in new global matrix generated
2105a0ff6018SBarry Smith   */
2106fee21e36SBarry Smith   ierr = MatGetSize(Mreuse,&m,&n);CHKERRQ(ierr);
2107a0ff6018SBarry Smith   if (call == MAT_INITIAL_MATRIX) {
2108fee21e36SBarry Smith     aij = (Mat_SeqAIJ*)(Mreuse)->data;
210900e6dbe6SBarry Smith     ii  = aij->i;
211000e6dbe6SBarry Smith     jj  = aij->j;
211100e6dbe6SBarry Smith 
2112a0ff6018SBarry Smith     /*
211300e6dbe6SBarry Smith         Determine the number of non-zeros in the diagonal and off-diagonal
211400e6dbe6SBarry Smith         portions of the matrix in order to do correct preallocation
2115a0ff6018SBarry Smith     */
211600e6dbe6SBarry Smith 
211700e6dbe6SBarry Smith     /* first get start and end of "diagonal" columns */
21186a6a5d1dSBarry Smith     if (csize == PETSC_DECIDE) {
2119ab50ec6bSBarry Smith       ierr = ISGetSize(isrow,&mglobal);CHKERRQ(ierr);
2120ab50ec6bSBarry Smith       if (mglobal == n) { /* square matrix */
2121e2c4fddaSBarry Smith 	nlocal = m;
21226a6a5d1dSBarry Smith       } else {
2123ab50ec6bSBarry Smith         nlocal = n/size + ((n % size) > rank);
2124ab50ec6bSBarry Smith       }
2125ab50ec6bSBarry Smith     } else {
21266a6a5d1dSBarry Smith       nlocal = csize;
21276a6a5d1dSBarry Smith     }
2128b1d57f15SBarry Smith     ierr   = MPI_Scan(&nlocal,&rend,1,MPIU_INT,MPI_SUM,comm);CHKERRQ(ierr);
212900e6dbe6SBarry Smith     rstart = rend - nlocal;
21306a6a5d1dSBarry Smith     if (rank == size - 1 && rend != n) {
213177431f27SBarry Smith       SETERRQ2(PETSC_ERR_ARG_SIZ,"Local column sizes %D do not add up to total number of columns %D",rend,n);
21326a6a5d1dSBarry Smith     }
213300e6dbe6SBarry Smith 
213400e6dbe6SBarry Smith     /* next, compute all the lengths */
2135b1d57f15SBarry Smith     ierr  = PetscMalloc((2*m+1)*sizeof(PetscInt),&dlens);CHKERRQ(ierr);
213600e6dbe6SBarry Smith     olens = dlens + m;
213700e6dbe6SBarry Smith     for (i=0; i<m; i++) {
213800e6dbe6SBarry Smith       jend = ii[i+1] - ii[i];
213900e6dbe6SBarry Smith       olen = 0;
214000e6dbe6SBarry Smith       dlen = 0;
214100e6dbe6SBarry Smith       for (j=0; j<jend; j++) {
214200e6dbe6SBarry Smith         if (*jj < rstart || *jj >= rend) olen++;
214300e6dbe6SBarry Smith         else dlen++;
214400e6dbe6SBarry Smith         jj++;
214500e6dbe6SBarry Smith       }
214600e6dbe6SBarry Smith       olens[i] = olen;
214700e6dbe6SBarry Smith       dlens[i] = dlen;
214800e6dbe6SBarry Smith     }
2149e2d9671bSKris Buschelman     ierr = MatCreate(comm,m,nlocal,PETSC_DECIDE,n,&M);CHKERRQ(ierr);
2150e2d9671bSKris Buschelman     ierr = MatSetType(M,mat->type_name);CHKERRQ(ierr);
2151e2d9671bSKris Buschelman     ierr = MatMPIAIJSetPreallocation(M,0,dlens,0,olens);CHKERRQ(ierr);
2152606d414cSSatish Balay     ierr = PetscFree(dlens);CHKERRQ(ierr);
2153a0ff6018SBarry Smith   } else {
2154b1d57f15SBarry Smith     PetscInt ml,nl;
2155a0ff6018SBarry Smith 
2156a0ff6018SBarry Smith     M = *newmat;
2157a0ff6018SBarry Smith     ierr = MatGetLocalSize(M,&ml,&nl);CHKERRQ(ierr);
215829bbc08cSBarry Smith     if (ml != m) SETERRQ(PETSC_ERR_ARG_SIZ,"Previous matrix must be same size/layout as request");
2159a0ff6018SBarry Smith     ierr = MatZeroEntries(M);CHKERRQ(ierr);
2160c48de900SBarry Smith     /*
2161c48de900SBarry Smith          The next two lines are needed so we may call MatSetValues_MPIAIJ() below directly,
2162c48de900SBarry Smith        rather than the slower MatSetValues().
2163c48de900SBarry Smith     */
2164c48de900SBarry Smith     M->was_assembled = PETSC_TRUE;
2165c48de900SBarry Smith     M->assembled     = PETSC_FALSE;
2166a0ff6018SBarry Smith   }
2167a0ff6018SBarry Smith   ierr = MatGetOwnershipRange(M,&rstart,&rend);CHKERRQ(ierr);
2168fee21e36SBarry Smith   aij = (Mat_SeqAIJ*)(Mreuse)->data;
216900e6dbe6SBarry Smith   ii  = aij->i;
217000e6dbe6SBarry Smith   jj  = aij->j;
217100e6dbe6SBarry Smith   aa  = aij->a;
2172a0ff6018SBarry Smith   for (i=0; i<m; i++) {
2173a0ff6018SBarry Smith     row   = rstart + i;
217400e6dbe6SBarry Smith     nz    = ii[i+1] - ii[i];
217500e6dbe6SBarry Smith     cwork = jj;     jj += nz;
217600e6dbe6SBarry Smith     vwork = aa;     aa += nz;
21778c638d02SBarry Smith     ierr = MatSetValues_MPIAIJ(M,1,&row,nz,cwork,vwork,INSERT_VALUES);CHKERRQ(ierr);
2178a0ff6018SBarry Smith   }
2179a0ff6018SBarry Smith 
2180a0ff6018SBarry Smith   ierr = MatAssemblyBegin(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2181a0ff6018SBarry Smith   ierr = MatAssemblyEnd(M,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2182a0ff6018SBarry Smith   *newmat = M;
2183fee21e36SBarry Smith 
2184fee21e36SBarry Smith   /* save submatrix used in processor for next request */
2185fee21e36SBarry Smith   if (call ==  MAT_INITIAL_MATRIX) {
2186fee21e36SBarry Smith     ierr = PetscObjectCompose((PetscObject)M,"SubMatrix",(PetscObject)Mreuse);CHKERRQ(ierr);
2187fee21e36SBarry Smith     ierr = PetscObjectDereference((PetscObject)Mreuse);CHKERRQ(ierr);
2188fee21e36SBarry Smith   }
2189fee21e36SBarry Smith 
2190a0ff6018SBarry Smith   PetscFunctionReturn(0);
2191a0ff6018SBarry Smith }
2192273d9f13SBarry Smith 
2193e2e86b8fSSatish Balay EXTERN_C_BEGIN
21944a2ae208SSatish Balay #undef __FUNCT__
2195ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR_MPIAIJ"
2196ccd8e176SBarry Smith PetscErrorCode MatMPIAIJSetPreallocationCSR_MPIAIJ(Mat B,const PetscInt I[],const PetscInt J[],const PetscScalar v[])
2197ccd8e176SBarry Smith {
2198ccd8e176SBarry Smith   Mat_MPIAIJ     *b = (Mat_MPIAIJ *)B->data;
2199ccd8e176SBarry Smith   PetscInt       m = B->m,cstart = b->cstart, cend = b->cend,j,nnz,i,d;
2200ccd8e176SBarry Smith   PetscInt       *d_nnz,*o_nnz,nnz_max = 0,rstart = b->rstart,ii;
2201ccd8e176SBarry Smith   const PetscInt *JJ;
2202ccd8e176SBarry Smith   PetscScalar    *values;
2203ccd8e176SBarry Smith   PetscErrorCode ierr;
2204ccd8e176SBarry Smith 
2205ccd8e176SBarry Smith   PetscFunctionBegin;
2206ccd8e176SBarry Smith #if defined(PETSC_OPT_g)
2207ccd8e176SBarry Smith   if (I[0]) SETERRQ1(PETSC_ERR_ARG_RANGE,"I[0] must be 0 it is %D",I[0]);
2208ccd8e176SBarry Smith #endif
2209ccd8e176SBarry Smith   ierr  = PetscMalloc((2*m+1)*sizeof(PetscInt),&d_nnz);CHKERRQ(ierr);
2210ccd8e176SBarry Smith   o_nnz = d_nnz + m;
2211ccd8e176SBarry Smith 
2212ccd8e176SBarry Smith   for (i=0; i<m; i++) {
2213ccd8e176SBarry Smith     nnz     = I[i+1]- I[i];
2214ccd8e176SBarry Smith     JJ      = J + I[i];
2215ccd8e176SBarry Smith     nnz_max = PetscMax(nnz_max,nnz);
2216ccd8e176SBarry Smith #if defined(PETSC_OPT_g)
2217ccd8e176SBarry Smith     if (nnz < 0) SETERRQ1(PETSC_ERR_ARG_RANGE,"Local row %D has a negative %D number of columns",i,nnz);
2218ccd8e176SBarry Smith #endif
2219ccd8e176SBarry Smith     for (j=0; j<nnz; j++) {
2220ccd8e176SBarry Smith       if (*JJ >= cstart) break;
2221ccd8e176SBarry Smith       JJ++;
2222ccd8e176SBarry Smith     }
2223ccd8e176SBarry Smith     d = 0;
2224ccd8e176SBarry Smith     for (; j<nnz; j++) {
2225ccd8e176SBarry Smith       if (*JJ++ >= cend) break;
2226ccd8e176SBarry Smith       d++;
2227ccd8e176SBarry Smith     }
2228ccd8e176SBarry Smith     d_nnz[i] = d;
2229ccd8e176SBarry Smith     o_nnz[i] = nnz - d;
2230ccd8e176SBarry Smith   }
2231ccd8e176SBarry Smith   ierr = MatMPIAIJSetPreallocation(B,0,d_nnz,0,o_nnz);CHKERRQ(ierr);
2232ccd8e176SBarry Smith   ierr = PetscFree(d_nnz);CHKERRQ(ierr);
2233ccd8e176SBarry Smith 
2234ccd8e176SBarry Smith   if (v) values = (PetscScalar*)v;
2235ccd8e176SBarry Smith   else {
2236ccd8e176SBarry Smith     ierr = PetscMalloc((nnz_max+1)*sizeof(PetscScalar),&values);CHKERRQ(ierr);
2237ccd8e176SBarry Smith     ierr = PetscMemzero(values,nnz_max*sizeof(PetscScalar));CHKERRQ(ierr);
2238ccd8e176SBarry Smith   }
2239ccd8e176SBarry Smith 
2240ccd8e176SBarry Smith   ierr = MatSetOption(B,MAT_COLUMNS_SORTED);CHKERRQ(ierr);
2241ccd8e176SBarry Smith   for (i=0; i<m; i++) {
2242ccd8e176SBarry Smith     ii   = i + rstart;
2243ccd8e176SBarry Smith     nnz  = I[i+1]- I[i];
2244ccd8e176SBarry Smith     ierr = MatSetValues_MPIAIJ(B,1,&ii,nnz,J+I[i],values,INSERT_VALUES);CHKERRQ(ierr);
2245ccd8e176SBarry Smith   }
2246ccd8e176SBarry Smith   ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2247ccd8e176SBarry Smith   ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2248ccd8e176SBarry Smith   ierr = MatSetOption(B,MAT_COLUMNS_UNSORTED);CHKERRQ(ierr);
2249ccd8e176SBarry Smith 
2250ccd8e176SBarry Smith   if (!v) {
2251ccd8e176SBarry Smith     ierr = PetscFree(values);CHKERRQ(ierr);
2252ccd8e176SBarry Smith   }
2253ccd8e176SBarry Smith   PetscFunctionReturn(0);
2254ccd8e176SBarry Smith }
2255e2e86b8fSSatish Balay EXTERN_C_END
2256ccd8e176SBarry Smith 
2257ccd8e176SBarry Smith #undef __FUNCT__
2258ccd8e176SBarry Smith #define __FUNCT__ "MatMPIAIJSetPreallocationCSR"
2259ccd8e176SBarry Smith /*@C
2260ccd8e176SBarry Smith    MatMPIAIJSetPreallocationCSR - Allocates memory for a sparse parallel matrix in AIJ format
2261ccd8e176SBarry Smith    (the default parallel PETSc format).
2262ccd8e176SBarry Smith 
2263ccd8e176SBarry Smith    Collective on MPI_Comm
2264ccd8e176SBarry Smith 
2265ccd8e176SBarry Smith    Input Parameters:
2266ccd8e176SBarry Smith +  A - the matrix
2267ccd8e176SBarry Smith .  i - the indices into j for the start of each local row (starts with zero)
2268ccd8e176SBarry Smith .  j - the column indices for each local row (starts with zero) these must be sorted for each row
2269ccd8e176SBarry Smith -  v - optional values in the matrix
2270ccd8e176SBarry Smith 
2271ccd8e176SBarry Smith    Level: developer
2272ccd8e176SBarry Smith 
2273ccd8e176SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel
2274ccd8e176SBarry Smith 
2275ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatCreateMPIAIJ(), MPIAIJ
2276ccd8e176SBarry Smith @*/
2277ccd8e176SBarry Smith PetscErrorCode MatMPIAIJSetPreallocationCSR(Mat B,const PetscInt i[],const PetscInt j[], const PetscScalar v[])
2278ccd8e176SBarry Smith {
2279ccd8e176SBarry Smith   PetscErrorCode ierr,(*f)(Mat,const PetscInt[],const PetscInt[],const PetscScalar[]);
2280ccd8e176SBarry Smith 
2281ccd8e176SBarry Smith   PetscFunctionBegin;
2282ccd8e176SBarry Smith   ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",(void (**)(void))&f);CHKERRQ(ierr);
2283ccd8e176SBarry Smith   if (f) {
2284ccd8e176SBarry Smith     ierr = (*f)(B,i,j,v);CHKERRQ(ierr);
2285ccd8e176SBarry Smith   }
2286ccd8e176SBarry Smith   PetscFunctionReturn(0);
2287ccd8e176SBarry Smith }
2288ccd8e176SBarry Smith 
2289ccd8e176SBarry Smith #undef __FUNCT__
22904a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJSetPreallocation"
2291273d9f13SBarry Smith /*@C
2292ccd8e176SBarry Smith    MatMPIAIJSetPreallocation - Preallocates memory for a sparse parallel matrix in AIJ format
2293273d9f13SBarry Smith    (the default parallel PETSc format).  For good matrix assembly performance
2294273d9f13SBarry Smith    the user should preallocate the matrix storage by setting the parameters
2295273d9f13SBarry Smith    d_nz (or d_nnz) and o_nz (or o_nnz).  By setting these parameters accurately,
2296273d9f13SBarry Smith    performance can be increased by more than a factor of 50.
2297273d9f13SBarry Smith 
2298273d9f13SBarry Smith    Collective on MPI_Comm
2299273d9f13SBarry Smith 
2300273d9f13SBarry Smith    Input Parameters:
2301273d9f13SBarry Smith +  A - the matrix
2302273d9f13SBarry Smith .  d_nz  - number of nonzeros per row in DIAGONAL portion of local submatrix
2303273d9f13SBarry Smith            (same value is used for all local rows)
2304273d9f13SBarry Smith .  d_nnz - array containing the number of nonzeros in the various rows of the
2305273d9f13SBarry Smith            DIAGONAL portion of the local submatrix (possibly different for each row)
2306273d9f13SBarry Smith            or PETSC_NULL, if d_nz is used to specify the nonzero structure.
2307273d9f13SBarry Smith            The size of this array is equal to the number of local rows, i.e 'm'.
2308273d9f13SBarry Smith            You must leave room for the diagonal entry even if it is zero.
2309273d9f13SBarry Smith .  o_nz  - number of nonzeros per row in the OFF-DIAGONAL portion of local
2310273d9f13SBarry Smith            submatrix (same value is used for all local rows).
2311273d9f13SBarry Smith -  o_nnz - array containing the number of nonzeros in the various rows of the
2312273d9f13SBarry Smith            OFF-DIAGONAL portion of the local submatrix (possibly different for
2313273d9f13SBarry Smith            each row) or PETSC_NULL, if o_nz is used to specify the nonzero
2314273d9f13SBarry Smith            structure. The size of this array is equal to the number
2315273d9f13SBarry Smith            of local rows, i.e 'm'.
2316273d9f13SBarry Smith 
231749a6f317SBarry Smith    If the *_nnz parameter is given then the *_nz parameter is ignored
231849a6f317SBarry Smith 
2319273d9f13SBarry Smith    The AIJ format (also called the Yale sparse matrix format or
2320ccd8e176SBarry Smith    compressed row storage (CSR)), is fully compatible with standard Fortran 77
2321ccd8e176SBarry Smith    storage.  The stored row and column indices begin with zero.  See the users manual for details.
2322273d9f13SBarry Smith 
2323273d9f13SBarry Smith    The parallel matrix is partitioned such that the first m0 rows belong to
2324273d9f13SBarry Smith    process 0, the next m1 rows belong to process 1, the next m2 rows belong
2325273d9f13SBarry Smith    to process 2 etc.. where m0,m1,m2... are the input parameter 'm'.
2326273d9f13SBarry Smith 
2327273d9f13SBarry Smith    The DIAGONAL portion of the local submatrix of a processor can be defined
2328273d9f13SBarry Smith    as the submatrix which is obtained by extraction the part corresponding
2329273d9f13SBarry Smith    to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the
2330273d9f13SBarry Smith    first row that belongs to the processor, and r2 is the last row belonging
2331273d9f13SBarry Smith    to the this processor. This is a square mxm matrix. The remaining portion
2332273d9f13SBarry Smith    of the local submatrix (mxN) constitute the OFF-DIAGONAL portion.
2333273d9f13SBarry Smith 
2334273d9f13SBarry Smith    If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored.
2335273d9f13SBarry Smith 
2336273d9f13SBarry Smith    Example usage:
2337273d9f13SBarry Smith 
2338273d9f13SBarry Smith    Consider the following 8x8 matrix with 34 non-zero values, that is
2339273d9f13SBarry Smith    assembled across 3 processors. Lets assume that proc0 owns 3 rows,
2340273d9f13SBarry Smith    proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown
2341273d9f13SBarry Smith    as follows:
2342273d9f13SBarry Smith 
2343273d9f13SBarry Smith .vb
2344273d9f13SBarry Smith             1  2  0  |  0  3  0  |  0  4
2345273d9f13SBarry Smith     Proc0   0  5  6  |  7  0  0  |  8  0
2346273d9f13SBarry Smith             9  0 10  | 11  0  0  | 12  0
2347273d9f13SBarry Smith     -------------------------------------
2348273d9f13SBarry Smith            13  0 14  | 15 16 17  |  0  0
2349273d9f13SBarry Smith     Proc1   0 18  0  | 19 20 21  |  0  0
2350273d9f13SBarry Smith             0  0  0  | 22 23  0  | 24  0
2351273d9f13SBarry Smith     -------------------------------------
2352273d9f13SBarry Smith     Proc2  25 26 27  |  0  0 28  | 29  0
2353273d9f13SBarry Smith            30  0  0  | 31 32 33  |  0 34
2354273d9f13SBarry Smith .ve
2355273d9f13SBarry Smith 
2356273d9f13SBarry Smith    This can be represented as a collection of submatrices as:
2357273d9f13SBarry Smith 
2358273d9f13SBarry Smith .vb
2359273d9f13SBarry Smith       A B C
2360273d9f13SBarry Smith       D E F
2361273d9f13SBarry Smith       G H I
2362273d9f13SBarry Smith .ve
2363273d9f13SBarry Smith 
2364273d9f13SBarry Smith    Where the submatrices A,B,C are owned by proc0, D,E,F are
2365273d9f13SBarry Smith    owned by proc1, G,H,I are owned by proc2.
2366273d9f13SBarry Smith 
2367273d9f13SBarry Smith    The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively.
2368273d9f13SBarry Smith    The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively.
2369273d9f13SBarry Smith    The 'M','N' parameters are 8,8, and have the same values on all procs.
2370273d9f13SBarry Smith 
2371273d9f13SBarry Smith    The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are
2372273d9f13SBarry Smith    submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices
2373273d9f13SBarry Smith    corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively.
2374273d9f13SBarry Smith    Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL
2375273d9f13SBarry Smith    part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ
2376273d9f13SBarry Smith    matrix, ans [DF] as another SeqAIJ matrix.
2377273d9f13SBarry Smith 
2378273d9f13SBarry Smith    When d_nz, o_nz parameters are specified, d_nz storage elements are
2379273d9f13SBarry Smith    allocated for every row of the local diagonal submatrix, and o_nz
2380273d9f13SBarry Smith    storage locations are allocated for every row of the OFF-DIAGONAL submat.
2381273d9f13SBarry Smith    One way to choose d_nz and o_nz is to use the max nonzerors per local
2382273d9f13SBarry Smith    rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices.
2383273d9f13SBarry Smith    In this case, the values of d_nz,o_nz are:
2384273d9f13SBarry Smith .vb
2385273d9f13SBarry Smith      proc0 : dnz = 2, o_nz = 2
2386273d9f13SBarry Smith      proc1 : dnz = 3, o_nz = 2
2387273d9f13SBarry Smith      proc2 : dnz = 1, o_nz = 4
2388273d9f13SBarry Smith .ve
2389273d9f13SBarry Smith    We are allocating m*(d_nz+o_nz) storage locations for every proc. This
2390273d9f13SBarry Smith    translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10
2391273d9f13SBarry Smith    for proc3. i.e we are using 12+15+10=37 storage locations to store
2392273d9f13SBarry Smith    34 values.
2393273d9f13SBarry Smith 
2394273d9f13SBarry Smith    When d_nnz, o_nnz parameters are specified, the storage is specified
2395273d9f13SBarry Smith    for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices.
2396273d9f13SBarry Smith    In the above case the values for d_nnz,o_nnz are:
2397273d9f13SBarry Smith .vb
2398273d9f13SBarry Smith      proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2]
2399273d9f13SBarry Smith      proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1]
2400273d9f13SBarry Smith      proc2: d_nnz = [1,1]   and o_nnz = [4,4]
2401273d9f13SBarry Smith .ve
2402273d9f13SBarry Smith    Here the space allocated is sum of all the above values i.e 34, and
2403273d9f13SBarry Smith    hence pre-allocation is perfect.
2404273d9f13SBarry Smith 
2405273d9f13SBarry Smith    Level: intermediate
2406273d9f13SBarry Smith 
2407273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel
2408273d9f13SBarry Smith 
2409ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatCreateMPIAIJ(), MatMPIAIJSetPreallocationCSR(),
2410ccd8e176SBarry Smith           MPIAIJ
2411273d9f13SBarry Smith @*/
2412b1d57f15SBarry Smith PetscErrorCode MatMPIAIJSetPreallocation(Mat B,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[])
2413273d9f13SBarry Smith {
2414b1d57f15SBarry Smith   PetscErrorCode ierr,(*f)(Mat,PetscInt,const PetscInt[],PetscInt,const PetscInt[]);
2415273d9f13SBarry Smith 
2416273d9f13SBarry Smith   PetscFunctionBegin;
2417a23d5eceSKris Buschelman   ierr = PetscObjectQueryFunction((PetscObject)B,"MatMPIAIJSetPreallocation_C",(void (**)(void))&f);CHKERRQ(ierr);
2418a23d5eceSKris Buschelman   if (f) {
2419a23d5eceSKris Buschelman     ierr = (*f)(B,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr);
2420273d9f13SBarry Smith   }
2421273d9f13SBarry Smith   PetscFunctionReturn(0);
2422273d9f13SBarry Smith }
2423273d9f13SBarry Smith 
24244a2ae208SSatish Balay #undef __FUNCT__
24254a2ae208SSatish Balay #define __FUNCT__ "MatCreateMPIAIJ"
2426273d9f13SBarry Smith /*@C
2427273d9f13SBarry Smith    MatCreateMPIAIJ - Creates a sparse parallel matrix in AIJ format
2428273d9f13SBarry Smith    (the default parallel PETSc format).  For good matrix assembly performance
2429273d9f13SBarry Smith    the user should preallocate the matrix storage by setting the parameters
2430273d9f13SBarry Smith    d_nz (or d_nnz) and o_nz (or o_nnz).  By setting these parameters accurately,
2431273d9f13SBarry Smith    performance can be increased by more than a factor of 50.
2432273d9f13SBarry Smith 
2433273d9f13SBarry Smith    Collective on MPI_Comm
2434273d9f13SBarry Smith 
2435273d9f13SBarry Smith    Input Parameters:
2436273d9f13SBarry Smith +  comm - MPI communicator
2437273d9f13SBarry Smith .  m - number of local rows (or PETSC_DECIDE to have calculated if M is given)
2438273d9f13SBarry Smith            This value should be the same as the local size used in creating the
2439273d9f13SBarry Smith            y vector for the matrix-vector product y = Ax.
2440273d9f13SBarry Smith .  n - This value should be the same as the local size used in creating the
2441273d9f13SBarry Smith        x vector for the matrix-vector product y = Ax. (or PETSC_DECIDE to have
2442273d9f13SBarry Smith        calculated if N is given) For square matrices n is almost always m.
2443273d9f13SBarry Smith .  M - number of global rows (or PETSC_DETERMINE to have calculated if m is given)
2444273d9f13SBarry Smith .  N - number of global columns (or PETSC_DETERMINE to have calculated if n is given)
2445273d9f13SBarry Smith .  d_nz  - number of nonzeros per row in DIAGONAL portion of local submatrix
2446273d9f13SBarry Smith            (same value is used for all local rows)
2447273d9f13SBarry Smith .  d_nnz - array containing the number of nonzeros in the various rows of the
2448273d9f13SBarry Smith            DIAGONAL portion of the local submatrix (possibly different for each row)
2449273d9f13SBarry Smith            or PETSC_NULL, if d_nz is used to specify the nonzero structure.
2450273d9f13SBarry Smith            The size of this array is equal to the number of local rows, i.e 'm'.
2451273d9f13SBarry Smith            You must leave room for the diagonal entry even if it is zero.
2452273d9f13SBarry Smith .  o_nz  - number of nonzeros per row in the OFF-DIAGONAL portion of local
2453273d9f13SBarry Smith            submatrix (same value is used for all local rows).
2454273d9f13SBarry Smith -  o_nnz - array containing the number of nonzeros in the various rows of the
2455273d9f13SBarry Smith            OFF-DIAGONAL portion of the local submatrix (possibly different for
2456273d9f13SBarry Smith            each row) or PETSC_NULL, if o_nz is used to specify the nonzero
2457273d9f13SBarry Smith            structure. The size of this array is equal to the number
2458273d9f13SBarry Smith            of local rows, i.e 'm'.
2459273d9f13SBarry Smith 
2460273d9f13SBarry Smith    Output Parameter:
2461273d9f13SBarry Smith .  A - the matrix
2462273d9f13SBarry Smith 
2463273d9f13SBarry Smith    Notes:
246449a6f317SBarry Smith    If the *_nnz parameter is given then the *_nz parameter is ignored
246549a6f317SBarry Smith 
2466273d9f13SBarry Smith    m,n,M,N parameters specify the size of the matrix, and its partitioning across
2467273d9f13SBarry Smith    processors, while d_nz,d_nnz,o_nz,o_nnz parameters specify the approximate
2468273d9f13SBarry Smith    storage requirements for this matrix.
2469273d9f13SBarry Smith 
2470273d9f13SBarry Smith    If PETSC_DECIDE or  PETSC_DETERMINE is used for a particular argument on one
2471273d9f13SBarry Smith    processor than it must be used on all processors that share the object for
2472273d9f13SBarry Smith    that argument.
2473273d9f13SBarry Smith 
2474273d9f13SBarry Smith    The user MUST specify either the local or global matrix dimensions
2475273d9f13SBarry Smith    (possibly both).
2476273d9f13SBarry Smith 
2477273d9f13SBarry Smith    The parallel matrix is partitioned such that the first m0 rows belong to
2478273d9f13SBarry Smith    process 0, the next m1 rows belong to process 1, the next m2 rows belong
2479273d9f13SBarry Smith    to process 2 etc.. where m0,m1,m2... are the input parameter 'm'.
2480273d9f13SBarry Smith 
2481273d9f13SBarry Smith    The DIAGONAL portion of the local submatrix of a processor can be defined
2482273d9f13SBarry Smith    as the submatrix which is obtained by extraction the part corresponding
2483273d9f13SBarry Smith    to the rows r1-r2 and columns r1-r2 of the global matrix, where r1 is the
2484273d9f13SBarry Smith    first row that belongs to the processor, and r2 is the last row belonging
2485273d9f13SBarry Smith    to the this processor. This is a square mxm matrix. The remaining portion
2486273d9f13SBarry Smith    of the local submatrix (mxN) constitute the OFF-DIAGONAL portion.
2487273d9f13SBarry Smith 
2488273d9f13SBarry Smith    If o_nnz, d_nnz are specified, then o_nz, and d_nz are ignored.
2489273d9f13SBarry Smith 
249097d05335SKris Buschelman    When calling this routine with a single process communicator, a matrix of
249197d05335SKris Buschelman    type SEQAIJ is returned.  If a matrix of type MPIAIJ is desired for this
249297d05335SKris Buschelman    type of communicator, use the construction mechanism:
249397d05335SKris Buschelman      MatCreate(...,&A); MatSetType(A,MPIAIJ); MatMPIAIJSetPreallocation(A,...);
249497d05335SKris Buschelman 
2495273d9f13SBarry Smith    By default, this format uses inodes (identical nodes) when possible.
2496273d9f13SBarry Smith    We search for consecutive rows with the same nonzero structure, thereby
2497273d9f13SBarry Smith    reusing matrix information to achieve increased efficiency.
2498273d9f13SBarry Smith 
2499273d9f13SBarry Smith    Options Database Keys:
2500273d9f13SBarry Smith +  -mat_aij_no_inode  - Do not use inodes
2501273d9f13SBarry Smith .  -mat_aij_inode_limit <limit> - Sets inode limit (max limit=5)
2502273d9f13SBarry Smith -  -mat_aij_oneindex - Internally use indexing starting at 1
2503273d9f13SBarry Smith         rather than 0.  Note that when calling MatSetValues(),
2504273d9f13SBarry Smith         the user still MUST index entries starting at 0!
2505273d9f13SBarry Smith 
2506273d9f13SBarry Smith 
2507273d9f13SBarry Smith    Example usage:
2508273d9f13SBarry Smith 
2509273d9f13SBarry Smith    Consider the following 8x8 matrix with 34 non-zero values, that is
2510273d9f13SBarry Smith    assembled across 3 processors. Lets assume that proc0 owns 3 rows,
2511273d9f13SBarry Smith    proc1 owns 3 rows, proc2 owns 2 rows. This division can be shown
2512273d9f13SBarry Smith    as follows:
2513273d9f13SBarry Smith 
2514273d9f13SBarry Smith .vb
2515273d9f13SBarry Smith             1  2  0  |  0  3  0  |  0  4
2516273d9f13SBarry Smith     Proc0   0  5  6  |  7  0  0  |  8  0
2517273d9f13SBarry Smith             9  0 10  | 11  0  0  | 12  0
2518273d9f13SBarry Smith     -------------------------------------
2519273d9f13SBarry Smith            13  0 14  | 15 16 17  |  0  0
2520273d9f13SBarry Smith     Proc1   0 18  0  | 19 20 21  |  0  0
2521273d9f13SBarry Smith             0  0  0  | 22 23  0  | 24  0
2522273d9f13SBarry Smith     -------------------------------------
2523273d9f13SBarry Smith     Proc2  25 26 27  |  0  0 28  | 29  0
2524273d9f13SBarry Smith            30  0  0  | 31 32 33  |  0 34
2525273d9f13SBarry Smith .ve
2526273d9f13SBarry Smith 
2527273d9f13SBarry Smith    This can be represented as a collection of submatrices as:
2528273d9f13SBarry Smith 
2529273d9f13SBarry Smith .vb
2530273d9f13SBarry Smith       A B C
2531273d9f13SBarry Smith       D E F
2532273d9f13SBarry Smith       G H I
2533273d9f13SBarry Smith .ve
2534273d9f13SBarry Smith 
2535273d9f13SBarry Smith    Where the submatrices A,B,C are owned by proc0, D,E,F are
2536273d9f13SBarry Smith    owned by proc1, G,H,I are owned by proc2.
2537273d9f13SBarry Smith 
2538273d9f13SBarry Smith    The 'm' parameters for proc0,proc1,proc2 are 3,3,2 respectively.
2539273d9f13SBarry Smith    The 'n' parameters for proc0,proc1,proc2 are 3,3,2 respectively.
2540273d9f13SBarry Smith    The 'M','N' parameters are 8,8, and have the same values on all procs.
2541273d9f13SBarry Smith 
2542273d9f13SBarry Smith    The DIAGONAL submatrices corresponding to proc0,proc1,proc2 are
2543273d9f13SBarry Smith    submatrices [A], [E], [I] respectively. The OFF-DIAGONAL submatrices
2544273d9f13SBarry Smith    corresponding to proc0,proc1,proc2 are [BC], [DF], [GH] respectively.
2545273d9f13SBarry Smith    Internally, each processor stores the DIAGONAL part, and the OFF-DIAGONAL
2546273d9f13SBarry Smith    part as SeqAIJ matrices. for eg: proc1 will store [E] as a SeqAIJ
2547273d9f13SBarry Smith    matrix, ans [DF] as another SeqAIJ matrix.
2548273d9f13SBarry Smith 
2549273d9f13SBarry Smith    When d_nz, o_nz parameters are specified, d_nz storage elements are
2550273d9f13SBarry Smith    allocated for every row of the local diagonal submatrix, and o_nz
2551273d9f13SBarry Smith    storage locations are allocated for every row of the OFF-DIAGONAL submat.
2552273d9f13SBarry Smith    One way to choose d_nz and o_nz is to use the max nonzerors per local
2553273d9f13SBarry Smith    rows for each of the local DIAGONAL, and the OFF-DIAGONAL submatrices.
2554273d9f13SBarry Smith    In this case, the values of d_nz,o_nz are:
2555273d9f13SBarry Smith .vb
2556273d9f13SBarry Smith      proc0 : dnz = 2, o_nz = 2
2557273d9f13SBarry Smith      proc1 : dnz = 3, o_nz = 2
2558273d9f13SBarry Smith      proc2 : dnz = 1, o_nz = 4
2559273d9f13SBarry Smith .ve
2560273d9f13SBarry Smith    We are allocating m*(d_nz+o_nz) storage locations for every proc. This
2561273d9f13SBarry Smith    translates to 3*(2+2)=12 for proc0, 3*(3+2)=15 for proc1, 2*(1+4)=10
2562273d9f13SBarry Smith    for proc3. i.e we are using 12+15+10=37 storage locations to store
2563273d9f13SBarry Smith    34 values.
2564273d9f13SBarry Smith 
2565273d9f13SBarry Smith    When d_nnz, o_nnz parameters are specified, the storage is specified
2566273d9f13SBarry Smith    for every row, coresponding to both DIAGONAL and OFF-DIAGONAL submatrices.
2567273d9f13SBarry Smith    In the above case the values for d_nnz,o_nnz are:
2568273d9f13SBarry Smith .vb
2569273d9f13SBarry Smith      proc0: d_nnz = [2,2,2] and o_nnz = [2,2,2]
2570273d9f13SBarry Smith      proc1: d_nnz = [3,3,2] and o_nnz = [2,1,1]
2571273d9f13SBarry Smith      proc2: d_nnz = [1,1]   and o_nnz = [4,4]
2572273d9f13SBarry Smith .ve
2573273d9f13SBarry Smith    Here the space allocated is sum of all the above values i.e 34, and
2574273d9f13SBarry Smith    hence pre-allocation is perfect.
2575273d9f13SBarry Smith 
2576273d9f13SBarry Smith    Level: intermediate
2577273d9f13SBarry Smith 
2578273d9f13SBarry Smith .keywords: matrix, aij, compressed row, sparse, parallel
2579273d9f13SBarry Smith 
2580ccd8e176SBarry Smith .seealso: MatCreate(), MatCreateSeqAIJ(), MatSetValues(), MatMPIAIJSetPreallocation(), MatMPIAIJSetPreallocationCSR(),
2581ccd8e176SBarry Smith           MPIAIJ
2582273d9f13SBarry Smith @*/
2583b1d57f15SBarry Smith PetscErrorCode MatCreateMPIAIJ(MPI_Comm comm,PetscInt m,PetscInt n,PetscInt M,PetscInt N,PetscInt d_nz,const PetscInt d_nnz[],PetscInt o_nz,const PetscInt o_nnz[],Mat *A)
2584273d9f13SBarry Smith {
25856849ba73SBarry Smith   PetscErrorCode ierr;
2586b1d57f15SBarry Smith   PetscMPIInt    size;
2587273d9f13SBarry Smith 
2588273d9f13SBarry Smith   PetscFunctionBegin;
2589273d9f13SBarry Smith   ierr = MatCreate(comm,m,n,M,N,A);CHKERRQ(ierr);
2590273d9f13SBarry Smith   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
2591273d9f13SBarry Smith   if (size > 1) {
2592273d9f13SBarry Smith     ierr = MatSetType(*A,MATMPIAIJ);CHKERRQ(ierr);
2593273d9f13SBarry Smith     ierr = MatMPIAIJSetPreallocation(*A,d_nz,d_nnz,o_nz,o_nnz);CHKERRQ(ierr);
2594273d9f13SBarry Smith   } else {
2595273d9f13SBarry Smith     ierr = MatSetType(*A,MATSEQAIJ);CHKERRQ(ierr);
2596273d9f13SBarry Smith     ierr = MatSeqAIJSetPreallocation(*A,d_nz,d_nnz);CHKERRQ(ierr);
2597273d9f13SBarry Smith   }
2598273d9f13SBarry Smith   PetscFunctionReturn(0);
2599273d9f13SBarry Smith }
2600195d93cdSBarry Smith 
26014a2ae208SSatish Balay #undef __FUNCT__
26024a2ae208SSatish Balay #define __FUNCT__ "MatMPIAIJGetSeqAIJ"
2603b1d57f15SBarry Smith PetscErrorCode MatMPIAIJGetSeqAIJ(Mat A,Mat *Ad,Mat *Ao,PetscInt *colmap[])
2604195d93cdSBarry Smith {
2605195d93cdSBarry Smith   Mat_MPIAIJ *a = (Mat_MPIAIJ *)A->data;
2606b1d57f15SBarry Smith 
2607195d93cdSBarry Smith   PetscFunctionBegin;
2608195d93cdSBarry Smith   *Ad     = a->A;
2609195d93cdSBarry Smith   *Ao     = a->B;
2610195d93cdSBarry Smith   *colmap = a->garray;
2611195d93cdSBarry Smith   PetscFunctionReturn(0);
2612195d93cdSBarry Smith }
2613a2243be0SBarry Smith 
2614a2243be0SBarry Smith #undef __FUNCT__
2615a2243be0SBarry Smith #define __FUNCT__ "MatSetColoring_MPIAIJ"
2616dfbe8321SBarry Smith PetscErrorCode MatSetColoring_MPIAIJ(Mat A,ISColoring coloring)
2617a2243be0SBarry Smith {
2618dfbe8321SBarry Smith   PetscErrorCode ierr;
2619b1d57f15SBarry Smith   PetscInt       i;
2620a2243be0SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
2621a2243be0SBarry Smith 
2622a2243be0SBarry Smith   PetscFunctionBegin;
2623a2243be0SBarry Smith   if (coloring->ctype == IS_COLORING_LOCAL) {
262408b6dcc0SBarry Smith     ISColoringValue *allcolors,*colors;
2625a2243be0SBarry Smith     ISColoring      ocoloring;
2626a2243be0SBarry Smith 
2627a2243be0SBarry Smith     /* set coloring for diagonal portion */
2628a2243be0SBarry Smith     ierr = MatSetColoring_SeqAIJ(a->A,coloring);CHKERRQ(ierr);
2629a2243be0SBarry Smith 
2630a2243be0SBarry Smith     /* set coloring for off-diagonal portion */
263108b6dcc0SBarry Smith     ierr = ISAllGatherColors(A->comm,coloring->n,coloring->colors,PETSC_NULL,&allcolors);CHKERRQ(ierr);
263208b6dcc0SBarry Smith     ierr = PetscMalloc((a->B->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr);
2633a2243be0SBarry Smith     for (i=0; i<a->B->n; i++) {
2634a2243be0SBarry Smith       colors[i] = allcolors[a->garray[i]];
2635a2243be0SBarry Smith     }
2636a2243be0SBarry Smith     ierr = PetscFree(allcolors);CHKERRQ(ierr);
2637a2243be0SBarry Smith     ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr);
2638a2243be0SBarry Smith     ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr);
2639a2243be0SBarry Smith     ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr);
2640a2243be0SBarry Smith   } else if (coloring->ctype == IS_COLORING_GHOSTED) {
264108b6dcc0SBarry Smith     ISColoringValue *colors;
2642b1d57f15SBarry Smith     PetscInt             *larray;
2643a2243be0SBarry Smith     ISColoring      ocoloring;
2644a2243be0SBarry Smith 
2645a2243be0SBarry Smith     /* set coloring for diagonal portion */
2646b1d57f15SBarry Smith     ierr = PetscMalloc((a->A->n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr);
2647a2243be0SBarry Smith     for (i=0; i<a->A->n; i++) {
2648a2243be0SBarry Smith       larray[i] = i + a->cstart;
2649a2243be0SBarry Smith     }
2650a2243be0SBarry Smith     ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->A->n,larray,PETSC_NULL,larray);CHKERRQ(ierr);
265108b6dcc0SBarry Smith     ierr = PetscMalloc((a->A->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr);
2652a2243be0SBarry Smith     for (i=0; i<a->A->n; i++) {
2653a2243be0SBarry Smith       colors[i] = coloring->colors[larray[i]];
2654a2243be0SBarry Smith     }
2655a2243be0SBarry Smith     ierr = PetscFree(larray);CHKERRQ(ierr);
265612c595b3SBarry Smith     ierr = ISColoringCreate(PETSC_COMM_SELF,a->A->n,colors,&ocoloring);CHKERRQ(ierr);
2657a2243be0SBarry Smith     ierr = MatSetColoring_SeqAIJ(a->A,ocoloring);CHKERRQ(ierr);
2658a2243be0SBarry Smith     ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr);
2659a2243be0SBarry Smith 
2660a2243be0SBarry Smith     /* set coloring for off-diagonal portion */
2661b1d57f15SBarry Smith     ierr = PetscMalloc((a->B->n+1)*sizeof(PetscInt),&larray);CHKERRQ(ierr);
2662a2243be0SBarry Smith     ierr = ISGlobalToLocalMappingApply(A->mapping,IS_GTOLM_MASK,a->B->n,a->garray,PETSC_NULL,larray);CHKERRQ(ierr);
266308b6dcc0SBarry Smith     ierr = PetscMalloc((a->B->n+1)*sizeof(ISColoringValue),&colors);CHKERRQ(ierr);
2664a2243be0SBarry Smith     for (i=0; i<a->B->n; i++) {
2665a2243be0SBarry Smith       colors[i] = coloring->colors[larray[i]];
2666a2243be0SBarry Smith     }
2667a2243be0SBarry Smith     ierr = PetscFree(larray);CHKERRQ(ierr);
2668a2243be0SBarry Smith     ierr = ISColoringCreate(MPI_COMM_SELF,a->B->n,colors,&ocoloring);CHKERRQ(ierr);
2669a2243be0SBarry Smith     ierr = MatSetColoring_SeqAIJ(a->B,ocoloring);CHKERRQ(ierr);
2670a2243be0SBarry Smith     ierr = ISColoringDestroy(ocoloring);CHKERRQ(ierr);
2671a2243be0SBarry Smith   } else {
267277431f27SBarry Smith     SETERRQ1(PETSC_ERR_SUP,"No support ISColoringType %d",(int)coloring->ctype);
2673a2243be0SBarry Smith   }
2674a2243be0SBarry Smith 
2675a2243be0SBarry Smith   PetscFunctionReturn(0);
2676a2243be0SBarry Smith }
2677a2243be0SBarry Smith 
2678a2243be0SBarry Smith #undef __FUNCT__
2679779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdic_MPIAIJ"
2680dfbe8321SBarry Smith PetscErrorCode MatSetValuesAdic_MPIAIJ(Mat A,void *advalues)
2681a2243be0SBarry Smith {
2682a2243be0SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
2683dfbe8321SBarry Smith   PetscErrorCode ierr;
2684a2243be0SBarry Smith 
2685a2243be0SBarry Smith   PetscFunctionBegin;
2686779c1a83SBarry Smith   ierr = MatSetValuesAdic_SeqAIJ(a->A,advalues);CHKERRQ(ierr);
2687779c1a83SBarry Smith   ierr = MatSetValuesAdic_SeqAIJ(a->B,advalues);CHKERRQ(ierr);
2688779c1a83SBarry Smith   PetscFunctionReturn(0);
2689779c1a83SBarry Smith }
2690779c1a83SBarry Smith 
2691779c1a83SBarry Smith #undef __FUNCT__
2692779c1a83SBarry Smith #define __FUNCT__ "MatSetValuesAdifor_MPIAIJ"
2693b1d57f15SBarry Smith PetscErrorCode MatSetValuesAdifor_MPIAIJ(Mat A,PetscInt nl,void *advalues)
2694779c1a83SBarry Smith {
2695779c1a83SBarry Smith   Mat_MPIAIJ     *a = (Mat_MPIAIJ*)A->data;
2696dfbe8321SBarry Smith   PetscErrorCode ierr;
2697779c1a83SBarry Smith 
2698779c1a83SBarry Smith   PetscFunctionBegin;
2699779c1a83SBarry Smith   ierr = MatSetValuesAdifor_SeqAIJ(a->A,nl,advalues);CHKERRQ(ierr);
2700779c1a83SBarry Smith   ierr = MatSetValuesAdifor_SeqAIJ(a->B,nl,advalues);CHKERRQ(ierr);
2701a2243be0SBarry Smith   PetscFunctionReturn(0);
2702a2243be0SBarry Smith }
2703c5d6d63eSBarry Smith 
2704c5d6d63eSBarry Smith #undef __FUNCT__
270551dd7536SBarry Smith #define __FUNCT__ "MatMerge"
2706c5d6d63eSBarry Smith /*@C
270751dd7536SBarry Smith       MatMerge - Creates a single large PETSc matrix by concatinating sequential
270851dd7536SBarry Smith                  matrices from each processor
2709c5d6d63eSBarry Smith 
2710c5d6d63eSBarry Smith     Collective on MPI_Comm
2711c5d6d63eSBarry Smith 
2712c5d6d63eSBarry Smith    Input Parameters:
271351dd7536SBarry Smith +    comm - the communicators the parallel matrix will live on
2714d6bb3c2dSHong Zhang .    inmat - the input sequential matrices
27150e36024fSHong Zhang .    n - number of local columns (or PETSC_DECIDE)
2716d6bb3c2dSHong Zhang -    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
271751dd7536SBarry Smith 
271851dd7536SBarry Smith    Output Parameter:
271951dd7536SBarry Smith .    outmat - the parallel matrix generated
2720c5d6d63eSBarry Smith 
27217e25d530SSatish Balay     Level: advanced
27227e25d530SSatish Balay 
2723f08fae4eSHong Zhang    Notes: The number of columns of the matrix in EACH processor MUST be the same.
2724c5d6d63eSBarry Smith 
2725c5d6d63eSBarry Smith @*/
27260e36024fSHong Zhang PetscErrorCode MatMerge(MPI_Comm comm,Mat inmat,PetscInt n,MatReuse scall,Mat *outmat)
2727c5d6d63eSBarry Smith {
2728dfbe8321SBarry Smith   PetscErrorCode ierr;
2729b1d57f15SBarry Smith   PetscInt       m,N,i,rstart,nnz,I,*dnz,*onz;
2730ba8c8a56SBarry Smith   PetscInt       *indx;
2731ba8c8a56SBarry Smith   PetscScalar    *values;
273251dd7536SBarry Smith   PetscMap       columnmap,rowmap;
2733c5d6d63eSBarry Smith 
2734c5d6d63eSBarry Smith   PetscFunctionBegin;
27350e36024fSHong Zhang     ierr = MatGetSize(inmat,&m,&N);CHKERRQ(ierr);
27362257cef7SHong Zhang   /*
27372257cef7SHong Zhang   PetscMPIInt       rank;
27382257cef7SHong Zhang   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
273955d1abb9SHong Zhang   ierr = PetscPrintf(PETSC_COMM_SELF," [%d] inmat m=%d, n=%d, N=%d\n",rank,m,n,N);
274055d1abb9SHong Zhang   */
2741d6bb3c2dSHong Zhang   if (scall == MAT_INITIAL_MATRIX){
2742d6bb3c2dSHong Zhang     /* count nonzeros in each row, for diagonal and off diagonal portion of matrix */
27430e36024fSHong Zhang     if (n == PETSC_DECIDE){
2744d6bb3c2dSHong Zhang       ierr = PetscMapCreate(comm,&columnmap);CHKERRQ(ierr);
27450e36024fSHong Zhang       ierr = PetscMapSetSize(columnmap,N);CHKERRQ(ierr);
2746d6bb3c2dSHong Zhang       ierr = PetscMapSetType(columnmap,MAP_MPI);CHKERRQ(ierr);
2747d6bb3c2dSHong Zhang       ierr = PetscMapGetLocalSize(columnmap,&n);CHKERRQ(ierr);
2748d6bb3c2dSHong Zhang       ierr = PetscMapDestroy(columnmap);CHKERRQ(ierr);
27490e36024fSHong Zhang     }
2750d6bb3c2dSHong Zhang 
2751d6bb3c2dSHong Zhang     ierr = PetscMapCreate(comm,&rowmap);CHKERRQ(ierr);
2752d6bb3c2dSHong Zhang     ierr = PetscMapSetLocalSize(rowmap,m);CHKERRQ(ierr);
2753d6bb3c2dSHong Zhang     ierr = PetscMapSetType(rowmap,MAP_MPI);CHKERRQ(ierr);
2754d6bb3c2dSHong Zhang     ierr = PetscMapGetLocalRange(rowmap,&rstart,0);CHKERRQ(ierr);
2755d6bb3c2dSHong Zhang     ierr = PetscMapDestroy(rowmap);CHKERRQ(ierr);
2756d6bb3c2dSHong Zhang 
2757d6bb3c2dSHong Zhang     ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr);
2758d6bb3c2dSHong Zhang     for (i=0;i<m;i++) {
2759ba8c8a56SBarry Smith       ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr);
2760d6bb3c2dSHong Zhang       ierr = MatPreallocateSet(i+rstart,nnz,indx,dnz,onz);CHKERRQ(ierr);
2761ba8c8a56SBarry Smith       ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,PETSC_NULL);CHKERRQ(ierr);
2762d6bb3c2dSHong Zhang     }
2763d6bb3c2dSHong Zhang     /* This routine will ONLY return MPIAIJ type matrix */
2764d6bb3c2dSHong Zhang     ierr = MatCreate(comm,m,n,PETSC_DETERMINE,PETSC_DETERMINE,outmat);CHKERRQ(ierr);
2765d6bb3c2dSHong Zhang     ierr = MatSetType(*outmat,MATMPIAIJ);CHKERRQ(ierr);
2766d6bb3c2dSHong Zhang     ierr = MatMPIAIJSetPreallocation(*outmat,0,dnz,0,onz);CHKERRQ(ierr);
2767d6bb3c2dSHong Zhang     ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr);
2768d6bb3c2dSHong Zhang 
2769d6bb3c2dSHong Zhang   } else if (scall == MAT_REUSE_MATRIX){
2770d6bb3c2dSHong Zhang     ierr = MatGetOwnershipRange(*outmat,&rstart,PETSC_NULL);CHKERRQ(ierr);
2771d6bb3c2dSHong Zhang   } else {
277277431f27SBarry Smith     SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall);
2773d6bb3c2dSHong Zhang   }
2774d6bb3c2dSHong Zhang 
2775d6bb3c2dSHong Zhang   for (i=0;i<m;i++) {
2776ba8c8a56SBarry Smith     ierr = MatGetRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr);
2777d6bb3c2dSHong Zhang     I    = i + rstart;
2778906b51c7SHong Zhang     ierr = MatSetValues(*outmat,1,&I,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr);
2779ba8c8a56SBarry Smith     ierr = MatRestoreRow_SeqAIJ(inmat,i,&nnz,&indx,&values);CHKERRQ(ierr);
2780d6bb3c2dSHong Zhang   }
2781d6bb3c2dSHong Zhang   ierr = MatDestroy(inmat);CHKERRQ(ierr);
2782d6bb3c2dSHong Zhang   ierr = MatAssemblyBegin(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2783d6bb3c2dSHong Zhang   ierr = MatAssemblyEnd(*outmat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
278451dd7536SBarry Smith 
2785c5d6d63eSBarry Smith   PetscFunctionReturn(0);
2786c5d6d63eSBarry Smith }
2787c5d6d63eSBarry Smith 
2788c5d6d63eSBarry Smith #undef __FUNCT__
2789c5d6d63eSBarry Smith #define __FUNCT__ "MatFileSplit"
2790dfbe8321SBarry Smith PetscErrorCode MatFileSplit(Mat A,char *outfile)
2791c5d6d63eSBarry Smith {
2792dfbe8321SBarry Smith   PetscErrorCode    ierr;
279332dcc486SBarry Smith   PetscMPIInt       rank;
2794b1d57f15SBarry Smith   PetscInt          m,N,i,rstart,nnz;
2795de4209c5SBarry Smith   size_t            len;
2796b1d57f15SBarry Smith   const PetscInt    *indx;
2797c5d6d63eSBarry Smith   PetscViewer       out;
2798c5d6d63eSBarry Smith   char              *name;
2799c5d6d63eSBarry Smith   Mat               B;
2800b3cc6726SBarry Smith   const PetscScalar *values;
2801c5d6d63eSBarry Smith 
2802c5d6d63eSBarry Smith   PetscFunctionBegin;
2803c5d6d63eSBarry Smith   ierr = MatGetLocalSize(A,&m,0);CHKERRQ(ierr);
2804c5d6d63eSBarry Smith   ierr = MatGetSize(A,0,&N);CHKERRQ(ierr);
2805f204ca49SKris Buschelman   /* Should this be the type of the diagonal block of A? */
2806f204ca49SKris Buschelman   ierr = MatCreate(PETSC_COMM_SELF,m,N,m,N,&B);CHKERRQ(ierr);
2807f204ca49SKris Buschelman   ierr = MatSetType(B,MATSEQAIJ);CHKERRQ(ierr);
2808f204ca49SKris Buschelman   ierr = MatSeqAIJSetPreallocation(B,0,PETSC_NULL);CHKERRQ(ierr);
2809c5d6d63eSBarry Smith   ierr = MatGetOwnershipRange(A,&rstart,0);CHKERRQ(ierr);
2810c5d6d63eSBarry Smith   for (i=0;i<m;i++) {
2811c5d6d63eSBarry Smith     ierr = MatGetRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr);
2812c5d6d63eSBarry Smith     ierr = MatSetValues(B,1,&i,nnz,indx,values,INSERT_VALUES);CHKERRQ(ierr);
2813c5d6d63eSBarry Smith     ierr = MatRestoreRow(A,i+rstart,&nnz,&indx,&values);CHKERRQ(ierr);
2814c5d6d63eSBarry Smith   }
2815c5d6d63eSBarry Smith   ierr = MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2816c5d6d63eSBarry Smith   ierr = MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
2817c5d6d63eSBarry Smith 
2818c5d6d63eSBarry Smith   ierr = MPI_Comm_rank(A->comm,&rank);CHKERRQ(ierr);
2819c5d6d63eSBarry Smith   ierr = PetscStrlen(outfile,&len);CHKERRQ(ierr);
2820c5d6d63eSBarry Smith   ierr = PetscMalloc((len+5)*sizeof(char),&name);CHKERRQ(ierr);
2821c5d6d63eSBarry Smith   sprintf(name,"%s.%d",outfile,rank);
282245f7d322SBarry Smith   ierr = PetscViewerBinaryOpen(PETSC_COMM_SELF,name,PETSC_FILE_CREATE,&out);CHKERRQ(ierr);
2823c5d6d63eSBarry Smith   ierr = PetscFree(name);
2824c5d6d63eSBarry Smith   ierr = MatView(B,out);CHKERRQ(ierr);
2825c5d6d63eSBarry Smith   ierr = PetscViewerDestroy(out);CHKERRQ(ierr);
2826c5d6d63eSBarry Smith   ierr = MatDestroy(B);CHKERRQ(ierr);
2827c5d6d63eSBarry Smith   PetscFunctionReturn(0);
2828c5d6d63eSBarry Smith }
2829e5f2cdd8SHong Zhang 
283051a7d1a8SHong Zhang EXTERN PetscErrorCode MatDestroy_MPIAIJ(Mat);
283151a7d1a8SHong Zhang #undef __FUNCT__
283251a7d1a8SHong Zhang #define __FUNCT__ "MatDestroy_MPIAIJ_SeqsToMPI"
283351a7d1a8SHong Zhang PetscErrorCode MatDestroy_MPIAIJ_SeqsToMPI(Mat A)
283451a7d1a8SHong Zhang {
283551a7d1a8SHong Zhang   PetscErrorCode       ierr;
2836671beff6SHong Zhang   Mat_Merge_SeqsToMPI  *merge;
2837671beff6SHong Zhang   PetscObjectContainer container;
283851a7d1a8SHong Zhang 
283951a7d1a8SHong Zhang   PetscFunctionBegin;
2840671beff6SHong Zhang   ierr = PetscObjectQuery((PetscObject)A,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr);
2841671beff6SHong Zhang   if (container) {
28427f79fd58SMatthew Knepley     ierr = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr);
284351a7d1a8SHong Zhang     ierr = PetscFree(merge->id_r);CHKERRQ(ierr);
28443e06a4e6SHong Zhang     ierr = PetscFree(merge->len_s);CHKERRQ(ierr);
28453e06a4e6SHong Zhang     ierr = PetscFree(merge->len_r);CHKERRQ(ierr);
284651a7d1a8SHong Zhang     ierr = PetscFree(merge->bi);CHKERRQ(ierr);
284751a7d1a8SHong Zhang     ierr = PetscFree(merge->bj);CHKERRQ(ierr);
284802c68681SHong Zhang     ierr = PetscFree(merge->buf_ri);CHKERRQ(ierr);
284902c68681SHong Zhang     ierr = PetscFree(merge->buf_rj);CHKERRQ(ierr);
285051a7d1a8SHong Zhang     ierr = PetscMapDestroy(merge->rowmap);CHKERRQ(ierr);
2851de0260b3SHong Zhang     if (merge->coi){ierr = PetscFree(merge->coi);CHKERRQ(ierr);}
2852de0260b3SHong Zhang     if (merge->coj){ierr = PetscFree(merge->coj);CHKERRQ(ierr);}
2853de0260b3SHong Zhang     if (merge->owners_co){ierr = PetscFree(merge->owners_co);CHKERRQ(ierr);}
2854671beff6SHong Zhang 
2855671beff6SHong Zhang     ierr = PetscObjectContainerDestroy(container);CHKERRQ(ierr);
2856671beff6SHong Zhang     ierr = PetscObjectCompose((PetscObject)A,"MatMergeSeqsToMPI",0);CHKERRQ(ierr);
2857671beff6SHong Zhang   }
285851a7d1a8SHong Zhang   ierr = PetscFree(merge);CHKERRQ(ierr);
285951a7d1a8SHong Zhang 
286051a7d1a8SHong Zhang   ierr = MatDestroy_MPIAIJ(A);CHKERRQ(ierr);
286151a7d1a8SHong Zhang   PetscFunctionReturn(0);
286251a7d1a8SHong Zhang }
286351a7d1a8SHong Zhang 
286458cb9c82SHong Zhang #include "src/mat/utils/freespace.h"
2865be0fcf8dSHong Zhang #include "petscbt.h"
2866e5f2cdd8SHong Zhang #undef __FUNCT__
2867e5f2cdd8SHong Zhang #define __FUNCT__ "MatMerge_SeqsToMPI"
2868e5f2cdd8SHong Zhang /*@C
2869f08fae4eSHong Zhang       MatMerge_SeqsToMPI - Creates a MPIAIJ matrix by adding sequential
2870e5f2cdd8SHong Zhang                  matrices from each processor
2871e5f2cdd8SHong Zhang 
2872e5f2cdd8SHong Zhang     Collective on MPI_Comm
2873e5f2cdd8SHong Zhang 
2874e5f2cdd8SHong Zhang    Input Parameters:
2875e5f2cdd8SHong Zhang +    comm - the communicators the parallel matrix will live on
2876f08fae4eSHong Zhang .    seqmat - the input sequential matrices
28770e36024fSHong Zhang .    m - number of local rows (or PETSC_DECIDE)
28780e36024fSHong Zhang .    n - number of local columns (or PETSC_DECIDE)
2879e5f2cdd8SHong Zhang -    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
2880e5f2cdd8SHong Zhang 
2881e5f2cdd8SHong Zhang    Output Parameter:
2882f08fae4eSHong Zhang .    mpimat - the parallel matrix generated
2883e5f2cdd8SHong Zhang 
2884e5f2cdd8SHong Zhang     Level: advanced
2885e5f2cdd8SHong Zhang 
2886affca5deSHong Zhang    Notes:
2887affca5deSHong Zhang      The dimensions of the sequential matrix in each processor MUST be the same.
2888affca5deSHong Zhang      The input seqmat is included into the container "Mat_Merge_SeqsToMPI", and will be
2889affca5deSHong Zhang      destroyed when mpimat is destroyed. Call PetscObjectQuery() to access seqmat.
2890e5f2cdd8SHong Zhang @*/
28913c2c1871SHong Zhang static PetscEvent logkey_seqstompinum = 0;
289255d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPINumeric(Mat seqmat,Mat mpimat)
289355d1abb9SHong Zhang {
289455d1abb9SHong Zhang   PetscErrorCode       ierr;
289555d1abb9SHong Zhang   MPI_Comm             comm=mpimat->comm;
289655d1abb9SHong Zhang   Mat_SeqAIJ           *a=(Mat_SeqAIJ*)seqmat->data;
2897b1d57f15SBarry Smith   PetscMPIInt          size,rank,taga,*len_s;
2898b1d57f15SBarry Smith   PetscInt             N=mpimat->N,i,j,*owners,*ai=a->i,*aj=a->j;
2899b1d57f15SBarry Smith   PetscInt             proc,m;
2900b1d57f15SBarry Smith   PetscInt             **buf_ri,**buf_rj;
2901b1d57f15SBarry Smith   PetscInt             k,anzi,*bj_i,*bi,*bj,arow,bnzi,nextaj;
2902b1d57f15SBarry Smith   PetscInt             nrows,**buf_ri_k,**nextrow,**nextai;
290355d1abb9SHong Zhang   MPI_Request          *s_waits,*r_waits;
290455d1abb9SHong Zhang   MPI_Status           *status;
2905ce805ee4SHong Zhang   MatScalar            *aa=a->a,**abuf_r,*ba_i;
290655d1abb9SHong Zhang   Mat_Merge_SeqsToMPI  *merge;
290755d1abb9SHong Zhang   PetscObjectContainer container;
290855d1abb9SHong Zhang 
290955d1abb9SHong Zhang   PetscFunctionBegin;
29103c2c1871SHong Zhang   if (!logkey_seqstompinum) {
29113c2c1871SHong Zhang     ierr = PetscLogEventRegister(&logkey_seqstompinum,"MatMerge_SeqsToMPINumeric",MAT_COOKIE);
29123c2c1871SHong Zhang   }
29133c2c1871SHong Zhang   ierr = PetscLogEventBegin(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr);
29143c2c1871SHong Zhang 
291555d1abb9SHong Zhang   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
291655d1abb9SHong Zhang   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
291755d1abb9SHong Zhang 
291855d1abb9SHong Zhang   ierr = PetscObjectQuery((PetscObject)mpimat,"MatMergeSeqsToMPI",(PetscObject *)&container);CHKERRQ(ierr);
291955d1abb9SHong Zhang   if (container) {
292055d1abb9SHong Zhang     ierr  = PetscObjectContainerGetPointer(container,(void **)&merge);CHKERRQ(ierr);
292155d1abb9SHong Zhang   }
292255d1abb9SHong Zhang   bi     = merge->bi;
292355d1abb9SHong Zhang   bj     = merge->bj;
292455d1abb9SHong Zhang   buf_ri = merge->buf_ri;
292555d1abb9SHong Zhang   buf_rj = merge->buf_rj;
292655d1abb9SHong Zhang 
292755d1abb9SHong Zhang   ierr   = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr);
292855d1abb9SHong Zhang   ierr   = PetscMapGetGlobalRange(merge->rowmap,&owners);CHKERRQ(ierr);
292955d1abb9SHong Zhang   len_s  = merge->len_s;
293055d1abb9SHong Zhang 
293155d1abb9SHong Zhang   /* send and recv matrix values */
293255d1abb9SHong Zhang   /*-----------------------------*/
293355d1abb9SHong Zhang   ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&taga);CHKERRQ(ierr);
293455d1abb9SHong Zhang   ierr = PetscPostIrecvScalar(comm,taga,merge->nrecv,merge->id_r,merge->len_r,&abuf_r,&r_waits);CHKERRQ(ierr);
293555d1abb9SHong Zhang 
293655d1abb9SHong Zhang   ierr = PetscMalloc((merge->nsend+1)*sizeof(MPI_Request),&s_waits);CHKERRQ(ierr);
293755d1abb9SHong Zhang   for (proc=0,k=0; proc<size; proc++){
293855d1abb9SHong Zhang     if (!len_s[proc]) continue;
293955d1abb9SHong Zhang     i = owners[proc];
294055d1abb9SHong Zhang     ierr = MPI_Isend(aa+ai[i],len_s[proc],MPIU_MATSCALAR,proc,taga,comm,s_waits+k);CHKERRQ(ierr);
294155d1abb9SHong Zhang     k++;
294255d1abb9SHong Zhang   }
294355d1abb9SHong Zhang 
294455d1abb9SHong Zhang   ierr = MPI_Waitall(merge->nrecv,r_waits,status);CHKERRQ(ierr);
294555d1abb9SHong Zhang   ierr = MPI_Waitall(merge->nsend,s_waits,status);CHKERRQ(ierr);
294655d1abb9SHong Zhang   ierr = PetscFree(status);CHKERRQ(ierr);
294755d1abb9SHong Zhang 
294855d1abb9SHong Zhang   ierr = PetscFree(s_waits);CHKERRQ(ierr);
294955d1abb9SHong Zhang   ierr = PetscFree(r_waits);CHKERRQ(ierr);
295055d1abb9SHong Zhang 
295155d1abb9SHong Zhang   /* insert mat values of mpimat */
295255d1abb9SHong Zhang   /*----------------------------*/
295355d1abb9SHong Zhang   ierr = PetscMalloc(N*sizeof(MatScalar),&ba_i);CHKERRQ(ierr);
2954b1d57f15SBarry Smith   ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr);
295555d1abb9SHong Zhang   nextrow = buf_ri_k + merge->nrecv;
295655d1abb9SHong Zhang   nextai  = nextrow + merge->nrecv;
295755d1abb9SHong Zhang 
295855d1abb9SHong Zhang   for (k=0; k<merge->nrecv; k++){
295955d1abb9SHong Zhang     buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */
296055d1abb9SHong Zhang     nrows = *(buf_ri_k[k]);
296155d1abb9SHong Zhang     nextrow[k]  = buf_ri_k[k]+1;  /* next row number of k-th recved i-structure */
296255d1abb9SHong Zhang     nextai[k]   = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure  */
296355d1abb9SHong Zhang   }
296455d1abb9SHong Zhang 
296555d1abb9SHong Zhang   /* set values of ba */
296655d1abb9SHong Zhang   ierr = PetscMapGetLocalSize(merge->rowmap,&m);CHKERRQ(ierr);
296755d1abb9SHong Zhang   for (i=0; i<m; i++) {
296855d1abb9SHong Zhang     arow = owners[rank] + i;
296955d1abb9SHong Zhang     bj_i = bj+bi[i];  /* col indices of the i-th row of mpimat */
297055d1abb9SHong Zhang     bnzi = bi[i+1] - bi[i];
297155d1abb9SHong Zhang     ierr = PetscMemzero(ba_i,bnzi*sizeof(MatScalar));CHKERRQ(ierr);
297255d1abb9SHong Zhang 
297355d1abb9SHong Zhang     /* add local non-zero vals of this proc's seqmat into ba */
297455d1abb9SHong Zhang     anzi = ai[arow+1] - ai[arow];
297555d1abb9SHong Zhang     aj   = a->j + ai[arow];
297655d1abb9SHong Zhang     aa   = a->a + ai[arow];
297755d1abb9SHong Zhang     nextaj = 0;
297855d1abb9SHong Zhang     for (j=0; nextaj<anzi; j++){
297955d1abb9SHong Zhang       if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */
298055d1abb9SHong Zhang         ba_i[j] += aa[nextaj++];
298155d1abb9SHong Zhang       }
298255d1abb9SHong Zhang     }
298355d1abb9SHong Zhang 
298455d1abb9SHong Zhang     /* add received vals into ba */
298555d1abb9SHong Zhang     for (k=0; k<merge->nrecv; k++){ /* k-th received message */
298655d1abb9SHong Zhang       /* i-th row */
298755d1abb9SHong Zhang       if (i == *nextrow[k]) {
298855d1abb9SHong Zhang         anzi = *(nextai[k]+1) - *nextai[k];
298955d1abb9SHong Zhang         aj   = buf_rj[k] + *(nextai[k]);
299055d1abb9SHong Zhang         aa   = abuf_r[k] + *(nextai[k]);
299155d1abb9SHong Zhang         nextaj = 0;
299255d1abb9SHong Zhang         for (j=0; nextaj<anzi; j++){
299355d1abb9SHong Zhang           if (*(bj_i + j) == aj[nextaj]){ /* bcol == acol */
299455d1abb9SHong Zhang             ba_i[j] += aa[nextaj++];
299555d1abb9SHong Zhang           }
299655d1abb9SHong Zhang         }
299755d1abb9SHong Zhang         nextrow[k]++; nextai[k]++;
299855d1abb9SHong Zhang       }
299955d1abb9SHong Zhang     }
300055d1abb9SHong Zhang     ierr = MatSetValues(mpimat,1,&arow,bnzi,bj_i,ba_i,INSERT_VALUES);CHKERRQ(ierr);
300155d1abb9SHong Zhang   }
300255d1abb9SHong Zhang   ierr = MatAssemblyBegin(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
300355d1abb9SHong Zhang   ierr = MatAssemblyEnd(mpimat,MAT_FINAL_ASSEMBLY);CHKERRQ(ierr);
300455d1abb9SHong Zhang 
300555d1abb9SHong Zhang   ierr = PetscFree(abuf_r);CHKERRQ(ierr);
300655d1abb9SHong Zhang   ierr = PetscFree(ba_i);CHKERRQ(ierr);
300755d1abb9SHong Zhang   ierr = PetscFree(buf_ri_k);CHKERRQ(ierr);
30083c2c1871SHong Zhang   ierr = PetscLogEventEnd(logkey_seqstompinum,seqmat,0,0,0);CHKERRQ(ierr);
300955d1abb9SHong Zhang   PetscFunctionReturn(0);
301055d1abb9SHong Zhang }
30113c2c1871SHong Zhang static PetscEvent logkey_seqstompisym = 0;
301255d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPISymbolic(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,Mat *mpimat)
3013e5f2cdd8SHong Zhang {
3014f08fae4eSHong Zhang   PetscErrorCode       ierr;
301555a3bba9SHong Zhang   Mat                  B_mpi;
3016c2234fe3SHong Zhang   Mat_SeqAIJ           *a=(Mat_SeqAIJ*)seqmat->data;
3017b1d57f15SBarry Smith   PetscMPIInt          size,rank,tagi,tagj,*len_s,*len_si,*len_ri;
3018b1d57f15SBarry Smith   PetscInt             **buf_rj,**buf_ri,**buf_ri_k;
3019b1d57f15SBarry Smith   PetscInt             M=seqmat->m,N=seqmat->n,i,*owners,*ai=a->i,*aj=a->j;
3020b1d57f15SBarry Smith   PetscInt             len,proc,*dnz,*onz;
3021b1d57f15SBarry Smith   PetscInt             k,anzi,*bi,*bj,*lnk,nlnk,arow,bnzi,nspacedouble=0;
3022b1d57f15SBarry Smith   PetscInt             nrows,*buf_s,*buf_si,*buf_si_i,**nextrow,**nextai;
302355d1abb9SHong Zhang   MPI_Request          *si_waits,*sj_waits,*ri_waits,*rj_waits;
302458cb9c82SHong Zhang   MPI_Status           *status;
302558cb9c82SHong Zhang   FreeSpaceList        free_space=PETSC_NULL,current_space=PETSC_NULL;
3026be0fcf8dSHong Zhang   PetscBT              lnkbt;
302751a7d1a8SHong Zhang   Mat_Merge_SeqsToMPI  *merge;
3028671beff6SHong Zhang   PetscObjectContainer container;
302902c68681SHong Zhang 
3030e5f2cdd8SHong Zhang   PetscFunctionBegin;
30313c2c1871SHong Zhang   if (!logkey_seqstompisym) {
30323c2c1871SHong Zhang     ierr = PetscLogEventRegister(&logkey_seqstompisym,"MatMerge_SeqsToMPISymbolic",MAT_COOKIE);
30333c2c1871SHong Zhang   }
30343c2c1871SHong Zhang   ierr = PetscLogEventBegin(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr);
30353c2c1871SHong Zhang 
3036e5f2cdd8SHong Zhang   ierr = MPI_Comm_size(comm,&size);CHKERRQ(ierr);
3037e5f2cdd8SHong Zhang   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
303855d1abb9SHong Zhang 
303951a7d1a8SHong Zhang   ierr = PetscNew(Mat_Merge_SeqsToMPI,&merge);CHKERRQ(ierr);
3040c2234fe3SHong Zhang   ierr = PetscMalloc(size*sizeof(MPI_Status),&status);CHKERRQ(ierr);
3041e5f2cdd8SHong Zhang 
30426abd8857SHong Zhang   /* determine row ownership */
3043f08fae4eSHong Zhang   /*---------------------------------------------------------*/
304451a7d1a8SHong Zhang   ierr = PetscMapCreate(comm,&merge->rowmap);CHKERRQ(ierr);
30450e36024fSHong Zhang   if (m == PETSC_DECIDE) {
304651a7d1a8SHong Zhang     ierr = PetscMapSetSize(merge->rowmap,M);CHKERRQ(ierr);
30470e36024fSHong Zhang   } else {
30480e36024fSHong Zhang     ierr = PetscMapSetLocalSize(merge->rowmap,m);CHKERRQ(ierr);
30490e36024fSHong Zhang   }
305051a7d1a8SHong Zhang   ierr = PetscMapSetType(merge->rowmap,MAP_MPI);CHKERRQ(ierr);
3051b1d57f15SBarry Smith   ierr = PetscMalloc(size*sizeof(PetscMPIInt),&len_si);CHKERRQ(ierr);
3052b1d57f15SBarry Smith   ierr = PetscMalloc(size*sizeof(PetscMPIInt),&merge->len_s);CHKERRQ(ierr);
305355d1abb9SHong Zhang 
305455d1abb9SHong Zhang   if (m == PETSC_DECIDE) {ierr = PetscMapGetLocalSize(merge->rowmap,&m);CHKERRQ(ierr); }
305551a7d1a8SHong Zhang   ierr = PetscMapGetGlobalRange(merge->rowmap,&owners);CHKERRQ(ierr);
30566abd8857SHong Zhang 
30576abd8857SHong Zhang   /* determine the number of messages to send, their lengths */
30586abd8857SHong Zhang   /*---------------------------------------------------------*/
30593e06a4e6SHong Zhang   len_s  = merge->len_s;
306051a7d1a8SHong Zhang 
30612257cef7SHong Zhang   len = 0;  /* length of buf_si[] */
3062c2234fe3SHong Zhang   merge->nsend = 0;
3063409913e3SHong Zhang   for (proc=0; proc<size; proc++){
30642257cef7SHong Zhang     len_si[proc] = 0;
30653e06a4e6SHong Zhang     if (proc == rank){
30666abd8857SHong Zhang       len_s[proc] = 0;
30673e06a4e6SHong Zhang     } else {
306802c68681SHong Zhang       len_si[proc] = owners[proc+1] - owners[proc] + 1;
30693e06a4e6SHong Zhang       len_s[proc] = ai[owners[proc+1]] - ai[owners[proc]]; /* num of rows to be sent to [proc] */
30703e06a4e6SHong Zhang     }
30713e06a4e6SHong Zhang     if (len_s[proc]) {
3072c2234fe3SHong Zhang       merge->nsend++;
30732257cef7SHong Zhang       nrows = 0;
30742257cef7SHong Zhang       for (i=owners[proc]; i<owners[proc+1]; i++){
30752257cef7SHong Zhang         if (ai[i+1] > ai[i]) nrows++;
30762257cef7SHong Zhang       }
30772257cef7SHong Zhang       len_si[proc] = 2*(nrows+1);
30782257cef7SHong Zhang       len += len_si[proc];
3079409913e3SHong Zhang     }
308058cb9c82SHong Zhang   }
3081409913e3SHong Zhang 
30822257cef7SHong Zhang   /* determine the number and length of messages to receive for ij-structure */
30832257cef7SHong Zhang   /*-------------------------------------------------------------------------*/
308451a7d1a8SHong Zhang   ierr = PetscGatherNumberOfMessages(comm,PETSC_NULL,len_s,&merge->nrecv);CHKERRQ(ierr);
308555d1abb9SHong Zhang   ierr = PetscGatherMessageLengths2(comm,merge->nsend,merge->nrecv,len_s,len_si,&merge->id_r,&merge->len_r,&len_ri);CHKERRQ(ierr);
3086671beff6SHong Zhang 
30873e06a4e6SHong Zhang   /* post the Irecv of j-structure */
30883e06a4e6SHong Zhang   /*-------------------------------*/
308902c68681SHong Zhang   ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&tagj);CHKERRQ(ierr);
30903e06a4e6SHong Zhang   ierr = PetscPostIrecvInt(comm,tagj,merge->nrecv,merge->id_r,merge->len_r,&buf_rj,&rj_waits);CHKERRQ(ierr);
309102c68681SHong Zhang 
30923e06a4e6SHong Zhang   /* post the Isend of j-structure */
3093affca5deSHong Zhang   /*--------------------------------*/
30942257cef7SHong Zhang   ierr = PetscMalloc((2*merge->nsend+1)*sizeof(MPI_Request),&si_waits);CHKERRQ(ierr);
309502c68681SHong Zhang   sj_waits = si_waits + merge->nsend;
30963e06a4e6SHong Zhang 
30972257cef7SHong Zhang   for (proc=0, k=0; proc<size; proc++){
3098409913e3SHong Zhang     if (!len_s[proc]) continue;
309902c68681SHong Zhang     i = owners[proc];
3100b1d57f15SBarry Smith     ierr = MPI_Isend(aj+ai[i],len_s[proc],MPIU_INT,proc,tagj,comm,sj_waits+k);CHKERRQ(ierr);
310151a7d1a8SHong Zhang     k++;
310251a7d1a8SHong Zhang   }
310351a7d1a8SHong Zhang 
31043e06a4e6SHong Zhang   /* receives and sends of j-structure are complete */
31053e06a4e6SHong Zhang   /*------------------------------------------------*/
310602c68681SHong Zhang   ierr = MPI_Waitall(merge->nrecv,rj_waits,status);CHKERRQ(ierr);
310702c68681SHong Zhang   ierr = MPI_Waitall(merge->nsend,sj_waits,status);CHKERRQ(ierr);
310802c68681SHong Zhang 
310902c68681SHong Zhang   /* send and recv i-structure */
311002c68681SHong Zhang   /*---------------------------*/
311102c68681SHong Zhang   ierr = PetscObjectGetNewTag((PetscObject)merge->rowmap,&tagi);CHKERRQ(ierr);
311202c68681SHong Zhang   ierr = PetscPostIrecvInt(comm,tagi,merge->nrecv,merge->id_r,len_ri,&buf_ri,&ri_waits);CHKERRQ(ierr);
311302c68681SHong Zhang 
3114b1d57f15SBarry Smith   ierr = PetscMalloc((len+1)*sizeof(PetscInt),&buf_s);CHKERRQ(ierr);
31153e06a4e6SHong Zhang   buf_si = buf_s;  /* points to the beginning of k-th msg to be sent */
31162257cef7SHong Zhang   for (proc=0,k=0; proc<size; proc++){
311702c68681SHong Zhang     if (!len_s[proc]) continue;
31183e06a4e6SHong Zhang     /* form outgoing message for i-structure:
31193e06a4e6SHong Zhang          buf_si[0]:                 nrows to be sent
31203e06a4e6SHong Zhang                [1:nrows]:           row index (global)
31213e06a4e6SHong Zhang                [nrows+1:2*nrows+1]: i-structure index
31223e06a4e6SHong Zhang     */
31233e06a4e6SHong Zhang     /*-------------------------------------------*/
31242257cef7SHong Zhang     nrows = len_si[proc]/2 - 1;
31253e06a4e6SHong Zhang     buf_si_i    = buf_si + nrows+1;
31263e06a4e6SHong Zhang     buf_si[0]   = nrows;
31273e06a4e6SHong Zhang     buf_si_i[0] = 0;
31283e06a4e6SHong Zhang     nrows = 0;
31293e06a4e6SHong Zhang     for (i=owners[proc]; i<owners[proc+1]; i++){
31303e06a4e6SHong Zhang       anzi = ai[i+1] - ai[i];
31313e06a4e6SHong Zhang       if (anzi) {
31323e06a4e6SHong Zhang         buf_si_i[nrows+1] = buf_si_i[nrows] + anzi; /* i-structure */
31333e06a4e6SHong Zhang         buf_si[nrows+1] = i-owners[proc]; /* local row index */
31343e06a4e6SHong Zhang         nrows++;
31353e06a4e6SHong Zhang       }
31363e06a4e6SHong Zhang     }
3137b1d57f15SBarry Smith     ierr = MPI_Isend(buf_si,len_si[proc],MPIU_INT,proc,tagi,comm,si_waits+k);CHKERRQ(ierr);
313802c68681SHong Zhang     k++;
31392257cef7SHong Zhang     buf_si += len_si[proc];
314002c68681SHong Zhang   }
31412257cef7SHong Zhang 
314202c68681SHong Zhang   ierr = MPI_Waitall(merge->nrecv,ri_waits,status);CHKERRQ(ierr);
314302c68681SHong Zhang   ierr = MPI_Waitall(merge->nsend,si_waits,status);CHKERRQ(ierr);
314402c68681SHong Zhang 
314577431f27SBarry Smith   ierr = PetscLogInfo((PetscObject)(seqmat),"MatMerge_SeqsToMPI: nsend: %D, nrecv: %D\n",merge->nsend,merge->nrecv);CHKERRQ(ierr);
31463e06a4e6SHong Zhang   for (i=0; i<merge->nrecv; i++){
314777431f27SBarry Smith     ierr = PetscLogInfo((PetscObject)(seqmat),"MatMerge_SeqsToMPI:   recv len_ri=%D, len_rj=%D from [%D]\n",len_ri[i],merge->len_r[i],merge->id_r[i]);CHKERRQ(ierr);
31483e06a4e6SHong Zhang   }
31493e06a4e6SHong Zhang 
31503e06a4e6SHong Zhang   ierr = PetscFree(len_si);CHKERRQ(ierr);
315102c68681SHong Zhang   ierr = PetscFree(len_ri);CHKERRQ(ierr);
315202c68681SHong Zhang   ierr = PetscFree(rj_waits);CHKERRQ(ierr);
31533e06a4e6SHong Zhang   ierr = PetscFree(si_waits);CHKERRQ(ierr);
31542257cef7SHong Zhang   ierr = PetscFree(ri_waits);CHKERRQ(ierr);
31553e06a4e6SHong Zhang   ierr = PetscFree(buf_s);CHKERRQ(ierr);
3156bcc1bcd5SHong Zhang   ierr = PetscFree(status);CHKERRQ(ierr);
315758cb9c82SHong Zhang 
3158bcc1bcd5SHong Zhang   /* compute a local seq matrix in each processor */
3159bcc1bcd5SHong Zhang   /*----------------------------------------------*/
316058cb9c82SHong Zhang   /* allocate bi array and free space for accumulating nonzero column info */
3161b1d57f15SBarry Smith   ierr = PetscMalloc((m+1)*sizeof(PetscInt),&bi);CHKERRQ(ierr);
316258cb9c82SHong Zhang   bi[0] = 0;
316358cb9c82SHong Zhang 
3164be0fcf8dSHong Zhang   /* create and initialize a linked list */
3165be0fcf8dSHong Zhang   nlnk = N+1;
3166be0fcf8dSHong Zhang   ierr = PetscLLCreate(N,N,nlnk,lnk,lnkbt);CHKERRQ(ierr);
316758cb9c82SHong Zhang 
3168bcc1bcd5SHong Zhang   /* initial FreeSpace size is 2*(num of local nnz(seqmat)) */
316958cb9c82SHong Zhang   len = 0;
3170bcc1bcd5SHong Zhang   len  = ai[owners[rank+1]] - ai[owners[rank]];
3171b1d57f15SBarry Smith   ierr = GetMoreSpace((PetscInt)(2*len+1),&free_space);CHKERRQ(ierr);
317258cb9c82SHong Zhang   current_space = free_space;
317358cb9c82SHong Zhang 
3174bcc1bcd5SHong Zhang   /* determine symbolic info for each local row */
3175b1d57f15SBarry Smith   ierr = PetscMalloc((3*merge->nrecv+1)*sizeof(PetscInt**),&buf_ri_k);CHKERRQ(ierr);
31763e06a4e6SHong Zhang   nextrow = buf_ri_k + merge->nrecv;
31773e06a4e6SHong Zhang   nextai  = nextrow + merge->nrecv;
31783e06a4e6SHong Zhang   for (k=0; k<merge->nrecv; k++){
31792257cef7SHong Zhang     buf_ri_k[k] = buf_ri[k]; /* beginning of k-th recved i-structure */
31803e06a4e6SHong Zhang     nrows = *buf_ri_k[k];
31813e06a4e6SHong Zhang     nextrow[k]  = buf_ri_k[k] + 1;  /* next row number of k-th recved i-structure */
31822257cef7SHong Zhang     nextai[k]   = buf_ri_k[k] + (nrows + 1);/* poins to the next i-structure of k-th recved i-structure  */
31833e06a4e6SHong Zhang   }
31842257cef7SHong Zhang 
3185bcc1bcd5SHong Zhang   ierr = MatPreallocateInitialize(comm,m,n,dnz,onz);CHKERRQ(ierr);
3186bcc1bcd5SHong Zhang   len = 0;
318758cb9c82SHong Zhang   for (i=0;i<m;i++) {
318858cb9c82SHong Zhang     bnzi   = 0;
318958cb9c82SHong Zhang     /* add local non-zero cols of this proc's seqmat into lnk */
319058cb9c82SHong Zhang     arow   = owners[rank] + i;
319158cb9c82SHong Zhang     anzi   = ai[arow+1] - ai[arow];
319258cb9c82SHong Zhang     aj     = a->j + ai[arow];
3193be0fcf8dSHong Zhang     ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr);
319458cb9c82SHong Zhang     bnzi += nlnk;
319558cb9c82SHong Zhang     /* add received col data into lnk */
319651a7d1a8SHong Zhang     for (k=0; k<merge->nrecv; k++){ /* k-th received message */
319755d1abb9SHong Zhang       if (i == *nextrow[k]) { /* i-th row */
31983e06a4e6SHong Zhang         anzi = *(nextai[k]+1) - *nextai[k];
31993e06a4e6SHong Zhang         aj   = buf_rj[k] + *nextai[k];
32003e06a4e6SHong Zhang         ierr = PetscLLAdd(anzi,aj,N,nlnk,lnk,lnkbt);CHKERRQ(ierr);
32013e06a4e6SHong Zhang         bnzi += nlnk;
32023e06a4e6SHong Zhang         nextrow[k]++; nextai[k]++;
32033e06a4e6SHong Zhang       }
320458cb9c82SHong Zhang     }
3205bcc1bcd5SHong Zhang     if (len < bnzi) len = bnzi;  /* =max(bnzi) */
320658cb9c82SHong Zhang 
320758cb9c82SHong Zhang     /* if free space is not available, make more free space */
320858cb9c82SHong Zhang     if (current_space->local_remaining<bnzi) {
320958cb9c82SHong Zhang       ierr = GetMoreSpace(current_space->total_array_size,&current_space);CHKERRQ(ierr);
321058cb9c82SHong Zhang       nspacedouble++;
321158cb9c82SHong Zhang     }
321258cb9c82SHong Zhang     /* copy data into free space, then initialize lnk */
3213be0fcf8dSHong Zhang     ierr = PetscLLClean(N,N,bnzi,lnk,current_space->array,lnkbt);CHKERRQ(ierr);
3214bcc1bcd5SHong Zhang     ierr = MatPreallocateSet(i+owners[rank],bnzi,current_space->array,dnz,onz);CHKERRQ(ierr);
3215bcc1bcd5SHong Zhang 
321658cb9c82SHong Zhang     current_space->array           += bnzi;
321758cb9c82SHong Zhang     current_space->local_used      += bnzi;
321858cb9c82SHong Zhang     current_space->local_remaining -= bnzi;
321958cb9c82SHong Zhang 
322058cb9c82SHong Zhang     bi[i+1] = bi[i] + bnzi;
322158cb9c82SHong Zhang   }
3222bcc1bcd5SHong Zhang 
3223bcc1bcd5SHong Zhang   ierr = PetscFree(buf_ri_k);CHKERRQ(ierr);
3224bcc1bcd5SHong Zhang 
3225b1d57f15SBarry Smith   ierr = PetscMalloc((bi[m]+1)*sizeof(PetscInt),&bj);CHKERRQ(ierr);
322658cb9c82SHong Zhang   ierr = MakeSpaceContiguous(&free_space,bj);CHKERRQ(ierr);
3227be0fcf8dSHong Zhang   ierr = PetscLLDestroy(lnk,lnkbt);CHKERRQ(ierr);
3228409913e3SHong Zhang 
3229bcc1bcd5SHong Zhang   /* create symbolic parallel matrix B_mpi */
3230bcc1bcd5SHong Zhang   /*---------------------------------------*/
323154b84b50SHong Zhang   if (n==PETSC_DECIDE) {
323254b84b50SHong Zhang     ierr = MatCreate(comm,m,n,PETSC_DETERMINE,N,&B_mpi);CHKERRQ(ierr);
323354b84b50SHong Zhang   } else {
3234bcc1bcd5SHong Zhang     ierr = MatCreate(comm,m,n,PETSC_DETERMINE,PETSC_DETERMINE,&B_mpi);CHKERRQ(ierr);
323554b84b50SHong Zhang   }
3236bcc1bcd5SHong Zhang   ierr = MatSetType(B_mpi,MATMPIAIJ);CHKERRQ(ierr);
3237bcc1bcd5SHong Zhang   ierr = MatMPIAIJSetPreallocation(B_mpi,0,dnz,0,onz);CHKERRQ(ierr);
3238bcc1bcd5SHong Zhang   ierr = MatPreallocateFinalize(dnz,onz);CHKERRQ(ierr);
323958cb9c82SHong Zhang 
32406abd8857SHong Zhang   /* B_mpi is not ready for use - assembly will be done by MatMerge_SeqsToMPINumeric() */
32416abd8857SHong Zhang   B_mpi->assembled     = PETSC_FALSE;
3242affca5deSHong Zhang   B_mpi->ops->destroy  = MatDestroy_MPIAIJ_SeqsToMPI;
3243affca5deSHong Zhang   merge->bi            = bi;
3244affca5deSHong Zhang   merge->bj            = bj;
324502c68681SHong Zhang   merge->buf_ri        = buf_ri;
324602c68681SHong Zhang   merge->buf_rj        = buf_rj;
3247de0260b3SHong Zhang   merge->coi           = PETSC_NULL;
3248de0260b3SHong Zhang   merge->coj           = PETSC_NULL;
3249de0260b3SHong Zhang   merge->owners_co     = PETSC_NULL;
3250affca5deSHong Zhang 
3251affca5deSHong Zhang   /* attach the supporting struct to B_mpi for reuse */
3252affca5deSHong Zhang   ierr = PetscObjectContainerCreate(PETSC_COMM_SELF,&container);CHKERRQ(ierr);
3253affca5deSHong Zhang   ierr = PetscObjectContainerSetPointer(container,merge);CHKERRQ(ierr);
3254affca5deSHong Zhang   ierr = PetscObjectCompose((PetscObject)B_mpi,"MatMergeSeqsToMPI",(PetscObject)container);CHKERRQ(ierr);
3255affca5deSHong Zhang   *mpimat = B_mpi;
32563c2c1871SHong Zhang   ierr = PetscLogEventEnd(logkey_seqstompisym,seqmat,0,0,0);CHKERRQ(ierr);
3257e5f2cdd8SHong Zhang   PetscFunctionReturn(0);
3258e5f2cdd8SHong Zhang }
325925616d81SHong Zhang 
3260e462e02cSHong Zhang static PetscEvent logkey_seqstompi = 0;
326155d1abb9SHong Zhang PetscErrorCode MatMerge_SeqsToMPI(MPI_Comm comm,Mat seqmat,PetscInt m,PetscInt n,MatReuse scall,Mat *mpimat)
326255d1abb9SHong Zhang {
326355d1abb9SHong Zhang   PetscErrorCode   ierr;
326455d1abb9SHong Zhang 
326555d1abb9SHong Zhang   PetscFunctionBegin;
3266e462e02cSHong Zhang   if (!logkey_seqstompi) {
3267e462e02cSHong Zhang     ierr = PetscLogEventRegister(&logkey_seqstompi,"MatMerge_SeqsToMPI",MAT_COOKIE);
3268e462e02cSHong Zhang   }
3269e462e02cSHong Zhang   ierr = PetscLogEventBegin(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr);
327055d1abb9SHong Zhang   if (scall == MAT_INITIAL_MATRIX){
327155d1abb9SHong Zhang     ierr = MatMerge_SeqsToMPISymbolic(comm,seqmat,m,n,mpimat);CHKERRQ(ierr);
327255d1abb9SHong Zhang   }
327355d1abb9SHong Zhang   ierr = MatMerge_SeqsToMPINumeric(seqmat,*mpimat);CHKERRQ(ierr);
3274e462e02cSHong Zhang   ierr = PetscLogEventEnd(logkey_seqstompi,seqmat,0,0,0);CHKERRQ(ierr);
327555d1abb9SHong Zhang   PetscFunctionReturn(0);
327655d1abb9SHong Zhang }
3277a61c8c0fSHong Zhang static PetscEvent logkey_getlocalmat = 0;
327825616d81SHong Zhang #undef __FUNCT__
327925616d81SHong Zhang #define __FUNCT__ "MatGetLocalMat"
328025616d81SHong Zhang /*@C
328132fba14fSHong Zhang      MatGetLocalMat - Creates a SeqAIJ matrix by taking all its local rows
328225616d81SHong Zhang 
328332fba14fSHong Zhang     Not Collective
328425616d81SHong Zhang 
328525616d81SHong Zhang    Input Parameters:
328625616d81SHong Zhang +    A - the matrix
328725616d81SHong Zhang .    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
328825616d81SHong Zhang 
328925616d81SHong Zhang    Output Parameter:
329025616d81SHong Zhang .    A_loc - the local sequential matrix generated
329125616d81SHong Zhang 
329225616d81SHong Zhang     Level: developer
329325616d81SHong Zhang 
329425616d81SHong Zhang @*/
329532fba14fSHong Zhang PetscErrorCode MatGetLocalMat(Mat A,MatReuse scall,Mat *A_loc)
329625616d81SHong Zhang {
329725616d81SHong Zhang   PetscErrorCode  ierr;
329801b7ae99SHong Zhang   Mat_MPIAIJ      *mpimat=(Mat_MPIAIJ*)A->data;
329901b7ae99SHong Zhang   Mat_SeqAIJ      *mat,*a=(Mat_SeqAIJ*)(mpimat->A)->data,*b=(Mat_SeqAIJ*)(mpimat->B)->data;
330001b7ae99SHong Zhang   PetscInt        *ai=a->i,*aj=a->j,*bi=b->i,*bj=b->j,*cmap=mpimat->garray;
3301dea91ad1SHong Zhang   PetscScalar     *aa=a->a,*ba=b->a,*ca;
3302ecc9b87dSHong Zhang   PetscInt        am=A->m,i,j,k,cstart=mpimat->cstart;
33035a7d977cSHong Zhang   PetscInt        *ci,*cj,col,ncols_d,ncols_o,jo;
330425616d81SHong Zhang 
330525616d81SHong Zhang   PetscFunctionBegin;
3306e462e02cSHong Zhang   if (!logkey_getlocalmat) {
3307e462e02cSHong Zhang     ierr = PetscLogEventRegister(&logkey_getlocalmat,"MatGetLocalMat",MAT_COOKIE);
3308e462e02cSHong Zhang   }
3309e462e02cSHong Zhang   ierr = PetscLogEventBegin(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr);
331001b7ae99SHong Zhang   if (scall == MAT_INITIAL_MATRIX){
3311dea91ad1SHong Zhang     ierr = PetscMalloc((1+am)*sizeof(PetscInt),&ci);CHKERRQ(ierr);
3312dea91ad1SHong Zhang     ci[0] = 0;
331301b7ae99SHong Zhang     for (i=0; i<am; i++){
3314dea91ad1SHong Zhang       ci[i+1] = ci[i] + (ai[i+1] - ai[i]) + (bi[i+1] - bi[i]);
331501b7ae99SHong Zhang     }
3316dea91ad1SHong Zhang     ierr = PetscMalloc((1+ci[am])*sizeof(PetscInt),&cj);CHKERRQ(ierr);
3317dea91ad1SHong Zhang     ierr = PetscMalloc((1+ci[am])*sizeof(PetscScalar),&ca);CHKERRQ(ierr);
3318dea91ad1SHong Zhang     k = 0;
331901b7ae99SHong Zhang     for (i=0; i<am; i++) {
33205a7d977cSHong Zhang       ncols_o = bi[i+1] - bi[i];
33215a7d977cSHong Zhang       ncols_d = ai[i+1] - ai[i];
332201b7ae99SHong Zhang       /* off-diagonal portion of A */
33235a7d977cSHong Zhang       for (jo=0; jo<ncols_o; jo++) {
33245a7d977cSHong Zhang         col = cmap[*bj];
33255a7d977cSHong Zhang         if (col >= cstart) break;
33265a7d977cSHong Zhang         cj[k]   = col; bj++;
33275a7d977cSHong Zhang         ca[k++] = *ba++;
33285a7d977cSHong Zhang       }
33295a7d977cSHong Zhang       /* diagonal portion of A */
33305a7d977cSHong Zhang       for (j=0; j<ncols_d; j++) {
33315a7d977cSHong Zhang         cj[k]   = cstart + *aj++;
33325a7d977cSHong Zhang         ca[k++] = *aa++;
33335a7d977cSHong Zhang       }
33345a7d977cSHong Zhang       /* off-diagonal portion of A */
33355a7d977cSHong Zhang       for (j=jo; j<ncols_o; j++) {
33365a7d977cSHong Zhang         cj[k]   = cmap[*bj++];
33375a7d977cSHong Zhang         ca[k++] = *ba++;
33385a7d977cSHong Zhang       }
333925616d81SHong Zhang     }
3340dea91ad1SHong Zhang     /* put together the new matrix */
3341dea91ad1SHong Zhang     ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,am,A->N,ci,cj,ca,A_loc);CHKERRQ(ierr);
3342dea91ad1SHong Zhang     /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */
3343dea91ad1SHong Zhang     /* Since these are PETSc arrays, change flags to free them as necessary. */
3344dea91ad1SHong Zhang     mat = (Mat_SeqAIJ*)(*A_loc)->data;
3345dea91ad1SHong Zhang     mat->freedata = PETSC_TRUE;
3346dea91ad1SHong Zhang     mat->nonew    = 0;
33475a7d977cSHong Zhang   } else if (scall == MAT_REUSE_MATRIX){
33485a7d977cSHong Zhang     mat=(Mat_SeqAIJ*)(*A_loc)->data;
33495a7d977cSHong Zhang     ci = mat->i; cj = mat->j; ca = mat->a;
33505a7d977cSHong Zhang     for (i=0; i<am; i++) {
33515a7d977cSHong Zhang       /* off-diagonal portion of A */
33525a7d977cSHong Zhang       ncols_o = bi[i+1] - bi[i];
33535a7d977cSHong Zhang       for (jo=0; jo<ncols_o; jo++) {
33545a7d977cSHong Zhang         col = cmap[*bj];
33555a7d977cSHong Zhang         if (col >= cstart) break;
3356f33d1a9aSHong Zhang         *ca++ = *ba++; bj++;
33575a7d977cSHong Zhang       }
33585a7d977cSHong Zhang       /* diagonal portion of A */
3359ecc9b87dSHong Zhang       ncols_d = ai[i+1] - ai[i];
3360ecc9b87dSHong Zhang       for (j=0; j<ncols_d; j++) *ca++ = *aa++;
33615a7d977cSHong Zhang       /* off-diagonal portion of A */
3362f33d1a9aSHong Zhang       for (j=jo; j<ncols_o; j++) {
3363f33d1a9aSHong Zhang         *ca++ = *ba++; bj++;
3364f33d1a9aSHong Zhang       }
33655a7d977cSHong Zhang     }
33665a7d977cSHong Zhang   } else {
33675a7d977cSHong Zhang     SETERRQ1(PETSC_ERR_ARG_WRONG,"Invalid MatReuse %d",(int)scall);
336825616d81SHong Zhang   }
336901b7ae99SHong Zhang 
3370e462e02cSHong Zhang   ierr = PetscLogEventEnd(logkey_getlocalmat,A,0,0,0);CHKERRQ(ierr);
337125616d81SHong Zhang   PetscFunctionReturn(0);
337225616d81SHong Zhang }
337325616d81SHong Zhang 
337432fba14fSHong Zhang static PetscEvent logkey_getlocalmatcondensed = 0;
337532fba14fSHong Zhang #undef __FUNCT__
337632fba14fSHong Zhang #define __FUNCT__ "MatGetLocalMatCondensed"
337732fba14fSHong Zhang /*@C
337832fba14fSHong Zhang      MatGetLocalMatCondensed - Creates a SeqAIJ matrix by taking all its local rows and NON-ZERO columns
337932fba14fSHong Zhang 
338032fba14fSHong Zhang     Not Collective
338132fba14fSHong Zhang 
338232fba14fSHong Zhang    Input Parameters:
338332fba14fSHong Zhang +    A - the matrix
338432fba14fSHong Zhang .    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
338532fba14fSHong Zhang -    row, col - index sets of rows and columns to extract (or PETSC_NULL)
338632fba14fSHong Zhang 
338732fba14fSHong Zhang    Output Parameter:
338832fba14fSHong Zhang .    A_loc - the local sequential matrix generated
338932fba14fSHong Zhang 
339032fba14fSHong Zhang     Level: developer
339132fba14fSHong Zhang 
339232fba14fSHong Zhang @*/
339332fba14fSHong Zhang PetscErrorCode MatGetLocalMatCondensed(Mat A,MatReuse scall,IS *row,IS *col,Mat *A_loc)
339432fba14fSHong Zhang {
339532fba14fSHong Zhang   Mat_MPIAIJ        *a=(Mat_MPIAIJ*)A->data;
339632fba14fSHong Zhang   PetscErrorCode    ierr;
339732fba14fSHong Zhang   PetscInt          i,start,end,ncols,nzA,nzB,*cmap,imark,*idx;
339832fba14fSHong Zhang   IS                isrowa,iscola;
339932fba14fSHong Zhang   Mat               *aloc;
340032fba14fSHong Zhang 
340132fba14fSHong Zhang   PetscFunctionBegin;
340232fba14fSHong Zhang   if (!logkey_getlocalmatcondensed) {
340332fba14fSHong Zhang     ierr = PetscLogEventRegister(&logkey_getlocalmatcondensed,"MatGetLocalMatCondensed",MAT_COOKIE);
340432fba14fSHong Zhang   }
340532fba14fSHong Zhang   ierr = PetscLogEventBegin(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr);
340632fba14fSHong Zhang   if (!row){
340732fba14fSHong Zhang     start = a->rstart; end = a->rend;
340832fba14fSHong Zhang     ierr = ISCreateStride(PETSC_COMM_SELF,end-start,start,1,&isrowa);CHKERRQ(ierr);
340932fba14fSHong Zhang   } else {
341032fba14fSHong Zhang     isrowa = *row;
341132fba14fSHong Zhang   }
341232fba14fSHong Zhang   if (!col){
341332fba14fSHong Zhang     start = a->cstart;
341432fba14fSHong Zhang     cmap  = a->garray;
341532fba14fSHong Zhang     nzA   = a->A->n;
341632fba14fSHong Zhang     nzB   = a->B->n;
341732fba14fSHong Zhang     ierr  = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr);
341832fba14fSHong Zhang     ncols = 0;
341932fba14fSHong Zhang     for (i=0; i<nzB; i++) {
342032fba14fSHong Zhang       if (cmap[i] < start) idx[ncols++] = cmap[i];
342132fba14fSHong Zhang       else break;
342232fba14fSHong Zhang     }
342332fba14fSHong Zhang     imark = i;
342432fba14fSHong Zhang     for (i=0; i<nzA; i++) idx[ncols++] = start + i;
342532fba14fSHong Zhang     for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i];
342632fba14fSHong Zhang     ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&iscola);CHKERRQ(ierr);
342732fba14fSHong Zhang     ierr = PetscFree(idx);CHKERRQ(ierr);
342832fba14fSHong Zhang   } else {
342932fba14fSHong Zhang     iscola = *col;
343032fba14fSHong Zhang   }
343132fba14fSHong Zhang   if (scall != MAT_INITIAL_MATRIX){
343232fba14fSHong Zhang     ierr = PetscMalloc(sizeof(Mat),&aloc);CHKERRQ(ierr);
343332fba14fSHong Zhang     aloc[0] = *A_loc;
343432fba14fSHong Zhang   }
343532fba14fSHong Zhang   ierr = MatGetSubMatrices(A,1,&isrowa,&iscola,scall,&aloc);CHKERRQ(ierr);
343632fba14fSHong Zhang   *A_loc = aloc[0];
343732fba14fSHong Zhang   ierr = PetscFree(aloc);CHKERRQ(ierr);
343832fba14fSHong Zhang   if (!row){
343932fba14fSHong Zhang     ierr = ISDestroy(isrowa);CHKERRQ(ierr);
344032fba14fSHong Zhang   }
344132fba14fSHong Zhang   if (!col){
344232fba14fSHong Zhang     ierr = ISDestroy(iscola);CHKERRQ(ierr);
344332fba14fSHong Zhang   }
344432fba14fSHong Zhang   ierr = PetscLogEventEnd(logkey_getlocalmatcondensed,A,0,0,0);CHKERRQ(ierr);
344532fba14fSHong Zhang   PetscFunctionReturn(0);
344632fba14fSHong Zhang }
344732fba14fSHong Zhang 
3448a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAcols = 0;
344925616d81SHong Zhang #undef __FUNCT__
345025616d81SHong Zhang #define __FUNCT__ "MatGetBrowsOfAcols"
345125616d81SHong Zhang /*@C
345232fba14fSHong Zhang     MatGetBrowsOfAcols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns of local A
345325616d81SHong Zhang 
345425616d81SHong Zhang     Collective on Mat
345525616d81SHong Zhang 
345625616d81SHong Zhang    Input Parameters:
3457e240928fSHong Zhang +    A,B - the matrices in mpiaij format
345825616d81SHong Zhang .    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
345925616d81SHong Zhang -    rowb, colb - index sets of rows and columns of B to extract (or PETSC_NULL)
346025616d81SHong Zhang 
346125616d81SHong Zhang    Output Parameter:
346225616d81SHong Zhang +    rowb, colb - index sets of rows and columns of B to extract
346325616d81SHong Zhang .    brstart - row index of B_seq from which next B->m rows are taken from B's local rows
346425616d81SHong Zhang -    B_seq - the sequential matrix generated
346525616d81SHong Zhang 
346625616d81SHong Zhang     Level: developer
346725616d81SHong Zhang 
346825616d81SHong Zhang @*/
346925616d81SHong Zhang PetscErrorCode MatGetBrowsOfAcols(Mat A,Mat B,MatReuse scall,IS *rowb,IS *colb,PetscInt *brstart,Mat *B_seq)
347025616d81SHong Zhang {
347125616d81SHong Zhang   Mat_MPIAIJ        *a=(Mat_MPIAIJ*)A->data,*b=(Mat_MPIAIJ*)B->data;
347225616d81SHong Zhang   PetscErrorCode    ierr;
3473b1d57f15SBarry Smith   PetscInt          *idx,i,start,ncols,nzA,nzB,*cmap,imark;
347425616d81SHong Zhang   IS                isrowb,iscolb;
347525616d81SHong Zhang   Mat               *bseq;
347625616d81SHong Zhang 
347725616d81SHong Zhang   PetscFunctionBegin;
347825616d81SHong Zhang   if (a->cstart != b->rstart || a->cend != b->rend){
347977431f27SBarry Smith     SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%D, %D) != (%D,%D)",a->cstart,a->cend,b->rstart,b->rend);
348025616d81SHong Zhang   }
3481e462e02cSHong Zhang   if (!logkey_GetBrowsOfAcols) {
3482e462e02cSHong Zhang     ierr = PetscLogEventRegister(&logkey_GetBrowsOfAcols,"MatGetBrowsOfAcols",MAT_COOKIE);
3483e462e02cSHong Zhang   }
3484e462e02cSHong Zhang   ierr = PetscLogEventBegin(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr);
348525616d81SHong Zhang 
348625616d81SHong Zhang   if (scall == MAT_INITIAL_MATRIX){
348725616d81SHong Zhang     start = a->cstart;
348825616d81SHong Zhang     cmap  = a->garray;
348925616d81SHong Zhang     nzA   = a->A->n;
349025616d81SHong Zhang     nzB   = a->B->n;
3491b1d57f15SBarry Smith     ierr  = PetscMalloc((nzA+nzB)*sizeof(PetscInt), &idx);CHKERRQ(ierr);
349225616d81SHong Zhang     ncols = 0;
34930390132cSHong Zhang     for (i=0; i<nzB; i++) {  /* row < local row index */
349425616d81SHong Zhang       if (cmap[i] < start) idx[ncols++] = cmap[i];
349525616d81SHong Zhang       else break;
349625616d81SHong Zhang     }
349725616d81SHong Zhang     imark = i;
34980390132cSHong Zhang     for (i=0; i<nzA; i++) idx[ncols++] = start + i;  /* local rows */
34990390132cSHong Zhang     for (i=imark; i<nzB; i++) idx[ncols++] = cmap[i]; /* row > local row index */
350025616d81SHong Zhang     ierr = ISCreateGeneral(PETSC_COMM_SELF,ncols,idx,&isrowb);CHKERRQ(ierr);
350125616d81SHong Zhang     ierr = PetscFree(idx);CHKERRQ(ierr);
350225616d81SHong Zhang     *brstart = imark;
350325616d81SHong Zhang     ierr = ISCreateStride(PETSC_COMM_SELF,B->N,0,1,&iscolb);CHKERRQ(ierr);
350425616d81SHong Zhang   } else {
350525616d81SHong Zhang     if (!rowb || !colb) SETERRQ(PETSC_ERR_SUP,"IS rowb and colb must be provided for MAT_REUSE_MATRIX");
350625616d81SHong Zhang     isrowb = *rowb; iscolb = *colb;
350725616d81SHong Zhang     ierr = PetscMalloc(sizeof(Mat),&bseq);CHKERRQ(ierr);
350825616d81SHong Zhang     bseq[0] = *B_seq;
350925616d81SHong Zhang   }
351025616d81SHong Zhang   ierr = MatGetSubMatrices(B,1,&isrowb,&iscolb,scall,&bseq);CHKERRQ(ierr);
351125616d81SHong Zhang   *B_seq = bseq[0];
351225616d81SHong Zhang   ierr = PetscFree(bseq);CHKERRQ(ierr);
351325616d81SHong Zhang   if (!rowb){
351425616d81SHong Zhang     ierr = ISDestroy(isrowb);CHKERRQ(ierr);
351525616d81SHong Zhang   } else {
351625616d81SHong Zhang     *rowb = isrowb;
351725616d81SHong Zhang   }
351825616d81SHong Zhang   if (!colb){
351925616d81SHong Zhang     ierr = ISDestroy(iscolb);CHKERRQ(ierr);
352025616d81SHong Zhang   } else {
352125616d81SHong Zhang     *colb = iscolb;
352225616d81SHong Zhang   }
3523e462e02cSHong Zhang   ierr = PetscLogEventEnd(logkey_GetBrowsOfAcols,A,B,0,0);CHKERRQ(ierr);
352425616d81SHong Zhang   PetscFunctionReturn(0);
352525616d81SHong Zhang }
3526429d309bSHong Zhang 
3527a61c8c0fSHong Zhang static PetscEvent logkey_GetBrowsOfAocols = 0;
3528a61c8c0fSHong Zhang #undef __FUNCT__
3529a61c8c0fSHong Zhang #define __FUNCT__ "MatGetBrowsOfAoCols"
3530429d309bSHong Zhang /*@C
3531429d309bSHong Zhang     MatGetBrowsOfAoCols - Creates a SeqAIJ matrix by taking rows of B that equal to nonzero columns
353201b7ae99SHong Zhang     of the OFF-DIAGONAL portion of local A
3533429d309bSHong Zhang 
3534429d309bSHong Zhang     Collective on Mat
3535429d309bSHong Zhang 
3536429d309bSHong Zhang    Input Parameters:
3537429d309bSHong Zhang +    A,B - the matrices in mpiaij format
353887025532SHong Zhang .    scall - either MAT_INITIAL_MATRIX or MAT_REUSE_MATRIX
353987025532SHong Zhang .    startsj - starting point in B's sending and receiving j-arrays, saved for MAT_REUSE (or PETSC_NULL)
354087025532SHong Zhang -    bufa_ptr - array for sending matrix values, saved for MAT_REUSE (or PETSC_NULL)
3541429d309bSHong Zhang 
3542429d309bSHong Zhang    Output Parameter:
354387025532SHong Zhang +    B_oth - the sequential matrix generated
3544429d309bSHong Zhang 
3545429d309bSHong Zhang     Level: developer
3546429d309bSHong Zhang 
3547429d309bSHong Zhang @*/
354887025532SHong Zhang PetscErrorCode MatGetBrowsOfAoCols(Mat A,Mat B,MatReuse scall,PetscInt **startsj,PetscScalar **bufa_ptr,Mat *B_oth)
3549429d309bSHong Zhang {
3550a6b2eed2SHong Zhang   VecScatter_MPI_General *gen_to,*gen_from;
3551429d309bSHong Zhang   PetscErrorCode         ierr;
355287025532SHong Zhang   Mat_MPIAIJ             *a=(Mat_MPIAIJ*)A->data,*b=(Mat_MPIAIJ*)B->data;
355387025532SHong Zhang   Mat_SeqAIJ             *b_oth;
3554a6b2eed2SHong Zhang   VecScatter             ctx=a->Mvctx;
3555a6b2eed2SHong Zhang   MPI_Comm               comm=ctx->comm;
355687025532SHong Zhang   PetscMPIInt            *rprocs,*sprocs,tag=ctx->tag,rank;
355768733de6SHong Zhang   PetscInt               *rowlen,*bufj,*bufJ,ncols,aBn=a->B->n,row,*b_othi,*b_othj;
355887025532SHong Zhang   PetscScalar            *rvalues,*svalues,*b_otha,*bufa,*bufA;
355913f74950SBarry Smith   PetscInt               i,k,l,nrecvs,nsends,nrows,*rrow,*srow,*rstarts,*rstartsj,*sstarts,*sstartsj,len;
3560a6b2eed2SHong Zhang   MPI_Request            *rwaits,*swaits;
356187025532SHong Zhang   MPI_Status             *sstatus,rstatus;
3562ba8c8a56SBarry Smith   PetscInt               *cols;
3563ba8c8a56SBarry Smith   PetscScalar            *vals;
356413f74950SBarry Smith   PetscMPIInt            j;
3565429d309bSHong Zhang 
3566429d309bSHong Zhang   PetscFunctionBegin;
3567429d309bSHong Zhang   if (a->cstart != b->rstart || a->cend != b->rend){
3568a6b2eed2SHong Zhang     SETERRQ4(PETSC_ERR_ARG_SIZ,"Matrix local dimensions are incompatible, (%d, %d) != (%d,%d)",a->cstart,a->cend,b->rstart,b->rend);
3569429d309bSHong Zhang   }
3570429d309bSHong Zhang   if (!logkey_GetBrowsOfAocols) {
35711677a5d7SHong Zhang     ierr = PetscLogEventRegister(&logkey_GetBrowsOfAocols,"MatGetBrAoCol",MAT_COOKIE);
3572429d309bSHong Zhang   }
3573429d309bSHong Zhang   ierr = PetscLogEventBegin(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr);
3574a6b2eed2SHong Zhang   ierr = MPI_Comm_rank(comm,&rank);CHKERRQ(ierr);
3575a6b2eed2SHong Zhang 
3576a6b2eed2SHong Zhang   gen_to   = (VecScatter_MPI_General*)ctx->todata;
3577a6b2eed2SHong Zhang   gen_from = (VecScatter_MPI_General*)ctx->fromdata;
3578a6b2eed2SHong Zhang   rvalues  = gen_from->values; /* holds the length of sending row */
3579a6b2eed2SHong Zhang   svalues  = gen_to->values;   /* holds the length of receiving row */
3580a6b2eed2SHong Zhang   nrecvs   = gen_from->n;
3581a6b2eed2SHong Zhang   nsends   = gen_to->n;
3582a6b2eed2SHong Zhang   rwaits   = gen_from->requests;
3583a6b2eed2SHong Zhang   swaits   = gen_to->requests;
3584a6b2eed2SHong Zhang   rrow     = gen_from->indices; /* local row index to be received */
3585a6b2eed2SHong Zhang   srow     = gen_to->indices;   /* local row index to be sent */
3586a6b2eed2SHong Zhang   rstarts  = gen_from->starts;
3587a6b2eed2SHong Zhang   sstarts  = gen_to->starts;
3588a6b2eed2SHong Zhang   rprocs   = gen_from->procs;
3589a6b2eed2SHong Zhang   sprocs   = gen_to->procs;
3590a6b2eed2SHong Zhang   sstatus  = gen_to->sstatus;
3591429d309bSHong Zhang 
3592dea91ad1SHong Zhang   if (!startsj || !bufa_ptr) scall = MAT_INITIAL_MATRIX;
3593429d309bSHong Zhang   if (scall == MAT_INITIAL_MATRIX){
3594a6b2eed2SHong Zhang     /* i-array */
3595a6b2eed2SHong Zhang     /*---------*/
3596a6b2eed2SHong Zhang     /*  post receives */
3597a6b2eed2SHong Zhang     for (i=0; i<nrecvs; i++){
3598a6b2eed2SHong Zhang       rowlen = (PetscInt*)rvalues + rstarts[i];
359987025532SHong Zhang       nrows = rstarts[i+1]-rstarts[i];
360087025532SHong Zhang       ierr = MPI_Irecv(rowlen,nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr);
3601429d309bSHong Zhang     }
3602a6b2eed2SHong Zhang 
3603a6b2eed2SHong Zhang     /* pack the outgoing message */
360487025532SHong Zhang     ierr = PetscMalloc((nsends+nrecvs+3)*sizeof(PetscInt),&sstartsj);CHKERRQ(ierr);
3605a6b2eed2SHong Zhang     rstartsj = sstartsj + nsends +1;
3606a6b2eed2SHong Zhang     sstartsj[0] = 0;  rstartsj[0] = 0;
3607a6b2eed2SHong Zhang     len = 0; /* total length of j or a array to be sent */
3608a6b2eed2SHong Zhang     k = 0;
3609a6b2eed2SHong Zhang     for (i=0; i<nsends; i++){
3610a6b2eed2SHong Zhang       rowlen = (PetscInt*)svalues + sstarts[i];
361187025532SHong Zhang       nrows = sstarts[i+1]-sstarts[i]; /* num of rows */
361287025532SHong Zhang       for (j=0; j<nrows; j++) {
3613a6b2eed2SHong Zhang         row = srow[k] + b->rowners[rank]; /* global row idx */
3614ba8c8a56SBarry Smith         ierr = MatGetRow_MPIAIJ(B,row,&rowlen[j],PETSC_NULL,PETSC_NULL);CHKERRQ(ierr); /* rowlength */
3615a6b2eed2SHong Zhang         len += rowlen[j];
3616ba8c8a56SBarry Smith         ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,PETSC_NULL,PETSC_NULL);CHKERRQ(ierr);
3617a6b2eed2SHong Zhang         k++;
3618429d309bSHong Zhang       }
361987025532SHong Zhang       ierr = MPI_Isend(rowlen,nrows,MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr);
3620dea91ad1SHong Zhang        sstartsj[i+1] = len;  /* starting point of (i+1)-th outgoing msg in bufj and bufa */
3621429d309bSHong Zhang     }
362287025532SHong Zhang     /* recvs and sends of i-array are completed */
362387025532SHong Zhang     i = nrecvs;
362487025532SHong Zhang     while (i--) {
362587025532SHong Zhang       ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr);
362687025532SHong Zhang     }
3627a6b2eed2SHong Zhang     if (nsends) {
3628a6b2eed2SHong Zhang       ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);
3629a6b2eed2SHong Zhang     }
3630a6b2eed2SHong Zhang     /* allocate buffers for sending j and a arrays */
3631a6b2eed2SHong Zhang     ierr = PetscMalloc((len+1)*sizeof(PetscInt),&bufj);CHKERRQ(ierr);
3632a6b2eed2SHong Zhang     ierr = PetscMalloc((len+1)*sizeof(PetscScalar),&bufa);CHKERRQ(ierr);
3633a6b2eed2SHong Zhang 
363487025532SHong Zhang     /* create i-array of B_oth */
363587025532SHong Zhang     ierr = PetscMalloc((aBn+2)*sizeof(PetscInt),&b_othi);CHKERRQ(ierr);
363687025532SHong Zhang     b_othi[0] = 0;
3637a6b2eed2SHong Zhang     len = 0; /* total length of j or a array to be received */
3638a6b2eed2SHong Zhang     k = 0;
3639a6b2eed2SHong Zhang     for (i=0; i<nrecvs; i++){
3640a6b2eed2SHong Zhang       rowlen = (PetscInt*)rvalues + rstarts[i];
364187025532SHong Zhang       nrows = rstarts[i+1]-rstarts[i];
364287025532SHong Zhang       for (j=0; j<nrows; j++) {
364387025532SHong Zhang         b_othi[k+1] = b_othi[k] + rowlen[j];
3644a6b2eed2SHong Zhang         len += rowlen[j]; k++;
3645a6b2eed2SHong Zhang       }
3646dea91ad1SHong Zhang       rstartsj[i+1] = len; /* starting point of (i+1)-th incoming msg in bufj and bufa */
3647a6b2eed2SHong Zhang     }
3648a6b2eed2SHong Zhang 
364987025532SHong Zhang     /* allocate space for j and a arrrays of B_oth */
365087025532SHong Zhang     ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscInt),&b_othj);CHKERRQ(ierr);
365187025532SHong Zhang     ierr = PetscMalloc((b_othi[aBn]+1)*sizeof(PetscScalar),&b_otha);CHKERRQ(ierr);
3652a6b2eed2SHong Zhang 
365387025532SHong Zhang     /* j-array */
365487025532SHong Zhang     /*---------*/
3655a6b2eed2SHong Zhang     /*  post receives of j-array */
3656a6b2eed2SHong Zhang     for (i=0; i<nrecvs; i++){
365787025532SHong Zhang       nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */
365887025532SHong Zhang       ierr = MPI_Irecv(b_othj+rstartsj[i],nrows,MPIU_INT,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr);
3659a6b2eed2SHong Zhang     }
3660a6b2eed2SHong Zhang     k = 0;
3661a6b2eed2SHong Zhang     for (i=0; i<nsends; i++){
366287025532SHong Zhang       nrows = sstarts[i+1]-sstarts[i]; /* num of rows */
3663a6b2eed2SHong Zhang       bufJ = bufj+sstartsj[i];
366487025532SHong Zhang       for (j=0; j<nrows; j++) {
366587025532SHong Zhang         row  = srow[k++] + b->rowners[rank]; /* global row idx */
3666ba8c8a56SBarry Smith         ierr = MatGetRow_MPIAIJ(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr);
3667a6b2eed2SHong Zhang         for (l=0; l<ncols; l++){
3668a6b2eed2SHong Zhang           *bufJ++ = cols[l];
366987025532SHong Zhang         }
3670ba8c8a56SBarry Smith         ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,&cols,PETSC_NULL);CHKERRQ(ierr);
367187025532SHong Zhang       }
367287025532SHong Zhang       ierr = MPI_Isend(bufj+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_INT,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr);
367387025532SHong Zhang     }
367487025532SHong Zhang 
367587025532SHong Zhang     /* recvs and sends of j-array are completed */
367687025532SHong Zhang     i = nrecvs;
367787025532SHong Zhang     while (i--) {
367887025532SHong Zhang       ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr);
367987025532SHong Zhang     }
368087025532SHong Zhang     if (nsends) {
368187025532SHong Zhang       ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);
368287025532SHong Zhang     }
368387025532SHong Zhang   } else if (scall == MAT_REUSE_MATRIX){
368487025532SHong Zhang     sstartsj = *startsj;
368587025532SHong Zhang     rstartsj = sstartsj + nsends +1;
368687025532SHong Zhang     bufa     = *bufa_ptr;
368787025532SHong Zhang     b_oth    = (Mat_SeqAIJ*)(*B_oth)->data;
368887025532SHong Zhang     b_otha   = b_oth->a;
368987025532SHong Zhang   } else {
369087025532SHong Zhang     SETERRQ(PETSC_ERR_ARG_WRONGSTATE, "Matrix P does not posses an object container");
369187025532SHong Zhang   }
369287025532SHong Zhang 
369387025532SHong Zhang   /* a-array */
369487025532SHong Zhang   /*---------*/
369587025532SHong Zhang   /*  post receives of a-array */
369687025532SHong Zhang   for (i=0; i<nrecvs; i++){
369787025532SHong Zhang     nrows = rstartsj[i+1]-rstartsj[i]; /* length of the msg received */
369887025532SHong Zhang     ierr = MPI_Irecv(b_otha+rstartsj[i],nrows,MPIU_SCALAR,rprocs[i],tag,comm,rwaits+i);CHKERRQ(ierr);
369987025532SHong Zhang   }
370087025532SHong Zhang   k = 0;
370187025532SHong Zhang   for (i=0; i<nsends; i++){
370287025532SHong Zhang     nrows = sstarts[i+1]-sstarts[i];
370387025532SHong Zhang     bufA = bufa+sstartsj[i];
370487025532SHong Zhang     for (j=0; j<nrows; j++) {
370587025532SHong Zhang       row  = srow[k++] + b->rowners[rank]; /* global row idx */
3706ba8c8a56SBarry Smith       ierr = MatGetRow_MPIAIJ(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr);
370787025532SHong Zhang       for (l=0; l<ncols; l++){
3708a6b2eed2SHong Zhang         *bufA++ = vals[l];
3709a6b2eed2SHong Zhang       }
3710ba8c8a56SBarry Smith       ierr = MatRestoreRow_MPIAIJ(B,row,&ncols,PETSC_NULL,&vals);CHKERRQ(ierr);
371187025532SHong Zhang 
3712a6b2eed2SHong Zhang     }
371387025532SHong Zhang     ierr = MPI_Isend(bufa+sstartsj[i],sstartsj[i+1]-sstartsj[i],MPIU_SCALAR,sprocs[i],tag,comm,swaits+i);CHKERRQ(ierr);
3714a6b2eed2SHong Zhang   }
371587025532SHong Zhang   /* recvs and sends of a-array are completed */
371687025532SHong Zhang   i = nrecvs;
371787025532SHong Zhang   while (i--) {
371887025532SHong Zhang     ierr = MPI_Waitany(nrecvs,rwaits,&j,&rstatus);CHKERRQ(ierr);
371987025532SHong Zhang   }
3720a6b2eed2SHong Zhang    if (nsends) {
3721a6b2eed2SHong Zhang     ierr = MPI_Waitall(nsends,swaits,sstatus);CHKERRQ(ierr);
3722a6b2eed2SHong Zhang   }
3723a6b2eed2SHong Zhang 
372487025532SHong Zhang   if (scall == MAT_INITIAL_MATRIX){
3725a6b2eed2SHong Zhang     /* put together the new matrix */
372687025532SHong Zhang     ierr = MatCreateSeqAIJWithArrays(PETSC_COMM_SELF,aBn,B->N,b_othi,b_othj,b_otha,B_oth);CHKERRQ(ierr);
3727a6b2eed2SHong Zhang 
3728a6b2eed2SHong Zhang     /* MatCreateSeqAIJWithArrays flags matrix so PETSc doesn't free the user's arrays. */
3729a6b2eed2SHong Zhang     /* Since these are PETSc arrays, change flags to free them as necessary. */
373087025532SHong Zhang     b_oth = (Mat_SeqAIJ *)(*B_oth)->data;
373187025532SHong Zhang     b_oth->freedata = PETSC_TRUE;
373287025532SHong Zhang     b_oth->nonew    = 0;
3733a6b2eed2SHong Zhang 
3734a6b2eed2SHong Zhang     ierr = PetscFree(bufj);CHKERRQ(ierr);
3735dea91ad1SHong Zhang     if (!startsj || !bufa_ptr){
3736dea91ad1SHong Zhang       ierr = PetscFree(sstartsj);CHKERRQ(ierr);
3737dea91ad1SHong Zhang       ierr = PetscFree(bufa_ptr);CHKERRQ(ierr);
3738dea91ad1SHong Zhang     } else {
373987025532SHong Zhang       *startsj  = sstartsj;
374087025532SHong Zhang       *bufa_ptr = bufa;
374187025532SHong Zhang     }
3742dea91ad1SHong Zhang   }
3743429d309bSHong Zhang   ierr = PetscLogEventEnd(logkey_GetBrowsOfAocols,A,B,0,0);CHKERRQ(ierr);
3744a6b2eed2SHong Zhang 
3745429d309bSHong Zhang   PetscFunctionReturn(0);
3746429d309bSHong Zhang }
3747ccd8e176SBarry Smith 
3748ccd8e176SBarry Smith /*MC
3749ccd8e176SBarry Smith    MATMPIAIJ - MATMPIAIJ = "mpiaij" - A matrix type to be used for parallel sparse matrices.
3750ccd8e176SBarry Smith 
3751ccd8e176SBarry Smith    Options Database Keys:
3752ccd8e176SBarry Smith . -mat_type mpiaij - sets the matrix type to "mpiaij" during a call to MatSetFromOptions()
3753ccd8e176SBarry Smith 
3754ccd8e176SBarry Smith   Level: beginner
3755ccd8e176SBarry Smith 
3756ccd8e176SBarry Smith .seealso: MatCreateMPIAIJ
3757ccd8e176SBarry Smith M*/
3758ccd8e176SBarry Smith 
3759ccd8e176SBarry Smith EXTERN_C_BEGIN
3760ccd8e176SBarry Smith #undef __FUNCT__
3761ccd8e176SBarry Smith #define __FUNCT__ "MatCreate_MPIAIJ"
3762ccd8e176SBarry Smith PetscErrorCode MatCreate_MPIAIJ(Mat B)
3763ccd8e176SBarry Smith {
3764ccd8e176SBarry Smith   Mat_MPIAIJ     *b;
3765ccd8e176SBarry Smith   PetscErrorCode ierr;
3766ccd8e176SBarry Smith   PetscInt       i;
3767ccd8e176SBarry Smith   PetscMPIInt    size;
3768ccd8e176SBarry Smith 
3769ccd8e176SBarry Smith   PetscFunctionBegin;
3770ccd8e176SBarry Smith   ierr = MPI_Comm_size(B->comm,&size);CHKERRQ(ierr);
3771ccd8e176SBarry Smith 
3772ccd8e176SBarry Smith   ierr            = PetscNew(Mat_MPIAIJ,&b);CHKERRQ(ierr);
3773ccd8e176SBarry Smith   B->data         = (void*)b;
3774ccd8e176SBarry Smith   ierr            = PetscMemzero(b,sizeof(Mat_MPIAIJ));CHKERRQ(ierr);
3775ccd8e176SBarry Smith   ierr            = PetscMemcpy(B->ops,&MatOps_Values,sizeof(struct _MatOps));CHKERRQ(ierr);
3776ccd8e176SBarry Smith   B->factor       = 0;
3777ccd8e176SBarry Smith   B->assembled    = PETSC_FALSE;
3778ccd8e176SBarry Smith   B->mapping      = 0;
3779ccd8e176SBarry Smith 
3780ccd8e176SBarry Smith   B->insertmode      = NOT_SET_VALUES;
3781ccd8e176SBarry Smith   b->size            = size;
3782ccd8e176SBarry Smith   ierr = MPI_Comm_rank(B->comm,&b->rank);CHKERRQ(ierr);
3783ccd8e176SBarry Smith 
3784ccd8e176SBarry Smith   ierr = PetscSplitOwnership(B->comm,&B->m,&B->M);CHKERRQ(ierr);
3785ccd8e176SBarry Smith   ierr = PetscSplitOwnership(B->comm,&B->n,&B->N);CHKERRQ(ierr);
3786ccd8e176SBarry Smith 
3787ccd8e176SBarry Smith   /* the information in the maps duplicates the information computed below, eventually
3788ccd8e176SBarry Smith      we should remove the duplicate information that is not contained in the maps */
3789ccd8e176SBarry Smith   ierr = PetscMapCreateMPI(B->comm,B->m,B->M,&B->rmap);CHKERRQ(ierr);
3790ccd8e176SBarry Smith   ierr = PetscMapCreateMPI(B->comm,B->n,B->N,&B->cmap);CHKERRQ(ierr);
3791ccd8e176SBarry Smith 
3792ccd8e176SBarry Smith   /* build local table of row and column ownerships */
3793ccd8e176SBarry Smith   ierr = PetscMalloc(2*(b->size+2)*sizeof(PetscInt),&b->rowners);CHKERRQ(ierr);
3794ccd8e176SBarry Smith   PetscLogObjectMemory(B,2*(b->size+2)*sizeof(PetscInt)+sizeof(struct _p_Mat)+sizeof(Mat_MPIAIJ));
3795ccd8e176SBarry Smith   b->cowners = b->rowners + b->size + 2;
3796ccd8e176SBarry Smith   ierr = MPI_Allgather(&B->m,1,MPIU_INT,b->rowners+1,1,MPIU_INT,B->comm);CHKERRQ(ierr);
3797ccd8e176SBarry Smith   b->rowners[0] = 0;
3798ccd8e176SBarry Smith   for (i=2; i<=b->size; i++) {
3799ccd8e176SBarry Smith     b->rowners[i] += b->rowners[i-1];
3800ccd8e176SBarry Smith   }
3801ccd8e176SBarry Smith   b->rstart = b->rowners[b->rank];
3802ccd8e176SBarry Smith   b->rend   = b->rowners[b->rank+1];
3803ccd8e176SBarry Smith   ierr = MPI_Allgather(&B->n,1,MPIU_INT,b->cowners+1,1,MPIU_INT,B->comm);CHKERRQ(ierr);
3804ccd8e176SBarry Smith   b->cowners[0] = 0;
3805ccd8e176SBarry Smith   for (i=2; i<=b->size; i++) {
3806ccd8e176SBarry Smith     b->cowners[i] += b->cowners[i-1];
3807ccd8e176SBarry Smith   }
3808ccd8e176SBarry Smith   b->cstart = b->cowners[b->rank];
3809ccd8e176SBarry Smith   b->cend   = b->cowners[b->rank+1];
3810ccd8e176SBarry Smith 
3811ccd8e176SBarry Smith   /* build cache for off array entries formed */
3812ccd8e176SBarry Smith   ierr = MatStashCreate_Private(B->comm,1,&B->stash);CHKERRQ(ierr);
3813ccd8e176SBarry Smith   b->donotstash  = PETSC_FALSE;
3814ccd8e176SBarry Smith   b->colmap      = 0;
3815ccd8e176SBarry Smith   b->garray      = 0;
3816ccd8e176SBarry Smith   b->roworiented = PETSC_TRUE;
3817ccd8e176SBarry Smith 
3818ccd8e176SBarry Smith   /* stuff used for matrix vector multiply */
3819ccd8e176SBarry Smith   b->lvec      = PETSC_NULL;
3820ccd8e176SBarry Smith   b->Mvctx     = PETSC_NULL;
3821ccd8e176SBarry Smith 
3822ccd8e176SBarry Smith   /* stuff for MatGetRow() */
3823ccd8e176SBarry Smith   b->rowindices   = 0;
3824ccd8e176SBarry Smith   b->rowvalues    = 0;
3825ccd8e176SBarry Smith   b->getrowactive = PETSC_FALSE;
3826ccd8e176SBarry Smith 
3827ccd8e176SBarry Smith   /* Explicitly create 2 MATSEQAIJ matrices. */
3828ccd8e176SBarry Smith   ierr = MatCreate(PETSC_COMM_SELF,B->m,B->n,B->m,B->n,&b->A);CHKERRQ(ierr);
3829ccd8e176SBarry Smith   ierr = MatSetType(b->A,MATSEQAIJ);CHKERRQ(ierr);
3830ccd8e176SBarry Smith   PetscLogObjectParent(B,b->A);
3831ccd8e176SBarry Smith   ierr = MatCreate(PETSC_COMM_SELF,B->m,B->N,B->m,B->N,&b->B);CHKERRQ(ierr);
3832ccd8e176SBarry Smith   ierr = MatSetType(b->B,MATSEQAIJ);CHKERRQ(ierr);
3833ccd8e176SBarry Smith   PetscLogObjectParent(B,b->B);
3834ccd8e176SBarry Smith 
3835ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatStoreValues_C",
3836ccd8e176SBarry Smith                                      "MatStoreValues_MPIAIJ",
3837ccd8e176SBarry Smith                                      MatStoreValues_MPIAIJ);CHKERRQ(ierr);
3838ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatRetrieveValues_C",
3839ccd8e176SBarry Smith                                      "MatRetrieveValues_MPIAIJ",
3840ccd8e176SBarry Smith                                      MatRetrieveValues_MPIAIJ);CHKERRQ(ierr);
3841ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatGetDiagonalBlock_C",
3842ccd8e176SBarry Smith 				     "MatGetDiagonalBlock_MPIAIJ",
3843ccd8e176SBarry Smith                                      MatGetDiagonalBlock_MPIAIJ);CHKERRQ(ierr);
3844ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatIsTranspose_C",
3845ccd8e176SBarry Smith 				     "MatIsTranspose_MPIAIJ",
3846ccd8e176SBarry Smith 				     MatIsTranspose_MPIAIJ);CHKERRQ(ierr);
3847ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocation_C",
3848ccd8e176SBarry Smith 				     "MatMPIAIJSetPreallocation_MPIAIJ",
3849ccd8e176SBarry Smith 				     MatMPIAIJSetPreallocation_MPIAIJ);CHKERRQ(ierr);
3850ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatMPIAIJSetPreallocationCSR_C",
3851ccd8e176SBarry Smith 				     "MatMPIAIJSetPreallocationCSR_MPIAIJ",
3852ccd8e176SBarry Smith 				     MatMPIAIJSetPreallocationCSR_MPIAIJ);CHKERRQ(ierr);
3853ccd8e176SBarry Smith   ierr = PetscObjectComposeFunctionDynamic((PetscObject)B,"MatDiagonalScaleLocal_C",
3854ccd8e176SBarry Smith 				     "MatDiagonalScaleLocal_MPIAIJ",
3855ccd8e176SBarry Smith 				     MatDiagonalScaleLocal_MPIAIJ);CHKERRQ(ierr);
3856ccd8e176SBarry Smith   PetscFunctionReturn(0);
3857ccd8e176SBarry Smith }
3858ccd8e176SBarry Smith EXTERN_C_END
3859